BLASTP 2.2.22 [Sep-27-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] (682 letters) Database: nr 14,124,377 sequences; 4,842,793,630 total letters Searching..................................................done Results from round 1 >gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] gi|254039966|gb|ACT56762.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] Length = 682 Score = 1397 bits (3616), Expect = 0.0, Method: Compositional matrix adjust. Identities = 682/682 (100%), Positives = 682/682 (100%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS Sbjct: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP 120 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP Sbjct: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP 120 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL Sbjct: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 Query: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD Sbjct: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN Sbjct: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 Query: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA Sbjct: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET Sbjct: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG Sbjct: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS Sbjct: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP Sbjct: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE Sbjct: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 AKAIRKLKHPSRSKKLRSFLDG Sbjct: 661 AKAIRKLKHPSRSKKLRSFLDG 682 >gi|315122849|ref|YP_004063338.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313496251|gb|ADR52850.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 683 Score = 1094 bits (2830), Expect = 0.0, Method: Compositional matrix adjust. Identities = 549/687 (79%), Positives = 600/687 (87%), Gaps = 11/687 (1%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M G+K+NRDSDSEHE+S+D+LVFDFSDDSWKKM+K A+QRGYVT+EELN P +E S Sbjct: 1 MIKGRKKNRDSDSEHENSEDTLVFDFSDDSWKKMLKAAKQRGYVTVEELNTVFPSEEASV 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLED-EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDD 119 EQ+E+T+AMLSNMGINVVD DDLED EEGSEDSLDL S N++V QKRKD ADRSTDD Sbjct: 61 EQIEETMAMLSNMGINVVDSDDLEDLEEGSEDSLDLTHSNGNTAVLSQKRKDLADRSTDD 120 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT Sbjct: 121 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 180 Query: 180 LLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKD 239 LLREIIDLEACIGP SK FF G+E S +E+ + +++ D E I+S +K SK Sbjct: 181 LLREIIDLEACIGPGSKATFFQGSEADSCVNQEEGAPQEKAD----GEDGIKSVSKNSKV 236 Query: 240 DRSKV-----DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYREL 294 + V +S EN + +E LDEDEDDS HTLSAMEDQLRP+VM AL+EIAE Y++L Sbjct: 237 ESDHVSSLSDNSAAENGDGEENGLDEDEDDSRHTLSAMEDQLRPQVMSALNEIAESYQKL 296 Query: 295 RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 R LQ+ + Q DEK VK + LK +LV+LVGSLSLNQSRIDLLVEQLYDISKRIM NEG Sbjct: 297 RLLQE-STRRQNDEKYLVKYRELKGRLVELVGSLSLNQSRIDLLVEQLYDISKRIMKNEG 355 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 ELLRLAQSYGIKRDVFL+R+QG ELDP W S AK F E +WKNFV CE+DSIL+IR++IK Sbjct: 356 ELLRLAQSYGIKRDVFLDRYQGHELDPEWTSSAKGFSEKKWKNFVDCEMDSILRIRDDIK 415 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 I+ ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI Sbjct: 416 GIASETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 475 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGNIGLMKA EKFDWCLGYKFSTY MWWVKQA+TRSIADQS TIRIPVHM + I+KVVR Sbjct: 476 QEGNIGLMKAVEKFDWCLGYKFSTYGMWWVKQAVTRSIADQSRTIRIPVHMIETINKVVR 535 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 TARRMSN IKREPTP+EIAKKLAMP+E V+KVLKITKEPISLETPIGDEDTSHLGDFIED Sbjct: 536 TARRMSNTIKREPTPDEIAKKLAMPLERVQKVLKITKEPISLETPIGDEDTSHLGDFIED 595 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 KNAVSP+DSAIQANLRE TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE Sbjct: 596 KNAVSPVDSAIQANLRENTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 655 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIEAKAIRKLKHPSRSKKLRSFLD Sbjct: 656 RIRQIEAKAIRKLKHPSRSKKLRSFLD 682 >gi|222149282|ref|YP_002550239.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4] gi|221736266|gb|ACM37229.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4] Length = 681 Score = 838 bits (2166), Expect = 0.0, Method: Compositional matrix adjust. Identities = 437/704 (62%), Positives = 531/704 (75%), Gaps = 47/704 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++++E + + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEAENERDGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKD 111 EQ+EDT+AMLS+MGINVV+ +D ED EE + +LA A N++V K+K+ Sbjct: 61 EQIEDTMAMLSDMGINVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKE 119 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR Sbjct: 120 PTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWR 178 Query: 172 DELNDGTTLLREIIDLEACI-GPESKGG-FFHGTEGHSYQKREDSSQEKER------DDV 223 DELN+GTTLLREIIDLE GPE+K F E ++ +EK R DD+ Sbjct: 179 DELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDI 238 Query: 224 QETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCA 283 GD++ + +D+ S +L+AME +LRP+VM Sbjct: 239 TNVGGDMQMPEEEEEDEDE----------------------SNLSLAAMEAELRPQVMET 276 Query: 284 LDEIAEVYRELRSLQDNAVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDL 337 LD IA+ Y++LR LQD V G + K LK++L+ V SLSLNQ+RID Sbjct: 277 LDLIADTYKKLRKLQDQQVEARLACAGTLSSGQERRYKELKDQLITAVKSLSLNQNRIDS 336 Query: 338 LVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKN 397 LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + WK+ Sbjct: 337 LVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSVGNLAARGWKD 396 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 F E ++I +IR EI++++ ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVI Sbjct: 397 FAREENNTIREIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVI 456 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 457 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 516 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLE Sbjct: 517 TIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLE 576 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMN Sbjct: 577 TPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 636 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 637 TDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 680 >gi|325293528|ref|YP_004279392.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3] gi|325061381|gb|ADY65072.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3] Length = 684 Score = 828 bits (2138), Expect = 0.0, Method: Compositional matrix adjust. Identities = 437/699 (62%), Positives = 530/699 (75%), Gaps = 34/699 (4%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++++E + + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEAENERDGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLD----------LASSASNSSVFLQKRK 110 EQ+EDT+AMLS+MGINV++ +D E+ G +S D LA S +++ K+K Sbjct: 61 EQIEDTMAMLSDMGINVIEDEDAEEAPGEAESDDSDNEESEGGELAPSG-GTALATAKKK 119 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIW 170 + DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M++ LCESPLTFQALIIW Sbjct: 120 EPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIW 178 Query: 171 RDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEG 228 RDELN+GTTLLREIIDLE GPE+K F E ++ +EK R ++ G Sbjct: 179 RDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRR-LRAPSG 237 Query: 229 DIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIA 288 D E V D PPE E D+ S +L+AME +LRP+VM LD IA Sbjct: 238 D-EDVTDVGGDG-----LPPEEEEEDDDE-------SNLSLAAMEAELRPQVMETLDTIA 284 Query: 289 EVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 + Y++LR LQD A G + K LK++L+ V SLSLNQ+R+D LVEQL Sbjct: 285 DTYKKLRKLQDQQVEARLACTGTLSSGQERRYKDLKDQLITAVKSLSLNQNRVDSLVEQL 344 Query: 343 YDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 YDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + WK F E Sbjct: 345 YDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSIANLAARGWKEFAREE 404 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS+AKK Sbjct: 405 SNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKK 464 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 465 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 524 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GD Sbjct: 525 VHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGD 584 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 E+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL Sbjct: 585 EEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 644 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 645 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683 >gi|15889446|ref|NP_355127.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens str. C58] gi|20141718|sp|P33452|RPOD_AGRT5 RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|15157308|gb|AAK87912.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens str. C58] Length = 684 Score = 823 bits (2127), Expect = 0.0, Method: Compositional matrix adjust. Identities = 440/703 (62%), Positives = 530/703 (75%), Gaps = 42/703 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++++E + + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEAENERDGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-------------GD-DLEDEEGSEDSLDLASSASNSSVFL 106 EQ+EDT+AMLS+MGINV++ GD D E+ EG E LA S +++ Sbjct: 61 EQIEDTMAMLSDMGINVIEDEDAEEAAPAEDDGDSDNEESEGGE----LAPSG-GTALAT 115 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQA 166 K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M++ LCESPLTFQA Sbjct: 116 AKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMISGLCESPLTFQA 174 Query: 167 LIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQ 224 LIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R ++ Sbjct: 175 LIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRR-LR 233 Query: 225 ETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCAL 284 GD E V D PPE E D+ S +L+AME +LRP+VM L Sbjct: 234 APTGD-EDVTDVGGDG-----LPPEEEEEDDDE-------SNLSLAAMEAELRPQVMETL 280 Query: 285 DEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLL 338 D IA+ Y++LR LQD A G + K LK++L+ V SLSLNQ+RID L Sbjct: 281 DTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKSLSLNQNRIDSL 340 Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 VEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + WK F Sbjct: 341 VEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSITNLAARGWKEF 400 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 E ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS Sbjct: 401 AREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVIS 460 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 461 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 520 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLET Sbjct: 521 IRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLET 580 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 P+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNT Sbjct: 581 PVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 640 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 641 DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683 >gi|150397423|ref|YP_001327890.1| RNA polymerase sigma factor RpoD [Sinorhizobium medicae WSM419] gi|150028938|gb|ABR61055.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium medicae WSM419] Length = 684 Score = 823 bits (2125), Expect = 0.0, Method: Compositional matrix adjust. Identities = 435/702 (61%), Positives = 530/702 (75%), Gaps = 40/702 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++D E E + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLE--------------DEEGSEDSLDLASSASNSSVFL 106 EQ+EDT++MLS+MGINV++ ++ E + EG E + AS +++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGGSDDDDSSDDAESEGGE-----LAPASGTALAT 115 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQA 166 K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA Sbjct: 116 SKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQA 174 Query: 167 LIIWRDELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQE 225 LIIWRDELN+G TLLREIIDLE GPE+K +Q E E +R +E Sbjct: 175 LIIWRDELNEGQTLLREIIDLETTYSGPEAKAA-------PQFQSPEKI--EADRKAAEE 225 Query: 226 TEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALD 285 E ++ A + DD + V + AE +E + +D+S +L+AME +LRP+VM LD Sbjct: 226 KEKVRKTRAAANDDDITNVGGEGQPAEEEEDD----DDESNLSLAAMEAELRPQVMETLD 281 Query: 286 EIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 IAE Y++LR LQD A G + K LK++L+K V SLSLNQ+RID LV Sbjct: 282 VIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELKDELIKAVKSLSLNQNRIDALV 341 Query: 340 EQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFV 399 EQLYDISKR+ NEG LLRLA+SYG+KR+ FLE++ G ELDP+W+ + WK F Sbjct: 342 EQLYDISKRLTQNEGRLLRLAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEFA 401 Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 E +I IR EI++++ ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS+ Sbjct: 402 RAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISI 461 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TI Sbjct: 462 AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 521 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP Sbjct: 522 RIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETP 581 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD Sbjct: 582 VGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 641 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 HTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 642 HTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683 >gi|209550278|ref|YP_002282195.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536034|gb|ACI55969.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 685 Score = 822 bits (2123), Expect = 0.0, Method: Compositional matrix adjust. Identities = 439/709 (61%), Positives = 526/709 (74%), Gaps = 53/709 (7%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ E+ EG E LA S S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGSDEESEGGE----LAPS-SGTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQA+IIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQAIIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 KVMCALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IAE Y++LR LQD V +G + K LK++L+K V SLSLNQ Sbjct: 276 QVMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKELKDELIKAVKSLSLNQ 335 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + Sbjct: 336 NRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAA 395 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 WK F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEAN Sbjct: 396 RGWKEFARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEAN 455 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 456 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 515 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KE Sbjct: 516 ADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKE 575 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRF Sbjct: 576 PISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 635 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|227822807|ref|YP_002826779.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234] gi|227341808|gb|ACP26026.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234] Length = 684 Score = 822 bits (2122), Expect = 0.0, Method: Compositional matrix adjust. Identities = 435/697 (62%), Positives = 529/697 (75%), Gaps = 30/697 (4%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++D E E + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEADVEREGTPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA---------SSASNSSVFLQKRKD 111 EQ+EDT+AMLS+MGINV++ ++ E+ G +D ++ S +++ K+K+ Sbjct: 61 EQIEDTMAMLSDMGINVIEDEEAEEAAGGDDEDSSDDGESEGGELATVSGTALATGKKKE 120 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR Sbjct: 121 PTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWR 179 Query: 172 DELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI 230 DELN+G TLLREIIDLE GPE+K +Q E E +R +E E Sbjct: 180 DELNEGQTLLREIIDLETTYSGPEAKAA-------PQFQSPEKI--EADRKAAEEKEKTR 230 Query: 231 ESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEV 290 +S + DD + V + E +E + +D+S +L+AME +LRP+VM LD IAE Sbjct: 231 KSRVAANDDDITNVGGEGQPVEEEEED----DDESNLSLAAMEAELRPQVMETLDIIAET 286 Query: 291 YRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYD 344 Y++LR LQD A G + K LK++L+K V SLSLNQ+RID LVEQLYD Sbjct: 287 YKKLRKLQDQQVEARLAATGTLSPAQERRYKELKDELIKAVKSLSLNQNRIDALVEQLYD 346 Query: 345 ISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 ISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + WK F E Sbjct: 347 ISKRLMQNEGRLLRLAESYGVKRDSFLEQYSGAELDPNWMKSISNLAGKGWKEFARAENQ 406 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 +I IR EI++++ ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS+AKKYT Sbjct: 407 TIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYT 466 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 467 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 526 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ Sbjct: 527 MIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEE 586 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE Sbjct: 587 DSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 646 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 647 VGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683 >gi|222086540|ref|YP_002545074.1| RNA polymerase sigma factor protein (sigma-70) [Agrobacterium radiobacter K84] gi|221723988|gb|ACM27144.1| RNA polymerase sigma factor protein (sigma-70) [Agrobacterium radiobacter K84] Length = 687 Score = 821 bits (2121), Expect = 0.0, Method: Compositional matrix adjust. Identities = 439/706 (62%), Positives = 526/706 (74%), Gaps = 45/706 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N +++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEEAEVERDGTSDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDE-----------------EGSEDSLDLASSASNSS 103 EQ+EDT+AMLS+MGINV++ +D+E+ EG E LA S + S+ Sbjct: 61 EQIEDTMAMLSDMGINVIEDEDVEEAGAATSSDDDDSSDDDNGEGGE----LAPS-TGSA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+ LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIGGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGG-FFHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKARR 234 Query: 222 DVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVM 281 + GD DD + V E +E + DE A AME +LRP+VM Sbjct: 235 G-RSPSGD---------DDITDVGGEGLPGEEEEEDEDESSLSLA----AMEAELRPQVM 280 Query: 282 CALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRI 335 LD IAE Y++LR LQD V +G + K LK++LVK V SLSLNQ+RI Sbjct: 281 TTLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKELKDELVKSVKSLSLNQNRI 340 Query: 336 DLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEW 395 D LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + W Sbjct: 341 DALVEQLYDINKRLVQNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGW 400 Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 K F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEANLRL Sbjct: 401 KEFAKSENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRL 460 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 461 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 520 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPIS Sbjct: 521 ARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPIS 580 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIG Sbjct: 581 LETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 640 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 641 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 686 >gi|86358552|ref|YP_470444.1| RNA polymerase sigma factor RpoD [Rhizobium etli CFN 42] gi|86282654|gb|ABC91717.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 685 Score = 821 bits (2120), Expect = 0.0, Method: Compositional matrix adjust. Identities = 441/709 (62%), Positives = 525/709 (74%), Gaps = 53/709 (7%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA SA ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGGDEDSEGGE----LAPSA-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 KVMCALDEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IAE Y++LR LQD A G + K LK++L+K V SLSLNQ Sbjct: 276 QVMETLDIIAETYKKLRKLQDQQVEQRLAATGTLSSAQERRYKELKDELIKAVKSLSLNQ 335 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + Sbjct: 336 NRIDALVEQLYDINKRLVQNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAA 395 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 WK F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEAN Sbjct: 396 RGWKEFAKAENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEAN 455 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 456 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 515 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KE Sbjct: 516 ADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKE 575 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRF Sbjct: 576 PISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 635 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|241205658|ref|YP_002976754.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859548|gb|ACS57215.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 685 Score = 819 bits (2116), Expect = 0.0, Method: Compositional matrix adjust. Identities = 439/706 (62%), Positives = 528/706 (74%), Gaps = 47/706 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ E+ EG E LA S S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGSSDDDDAGSDEESEGGE----LAPS-SGTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LAAAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGG-FFHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKLAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVM 281 A+ DD + V AE +E + ED+S +L+AME +LRP+VM Sbjct: 234 -----------RARSGDDDITDVGGEGLPAEEEEED----EDESNLSLAAMEAELRPQVM 278 Query: 282 CALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRI 335 LD IAE Y++LR LQD V +G + K LK++L+K V SLSLNQ+RI Sbjct: 279 ETLDTIAETYKKLRKLQDQQVEQRLSASGTLSTAQERRYKELKDELIKAVKSLSLNQNRI 338 Query: 336 DLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEW 395 D LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + W Sbjct: 339 DALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGW 398 Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 K F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEANLRL Sbjct: 399 KEFARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRL 458 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 459 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 518 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPIS Sbjct: 519 ARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPIS 578 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIG Sbjct: 579 LETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIG 638 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 639 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|190892699|ref|YP_001979241.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190697978|gb|ACE92063.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|327189666|gb|EGE56814.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CNPAF512] Length = 685 Score = 818 bits (2114), Expect = 0.0, Method: Compositional matrix adjust. Identities = 440/709 (62%), Positives = 525/709 (74%), Gaps = 53/709 (7%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGGDEDSEGGE----LAPSG-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 KVMCALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IAE Y++LR LQD V +G + K LK++L+K V SLSLNQ Sbjct: 276 QVMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKELKDELIKAVKSLSLNQ 335 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + Sbjct: 336 NRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAA 395 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 WK F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEAN Sbjct: 396 RGWKEFAKGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEAN 455 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 456 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 515 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KE Sbjct: 516 ADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKE 575 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRF Sbjct: 576 PISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 635 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|15966067|ref|NP_386420.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti 1021] gi|307305622|ref|ZP_07585369.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti BL225C] gi|307317625|ref|ZP_07597064.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti AK83] gi|7388096|sp|Q59753|RPOD_RHIME RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|1050336|gb|AAA88524.1| sigma factor [Sinorhizobium meliloti] gi|15075337|emb|CAC46893.1| RNA polymerase sigma factor transcription regulation protein [Sinorhizobium meliloti 1021] gi|306896783|gb|EFN27530.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti AK83] gi|306902325|gb|EFN32921.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti BL225C] Length = 684 Score = 818 bits (2112), Expect = 0.0, Method: Compositional matrix adjust. Identities = 433/702 (61%), Positives = 527/702 (75%), Gaps = 40/702 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++D E E + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEADVEREGAPDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLED--------------EEGSEDSLDLASSASNSSVFL 106 EQ+EDT++MLS+MGINV++ ++ E+ EG E + AS +++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAAASDDDDGADEGESEGGE-----LAPASGTALAA 115 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQA 166 K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA Sbjct: 116 SKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQA 174 Query: 167 LIIWRDELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQE 225 LIIWRDELN+G TLLREIIDLE GPE+K +Q E E +R +E Sbjct: 175 LIIWRDELNEGQTLLREIIDLETTYSGPEAKAA-------PQFQSPEKI--EADRKAAEE 225 Query: 226 TEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALD 285 E + + DD + V + E +E + +D+S +L+AME +LRP+VM LD Sbjct: 226 KEKVRRTRTAANDDDITNVGGEGQAPEEEEED----DDESNLSLAAMEAELRPQVMETLD 281 Query: 286 EIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 IAE Y++LR LQD A G + K LK++L+K V SLSLNQ+RID LV Sbjct: 282 VIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELKDELIKAVKSLSLNQNRIDALV 341 Query: 340 EQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFV 399 EQLYDISKR+ NEG LLRLA+SYG+KR+ FLE++ G ELDP+W+ + WK F Sbjct: 342 EQLYDISKRLTQNEGRLLRLAESYGVKREAFLEQYSGAELDPNWMKSISNLAGKGWKEFA 401 Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 E +I IR EI++++ ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS+ Sbjct: 402 RAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISI 461 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TI Sbjct: 462 AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 521 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP Sbjct: 522 RIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETP 581 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD Sbjct: 582 VGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 641 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 HTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 642 HTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683 >gi|1765926|emb|CAA70052.1| RNA polymerase sigma-70 subunit [Rhizobium etli] Length = 685 Score = 816 bits (2109), Expect = 0.0, Method: Compositional matrix adjust. Identities = 440/709 (62%), Positives = 523/709 (73%), Gaps = 53/709 (7%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA SA ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGGDEDSEGGE----LAPSA-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 KVMCALDEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IAE Y++LR LQD A G + K LK++L+K V SLSLNQ Sbjct: 276 QVMETLDIIAETYKKLRKLQDQQVEQRLAATGTLSSAQERRYKELKDELIKAVKSLSLNQ 335 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDI+KR++ NEG LLRLA+SY +KRD FLE+ QG ELDP+W+ + Sbjct: 336 NRIDALVEQLYDINKRLVQNEGRLLRLAESYAVKRDSFLEQDQGAELDPNWMKSIGNLAA 395 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 WK F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEAN Sbjct: 396 RGWKEFAKAENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEAN 455 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 456 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 515 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KE Sbjct: 516 ADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKE 575 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRF Sbjct: 576 PISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRF 635 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|116253144|ref|YP_768982.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. viciae 3841] gi|115257792|emb|CAK08890.1| putative RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv. viciae 3841] Length = 685 Score = 816 bits (2109), Expect = 0.0, Method: Compositional matrix adjust. Identities = 438/705 (62%), Positives = 526/705 (74%), Gaps = 45/705 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-------------GDDLEDEEGSEDSLDLASSASNSSVFLQ 107 EQ+EDT++MLS+MGINV++ DD + + +LA S S +++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGSSDDDDAGGDEESEGGELAPS-SGTALATA 119 Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQAL Sbjct: 120 KKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAL 178 Query: 168 IIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQE 225 IIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 179 IIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKLAEEKEKTR----- 233 Query: 226 TEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMC 282 A+ DD + V PPE E DE S +L+AME +LRP+VM Sbjct: 234 -------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRPQVME 279 Query: 283 ALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRID 336 LD IAE Y++LR LQD V +G + K LK++L+K V SLSLNQ+RID Sbjct: 280 TLDTIAETYKKLRKLQDQQVEQRLSASGTLSTAQERRYKELKDELIKAVKSLSLNQNRID 339 Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE++QG ELDP+W+ + WK Sbjct: 340 ALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWK 399 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 F E +I IR EI++++ ETGISISEFR IV MV+KGE EA IAKKEMVEANLRLV Sbjct: 400 EFARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLV 459 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 460 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 519 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISL Sbjct: 520 RTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISL 579 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGM Sbjct: 580 ETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGM 639 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 640 NTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684 >gi|306844486|ref|ZP_07477075.1| RNA polymerase sigma factor RpoD [Brucella sp. BO1] gi|306275097|gb|EFM56853.1| RNA polymerase sigma factor RpoD [Brucella sp. BO1] Length = 672 Score = 805 bits (2080), Expect = 0.0, Method: Compositional matrix adjust. Identities = 420/678 (61%), Positives = 519/678 (76%), Gaps = 42/678 (6%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDD--VQETEGDIESAAKVSKDDRSKVDSPPE 249 PE+K E + R+D Q + RDD + GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEE--KPRDDRPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL----- 251 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---K 306 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ Sbjct: 252 ------------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAAT 293 Query: 307 DEKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 E SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+ Sbjct: 294 GELSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESF 353 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G++R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET IS Sbjct: 354 GVRREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAIS 413 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 414 IGEFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 473 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 474 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEI 533 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+ Sbjct: 534 GREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDA 593 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 594 AIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 653 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 654 LRKLKHPSRSRKLRSFLD 671 >gi|225627926|ref|ZP_03785962.1| RNA polymerase sigma factor RpoD [Brucella ceti str. Cudo] gi|256160209|ref|ZP_05457903.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] gi|256255415|ref|ZP_05460951.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|260169148|ref|ZP_05755959.1| RNA polymerase sigma factor RpoD [Brucella sp. F5/99] gi|261222619|ref|ZP_05936900.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|261758658|ref|ZP_06002367.1| RNA polymerase sigma factor [Brucella sp. F5/99] gi|265998584|ref|ZP_06111141.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] gi|225617089|gb|EEH14135.1| RNA polymerase sigma factor RpoD [Brucella ceti str. Cudo] gi|260921203|gb|EEX87856.1| RNA polymerase sigma factor RpoD [Brucella ceti B1/94] gi|261738642|gb|EEY26638.1| RNA polymerase sigma factor [Brucella sp. F5/99] gi|262553208|gb|EEZ09042.1| RNA polymerase sigma factor RpoD [Brucella ceti M490/95/1] Length = 672 Score = 804 bits (2077), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKKLKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|225852960|ref|YP_002733193.1| RNA polymerase sigma factor RpoD [Brucella melitensis ATCC 23457] gi|256263561|ref|ZP_05466093.1| RNA polymerase sigma factor [Brucella melitensis bv. 2 str. 63/9] gi|225641325|gb|ACO01239.1| RNA polymerase sigma factor RpoD [Brucella melitensis ATCC 23457] gi|263093589|gb|EEZ17614.1| RNA polymerase sigma factor [Brucella melitensis bv. 2 str. 63/9] gi|326409500|gb|ADZ66565.1| RNA polymerase sigma factor RpoD [Brucella melitensis M28] gi|326539207|gb|ADZ87422.1| RNA polymerase sigma factor RpoD [Brucella melitensis M5-90] Length = 672 Score = 804 bits (2076), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNVLLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|17986815|ref|NP_539449.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. 16M] gi|23502348|ref|NP_698475.1| RNA polymerase sigma factor RpoD [Brucella suis 1330] gi|82700292|ref|YP_414866.1| RNA polymerase sigma factor RpoD [Brucella melitensis biovar Abortus 2308] gi|161619426|ref|YP_001593313.1| RNA polymerase sigma factor RpoD [Brucella canis ATCC 23365] gi|189024598|ref|YP_001935366.1| RNA polymerase sigma factor RpoD [Brucella abortus S19] gi|237815873|ref|ZP_04594870.1| RNA polymerase sigma factor RpoD [Brucella abortus str. 2308 A] gi|254689668|ref|ZP_05152922.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|254694158|ref|ZP_05155986.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|254697811|ref|ZP_05159639.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|254702196|ref|ZP_05164024.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|254714701|ref|ZP_05176512.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|254717762|ref|ZP_05179573.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|254730700|ref|ZP_05189278.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|256045103|ref|ZP_05448004.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|256114033|ref|ZP_05454810.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|256257919|ref|ZP_05463455.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|256369896|ref|YP_003107407.1| RNA polymerase sigma factor [Brucella microti CCM 4915] gi|260546908|ref|ZP_05822647.1| RNA polymerase sigma factor [Brucella abortus NCTC 8038] gi|260565297|ref|ZP_05835781.1| RNA polymerase sigma factor [Brucella melitensis bv. 1 str. 16M] gi|260566021|ref|ZP_05836491.1| RNA polymerase sigma factor [Brucella suis bv. 4 str. 40] gi|260755199|ref|ZP_05867547.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|260758418|ref|ZP_05870766.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|260762244|ref|ZP_05874587.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|260884215|ref|ZP_05895829.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|261214461|ref|ZP_05928742.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|261219607|ref|ZP_05933888.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|261322495|ref|ZP_05961692.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|261752768|ref|ZP_05996477.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|265991536|ref|ZP_06104093.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|265995374|ref|ZP_06107931.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|294852799|ref|ZP_06793472.1| RNA polymerase primary sigma factor [Brucella sp. NVSL 07-0026] gi|297248755|ref|ZP_06932473.1| RNA polymerase primary sigma factor [Brucella abortus bv. 5 str. B3196] gi|306843169|ref|ZP_07475787.1| RNA polymerase sigma factor RpoD [Brucella sp. BO2] gi|17982448|gb|AAL51713.1| RNA polymerase sigma factor rpod [Brucella melitensis bv. 1 str. 16M] gi|23348329|gb|AAN30390.1| RNA polymerase sigma-70 factor [Brucella suis 1330] gi|82616393|emb|CAJ11454.1| Sigma-70 factor family:Sigma-70 factor, region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essent [Brucella melitensis biovar Abortus 2308] gi|161336237|gb|ABX62542.1| RNA polymerase sigma factor rpoD [Brucella canis ATCC 23365] gi|189020170|gb|ACD72892.1| RNA polymerase sigma factor [Brucella abortus S19] gi|237789171|gb|EEP63382.1| RNA polymerase sigma factor RpoD [Brucella abortus str. 2308 A] gi|256000059|gb|ACU48458.1| RNA polymerase sigma factor [Brucella microti CCM 4915] gi|260095958|gb|EEW79835.1| RNA polymerase sigma factor [Brucella abortus NCTC 8038] gi|260151365|gb|EEW86459.1| RNA polymerase sigma factor [Brucella melitensis bv. 1 str. 16M] gi|260155539|gb|EEW90619.1| RNA polymerase sigma factor [Brucella suis bv. 4 str. 40] gi|260668736|gb|EEX55676.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 4 str. 292] gi|260672676|gb|EEX59497.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 2 str. 86/8/59] gi|260675307|gb|EEX62128.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 6 str. 870] gi|260873743|gb|EEX80812.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 9 str. C68] gi|260916068|gb|EEX82929.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 3 str. Tulya] gi|260924696|gb|EEX91264.1| RNA polymerase sigma factor RpoD [Brucella ceti M13/05/1] gi|261295185|gb|EEX98681.1| RNA polymerase sigma factor RpoD [Brucella ceti M644/93/1] gi|261742521|gb|EEY30447.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 5 str. 513] gi|262766487|gb|EEZ12276.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 3 str. Ether] gi|263002320|gb|EEZ14895.1| RNA polymerase sigma factor RpoD [Brucella melitensis bv. 1 str. Rev.1] gi|294821388|gb|EFG38387.1| RNA polymerase primary sigma factor [Brucella sp. NVSL 07-0026] gi|297175924|gb|EFH35271.1| RNA polymerase primary sigma factor [Brucella abortus bv. 5 str. B3196] gi|306286647|gb|EFM58210.1| RNA polymerase sigma factor RpoD [Brucella sp. BO2] Length = 672 Score = 804 bits (2076), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|256061534|ref|ZP_05451676.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] gi|261325543|ref|ZP_05964740.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] gi|261301523|gb|EEY05020.1| RNA polymerase sigma factor RpoD [Brucella neotomae 5K33] Length = 672 Score = 803 bits (2075), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ L+EQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLIEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|39132|emb|CAA49185.1| vegetative sigma factor [Agrobacterium tumefaciens str. C58] Length = 684 Score = 803 bits (2075), Expect = 0.0, Method: Compositional matrix adjust. Identities = 430/703 (61%), Positives = 524/703 (74%), Gaps = 42/703 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N ++++E + + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+S Sbjct: 1 MATKVKENEEAENERDGATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-------------GD-DLEDEEGSEDSLDLASSASNSSVFL 106 EQ+EDT+AMLS+MGINV++ GD D E+ EG E LA S +++ Sbjct: 61 EQIEDTMAMLSDMGINVIEDEDAEEAAPAEDDGDSDNEESEGGE----LAPSG-GTALAT 115 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQA 166 K+K+ DR TDDPVRMYLREMGS+ELLSREG+IAIAKRIEAGR M++ LCESPLTFQA Sbjct: 116 AKKKEPTDR-TDDPVRMYLREMGSVELLSREGQIAIAKRIEAGRETMISGLCESPLTFQA 174 Query: 167 LIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQ 224 LIIWRDELN+GTTL+REIIDLE GPE+K F E ++ +EK R ++ Sbjct: 175 LIIWRDELNEGTTLVREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRR-LR 233 Query: 225 ETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCAL 284 GD E V D PPE E D+ S +L+AME +LRP+VM L Sbjct: 234 GPTGD-EDVTDVGGDG-----LPPEEEEEDDDE-------SNLSLAAMEAELRPQVMETL 280 Query: 285 DEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLL 338 D IA+ Y+ +R LQD A G + K LK++L+ V SLSLNQ+RID L Sbjct: 281 DTIADTYKNVRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKSLSLNQNRIDSL 340 Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 VEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + WK F Sbjct: 341 VEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSITNLAARGWKEF 400 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 E ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS Sbjct: 401 AREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVIS 460 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 461 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 520 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLET Sbjct: 521 IRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLET 580 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 P+GDE+ SHLGDFIEDKNA+ P+D+AIQ LRETTTRVLASLTP EERVLRM FGIGMNT Sbjct: 581 PVGDEEDSHLGDFIEDKNALLPIDAAIQGFLRETTTRVLASLTPSEERVLRMPFGIGMNT 640 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVG+QF VTRERIRQIEAKA+R +KHPSRS+KLR+FLD Sbjct: 641 DHTLEEVGQQFSVTRERIRQIEAKALRNVKHPSRSRKLRTFLD 683 >gi|254719520|ref|ZP_05181331.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|265984525|ref|ZP_06097260.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|306837542|ref|ZP_07470416.1| RNA polymerase sigma factor RpoD [Brucella sp. NF 2653] gi|264663117|gb|EEZ33378.1| RNA polymerase sigma factor RpoD [Brucella sp. 83/13] gi|306407378|gb|EFM63583.1| RNA polymerase sigma factor RpoD [Brucella sp. NF 2653] Length = 672 Score = 803 bits (2074), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E +SI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEANSISRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|62290370|ref|YP_222163.1| RNA polymerase sigma factor RpoD [Brucella abortus bv. 1 str. 9-941] gi|254708148|ref|ZP_05169976.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] gi|261315652|ref|ZP_05954849.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] gi|62196502|gb|AAX74802.1| RpoD, RNA polymerase sigma-70 factor [Brucella abortus bv. 1 str. 9-941] gi|261304678|gb|EEY08175.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M163/99/10] Length = 672 Score = 803 bits (2074), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/676 (61%), Positives = 516/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDCEEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|148559099|ref|YP_001259363.1| RNA polymerase sigma factor RpoD [Brucella ovis ATCC 25840] gi|148370356|gb|ABQ60335.1| RNA polymerase sigma-70 factor [Brucella ovis ATCC 25840] Length = 672 Score = 802 bits (2072), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/676 (61%), Positives = 515/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KL MP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLTMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|163843732|ref|YP_001628136.1| RNA polymerase sigma factor RpoD [Brucella suis ATCC 23445] gi|163674455|gb|ABY38566.1| RNA polymerase sigma factor RpoD [Brucella suis ATCC 23445] Length = 666 Score = 801 bits (2070), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/672 (61%), Positives = 514/672 (76%), Gaps = 36/672 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 D+ ++ EEG++D + + +K+ DR TDDPVRMYLREMGS+ELLSRE Sbjct: 80 DDEQDNDREEGNDDEAE--EGGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVELLSRE 136 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESK 196 GEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE GPE+K Sbjct: 137 GEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAGPEAK 196 Query: 197 -GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDE 255 E + + ++ DD+ GD+ +D + + Sbjct: 197 QAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL----------- 245 Query: 256 RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDEKSSV 312 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E SS Sbjct: 246 ------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGELSSS 293 Query: 313 ---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDV 369 + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G++R+ Sbjct: 294 QERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGVRRED 353 Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI EFR Sbjct: 354 FLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIGEFRR 413 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 414 IVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 473 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTP Sbjct: 474 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTP 533 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANL Sbjct: 534 EELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANL 593 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 594 RDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKH 653 Query: 670 PSRSKKLRSFLD 681 PSRS+KLRSFLD Sbjct: 654 PSRSRKLRSFLD 665 >gi|254710518|ref|ZP_05172329.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|256032011|ref|ZP_05445625.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] gi|261318089|ref|ZP_05957286.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|265989123|ref|ZP_06101680.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] gi|261297312|gb|EEY00809.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94] gi|264661320|gb|EEZ31581.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1] Length = 672 Score = 800 bits (2066), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/676 (61%), Positives = 515/676 (76%), Gaps = 38/676 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 416 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 475 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 476 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 535 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ S LGDFIEDKNA+ P+D+AI Sbjct: 536 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSLLGDFIEDKNALLPIDAAI 595 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 596 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 655 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 656 KLKHPSRSRKLRSFLD 671 >gi|163761137|ref|ZP_02168214.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea phototrophica DFL-43] gi|162281688|gb|EDQ31982.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea phototrophica DFL-43] Length = 680 Score = 799 bits (2064), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/687 (61%), Positives = 515/687 (74%), Gaps = 33/687 (4%) Query: 10 DSDSEHE-DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVA 68 D+++E E D + D SDD+ KKMIK +++RGYVT++ELNA LP +EV+SEQ+ED ++ Sbjct: 11 DTENEREAGGPDGPLLDLSDDAVKKMIKTSKKRGYVTMDELNAVLPSEEVTSEQIEDILS 70 Query: 69 MLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQ------KRKDSADRSTDDPVR 122 MLS+MGINVV+ D+ +++ S+D S + K+K+ DR TDDPVR Sbjct: 71 MLSDMGINVVEEDEASEDKDSDDDSAETSEGGEVATAGGTAVAATKKKEPTDR-TDDPVR 129 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWR+ELN+G TLLR Sbjct: 130 MYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWREELNEGATLLR 189 Query: 183 EIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 EIIDLE GPE+K F E ++ +EK R A K DD Sbjct: 190 EIIDLETTYSGPEAKAAPQFQSPEKIEADRKVAEEKEKAR------------AEKAKSDD 237 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 + V E D+D+D++ +L+AME +LRP+VM LD IA+ Y++LR LQD Sbjct: 238 ITNV-----GGEGQYEEDDDDDDENNLSLAAMEAELRPQVMETLDTIADTYKKLRKLQDQ 292 Query: 301 ------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 A G + K LKE L+ V SLSLNQ+RID LVEQLYDI+KR++ NEG Sbjct: 293 QVEARLAATGTLSPAQERRYKELKEALITAVKSLSLNQNRIDSLVEQLYDINKRLVSNEG 352 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 LLRLA+SYG+KRD FL ++ G ELDP+W+ + WK+F E +I +R EI+ Sbjct: 353 RLLRLAESYGVKRDDFLAQYSGAELDPNWMKSIANLSAKGWKDFAKSESTNIRDLRAEIQ 412 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 ++ ETGISISEFR IV MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLI Sbjct: 413 YLAQETGISISEFRRIVQMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 472 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR Sbjct: 473 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVR 532 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 T+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIED Sbjct: 533 TSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIED 592 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 KNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRE Sbjct: 593 KNAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE 652 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 653 RIRQIEAKALRKLKHPSRSRKLRSFLD 679 >gi|239832356|ref|ZP_04680685.1| RNA polymerase sigma factor RpoD [Ochrobactrum intermedium LMG 3301] gi|239824623|gb|EEQ96191.1| RNA polymerase sigma factor RpoD [Ochrobactrum intermedium LMG 3301] Length = 672 Score = 797 bits (2059), Expect = 0.0, Method: Compositional matrix adjust. Identities = 421/678 (62%), Positives = 515/678 (75%), Gaps = 42/678 (6%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GD----DLED--EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D D ED ++ SE+ DL S + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREDNSDDDSEEGGDLVESGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRD+LND LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDQLNDSNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDD--VQETEGDIESAAKVSKDDRSKVDSPPE 249 PE+K E + R+D Q + RDD + GD+ + +D + + Sbjct: 199 PEAKQAPVIERVEEE--KPRDDKPQRRSRDDDDITNVGGDMPVEEEEEDEDEANL----- 251 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---K 306 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ Sbjct: 252 ------------------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEGRLAAT 293 Query: 307 DEKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 E SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+ Sbjct: 294 GELSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESF 353 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G++R+ FL+ +QG ELDP WV WK F A E +I ++R+EI+ ++ ET IS Sbjct: 354 GVRREEFLKEYQGHELDPKWVERVSTLSARGWKEFAAKEERTIDRLRSEIQMLATETAIS 413 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 414 IGEFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 473 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 474 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEI 533 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+ Sbjct: 534 GREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDA 593 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 594 AIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 653 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 654 LRKLKHPSRSRKLRSFLD 671 >gi|153009018|ref|YP_001370233.1| RNA polymerase sigma factor RpoD [Ochrobactrum anthropi ATCC 49188] gi|151560906|gb|ABS14404.1| RNA polymerase, sigma 70 subunit, RpoD [Ochrobactrum anthropi ATCC 49188] Length = 671 Score = 795 bits (2054), Expect = 0.0, Method: Compositional matrix adjust. Identities = 417/677 (61%), Positives = 515/677 (76%), Gaps = 41/677 (6%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLEDE------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ +++ + SE+ DL S + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREENNDDDSEEGGDLVESGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRD+LND LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDQLNDSNILLREIIDLETTYAG 198 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDD--VQETEGDIESAAKVSKDDRSKVDSPPEN 250 PE+K E +K D ++ RDD + GD+ + + +D + + Sbjct: 199 PEAKQAPV--IERVEEEKPRDDKPQRRRDDDDITNVGGDMPTEEEEEDEDEANL------ 250 Query: 251 AENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KD 307 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ Sbjct: 251 -----------------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEGRLAATG 293 Query: 308 EKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 E SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G Sbjct: 294 ELSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFG 353 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 ++R+ FL+ +QG ELDP WV WK F A E +I ++R+EI+ ++ ET ISI Sbjct: 354 VRREEFLKEYQGHELDPKWVERVSTLSARGWKEFAAKEERAIDRLRSEIQMLATETAISI 413 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 414 GEFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 473 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 474 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIG 533 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+A Sbjct: 534 REPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAA 593 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 IQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+ Sbjct: 594 IQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 653 Query: 665 RKLKHPSRSKKLRSFLD 681 RKLKHPSRS+KLRSFLD Sbjct: 654 RKLKHPSRSRKLRSFLD 670 >gi|319408880|emb|CBI82537.1| RNA polymerase sigma factor [Bartonella schoenbuchensis R1] Length = 667 Score = 793 bits (2049), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/692 (61%), Positives = 522/692 (75%), Gaps = 44/692 (6%) Query: 5 KKRNRDSDSEH-EDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K + +DS +E + S DS + DFSDD+ KKMIKLA++ GYVT++ELNA LP + V+SEQ+ Sbjct: 4 KAKQKDSVAETGQVSLDSPLLDFSDDAIKKMIKLAKKNGYVTMDELNAVLPSESVTSEQI 63 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSL-----DLASSASNSSVFLQKRKDSADRSTD 118 EDT+AMLS MGINVVD +D D E E+ + DL + S S + K D+ DR TD Sbjct: 64 EDTLAMLSEMGINVVDDEDEVDSEPYEEEITIEGGDLVEATSRSIATISK-CDTTDR-TD 121 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR+ELN+ Sbjct: 122 DPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELNEKR 181 Query: 179 TLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVS 237 LLREIIDLE GPE+K + ER +V++ + ++ ++ Sbjct: 182 ILLREIIDLEMTYAGPEAK-----------------QAPAIERSEVEKIKEEMPCSSMHD 224 Query: 238 KDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSL 297 DD ++ D E+ E DE NL +L+AME++L P+VM LD IAE Y +LR L Sbjct: 225 VDDLAE-DIGVEDDEEDEVNL---------SLAAMENELCPQVMETLDFIAETYVKLRKL 274 Query: 298 QDNAVNG-----QKDEKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 QD V ++D SS KC LK LV+ V SLSLNQ+RI+ LVEQLYDI+KR+ Sbjct: 275 QDQHVESSLADCKEDALSSSQKKKCTQLKADLVQAVKSLSLNQNRIEALVEQLYDINKRL 334 Query: 350 MHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKI 409 +H+EG+L RLA +YG+ + FL+ +QGRELD W++Y P WK F E I + Sbjct: 335 VHSEGKLKRLANNYGVGHEDFLKEYQGRELDADWINYIATLPGSGWKEFSTREAKVIQSL 394 Query: 410 RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 R+EI+S++ ET ISI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AK+YTNRGLQ Sbjct: 395 RSEIQSLAQETAISIGEFRRIVTQVQKGEREATIAKKEMVEANLRLVISIAKRYTNRGLQ 454 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I Sbjct: 455 FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 514 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +K+VRT+R++ ++I REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SHLG Sbjct: 515 NKIVRTSRQILHEIGREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDDSHLG 574 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIED+NA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 575 DFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQF 634 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 635 SVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 666 >gi|118591038|ref|ZP_01548438.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118436560|gb|EAV43201.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 662 Score = 793 bits (2047), Expect = 0.0, Method: Compositional matrix adjust. Identities = 417/680 (61%), Positives = 514/680 (75%), Gaps = 36/680 (5%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ + D D + D SD + KKMIK A++RGYVT +ELN LP ++VSSE++EDT++M Sbjct: 10 DTQEQSTDGPDGPLLDLSDAAVKKMIKAAKKRGYVTYDELNEVLPSEQVSSEKIEDTMSM 69 Query: 70 LSNMGINVVDGDDLEDEEGSE--DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 LS+MGINV+D D E EEG E D DL + AS +++ K+ ADR TDDPVRMYLRE Sbjct: 70 LSDMGINVIDSD--EAEEGPEEVDGGDLVA-ASTTALAKSTTKEPADR-TDDPVRMYLRE 125 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLR+IIDL Sbjct: 126 MGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEAQVLLRDIIDL 185 Query: 188 EACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDS 246 EA GP++K G DDV EG+ E++ S+D S+ Sbjct: 186 EATYAGPDAKAGPAVAN-----------------DDVAPGEGNSENSGGASEDTESEDGE 228 Query: 247 PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 + ++DE +S +LSAME +L+P V+ D IA+ Y++LR LQD V + Sbjct: 229 GDGDDDDDEF-------ESNVSLSAMEAELKPGVLETFDNIADNYKKLRRLQDQLVENKL 281 Query: 307 DEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ 361 K+ + K LKE ++ V SLSLNQ+RID LV QLYDI+KR+M EG LLRLA Sbjct: 282 ANKTLSPSQERRYKKLKEDIIVDVKSLSLNQNRIDALVAQLYDINKRLMGYEGRLLRLAD 341 Query: 362 SYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 SY + R FL+++QG ELDP+W+ + WKNF+A E +++ ++R +I++++ ETG Sbjct: 342 SYNVDRTDFLKQYQGAELDPNWLRKVANLSTRGWKNFIAKEKETVRELRQDIQTLATETG 401 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + I+EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 402 LEITEFRRIVAMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 461 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M + Sbjct: 462 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLH 521 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+ Sbjct: 522 EIGREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPI 581 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEA Sbjct: 582 DAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 641 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+KLRSFLD Sbjct: 642 KALRKLKHPSRSRKLRSFLD 661 >gi|110633818|ref|YP_674026.1| RNA polymerase sigma factor RpoD [Mesorhizobium sp. BNC1] gi|110284802|gb|ABG62861.1| RNA polymerase, sigma 38 subunit, RpoS [Chelativorans sp. BNC1] Length = 668 Score = 792 bits (2046), Expect = 0.0, Method: Compositional matrix adjust. Identities = 425/678 (62%), Positives = 519/678 (76%), Gaps = 37/678 (5%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D D + D SDD+ KKMIKLA++RGYVT++ELNA LP EVSSEQ+EDT+AMLS+MGIN Sbjct: 14 DGTDGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSGEVSSEQIEDTMAMLSDMGIN 73 Query: 77 VVDGDDLEDEEGS-----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 VV+ ++ +E + E+S +LA + S +V +K+ DR TDDPVRMYLREMGS+ Sbjct: 74 VVEDEEAGEEAEADSAPEEESGELAETGS--AVATVAKKEPTDR-TDDPVRMYLREMGSV 130 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR+ELNDG LLREIIDLEA Sbjct: 131 ELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELNDGKILLREIIDLEATY 190 Query: 192 -GPESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 GPE K E + E+ + RDD DD + V Sbjct: 191 AGPEGKQAPVIARPEDVARPAPEEKLMRRARDD----------------DDITNV----- 229 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN---GQK 306 E+ DE+ED++ +L+AME +L+P M LD IA+ Y +LR LQD V G Sbjct: 230 GGESRPEEDDEEEDETNLSLAAMEAELKPGFMTTLDFIADTYSKLRKLQDQEVESRLGDS 289 Query: 307 DEKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 D+ S+ + K LK++L+K V SLSLN RI+ LVEQLYDI+KR++ NE +L RLA+SY Sbjct: 290 DKLSAGQERRSKELKDELIKAVKSLSLNNQRIETLVEQLYDINKRLVQNELKLFRLAESY 349 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G++R+ FL+ +QG ELDP+W S P+ W++FV E D+I +R+EI++++ ETGIS Sbjct: 350 GVRREDFLKAYQGSELDPNWGSTVAVLPQPGWRDFVKHEADTIEALRSEIQNLAQETGIS 409 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 410 IGEFRRIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 469 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 470 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEI 529 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDK+A+ P+D+ Sbjct: 530 GREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKSAILPIDA 589 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 590 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 649 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 650 LRKLKHPSRSRKLRSFLD 667 >gi|13472238|ref|NP_103805.1| RNA polymerase sigma factor RpoD [Mesorhizobium loti MAFF303099] gi|14022983|dbj|BAB49591.1| RNA polymerase sigma subunit [Mesorhizobium loti MAFF303099] Length = 674 Score = 791 bits (2043), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/679 (60%), Positives = 515/679 (75%), Gaps = 36/679 (5%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+SEQ+EDT+AMLS+MGINV Sbjct: 16 ATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINV 75 Query: 78 VDGDDLEDE--------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 V+ D+ +E + ED+ +LA + +K+ DR TDDPVRMYLREMG Sbjct: 76 VEDDEQGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTDR-TDDPVRMYLREMG 134 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLREIIDLEA Sbjct: 135 SVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELNESKILLREIIDLEA 194 Query: 190 CI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 GPE+K + ++ E++ + +E+ + +DD V + Sbjct: 195 TYAGPEAK-------QAPVVERIEEAPKAEEK-------------PRRGRDDEDDVTNVG 234 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AV 302 + + +EDED+++ +L+AME +LRP+VM LD IA+ Y++LR LQD A Sbjct: 235 ADTRGIGDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVENRLAA 294 Query: 303 NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 G + K LK++L+K V SLSLN +RI+ LVEQLYDI+KR++ NEG+LLRLA+S Sbjct: 295 AGTLSPSQDRRLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEGKLLRLAES 354 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 YG++R+ FL+ +QG ELDP+W + WK F E D+I +R EI+ ++ ET I Sbjct: 355 YGVRREEFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKDLRAEIQHLATETAI 414 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 SI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 415 SILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 474 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++ Sbjct: 475 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHE 534 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDK A+ P+D Sbjct: 535 IGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKMAILPID 594 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 595 AAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 654 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 655 ALRKLKHPSRSRKLRSFLD 673 >gi|260464077|ref|ZP_05812272.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mesorhizobium opportunistum WSM2075] gi|259030248|gb|EEW31529.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mesorhizobium opportunistum WSM2075] Length = 674 Score = 791 bits (2042), Expect = 0.0, Method: Compositional matrix adjust. Identities = 412/683 (60%), Positives = 516/683 (75%), Gaps = 44/683 (6%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+SEQ+EDT+AMLS+MGINV Sbjct: 16 ATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINV 75 Query: 78 VDGDDLEDE--------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 V+ D+ +E + ED+ +LA + +K+ DR TDDPVRMYLREMG Sbjct: 76 VEDDEQGEEAEAGDTAADAEEDANELAEQTGTAVAATTTKKEPTDR-TDDPVRMYLREMG 134 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLREIIDLEA Sbjct: 135 SVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELNESKILLREIIDLEA 194 Query: 190 CI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 GPE+K + ++ E++ + +E+ + +D+ + Sbjct: 195 TYAGPEAK-------QAPVVERIEEAPKAEEK-------------PRRGRDEEEDIT--- 231 Query: 249 ENAENDERNLDEDEDD----SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---- 300 N D R L +D+++ ++ +L+AME +LRP+VM LD IA+ Y++LR LQD Sbjct: 232 -NVGADTRGLTDDDEEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQQVEN 290 Query: 301 --AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 A G + K LK++L+K V SLSLN +RI+ LVEQLYDI+KR++ NEG+LLR Sbjct: 291 RLAAAGTLSPSQDRRLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEGKLLR 350 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 LA+SYG++R+ FL+ +QG ELDP+W + WK F E D+I ++R EI+ ++ Sbjct: 351 LAESYGVRREEFLKEYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKELRAEIQHLAT 410 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ET ISI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 411 ETAISILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 470 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ Sbjct: 471 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ 530 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDK A+ Sbjct: 531 MLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKMAI 590 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 591 LPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 650 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 651 IEAKALRKLKHPSRSRKLRSFLD 673 >gi|319782038|ref|YP_004141514.1| RNA polymerase sigma factor RpoD [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167926|gb|ADV11464.1| RNA polymerase sigma factor RpoD [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 673 Score = 789 bits (2037), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/687 (60%), Positives = 512/687 (74%), Gaps = 53/687 (7%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 + D + D SDD+ KKMIK A++RGYVT++ELN+ LP +EV+SEQ+EDT+AMLS+MGINV Sbjct: 16 ATDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINV 75 Query: 78 VDGDDLEDEEGSEDSL------------DLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 V+ +DE+G E +LA + +K+ DR TDDPVRMYL Sbjct: 76 VE----DDEQGEEPEAADTAADAEEDANELAEQTGTAVAATTTKKEPTDR-TDDPVRMYL 130 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLREII Sbjct: 131 REMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELNESKILLREII 190 Query: 186 DLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 DLEA GPE+K + ++ E E +E + S+DD + Sbjct: 191 DLEATYAGPEAK-------QAPVVERVE--------------EAKVEDKPRRSRDDEDDI 229 Query: 245 DSPPENAENDERNLDEDEDD----SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 N D R L +D+D+ ++ +L+AME +LRP+VM LD IA+ Y++LR LQD Sbjct: 230 T----NVGADTRGLTDDDDEDEDEASLSLAAMEAELRPQVMETLDVIADTYKKLRKLQDQ 285 Query: 301 ------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 A G + K LK++L+K V SLSLN +RI+ LVEQLYDI+KR++ NEG Sbjct: 286 QVENRLAAAGTLSPSQDRRLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEG 345 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 +LLRLA+SYG++R+ FL+ +QG ELDP+W + WK F E D+I +R EI+ Sbjct: 346 KLLRLAESYGVRREEFLKEYQGSELDPNWTRSIGNLTSRGWKEFTKNEKDAIKDLRAEIQ 405 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 +++ ET ISI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLI Sbjct: 406 NLATETAISILEFRKIVNQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 465 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR Sbjct: 466 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVR 525 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 T+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIED Sbjct: 526 TSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIED 585 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 K A+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRE Sbjct: 586 KMAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE 645 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 646 RIRQIEAKALRKLKHPSRSRKLRSFLD 672 >gi|328542886|ref|YP_004302995.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326412632|gb|ADZ69695.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 666 Score = 785 bits (2026), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/673 (61%), Positives = 514/673 (76%), Gaps = 32/673 (4%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 + D + D SD + K+MIK A++RGYVT +ELN LP ++VSSEQ+EDT++MLS+MGIN Sbjct: 17 EGQDGPLLDLSDAAVKRMIKAAKKRGYVTYDELNEVLPSEQVSSEQIEDTMSMLSDMGIN 76 Query: 77 VVDGDDLEDE--EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 V+D D++++ + +D DL S + ++ DR TDDPVRMYLREMGS+ELL Sbjct: 77 VIDSDEVDEAAIDDGDDGSDLVPSGGTAVAKTTTTREPTDR-TDDPVRMYLREMGSVELL 135 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GP 193 SREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LLR+IIDLEA GP Sbjct: 136 SREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKVLLRDIIDLEATYAGP 195 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 ++K G + + E D+ ETE + A S DD + AE Sbjct: 196 DAKAG--------------PAGGDGEEDEEGETE---KRAPAASGDDSER------GAEG 232 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKS--- 310 + +EDE ++ +LSAME +L+P+V+ D +A+ Y++LR LQD V + ++ Sbjct: 233 EGEEDEEDEFETNVSLSAMEAELKPQVLETFDRVADSYKKLRRLQDQLVENKLANRTLSP 292 Query: 311 --SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 + K LK+++V V SLSLNQ+RID LVEQLYDI+KR+M EG LLRLA S+G+ R Sbjct: 293 SQERRYKKLKDEIVVDVKSLSLNQNRIDALVEQLYDINKRLMGYEGRLLRLADSHGVDRT 352 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FL+++QG ELDP+W+ + WKNFVA E D+I ++R EI++++ ETG+ I+EFR Sbjct: 353 DFLKQYQGAELDPNWLRKVANLATRGWKNFVAKEKDTIRELRQEIQTLATETGLEITEFR 412 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 413 KIVAMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 472 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPT Sbjct: 473 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPT 532 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+AIQ+N Sbjct: 533 PEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSN 592 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLK Sbjct: 593 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 Query: 669 HPSRSKKLRSFLD 681 HPSRS+KLRSFLD Sbjct: 653 HPSRSRKLRSFLD 665 >gi|254504180|ref|ZP_05116331.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11] gi|222440251|gb|EEE46930.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11] Length = 671 Score = 781 bits (2017), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/682 (60%), Positives = 515/682 (75%), Gaps = 35/682 (5%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ + D+ D + D SD + KKMIK A++RGYVT +ELN LP D+ SSE++ED ++M Sbjct: 14 DNQEQGADNADGPLLDLSDAAVKKMIKAAKKRGYVTYDELNEVLPSDQNSSEKIEDIMSM 73 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 S+MGINV++ ++ ED D +L ++ S++ K+ ADR TDDPVRMYLREMG Sbjct: 74 FSDMGINVIEAEEAEDAPEEVDGGELVAAKSSAVAKTTTGKEPADR-TDDPVRMYLREMG 132 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLR+IIDLEA Sbjct: 133 SVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEAQVLLRDIIDLEA 192 Query: 190 CI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 GP++K G + DD E+E ES ++ ++ D P Sbjct: 193 TYAGPDAKAG-----------------PTGDNDDEPESENG-ESGSQ------NQTDGPS 228 Query: 249 ENAENDERNLDEDEDDSAH----TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 EN EN++ D ++DD +LSAME +L+P+V+ D IA+ Y++LR LQD V Sbjct: 229 ENTENEDSEGDGEDDDDEFESNVSLSAMEAELKPQVLETFDRIADDYKKLRRLQDQLVEN 288 Query: 305 QKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 + K+ + K LKE +V V SLSLNQ+RID LV QLYDI+KR+M EG LLRL Sbjct: 289 KLANKTLSPSQERRYKKLKEDIVVDVKSLSLNQNRIDALVAQLYDINKRLMGYEGRLLRL 348 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A SY + R FL+++QG ELDP+W+ + WKNF+A E +++ ++R+EI++++ E Sbjct: 349 ADSYNVDRQDFLKQYQGAELDPNWLRKVANLSTRGWKNFIAKEKENVRELRHEIQTLATE 408 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 TG+ I+EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 409 TGLEITEFRRIVAMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 468 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 469 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQM 528 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV Sbjct: 529 LHEIGREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVL 588 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 589 PIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 648 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 649 EAKALRKLKHPSRSRKLRSFLD 670 >gi|307944279|ref|ZP_07659620.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4] gi|307772625|gb|EFO31845.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4] Length = 669 Score = 778 bits (2010), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/683 (60%), Positives = 509/683 (74%), Gaps = 49/683 (7%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D D + D SD + KKMIK A++RG+VT +ELN LP ++VSSE++ED ++MLS+MGIN Sbjct: 17 DGPDGPLLDLSDAAVKKMIKAAKKRGFVTYDELNEVLPSEQVSSEKIEDIMSMLSDMGIN 76 Query: 77 VVDGDDLEDEEGSEDSLDLA--SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 V++ D E EEG D +D ++ ++V K+ DR TDDPVRMYLREMGS+ELL Sbjct: 77 VIEAD--EAEEGGPDEVDGGELTTTKTTAVAKTTTKEPTDR-TDDPVRMYLREMGSVELL 133 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GP 193 SREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LLR+IIDLEA GP Sbjct: 134 SREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGNVLLRDIIDLEATYAGP 193 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 ++K G DD + E S +D ++ SP +A N Sbjct: 194 DAKAGPTGAN-----------------DDDPDGE---------SGNDNAEARSP--DAAN 225 Query: 254 DERNLDEDEDD----------SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN 303 ER D++ + S +LSAME +L+P+V+ D IA+ Y++LR LQD V Sbjct: 226 SERGEDQEGAEGDDEDDDEFESNVSLSAMEAELKPQVLETFDNIADNYKKLRRLQDQLVE 285 Query: 304 GQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 + K+ + K LKE +V V SLSLNQ+RID LV QLYDI+KR+M EG LLR Sbjct: 286 NKLANKTLSPSQERRYKKLKEDIVVDVKSLSLNQNRIDALVTQLYDINKRLMGYEGRLLR 345 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 LA SY + R FL+++QG ELDP+W+ + WKNF+A E +++ ++R EI++++ Sbjct: 346 LADSYNVDRSDFLKQYQGAELDPNWLRKVANLSSRGWKNFIAKEKETVRELRQEIQTLAT 405 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ETG+ I+EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 406 ETGLEITEFRRIVAMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 465 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ Sbjct: 466 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ 525 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV Sbjct: 526 MLHEIGREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAV 585 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 586 LPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 645 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 646 IEAKALRKLKHPSRSRKLRSFLD 668 >gi|121601699|ref|YP_989245.1| RNA polymerase sigma factor RpoD [Bartonella bacilliformis KC583] gi|120613876|gb|ABM44477.1| RNA polymerase sigma factor RpoD [Bartonella bacilliformis KC583] Length = 666 Score = 778 bits (2008), Expect = 0.0, Method: Compositional matrix adjust. Identities = 411/683 (60%), Positives = 504/683 (73%), Gaps = 53/683 (7%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 S D+ DFSDD+ KKMIKLA++ GYVT++ELNA LP DEV+SEQ+ED + M S MG+NV Sbjct: 17 SLDNAPLDFSDDAIKKMIKLAKKNGYVTMDELNAVLPSDEVTSEQIEDILMMFSEMGVNV 76 Query: 78 VDGDDLEDEEGSEDSL-----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 VD +D + E E + DL + S + KR ++ DR TDDPVRMYLREMG++E Sbjct: 77 VDDEDEIEAEHYEGEITVEGGDLVEATSREVATIPKR-EATDR-TDDPVRMYLREMGAVE 134 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI- 191 LLSREGEIAIAKRIEAGR M++ LCESPLTFQALIIWR+EL + LLREIIDLE Sbjct: 135 LLSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIWREELREQRILLREIIDLEMTYA 194 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 GPE+K E +K + + ++DDV DI + E+ Sbjct: 195 GPEAKQAPI--IERSEVEKIKKEASPSDKDDVDIIAEDIGA----------------EDD 236 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 E+DE NL + +AME++L P++M L+ IAE Y +LR LQ+ V E S Sbjct: 237 EDDEVNL---------SFAAMENELYPQIMETLNFIAETYVKLRKLQNQHV-----ESSL 282 Query: 312 VKCKV-------------LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 CK LK L++ V SLSLNQ+RI+ LVEQLYDI+KR++HNEG+L R Sbjct: 283 AACKASDLSSAQKKKSTQLKSDLIQAVKSLSLNQNRIEALVEQLYDINKRLVHNEGKLKR 342 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 +A SYGI + FL+ +QGRELD WV+Y P WK F EV+ I +R+EI++++ Sbjct: 343 IANSYGIGHEDFLKEYQGRELDSDWVNYIATLPGSGWKEFSTREVEVIRNLRSEIQNLAQ 402 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ET ISI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 403 ETAISIGEFRRIVTQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 462 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ Sbjct: 463 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ 522 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + ++I REPTPEE++ KL+MP+E V+KVLKI KEPISLETP+GDED SHLGDFIED+NA+ Sbjct: 523 ILHEIGREPTPEELSSKLSMPLEKVQKVLKIAKEPISLETPVGDEDDSHLGDFIEDRNAL 582 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 583 LPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 642 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 643 IEAKALRKLKHPSRSRKLRSFLD 665 >gi|240850913|ref|YP_002972313.1| RNA polymerase sigma factor RpoD [Bartonella grahamii as4aup] gi|240268036|gb|ACS51624.1| RNA polymerase sigma factor RpoD [Bartonella grahamii as4aup] Length = 671 Score = 775 bits (2002), Expect = 0.0, Method: Compositional matrix adjust. Identities = 415/694 (59%), Positives = 520/694 (74%), Gaps = 47/694 (6%) Query: 6 KRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMED 65 K+ +++ + S D + DFSDD+ KKMIKLA++ GYVT++ELNA LP DEV+SEQ+ED Sbjct: 6 KQKDNAEVTSQASLDGPLLDFSDDAIKKMIKLAKKNGYVTMDELNAVLPSDEVTSEQIED 65 Query: 66 TVAMLSNMGINVVDGDDLEDEEGSEDSL-----DLASSASNSSVFLQKRKDSADRSTDDP 120 +AM S MG+NVVD +D + E E+ + DL ++S++ +++ DR TDDP Sbjct: 66 ILAMFSEMGVNVVDDEDEVESENYEEEVTVEGGDLVEASSHAIATTTNKREVTDR-TDDP 124 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDEL + L Sbjct: 125 VRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELKEQRIL 184 Query: 181 LREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKD 239 LREIIDLE GPE+K + ER +V +TE + K+S Sbjct: 185 LREIIDLETTYAGPEAK-----------------QAPVIERSEVNKTEEE-----KMSSG 222 Query: 240 DRSKVDSPPENAENDERNLDEDEDDSAH----TLSAMEDQLRPKVMCALDEIAEVYRELR 295 R+ +S ERN+++DE++ +L+AME++L P+VM LD IA+ Y +LR Sbjct: 223 IRNMGESA------GERNIEDDEEEDDDDVNLSLAAMENELCPQVMETLDFIAQTYVKLR 276 Query: 296 SLQDNAVNGQKDEK------SSVKCKV--LKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 LQD V E+ SS K K LK +L++ V SLSLNQ+RI+ LVEQLYDI+K Sbjct: 277 KLQDQHVESSLAERKEGALTSSQKKKYIQLKGELIQAVKSLSLNQNRIEALVEQLYDINK 336 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 R++HNEG+L R+A SYGI + FL+ +QGRELD W++Y P W+ F E I Sbjct: 337 RLIHNEGKLKRIANSYGIGHEDFLKEYQGRELDADWMNYIAALPTPGWREFSMREAKEIQ 396 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 K+R+EI++++ ET ISI EFR IV V+KGE E++IAKKEMVE+NLRLVIS+AKKYTNRG Sbjct: 397 KLRSEIQNLAQETAISIGEFRRIVMQVQKGERESTIAKKEMVESNLRLVISIAKKYTNRG 456 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 457 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 516 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+VRT+R++ ++I REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SH Sbjct: 517 TINKIVRTSRQILHEIGREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDDSH 576 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED+NA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+ Sbjct: 577 LGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 636 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 637 QFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 670 >gi|49475878|ref|YP_033919.1| RNA polymerase sigma factor RpoD [Bartonella henselae str. Houston-1] gi|49238686|emb|CAF27936.1| RNA polymerase sigma factor rpod [Bartonella henselae str. Houston-1] Length = 667 Score = 774 bits (1998), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/698 (59%), Positives = 514/698 (73%), Gaps = 49/698 (7%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K+ +++ + S DS + DFSDD+ KKM+K+A++ GYVT++ELNA LPPDEV+S Sbjct: 1 MATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSE---DSLDLASSASNSSVFLQKRKDSADRST 117 EQ+EDT+AM S MGINVVD + + E + DL + SN+ V KR + DR T Sbjct: 61 EQIEDTLAMFSEMGINVVDDEGEAENYEEEVRVEGGDLVEATSNALVTTAKR-ELTDR-T 118 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 DDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR+EL + Sbjct: 119 DDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELKEQ 178 Query: 178 TTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 LLREIIDLE GPE+K + ER +VQ+ + + S+A Sbjct: 179 RILLREIIDLEMTYAGPEAK-----------------QAPVIERSEVQKVKEEKSSSAM- 220 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAH-----TLSAMEDQLRPKVMCALDEIAEVY 291 + EN R++ +EDD +L+AME++L P+VM LD IAE Y Sbjct: 221 ------------RDMENIARDIGVEEDDEEDDDVNLSLAAMENELCPQVMGTLDFIAETY 268 Query: 292 RELRSLQDNAVNGQKDEKSS--------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 +LR LQD V E+ KC LK +LV+ V SLSLNQ+RI+ LVEQLY Sbjct: 269 VKLRKLQDQHVESSLAERKEGALSPSQRKKCIQLKSELVQAVKSLSLNQNRIESLVEQLY 328 Query: 344 DISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV 403 DI+KR++HNEG+L R+A +YG+ + FL+ +QGRELD W++Y WK F E Sbjct: 329 DINKRLIHNEGKLKRIANNYGVGHEEFLKEYQGRELDADWINYIATLSGRGWKEFSKREA 388 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 I +R+EI++++ ET ISI EFR IV+ V+KGE E++IAKKEMVEANLRLVIS+AKKY Sbjct: 389 KEIKTLRSEIQNLAQETAISIGEFRRIVTQVQKGERESTIAKKEMVEANLRLVISIAKKY 448 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 449 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 508 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+VRT+R++ ++I R+PTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDE Sbjct: 509 HMIETINKIVRTSRQILHEIGRDPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDE 568 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D SHLGDFIED+NA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLE Sbjct: 569 DDSHLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLE 628 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 629 EVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 666 >gi|49474476|ref|YP_032518.1| RNA polymerase sigma factor RpoD [Bartonella quintana str. Toulouse] gi|49239980|emb|CAF26393.1| RNA polymerase sigma factor rpod [Bartonella quintana str. Toulouse] Length = 670 Score = 771 bits (1991), Expect = 0.0, Method: Compositional matrix adjust. Identities = 416/695 (59%), Positives = 517/695 (74%), Gaps = 40/695 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K+ +++ + + S DS + DFSDD+ KKM+KLA++ GYVT++ELNA LPPDEV+S Sbjct: 1 MATKVKQKDNTEVKGQASVDSPLLDFSDDAIKKMVKLAKKNGYVTMDELNAVLPPDEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL-----DLASSASNSSVFLQKRKDSADR 115 EQ+EDT+AM S MGINVVD +D + E E+ + DL N+ KR + DR Sbjct: 61 EQIEDTLAMFSEMGINVVDDEDEGESEHYEEEVTVEGGDLVEVTRNAIATTTKR-EVTDR 119 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 TDDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWR+EL Sbjct: 120 -TDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELK 178 Query: 176 DGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAA 234 + LLREIIDLE GPE+K +R + + KE T D+E Sbjct: 179 EQRILLREIIDLEMTYAGPEAKQA--------PVIERSEIGKIKEEKSFSGTR-DMEE-- 227 Query: 235 KVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYREL 294 +++D + + E+D+ NL +L+AME++L P+VM LD IAE Y +L Sbjct: 228 NITRD----IGVEDDEEEDDDVNL---------SLAAMENELCPQVMETLDFIAEAYIKL 274 Query: 295 RSLQDNAVNGQKDEKS------SVKCKV--LKEKLVKLVGSLSLNQSRIDLLVEQLYDIS 346 R LQD V E+ S K K LK +L++ V SLSLNQ+RI+ LVEQLYDI+ Sbjct: 275 RKLQDQHVESSLAERKEGTLSLSQKKKYIQLKSELIQAVKSLSLNQNRIEALVEQLYDIN 334 Query: 347 KRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 KR++HNEG+L R+A +YG+ + FL+ +QGRELD W++Y WK F EV I Sbjct: 335 KRLIHNEGKLKRIANNYGVSHEEFLKEYQGRELDADWINYIATLSGRGWKEFSMREVKEI 394 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 +R+EI++++ ET ISI EFR IV+ V+KGE E++IAKKEMVEANLRLVIS+AKKYTNR Sbjct: 395 QSLRSEIQNLAQETAISIGEFRRIVTQVQKGERESTIAKKEMVEANLRLVISIAKKYTNR 454 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 455 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 514 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+VRT+R++ ++I REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED S Sbjct: 515 ETINKIVRTSRQILHEIGREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDDS 574 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED+NA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG Sbjct: 575 HLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 634 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 635 QQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 669 >gi|182680201|ref|YP_001834347.1| RNA polymerase sigma factor RpoD [Beijerinckia indica subsp. indica ATCC 9039] gi|182636084|gb|ACB96858.1| RNA polymerase, sigma 70 subunit, RpoD family [Beijerinckia indica subsp. indica ATCC 9039] Length = 685 Score = 771 bits (1991), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/682 (60%), Positives = 508/682 (74%), Gaps = 37/682 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 DS + D SD + K+MIK+A++RG+VT ELNA LP +EV+SEQ+ED +AML+ MGINVV+ Sbjct: 20 DSPLLDLSDAAVKRMIKVAKKRGFVTYSELNAVLPSEEVNSEQIEDILAMLNEMGINVVE 79 Query: 80 GDDLEDEEGSEDSL-------DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 ++ + EE + + DL AS S + + +DR TDDPVRMYLREMGS+E Sbjct: 80 SEEQDTEESEDSNEEEESEGGDLVE-ASQSKAVTTRSSEPSDR-TDDPVRMYLREMGSVE 137 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIG 192 LLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELND LLR+IIDLEA Sbjct: 138 LLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNDSKVLLRDIIDLEAT-- 195 Query: 193 PESKGGFFHGTEGHSYQKRE-DSSQEKERDDVQETEGDIESAAKVSKDDRSK-------V 244 + G EG S K + D++ E++ D+ E S A ++ R + + Sbjct: 196 -------YAGPEGRSSPKLDLDATDEEDPDNPDAPEA--PSTAPLNPPGRLRPAREDGDI 246 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD-NAVN 303 D PP DE ED+ +++ +LSAME +L+PKV+ D +A+ Y++LR LQD N N Sbjct: 247 DPPPMEEMFDE----EDDMENSVSLSAMEAELKPKVLETFDRVADAYKKLRRLQDQNVEN 302 Query: 304 GQKDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 K+E + K K LK+++V V SLSLNQ+RI+ LVEQLYDI+KR++ E LLRL Sbjct: 303 KLKNETLTPAQERKYKTLKKEIVADVKSLSLNQNRIEALVEQLYDINKRLIGQETRLLRL 362 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A+ YG+ R+ FL +Q ELDP W+ WK+FVA D+I + EI ++ E Sbjct: 363 AEGYGVAREDFLRNYQNSELDPKWLLRVSKLGSRGWKDFVAKAKDTIKDLLGEIHGLATE 422 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 TG+ I EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 423 TGLEIQEFRKIVHMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 482 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 483 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQM 542 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ Sbjct: 543 LHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAIL 602 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 603 PIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 662 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 663 EAKALRKLKHPSRSRKLRSFLD 684 >gi|158425267|ref|YP_001526559.1| RNA polymerase sigma factor RpoD [Azorhizobium caulinodans ORS 571] gi|158332156|dbj|BAF89641.1| sigma-70 [Azorhizobium caulinodans ORS 571] Length = 690 Score = 768 bits (1984), Expect = 0.0, Method: Compositional matrix adjust. Identities = 408/682 (59%), Positives = 502/682 (73%), Gaps = 51/682 (7%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D+ D + D SD + +KMIK A++RGYVT E+LN +P +EV+SEQ+EDT+AML++MGIN Sbjct: 42 DAPDGPLLDLSDAAVRKMIKSAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGIN 101 Query: 77 VVDGDDLE-----------DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 V++ ++ E DE DS +LA + + V + + + +R TDDPVRMYL Sbjct: 102 VIEAEEAEAEEASEEGETADEPEEVDSGELAEQSPRAVVRSETKSEPGER-TDDPVRMYL 160 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL +G LLR+II Sbjct: 161 REMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDII 220 Query: 186 DLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 DLEA GPE K G EG+ A + +D Sbjct: 221 DLEATYAGPEGKAGPV-------------------------IEGETALAPEAGEDGLLND 255 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 + P + DED+ +++ +L+AME +++PKV+ + IA+ Y++LR LQD V Sbjct: 256 SAAPGD--------DEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRLQDQNVES 307 Query: 305 Q-KDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 + K+E S K K LKE LV + SLSLNQ+RID LVEQLY+I+KR++ EG LLRL Sbjct: 308 KLKNETLSPAQERKAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSLEGRLLRL 367 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A+SYG+ RD FL ++QG ELDP W+ WK FVA E D I +R +I +++ E Sbjct: 368 AESYGVARDDFLRQYQGYELDPKWLLRVSKLGSKGWKEFVAHEKDGIHTLRGDIHALATE 427 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T + I+EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 428 TALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 487 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 488 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQM 547 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV Sbjct: 548 LHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVL 607 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 608 PIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 667 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 668 EAKALRKLKHPSRSRKLRSFLD 689 >gi|163868737|ref|YP_001609951.1| RNA polymerase sigma factor RpoD [Bartonella tribocorum CIP 105476] gi|161018398|emb|CAK01956.1| RNA polymerase sigma factor [Bartonella tribocorum CIP 105476] Length = 671 Score = 768 bits (1982), Expect = 0.0, Method: Compositional matrix adjust. Identities = 412/697 (59%), Positives = 516/697 (74%), Gaps = 43/697 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K+ +++ + S D + DFSDD+ KKMIKLA++ GYVT++ELNA LP DEV+S Sbjct: 1 MATKVKQKDNAEVTSQASLDGPLLDFSDDAIKKMIKLAKKNGYVTMDELNAVLPSDEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL-----DLASSASNSSVFLQKRKDSADR 115 EQ+ED +AM S MG+NVVD ++ + E E+ + DL ++S++ +++ DR Sbjct: 61 EQIEDILAMFSEMGVNVVDDENEVESENYEEEITVEGGDLVEASSHAIATTTNKREVTDR 120 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 TDDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDEL Sbjct: 121 -TDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELK 179 Query: 176 DGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEG-DIESA 233 + LLREIIDLE GPE+K + ER +V + +G DI S Sbjct: 180 EQRILLREIIDLETTYAGPEAK-----------------QAPVIERSEVDKIKGEDISSG 222 Query: 234 AK-VSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYR 292 + + +D + + ++D+ NL +L+AME++L P+VM LD IA+ Y Sbjct: 223 IRNIGEDIGERGIEEDDEEDDDDVNL---------SLAAMENELCPQVMETLDFIAQTYV 273 Query: 293 ELRSLQDNAVNGQKDEK------SSVKCKV--LKEKLVKLVGSLSLNQSRIDLLVEQLYD 344 +LR LQD V E+ +S K K LK +L++ V SLSLNQ+RI+ LVEQLYD Sbjct: 274 KLRKLQDQHVESSLAERKEGALTASQKKKYIQLKGELIQAVKSLSLNQNRIEALVEQLYD 333 Query: 345 ISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 I+KR++HNEG+L R+A SYGI D FL +QGRELD W++Y P WK F E Sbjct: 334 INKRLIHNEGKLKRIANSYGIGHDDFLREYQGRELDADWMNYIATLPAPGWKEFSMREAK 393 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 I K+R+EI++++ T ISI EFR IV V+KGE E++IAKKEMVE+NLRLVIS+AKKYT Sbjct: 394 EIQKLRSEIQNLAQATAISIGEFRRIVMQVQKGERESTIAKKEMVESNLRLVISIAKKYT 453 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 454 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 513 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+VRT+R++ ++I REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED Sbjct: 514 MIETINKIVRTSRQILHEIGREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDED 573 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED+NA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEE Sbjct: 574 DSHLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 633 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 634 VGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 670 >gi|319405291|emb|CBI78905.1| RNA polymerase sigma factor [Bartonella sp. AR 15-3] Length = 669 Score = 766 bits (1979), Expect = 0.0, Method: Compositional matrix adjust. Identities = 405/678 (59%), Positives = 508/678 (74%), Gaps = 41/678 (6%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 S D + DFSDD+ KKMIKLA++ GYV ++ELNA L +E++SEQ+ED +AM S MGI+V Sbjct: 18 SSDGSLLDFSDDAIKKMIKLAQKNGYVMMDELNAALSAEEITSEQIEDILAMFSEMGISV 77 Query: 78 VDGDDLEDEEGSEDSLDLASS----ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 +D +D + E E+ + + A+N +V +++ ADR TDDPVRMYLREMG++EL Sbjct: 78 IDDEDEIEAEQYEEEITIEGGDLVEATNYAVATTSKREVADR-TDDPVRMYLREMGAVEL 136 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M++ LCESPLTFQALIIWR+EL + LLREIIDLE G Sbjct: 137 LSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIWREELQEQRILLREIIDLEMTYSG 196 Query: 193 PESKGG-FFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K G+E ++ SS + +D++E D RS+ D ++ Sbjct: 197 PEAKQAPIIDGSEVKKIKEETPSSSMHDVNDLKE-------------DIRSEDDDEEDDE 243 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG---QKDE 308 N +L+AME +L P+++ LD IAE Y +LR LQD V + E Sbjct: 244 VN-------------LSLAAMEHELCPQIVETLDFIAETYVKLRKLQDQQVESSLSHRKE 290 Query: 309 K--SSVKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 K SS + K LK+ L++ V SLSLNQ+RI+ LVEQLYDI+KR++H+EG+L RLA +Y Sbjct: 291 KLLSSAQRKQYTQLKDALIQAVKSLSLNQNRIEALVEQLYDINKRLIHSEGKLKRLASNY 350 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 GI + FL +QGRELD W++Y WK F CE +I +R+EI++++ ET IS Sbjct: 351 GIGHEDFLREYQGRELDVDWINYITTLSGRGWKEFSTCEAKAIQSLRSEIQNLAQETAIS 410 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 411 ISEFRRIVTQVQKGEREANIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 470 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I Sbjct: 471 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEI 530 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SHLGDFIED+NA+ P+D+ Sbjct: 531 GREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDASHLGDFIEDRNALLPIDA 590 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANLR+TTTR+LASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 591 AIQANLRDTTTRILASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 650 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 651 LRKLKHPSRSRKLRSFLD 668 >gi|90418027|ref|ZP_01225939.1| DNA-directed RNA polymerase major sigma factor [Aurantimonas manganoxydans SI85-9A1] gi|90337699|gb|EAS51350.1| DNA-directed RNA polymerase major sigma factor [Aurantimonas manganoxydans SI85-9A1] Length = 668 Score = 766 bits (1977), Expect = 0.0, Method: Compositional matrix adjust. Identities = 401/676 (59%), Positives = 498/676 (73%), Gaps = 36/676 (5%) Query: 15 HEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMG 74 +E + D + D SDD+ KKMIK A++RG+VT+++LN+ L ++V+SEQ+ED + L++MG Sbjct: 19 NEGAPDGPLLDLSDDAVKKMIKAAKKRGFVTMDKLNSMLSAEDVTSEQIEDMMTNLNDMG 78 Query: 75 INVVDGDDLEDEEGSEDSLDLASS--ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 INVV+ D+ + E +S + + V +K++ DR TDDPVRMYLREMGS+E Sbjct: 79 INVVESDEEGENEEQSESSESTEVAETGRTQVATTTKKEAGDR-TDDPVRMYLREMGSVE 137 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI- 191 LLSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRDELN+G +LREI+DLEA Sbjct: 138 LLSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDELNEGNIMLREIVDLEATYA 197 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 GPE+K EG S VS S A Sbjct: 198 GPEAKTPTPPAVEG--------------------------SNGSVSGVPNGPPHSTGARA 231 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQ 305 +E + ++D+ ++ +L+AME ++RP+VM D+IA+ YR LR LQD A G Sbjct: 232 PGEEEDEEDDDLENNLSLAAMEAEIRPQVMETFDQIADAYRRLRKLQDQQVENRLAAQGT 291 Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 K LKE+L+ V SLSLNQ+RID LV QLYDI+KR++ NEG LLRLA+S+G+ Sbjct: 292 LSPSQERSYKKLKEELITAVKSLSLNQNRIDALVAQLYDINKRLVGNEGRLLRLAESHGV 351 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 KRD FL +QG ELDP+W + + W FV E + I ++R EI++++ ETG+ I+ Sbjct: 352 KRDEFLNEYQGTELDPNWTRHIANLSGKGWLKFVQAEKEQIKRLRQEIQNLATETGLEIT 411 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 412 EFRRIVHMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 471 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 472 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 531 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 532 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNAILPIDAAI 591 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 592 QGNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 651 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 652 KLKHPSRSRKLRSFLD 667 >gi|298292324|ref|YP_003694263.1| RNA polymerase, sigma 70 subunit, RpoD [Starkeya novella DSM 506] gi|296928835|gb|ADH89644.1| RNA polymerase, sigma 70 subunit, RpoD [Starkeya novella DSM 506] Length = 666 Score = 765 bits (1976), Expect = 0.0, Method: Compositional matrix adjust. Identities = 407/687 (59%), Positives = 505/687 (73%), Gaps = 60/687 (8%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D+ DS + D SD +KMIKLA++RGYVT +ELN LP D+ +S+Q+ED AML+ MGIN Sbjct: 17 DTPDSPLLDLSDAGVRKMIKLAKKRGYVTYDELNEVLPSDQNTSDQIEDIYAMLNEMGIN 76 Query: 77 VVDGD----------------DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP 120 VV+ + D E+E G E L SA + V + + + +R TDDP Sbjct: 77 VVEAEEAEAEAEAEESGPEAADEEEESGGE----LTESAPRAVVRSETKSEPGER-TDDP 131 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL +G L Sbjct: 132 VRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELVEGKVL 191 Query: 181 LREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKD 239 LR+IIDLEA GPE+K EG S + + + T G+ ++ D Sbjct: 192 LRDIIDLEATYAGPEAKNSPI--VEGGSLAPEAEEER-------EPTLGET-----IASD 237 Query: 240 DRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD 299 D+D+ +++ +L+AME +++PKV+ D IA+ Y++LR LQD Sbjct: 238 -------------------DDDDMENSLSLAAMEAEIKPKVLETFDNIADAYKKLRRLQD 278 Query: 300 NAVNGQ-KDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 V + ++E S K K LK+ L+ V SLSLNQ+RID LVEQLYDI+KR++ EG Sbjct: 279 QNVESKLRNESLSPSQDRKYKSLKDALIADVKSLSLNQARIDNLVEQLYDINKRLVSLEG 338 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 L+RLA+S+G+ R+ FL+++QG ELDP W+ K+ WK FV E+D+I +R+EI Sbjct: 339 RLMRLAESFGVAREDFLKQYQGSELDPKWIIRVKNLTSRGWKGFVGQELDAIRDLRSEIH 398 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 +++ ETG+ I EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLI Sbjct: 399 ALATETGLEIQEFRKIVQMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 458 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR Sbjct: 459 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVR 518 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 T+R+M ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIED Sbjct: 519 TSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIED 578 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 KNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRE Sbjct: 579 KNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE 638 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 639 RIRQIEAKALRKLKHPSRSRKLRSFLD 665 >gi|170744799|ref|YP_001773454.1| RNA polymerase sigma factor RpoD [Methylobacterium sp. 4-46] gi|168199073|gb|ACA21020.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium sp. 4-46] Length = 666 Score = 764 bits (1972), Expect = 0.0, Method: Compositional matrix adjust. Identities = 399/693 (57%), Positives = 492/693 (70%), Gaps = 58/693 (8%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++++ E D + D +D S K+MIKLA++RGYVT +ELN LP +E +SEQ+ED + Sbjct: 10 ETEAAPEQQTDGPLLDLTDASVKRMIKLAKKRGYVTYDELNEVLPQEEFTSEQIEDVLGQ 69 Query: 70 LSNMGINVVDGDDLEDEEGSE-------------DSLDLASSASNSSVFL--QKRKDSAD 114 LS +G+NVV+ ++ +D + + ++A A N L + K+ D Sbjct: 70 LSELGVNVVEAEEADDNQAEGAAAEGGGDDEEASEGTEVAEVAPNRPAVLRTETTKEPTD 129 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 130 R-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDEL 188 Query: 175 NDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 DG LLR+IIDLEA GP+ + G EG++E+ Sbjct: 189 VDGRVLLRDIIDLEATYAGPDGRAG--------------------------PAEGEVEAE 222 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 D P E + DED+ ++ +LSAME +L+P+V+ D IAE YR+ Sbjct: 223 G----------DGPEGEVAAPEGDGDEDDLENNVSLSAMEAELKPRVLETFDAIAENYRK 272 Query: 294 LRSLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR +Q +E S + LK ++V V SLSLN +RI+ LVEQLYDI+KR Sbjct: 273 LRQVQAQQAETRLQGAGANEGQSRQYAELKSRIVADVKSLSLNANRIEALVEQLYDINKR 332 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ EG L+RLA+S+G+ RD FL +QG+ELDPHWV WKNF D I Sbjct: 333 LISQEGRLMRLAESHGVARDEFLRHYQGQELDPHWVERVGKLGGKGWKNFTERGQDGIKT 392 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +I S++ ETG+ I E+R IV MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 393 LREQIMSLASETGLEIQEYRKIVHMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGL 452 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 453 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 512 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 513 INKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 572 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 573 GDFIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 632 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 633 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 665 >gi|27382460|ref|NP_773989.1| RNA polymerase sigma factor RpoD [Bradyrhizobium japonicum USDA 110] gi|1742976|emb|CAA67902.1| primary sigma factor [Bradyrhizobium japonicum] gi|27355631|dbj|BAC52614.1| primary sigma factor [Bradyrhizobium japonicum USDA 110] Length = 719 Score = 761 bits (1966), Expect = 0.0, Method: Compositional matrix adjust. Identities = 400/705 (56%), Positives = 505/705 (71%), Gaps = 30/705 (4%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +DS D S + D SD + KKMIK A++RG+VT ++LN LP D+ S EQ+ Sbjct: 15 KDDKAADAPEKDSQDAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDQTSPEQI 74 Query: 64 EDTVAMLSNMGINVVDGDDLEDEE----GSEDSLDLASSASNSSVFLQKRKDSADRSTDD 119 ED ++MLS+MGINV + DD E EE G ED D + +K TDD Sbjct: 75 EDIMSMLSDMGINVTEADDSEGEEDKDEGGEDETDNELVEVTQKAVTEVKKSEPGERTDD 134 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRDELN+G Sbjct: 135 PVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLSFQAIIIWRDELNEGKI 194 Query: 180 LLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQE------------KERDDVQET 226 LR+IIDLEA GPE+KGG G + +++ E Sbjct: 195 FLRDIIDLEATYAGPEAKGGMNTAMIGGPTGENGEATAEGGEAVAVTGAAPAHVAPPAAP 254 Query: 227 EGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED-DSAHTLSAMEDQLRPKVMCALD 285 A + + ++ + P A E ++DED++ ++ +L+A+E +L+PKV+ D Sbjct: 255 PAPTPFRAAPAAGNGAEAEKDPGEAAA-EADMDEDDEFENQMSLAAIEAELKPKVVEIFD 313 Query: 286 EIAEVYRELRSLQDNAVNGQKDEKS---------SVKCKVLKEKLVKLVGSLSLNQSRID 336 +IAE Y++LR LQ+ + Q + S K + LK++++ V SL LNQ+RID Sbjct: 314 KIAESYKKLRKLQEQDIQNQLESTSHGPSLSPHQERKYRKLKDEIIVEVKSLRLNQARID 373 Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 LVEQLYDI+KR++ +EG L+RLA S+G+ R+ FL + G ELDP W++ WK Sbjct: 374 SLVEQLYDINKRLVSHEGRLMRLADSHGVAREDFLRNYTGSELDPRWLNRVSKLSAKGWK 433 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 NFV E D I +R+E+ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLV Sbjct: 434 NFVHHEKDRIKDLRHEVHQLAALTGLEIVEFRKIVHSVQKGEREARQAKKEMVEANLRLV 493 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 494 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 553 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SL Sbjct: 554 RTIRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSL 613 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETP+GDE+ SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGM Sbjct: 614 ETPVGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGM 673 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 674 NTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 718 >gi|319898528|ref|YP_004158621.1| RNA polymerase sigma factor [Bartonella clarridgeiae 73] gi|319402492|emb|CBI76035.1| RNA polymerase sigma factor [Bartonella clarridgeiae 73] Length = 669 Score = 759 bits (1960), Expect = 0.0, Method: Compositional matrix adjust. Identities = 407/677 (60%), Positives = 509/677 (75%), Gaps = 39/677 (5%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 S D + DFSDD+ KKMIKLA++ GYV ++ELNA L DE +SEQ+EDT+AM S MGINV Sbjct: 18 SSDGPLLDFSDDAIKKMIKLAKKNGYVIMDELNAALSADEFTSEQIEDTLAMFSEMGINV 77 Query: 78 VDGDDLEDEEGSEDSLDLASS----ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 +D +D + E E+ + + A+N +V +++ ADR TDDPVRMYLREMG++EL Sbjct: 78 IDDEDEIESEQYEEEIAIEGGDLVEATNYAVATTSKREVADR-TDDPVRMYLREMGAVEL 136 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M++ LCESPLTFQALIIWR+EL + LLREIIDLE G Sbjct: 137 LSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIWREELKEQRILLREIIDLEMTYAG 196 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE 252 PE+K E+S +K +++ + S+ + D + ++ + Sbjct: 197 PEAKQAPII----------EESEVKKIKEET------LSSSMRDMDDIEEDIGGEDDDED 240 Query: 253 NDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG----QKDE 308 +DE NL +L+AME++L P+V+ LD IA+ Y +LR LQD V +K+E Sbjct: 241 DDEVNL---------SLAAMENELCPQVVETLDFIADTYVKLRKLQDQQVESSLSYRKEE 291 Query: 309 K-SSVKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 SS + K LK+ L++ V SLSLNQ+RI+ LVEQLYDI+KR++H+EG+L RLA +YG Sbjct: 292 PLSSAQRKQYNQLKDDLIQAVKSLSLNQNRIEALVEQLYDINKRLIHSEGKLKRLASNYG 351 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 I + FL +QGRELD WV+Y WK F CE I +R+EI++++ ET ISI Sbjct: 352 IGHEDFLREYQGRELDADWVNYIAALSGRGWKEFSTCEAKVIQNLRSEIQNLAQETAISI 411 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 412 GEFRRIVTQVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 471 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I Sbjct: 472 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIG 531 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SHLGDFIED+NA+ P+D+A Sbjct: 532 REPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDASHLGDFIEDRNALLPIDAA 591 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 IQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+ Sbjct: 592 IQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 651 Query: 665 RKLKHPSRSKKLRSFLD 681 RKLKHPSRS+KLRSFLD Sbjct: 652 RKLKHPSRSRKLRSFLD 668 >gi|220927258|ref|YP_002502560.1| RNA polymerase sigma factor RpoD [Methylobacterium nodulans ORS 2060] gi|219951865|gb|ACL62257.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium nodulans ORS 2060] Length = 665 Score = 758 bits (1956), Expect = 0.0, Method: Compositional matrix adjust. Identities = 396/691 (57%), Positives = 489/691 (70%), Gaps = 55/691 (7%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++++ E D + D +D S K+MIKLA++RGYVT +ELN LP +E +SEQ+ED + Sbjct: 10 ETEAAPEQQTDGPLLDLTDASVKRMIKLAKKRGYVTYDELNEVLPQEEFTSEQIEDVLGQ 69 Query: 70 LSNMGINVVDGDDLEDEEGSE------------DSLDLASSASNSSVFL--QKRKDSADR 115 LS +G+NVV+ ++ +D + + ++A A N L + K+ DR Sbjct: 70 LSELGVNVVEAEEADDNQAEGAGEGGAEDEEVSEGTEVAEVAQNRPAVLRTETTKEPTDR 129 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 130 -TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELV 188 Query: 176 DGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAK 235 DG LLR+IIDLEA + G +G + Sbjct: 189 DGRVLLRDIIDLEAT---------YAGPDGRGGPA---------------------EGEE 218 Query: 236 VSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 + + + + PP E DE +L+ + +LSAME +L+P+V+ D IAE YR+LR Sbjct: 219 EGEGEAPEGEVPPPEGEGDEDDLENN-----VSLSAMEAELKPRVLETFDAIAENYRKLR 273 Query: 296 SLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 ++Q G E + LK ++V V SLSLN +RI+ LVEQLYDI+KR++ Sbjct: 274 NVQAEQAETRLQGGGASEAQGRQYSELKSRIVADVKSLSLNANRIEALVEQLYDINKRLI 333 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 EG L+RLA+S+G+ RD FL +QG ELDPHWV WKNFV D I +R Sbjct: 334 SQEGRLMRLAESHGVARDEFLRHYQGYELDPHWVERVGKLGGKGWKNFVERGADGIQSLR 393 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +I S++ ETG+ I E+R IV MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGLQF Sbjct: 394 EQIMSLASETGLEIQEYRKIVHMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGLQF 453 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 454 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 513 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGD Sbjct: 514 KIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGD 573 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 574 FIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 633 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 634 VTRERIRQIEAKALRKLKHPSRSRKLRSFLD 664 >gi|114704974|ref|ZP_01437882.1| RNA polymerase sigma factor protein (sigma-70) [Fulvimarina pelagi HTCC2506] gi|114539759|gb|EAU42879.1| RNA polymerase sigma factor protein (sigma-70) [Fulvimarina pelagi HTCC2506] Length = 682 Score = 757 bits (1955), Expect = 0.0, Method: Compositional matrix adjust. Identities = 403/694 (58%), Positives = 506/694 (72%), Gaps = 35/694 (5%) Query: 5 KKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQME 64 K++ +D E + D + D SDD+ KKMIK A++RG+VT+++LN+ L D V+S+Q+E Sbjct: 6 KEKEAPADERAEAATDGPLLDLSDDAVKKMIKAAKKRGFVTMDKLNSMLSSDGVTSDQVE 65 Query: 65 DTVAMLSNMGINVVDGDDLEDEEG-----------SEDSLDLASSASNSSVFLQKRKDSA 113 D +AML++MGINVV+ +DEEG S +S D+A + + + ++K S Sbjct: 66 DLMAMLNDMGINVVE----DDEEGEADNDNDNDDNSSNSTDVAETG-KTQIATTEKKSSG 120 Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDE 173 DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDE Sbjct: 121 DR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDE 179 Query: 174 LNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 LN+G LLR+I+DLEA + G E + S+ + + G SA Sbjct: 180 LNEGNILLRDIVDLEAT---------YAGPEAKAPAAVAAPSEANGSEAGSDANGRTSSA 230 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 + + ++ P E ++ + D++ + S L+AME ++ P+VM D IA+ Y Sbjct: 231 NGATAEQTRPGEARPIGTEEEDEDEDDENNLS---LAAMEAEILPQVMETFDLIADTYLR 287 Query: 294 LRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 LR LQD V G + LKE L+ V LSLNQ+RID LVEQLYDI+K Sbjct: 288 LRKLQDQQVENRLQATGALSPSQEKSYRKLKEDLIAAVKGLSLNQNRIDALVEQLYDINK 347 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 R++ NEG+LLRL +S+G++RD FL +QG ELDP+W + W +FV + I Sbjct: 348 RLVGNEGKLLRLGESHGVRRDEFLNEYQGSELDPNWTRRVANLSGKGWLDFVQKDKVKIQ 407 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 ++R EI++++ ETG+ I+EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 408 RLRGEIQNLATETGLEITEFRRIVHMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRG 467 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 468 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 527 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SH Sbjct: 528 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 587 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIEDKNAV P+D+AIQ NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+ Sbjct: 588 LGDFIEDKNAVLPIDAAIQGNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 647 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 648 QFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 681 >gi|92118365|ref|YP_578094.1| RNA polymerase sigma factor RpoD [Nitrobacter hamburgensis X14] gi|91801259|gb|ABE63634.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrobacter hamburgensis X14] Length = 717 Score = 756 bits (1953), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/703 (57%), Positives = 509/703 (72%), Gaps = 28/703 (3%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +D+ D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ Sbjct: 15 KDDKAADAPEKDAADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQI 74 Query: 64 EDTVAMLSNMGINVVDGD--DLEDE--EGSEDSLDLASSASNSSVFLQKRKDSADRSTDD 119 ED ++MLS+MGINV + D D EDE E +ED D + +K TDD Sbjct: 75 EDIMSMLSDMGINVSESDEADSEDENKEEAEDETDNELVEVTQKAVTEVKKSEPGERTDD 134 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 135 PVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKI 194 Query: 180 LLREIIDLEACI-GPESKG-------GFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 LR+IIDL+A GP++K G G +G + ++ E D+ T Sbjct: 195 FLRDIIDLDATYAGPDAKNNMNPALLGAPTGPDGQPLPAGDAAAASGE-GDLGATVTAPP 253 Query: 232 SAAKVSKDDRSKVDSPPENAENDERN--------LDEDEDDSAHTLSAMEDQLRPKVMCA 283 +A R+ +P + DE++ ++ED+ D+ +L+A+E +L+PKV+ Sbjct: 254 AAPPSPTPFRAVRGAPAGAGDRDEKDQTGAAEGEMEEDDFDNQMSLAAIEAELKPKVVET 313 Query: 284 LDEIAEVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLL 338 D+IA+ Y++LR LQ+ ++ Q ++ + + LK+++V V SL LNQ+RID L Sbjct: 314 FDKIADNYKKLRRLQEADISNQLQSETLSPNQERRYRKLKDEIVVEVKSLRLNQARIDSL 373 Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 VEQLYDI+KR++ EG LLRL S+G+ R+ FL +QG ELDP W++ WKNF Sbjct: 374 VEQLYDINKRLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPKWINRVSKLSAKGWKNF 433 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 V E D I ++R EI+ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS Sbjct: 434 VHHEKDRIKELRGEIQQLAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANLRLVIS 493 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 494 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 553 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLET Sbjct: 554 IRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLET 613 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 P+GDE+ SHLGDFIEDKNAV P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNT Sbjct: 614 PVGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNT 673 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 674 DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 716 >gi|319406862|emb|CBI80497.1| RNA polymerase sigma factor [Bartonella sp. 1-1C] Length = 669 Score = 756 bits (1952), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/678 (59%), Positives = 501/678 (73%), Gaps = 41/678 (6%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 S D + DFSDD+ KKM+KLA++ GYV ++ELNA L +E +SEQ+ED +AM S MGI+V Sbjct: 18 SSDGPLLDFSDDAIKKMMKLAKKNGYVLMDELNAALSSEEFTSEQIEDILAMFSEMGISV 77 Query: 78 VDGDDLEDEEGSEDSLDLASS----ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 +D +D + E E+ + + A+N +V +++ ADR TDDPVRMYLREMG++EL Sbjct: 78 IDDEDEIEAEQYEEEITVEGGDLVEATNYAVATTSKREVADR-TDDPVRMYLREMGAVEL 136 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M++ LCESPLTFQALIIWR+EL + LLREIIDLE G Sbjct: 137 LSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIWREELQEQRILLREIIDLEMTYSG 196 Query: 193 PESKGG-FFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K +E ++ SS ++ DD++E G + + + + S Sbjct: 197 PEAKQAPIIDESEVKKIKEETSSSNMRDMDDLEEEIGGEDDDEEDDEVNLS--------- 247 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG----QKD 307 L+AME +L P+V+ LD IAE Y +LR LQD V +K Sbjct: 248 -----------------LAAMEHELCPQVVDTLDFIAETYVKLRELQDQQVESSLSHRKA 290 Query: 308 EKSSVKCKV----LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 E S + + LK+ L++ V SLSLNQ+RI+ LVEQLYDI+KR++ +EG+L RLA +Y Sbjct: 291 EPISSEQRKQYTELKDALIQAVKSLSLNQNRIEALVEQLYDINKRLIQSEGKLKRLASNY 350 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 GI + FL +QGRELD WV+Y WK F CE I +RNEI++++ ET IS Sbjct: 351 GIGHEDFLREYQGRELDADWVNYIATLSGRGWKEFSTCEAKVIQSLRNEIQNLAQETAIS 410 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 411 ISEFRRIVTQVQKGEREANIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 470 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I Sbjct: 471 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEI 530 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SHLGDFIED+NA+ P+D+ Sbjct: 531 GREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDASHLGDFIEDRNALLPIDA 590 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 591 AIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 650 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 651 LRKLKHPSRSRKLRSFLD 668 >gi|323137010|ref|ZP_08072090.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC 49242] gi|322397771|gb|EFY00293.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC 49242] Length = 670 Score = 756 bits (1951), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/684 (59%), Positives = 501/684 (73%), Gaps = 51/684 (7%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D+ D + D +D + K+MIKLA++RG+VT ELNA LP +EVSS+Q+ED AMLS MGI Sbjct: 18 DTADGPLLDLNDAAVKRMIKLAKKRGFVTYAELNAVLPSEEVSSDQIEDVYAMLSEMGIT 77 Query: 77 VVDGDDLED-------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 V +GDD +D EE + DL S +++V + + ADR TDDPVRMYLREMG Sbjct: 78 VSEGDDPDDVEAEEQAEEEEGEGGDLVESPRSTAV-ATRTSEPADR-TDDPVRMYLREMG 135 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWR+EL G LLR+IIDLEA Sbjct: 136 SVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWREELEAGKVLLRDIIDLEA 195 Query: 190 CI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 GP+ K T G ETEG++ A + +PP Sbjct: 196 TYAGPDGKAA--GKTSG-------------------ETEGEMAPA--------TAPRTPP 226 Query: 249 EN------AENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD-NA 301 + +ED ++S +LSAME +L+PKV+ +A+ Y++LR LQD N Sbjct: 227 AGLSEEAAPPEEAFEEEEDMENSV-SLSAMEAELKPKVLETFARVADAYKKLRRLQDQNV 285 Query: 302 VNGQKDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELL 357 N K+E + K K +K+++V V SLSLNQ+RI+ LVEQLYDI+KR++ E +LL Sbjct: 286 ENKLKNETLTPAQERKYKTIKKEIVTDVKSLSLNQNRIEALVEQLYDINKRLIGYETKLL 345 Query: 358 RLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSIS 417 RLA S+G+ R+ F+++ G ELDP WV WK FVA E D I +R EI +++ Sbjct: 346 RLADSHGVAREDFIDKFHGSELDPKWVMRVAQLRSRGWKEFVAEEKDRIKDLRAEIHALA 405 Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 ETG+ ISEFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 406 TETGLEISEFRKIVHMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 465 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R Sbjct: 466 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSR 525 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +M ++I REPTPEE+++KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA Sbjct: 526 QMLHEIGREPTPEELSEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNA 585 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 V P+++AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIR Sbjct: 586 VLPIEAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 645 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 646 QIEAKALRKLKHPSRSRKLRSFLD 669 >gi|319403851|emb|CBI77437.1| RNA polymerase sigma factor [Bartonella rochalimae ATCC BAA-1498] Length = 669 Score = 755 bits (1949), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/679 (59%), Positives = 500/679 (73%), Gaps = 43/679 (6%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 S D + DFSDD+ KKM+KLA++ YV ++ELNA L +E +SEQ+ED +AM S MGI+V Sbjct: 18 SSDGSLLDFSDDAIKKMMKLAKKNSYVLMDELNAALSSEEFTSEQIEDILAMFSEMGISV 77 Query: 78 VDGDD-----LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 +D +D +EE + + DL A+N +V +++ ADR TDDPVRMYLREMG++E Sbjct: 78 IDDEDEIESGQYEEEITVEGGDLVE-ATNYAVATTSKREVADR-TDDPVRMYLREMGAVE 135 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI- 191 LLSREGEIAIAKRIEAGR M++ LCESPLTFQALIIWR+EL + LLREIIDLE Sbjct: 136 LLSREGEIAIAKRIEAGRETMISGLCESPLTFQALIIWREELQEQRILLREIIDLEMTYS 195 Query: 192 GPESKGG-FFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPEN 250 GPE+K +E ++ SS ++ +D+ E G + + + + S Sbjct: 196 GPEAKQAPIIDESEVKKIKEETSSSSMRDMNDLGEEIGGEDDDEEDDEVNLS-------- 247 Query: 251 AENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG----QK 306 L+AME +L P+V+ LD IAE Y +LR LQD V +K Sbjct: 248 ------------------LAAMEHELCPQVVETLDFIAETYVKLRELQDQQVESSLSHRK 289 Query: 307 DEKSSVKCKV----LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 E S + + LK+ L++ V SLSLNQ+RI+ LVEQLYDI+KR++ +EG+L RLA + Sbjct: 290 AEPLSSEQRKQYTELKDALIQAVKSLSLNQNRIEALVEQLYDINKRLIQSEGKLKRLASN 349 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 YGI + FL +QGRELD WV+Y WK F CE I +RNEI++++ ET I Sbjct: 350 YGIGHEDFLREYQGRELDADWVNYIATLSGRGWKEFSTCEAKVIQSLRNEIQNLAQETAI 409 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 SISEFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 410 SISEFRRIVTQVQKGEREANIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 469 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++ Sbjct: 470 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHE 529 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE++ KL+MP+E VRKVLKI KEPISLETP+GDED SHLGDFIED+NA+ P+D Sbjct: 530 IGREPTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDASHLGDFIEDRNALLPID 589 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 590 AAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 649 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 650 ALRKLKHPSRSRKLRSFLD 668 >gi|312113102|ref|YP_004010698.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodomicrobium vannielii ATCC 17100] gi|311218231|gb|ADP69599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodomicrobium vannielii ATCC 17100] Length = 697 Score = 754 bits (1947), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/711 (56%), Positives = 511/711 (71%), Gaps = 45/711 (6%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M +N D +++ +S DS V D D + K++IK A+ RGYVT +E+N +PP++VS Sbjct: 1 MATATTKNEDQETQASESTDSPVLDLLDAAVKRLIKTAKARGYVTYDEINEVMPPEDVSP 60 Query: 61 EQMEDTVAMLSNMGINVVDGDD--------LEDEEGSEDSLDLASSASNSSVFLQKRKDS 112 +Q+ED + M S++GINVVD ++ L+DEE D ++ +N V Q+R Sbjct: 61 DQIEDIMTMFSDLGINVVDAEEVEEASAEHLDDEE------DDRAAPANLPV-KQERSTE 113 Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRD 172 TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+IIWRD Sbjct: 114 VGERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIGGLCESPLTFQAIIIWRD 173 Query: 173 ELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIES 232 ELN+G LLR+IIDLEA G F EG ++ D + + V + + Sbjct: 174 ELNEGKILLRDIIDLEATYS----GPFSRPEEGDGSEEEYDPEPQPQLQPVSGPRPVVTN 229 Query: 233 AAK----VSKDDRSKVDSPPEN-------AENDERNLDEDEDDSAHTLS--AMEDQLRPK 279 V+ + + + PE E E +ED+DD ++LS AME +L+PK Sbjct: 230 GGGATNGVTGLNGANGHARPEGTDAVGPEGETAEFRGEEDDDDLENSLSLAAMEAELKPK 289 Query: 280 VMCALDEIAEVYRELRSLQD---------NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 V+ D IA Y++LR LQD +A++ Q++++S + L++ +++ V SLSL Sbjct: 290 VLETFDRIATEYKKLRKLQDQHVERKLADDALSPQQEKRS----RRLRDAVIQDVKSLSL 345 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 N +RI+ LVEQLYDI+KR++ EG LLRLA +G++RD FL +QG ELDP+W+ Sbjct: 346 NPARIESLVEQLYDINKRLIGYEGRLLRLADGFGVRRDEFLSYYQGSELDPNWIDRIGTL 405 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 W+ FV E I +IR EI +++ ETG+ I+EFR IV +V+KGE EA AKKEMVE Sbjct: 406 KGKGWQKFVEKERQRIDEIRQEIYALATETGLDIAEFRRIVKIVQKGEREARQAKKEMVE 465 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 466 ANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 525 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 SIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KL+MP+E VRKVLKI Sbjct: 526 SIADQARTIRIPVHMIETINKIVRTSRQMMHEIGREPTPEELAEKLSMPLEKVRKVLKIA 585 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRM Sbjct: 586 KEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRM 645 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 646 RFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 696 >gi|296445787|ref|ZP_06887740.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium OB3b] gi|296256767|gb|EFH03841.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium OB3b] Length = 669 Score = 754 bits (1946), Expect = 0.0, Method: Compositional matrix adjust. Identities = 399/678 (58%), Positives = 503/678 (74%), Gaps = 40/678 (5%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 ++ D + D +D + K+MIKLA++RG+VT ELNA LP +EVSS+Q+ED AML MGI Sbjct: 18 ETADGPLLDLNDAAVKRMIKLAKKRGFVTYTELNAVLPSEEVSSDQIEDVYAMLQEMGIT 77 Query: 77 VVDGDDLEDEEGSEDSLDLASS-------ASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 V +GDD +D EG E + + ++ ++ + + ADR TDDPVRMYLREMG Sbjct: 78 VSEGDDPDDAEGEEQQEEEEAETGGEVVESARATAVATRSSEPADR-TDDPVRMYLREMG 136 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWR+EL G LLR+IIDLEA Sbjct: 137 SVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWREELEAGKVLLRDIIDLEA 196 Query: 190 CI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 GPE K ++ +DD+ + A + + +D P Sbjct: 197 TYAGPEGK----------------NAKPPAPQDDL--------APATAPRSPPAALDEPG 232 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD-NAVNGQKD 307 AE E +ED+ +++ +LSAME +L+P+V+ +A+ Y++LR LQD N N K+ Sbjct: 233 APAE--ESFEEEDDLENSVSLSAMEAELKPRVLETFARVADAYKKLRRLQDQNVENKLKN 290 Query: 308 EKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 E + K K LK+++V V SLSLNQ+RI+ LVEQLYDI+KR++ E +L LA + Sbjct: 291 ETLTPAQERKYKQLKKEIVTDVKSLSLNQNRIEALVEQLYDINKRLVGYERKLFMLADAQ 350 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G++R+ F+++ QG ELDP W++ WK FVA E D I ++R EI +++ ETG+ Sbjct: 351 GVQREDFIDKFQGSELDPKWINRVSKLGSRGWKEFVANEKDRIRELRGEIHALATETGLE 410 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I+EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 411 IAEFRKIVQMVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 470 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 471 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEI 530 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+++KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+++ Sbjct: 531 GREPTPEELSEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIEA 590 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 591 AIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 650 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 651 LRKLKHPSRSRKLRSFLD 668 >gi|75676624|ref|YP_319045.1| RNA polymerase sigma factor RpoD [Nitrobacter winogradskyi Nb-255] gi|74421494|gb|ABA05693.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrobacter winogradskyi Nb-255] Length = 717 Score = 753 bits (1943), Expect = 0.0, Method: Compositional matrix adjust. Identities = 399/707 (56%), Positives = 502/707 (71%), Gaps = 36/707 (5%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +D+ D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ Sbjct: 15 KDDKAADAPEKDTADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQI 74 Query: 64 EDTVAMLSNMGINV-----VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTD 118 ED ++MLS+MGINV D +D EE E++ + + +V K+ + +R TD Sbjct: 75 EDIMSMLSDMGINVSESEDADSEDENKEEADEETDNELVEVTQKAVTEVKKSEPGER-TD 133 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 134 DPVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGK 193 Query: 179 TLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVS 237 LR+IIDLEA GPE+K + + + D EG E+ Sbjct: 194 IFLRDIIDLEATYAGPEAKSSM-NPALLGAPGGPGGQPLSADASDGASGEGGAEATVNAP 252 Query: 238 KDDRSKVDS------------------PPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 P AE + ++ED+ D+ +L+A+E +L+PK Sbjct: 253 PSAPPSPTPFRAARAAPAGAADREEKIPGAAAEGE---MEEDDFDNQMSLAAIEAELKPK 309 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSR 334 V+ D+IA+ Y++LR LQ+ ++ Q +S + K LK++++ V SL LNQ+R Sbjct: 310 VVETFDKIADSYKKLRRLQEADISNQLQNESLSPNQERRYKKLKDEIIVEVKSLRLNQAR 369 Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 ID LVEQLYDI+KR++ EG LLRL S+G+ R+ FL +QG ELDP W++ Sbjct: 370 IDSLVEQLYDINKRLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKG 429 Query: 395 WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLR 454 WKNFV E D I ++R EI+ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLR Sbjct: 430 WKNFVHHEKDRIKELRGEIQQLAALTGLEIGEFRKIVQGVQKGEREARQAKKEMVEANLR 489 Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIAD Sbjct: 490 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 549 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIRIPVHM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+ Sbjct: 550 QARTIRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPL 609 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 SLETP+GDE+ SHLGDFIEDKNAV P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGI Sbjct: 610 SLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGI 669 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 670 GMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 716 >gi|115523078|ref|YP_779989.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisA53] gi|115517025|gb|ABJ05009.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodopseudomonas palustris BisA53] Length = 704 Score = 752 bits (1942), Expect = 0.0, Method: Compositional matrix adjust. Identities = 393/674 (58%), Positives = 492/674 (72%), Gaps = 12/674 (1%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+MGINV + Sbjct: 31 SPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDMGINVSES 90 Query: 81 DDLEDEEGSEDSLDLASSASN-----SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 DD ++EE ++ + + +K TDDPVRMYLREMG++ELLS Sbjct: 91 DDTDNEEEETKEEADDEPDTDLVEVTAKAVTETKKSEPGERTDDPVRMYLREMGTVELLS 150 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPE 194 REGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLEA GP+ Sbjct: 151 REGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPD 210 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEND 254 +K + ED + A + + + AE+ Sbjct: 211 AKNNMNPALAAPEGETSEDPDAVAAPPAAPPQPTPFRAGAPRPAPAATPGEEGKDPAESA 270 Query: 255 -ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDEKSSV 312 E ++D+DE ++ +L+A+E +L+PKV+ D+IAE Y++LR LQ+ ++ Q ++E S Sbjct: 271 AEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIAENYKKLRRLQEQDISNQLQNETLSP 330 Query: 313 ----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ EG LLRL S+G+ R+ Sbjct: 331 AQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFEGRLLRLGDSHGVARE 390 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FL +QG ELDP W++ WKNFV E D I ++R EI+S++ TG+ I EFR Sbjct: 391 DFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHHEKDRIKELRQEIQSLAALTGLEIGEFR 450 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 451 KIVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 510 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M N+I REPT Sbjct: 511 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGREPT 570 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDFIEDKNAV P+D+AIQ+N Sbjct: 571 PEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSN 630 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLK Sbjct: 631 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 690 Query: 669 HPSRSKKLRSFLDG 682 HPSRS+KLRSFLD Sbjct: 691 HPSRSRKLRSFLDN 704 >gi|85715949|ref|ZP_01046926.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] gi|85697147|gb|EAQ35028.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] Length = 716 Score = 751 bits (1938), Expect = 0.0, Method: Compositional matrix adjust. Identities = 403/703 (57%), Positives = 512/703 (72%), Gaps = 29/703 (4%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +D D S + D SD + KKMIK A++RG+VT ++LN LP + S EQ+ Sbjct: 15 KDDKAADAPEKDIADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSETTSPEQI 74 Query: 64 EDTVAMLSNMGINV-----VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTD 118 ED ++MLS+MGINV D +D EE E++ + + +V K+ + +R TD Sbjct: 75 EDIMSMLSDMGINVSESEDADSEDENKEEADEETDNELVEVTQKAVTEVKKSEPGER-TD 133 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 134 DPVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGK 193 Query: 179 TLLREIIDLEACI-GPESKG-----GFFHGTEGHSYQKREDSSQEKERDDVQETEGDIES 232 LR+IIDLEA GPE+K G G +G + S + DV T + Sbjct: 194 IFLRDIIDLEATYAGPEAKSNQALLGSPAGPDGQPLSA-DASDADSGESDVGSTVTAPPA 252 Query: 233 AAKVSKDDRSKVDSPPENAENDERN---------LDEDEDDSAHTLSAMEDQLRPKVMCA 283 A R+ +P +A+ D+++ ++ED+ D+ +L+A+E +L+PKV+ Sbjct: 253 APPSPTPFRAARAAPAGSADPDDKDPGVAAAEGEMEEDDFDNQMSLAAIEAELKPKVVET 312 Query: 284 LDEIAEVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLL 338 D+IA+ Y++LR LQ+ ++ Q +S + K LK++++ V SL LNQ+RID L Sbjct: 313 FDKIADNYKKLRRLQEADISNQLQNESLSPNQERRYKKLKDEIIVEVKSLRLNQARIDSL 372 Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 VEQLYDI+KR++ EG LLRL S+G+ R+ FL +QG ELDP W++ WKNF Sbjct: 373 VEQLYDINKRLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWKNF 432 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 V E D I ++R EI+ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS Sbjct: 433 VHHEKDRIKELRGEIQQLAALTGLEIGEFRKIVQGVQKGEREARQAKKEMVEANLRLVIS 492 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 493 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 552 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLET Sbjct: 553 IRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLET 612 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 P+GDE+ SHLGDFIEDKNAV P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNT Sbjct: 613 PVGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNT 672 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 673 DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 715 >gi|154245186|ref|YP_001416144.1| RNA polymerase sigma factor RpoD [Xanthobacter autotrophicus Py2] gi|154159271|gb|ABS66487.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthobacter autotrophicus Py2] Length = 666 Score = 750 bits (1937), Expect = 0.0, Method: Compositional matrix adjust. Identities = 405/682 (59%), Positives = 497/682 (72%), Gaps = 50/682 (7%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D+ D + D SD + +KMIK A++RGYVT E+LN +P +EV+SEQ+EDT+AML++MGIN Sbjct: 17 DAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGIN 76 Query: 77 VVDGDDLEDEEGSEDSLDLAS-----------SASNSSVFLQKRKDSADRSTDDPVRMYL 125 V++ ++ E EEG+E++ A + + + + A+R TDDPVRMYL Sbjct: 77 VIEAEEAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETKSEPAER-TDDPVRMYL 135 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL +G LLR+II Sbjct: 136 REMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDII 195 Query: 186 DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVD 245 DLEA + G EG + + + +D D Sbjct: 196 DLEAT---------YAGPEGKNPPAALGEEAALAPE---------------AGEDGLLGD 231 Query: 246 SP-PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 +P PE ++D N + +L+AME +++PKV+ D IA Y +LR LQD V Sbjct: 232 APGPEGEDDDMEN--------SMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVES 283 Query: 305 Q-KDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 + K+E S K K LKE LV V SLSLNQ+RID LVEQLY+I+KR++ EG LLRL Sbjct: 284 KLKNETLSPAQERKAKKLKEDLVGDVKSLSLNQARIDALVEQLYEINKRLVGLEGRLLRL 343 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A SYG+ RD FL+ + G ELDP W+ WK FV E D+I +IR +I +++ E Sbjct: 344 ADSYGVTRDDFLKNYMGAELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHALATE 403 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 TG+ I+EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 404 TGLEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 463 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 464 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQM 523 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ Sbjct: 524 LHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAIL 583 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 584 PIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 643 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 644 EAKALRKLKHPSRSRKLRSFLD 665 >gi|217977790|ref|YP_002361937.1| RNA polymerase sigma factor RpoD [Methylocella silvestris BL2] gi|217503166|gb|ACK50575.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocella silvestris BL2] Length = 683 Score = 749 bits (1933), Expect = 0.0, Method: Compositional matrix adjust. Identities = 407/699 (58%), Positives = 511/699 (73%), Gaps = 35/699 (5%) Query: 3 IGKKRNRDSDSEHE--DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 + KK N +++E ++ DS + D SD + K+MIK A++RG+VT ELNA LP +EV+S Sbjct: 1 MAKKDNEKTEAEGGVVETADSPLLDLSDAAVKRMIKAAKKRGFVTYAELNAVLPSEEVNS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL-------DLASSASNSSVFLQKRKDSA 113 EQ+ED +AML+ MGINVV+ ++ E+ E E + DL +++ +V + + + A Sbjct: 61 EQIEDILAMLNEMGINVVETEEQEEGEAEEAAEEEEAEGGDLVEASTVKAVTV-RSSEPA 119 Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDE 173 DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDE Sbjct: 120 DR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDE 178 Query: 174 LNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK----REDSSQEKERDDVQETEGD 229 LND LLR+IIDLEA + G +G + K +++ Sbjct: 179 LNDSKVLLRDIIDLEAT---------YAGPDGRNTPKIDMTAPGAAEALAAQQAAPATAP 229 Query: 230 IESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIA 288 + A++ VD P PE+ ++E D+ +++ +LSAME +L+PKV+ D +A Sbjct: 230 LTPPARLRPAGEDGVDPPIPEDVFDEE-----DDMENSVSLSAMEAELKPKVLDTFDRVA 284 Query: 289 EVYRELRSLQD-NAVNGQKDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 + Y++LR LQD N N K+E S K K LK+++V V SLSLN +RI+ LVEQLY Sbjct: 285 DAYKKLRRLQDQNVENKLKNESLSPSQERKYKTLKKEVVTDVKSLSLNPNRIEALVEQLY 344 Query: 344 DISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV 403 DI+KR++ E LLRLA+ G+ R+ FL +Q ELDP W+ W++FVA Sbjct: 345 DINKRLIGLETRLLRLAEGSGVTREDFLRNYQNSELDPKWLLRVSKLGGRGWRDFVATAK 404 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D I + EI +++ ETG+ I EFR IV MV+KGE EA AKKEMVEANLRLVIS+AKKY Sbjct: 405 DQIKDLLAEIHALATETGLEIQEFRKIVHMVQKGEREARQAKKEMVEANLRLVISIAKKY 464 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 465 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 524 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE Sbjct: 525 HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDE 584 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE Sbjct: 585 EDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 644 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 645 EVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN 683 >gi|90422490|ref|YP_530860.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisB18] gi|90104504|gb|ABD86541.1| sigma 70 (RpoD) [Rhodopseudomonas palustris BisB18] Length = 702 Score = 747 bits (1929), Expect = 0.0, Method: Compositional matrix adjust. Identities = 393/683 (57%), Positives = 498/683 (72%), Gaps = 14/683 (2%) Query: 12 DSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ +D+ D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++M Sbjct: 20 DAPEKDAPDAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSM 79 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSAS-----NSSVFLQKRKDSADRSTDDPVRMY 124 LS+MGINV + DD + +E + + + +K TDDPVRMY Sbjct: 80 LSDMGINVSEADDADSDEEDAKEEAEEEPDNELVEVTAKAVTETKKSEPGERTDDPVRMY 139 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 LREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+I Sbjct: 140 LREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDI 199 Query: 185 IDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSK 243 IDLEA GP++K + + + + + + Sbjct: 200 IDLEATYAGPDAKNN-MNPALIAPPAAADGEAADGAEAVAAPPAAPPSATPFRAAPPPRP 258 Query: 244 VDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN 303 D P E++E+ + + D+DE ++ +L+A+E +L+PKV+ D+IAE Y++LR LQ+ ++ Sbjct: 259 ADEPKESSESADGDADDDEFENQMSLAAIEAELKPKVVETFDKIAENYKKLRRLQEQDIS 318 Query: 304 GQ-KDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 Q ++E S K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ EG LLR Sbjct: 319 NQLQNETLSPAQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFEGRLLR 378 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 L S+G+ R+ FL +QG ELDP W++ WKNFVA E D I ++R EI+S++ Sbjct: 379 LGDSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWKNFVAHEKDRIKELRGEIQSLAA 438 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 439 LTGLEIGEFRKIVHGVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 498 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ Sbjct: 499 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQ 558 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDFIEDKNA+ Sbjct: 559 MLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAI 618 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 619 LPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 678 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 679 IEAKALRKLKHPSRSRKLRSFLD 701 >gi|148257986|ref|YP_001242571.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. BTAi1] gi|146410159|gb|ABQ38665.1| RNA polymerase, sigma 70 subunit, RpoD [Bradyrhizobium sp. BTAi1] Length = 702 Score = 744 bits (1920), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/705 (57%), Positives = 504/705 (71%), Gaps = 47/705 (6%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +DS D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ Sbjct: 15 KDDKAADAPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQI 74 Query: 64 EDTVAMLSNMGINVVD------------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 ED ++MLS+MGINV + GDD D E E + +V K+ + Sbjct: 75 EDIMSMLSDMGINVTEAEEADESEEKDDGDDETDNELVE--------ITQKAVTEVKKSE 126 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +R TDDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWR Sbjct: 127 PGER-TDDPVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWR 185 Query: 172 DELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI 230 DELN+G LR+IIDLEA GPESKGG + Q ++ E E D E + + Sbjct: 186 DELNEGKIFLRDIIDLEATYAGPESKGGM-------NPQIAAPANGEGEAADGGEIQAAV 238 Query: 231 ESAAKVSKDDRSKVDSPPENAENDERNLDEDED---------DSAHTLSAMEDQLRPKVM 281 A + + + P A +E++ E ++ +L+A+E +L+PKV+ Sbjct: 239 APPAAPQQPTPFR--AAPNGAPVEEKDPGEAAAEADMDDDEFENQMSLAAIEAELKPKVV 296 Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRID 336 D+IA Y++LR LQ+ + Q +S K K LK++++ V SL LNQ+RID Sbjct: 297 ETFDKIASEYKKLRRLQEQDIANQLQSESLSPSQERKYKKLKDEIIVEVKSLRLNQARID 356 Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 LVEQLYDI+K+++ E L+RLA S+G+ R+ FL +QG ELDP W++ WK Sbjct: 357 SLVEQLYDINKKLVSFESRLMRLADSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWK 416 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 NFV E D I +R E++S++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLV Sbjct: 417 NFVHYEKDRIKDLRQEVQSLAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANLRLV 476 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 477 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 536 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SL Sbjct: 537 RTIRIPVHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSL 596 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETP+GDE+ SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGM Sbjct: 597 ETPVGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGM 656 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 657 NTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 701 >gi|304391338|ref|ZP_07373282.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130] gi|303296694|gb|EFL91050.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130] Length = 692 Score = 743 bits (1917), Expect = 0.0, Method: Compositional matrix adjust. Identities = 399/682 (58%), Positives = 503/682 (73%), Gaps = 31/682 (4%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D +DD KKMIK A++RG+VT++ELNA +P DEVS +Q+EDT++MLS MGINVV+ Sbjct: 21 DRPLLDLNDDKVKKMIKAAKKRGFVTVDELNAVMPSDEVSPDQIEDTMSMLSEMGINVVE 80 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 ++ E+ + + A +V +K+ DR TDDPVRMYLREMGS+ELLSREGE Sbjct: 81 EEESEEAPEEVSTEIV--EAGKKAVATVAKKEPTDR-TDDPVRMYLREMGSVELLSREGE 137 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKG- 197 IAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL + LLR+IIDLEA GP++K Sbjct: 138 IAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELLEENILLRDIIDLEATYAGPDAKQN 197 Query: 198 -------------GFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 G+ G E S + R ++ D E+A + K + Sbjct: 198 VPVNPNAPASVAEAVRQGSGG------EHSPEAIARRKAEKDGTDPEAAVEALKGPEAGD 251 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV-- 302 D+ EN + + D+++D++A +L+AME +L+PKV+ D IA Y++LR LQD V Sbjct: 252 DTSSEN--KTDDDDDDEDDEAALSLAAMEAELKPKVLEIFDSIAGNYKKLRKLQDTYVEK 309 Query: 303 ---NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 N + + LKE++V V SL LN +RI+ LVEQLYDI+KR++ +EG L+RL Sbjct: 310 RMLNEKLSPSQEKRLVALKEEIVVSVKSLELNLNRIEALVEQLYDINKRLVQSEGRLMRL 369 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A+ +G+ R++FLE ++G ELDP+W+ + WK F A E I ++R +I+ +S E Sbjct: 370 AEKHGVARELFLEEYRGAELDPNWIRRIANLGAKGWKEFCANEKPEIKELRADIQMLSHE 429 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 TG+ EFR IV V+KGE E+ IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 430 TGLDTGEFRRIVHQVQKGERESRIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 489 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 490 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQM 549 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE++ KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ Sbjct: 550 LHEIGREPTPEELSTKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAIL 609 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 610 PIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 669 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 670 EAKALRKLKHPSRSRKLRSFLD 691 >gi|209884282|ref|YP_002288139.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] gi|209872478|gb|ACI92274.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] Length = 708 Score = 742 bits (1916), Expect = 0.0, Method: Compositional matrix adjust. Identities = 398/693 (57%), Positives = 498/693 (71%), Gaps = 17/693 (2%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K + +++ +DS D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ Sbjct: 15 KEQKAAETPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQI 74 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSAS----NSSVFLQKRKDSADRSTDD 119 ED +AMLS+MGINV + D+ ++EE +D D + S + +K TDD Sbjct: 75 EDIMAMLSDMGINVSESDEADNEEEEKDEADDDTDNELVEVTSKAVTETKKSEPGERTDD 134 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 135 PVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKI 194 Query: 180 LLREIIDLEACI-GPESKGG----FFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAA 234 LR+IIDLEA GPE KGG G G Q V + A Sbjct: 195 FLRDIIDLEATYAGPEGKGGVNTAMIAGPSGPDGQPTNAIVNGDGTVQVMPAQAAAAQTA 254 Query: 235 KVSKDDRSKVDSPPENAENDERNLDEDED-DSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 + + ++A E DED++ ++ +L+A+E +L+P+V+ D+IA Y++ Sbjct: 255 PQTATPFRPAPAAGDDASASEGEGDEDDEFENQMSLAAIEAELKPRVVETFDKIASEYKK 314 Query: 294 LRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR LQ+ + Q +S K K LK++++ V SL LNQ+RID LVEQLYDI+KR Sbjct: 315 LRRLQEQDIANQLQSESLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKR 374 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ EG L RL S+G+ R+ FL+ + G ELDP W++ WKNFVA E D I Sbjct: 375 LVSYEGRLFRLGDSHGVSREDFLKNYVGSELDPRWLNRVSKLSAKGWKNFVAHEKDKIKD 434 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R+E++ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGL Sbjct: 435 LRHEVQQLAALTGLEIGEFRKIVLGVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGL 494 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 495 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 554 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHL Sbjct: 555 INKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHL 614 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 615 GDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 674 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 675 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 707 >gi|192289891|ref|YP_001990496.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris TIE-1] gi|192283640|gb|ACF00021.1| RNA polymerase, sigma 70 subunit, RpoD family [Rhodopseudomonas palustris TIE-1] Length = 698 Score = 741 bits (1914), Expect = 0.0, Method: Compositional matrix adjust. Identities = 394/675 (58%), Positives = 495/675 (73%), Gaps = 22/675 (3%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--- 77 S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+MGINV Sbjct: 31 SPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDMGINVSEA 90 Query: 78 --VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 + ++ E +E +++ LD + + +K TDDPVRMYLREMG++ELLS Sbjct: 91 EDTEAEEEEAKEEADEELDNDLVEVTAKAVTETKKSEPGERTDDPVRMYLREMGTVELLS 150 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPE 194 REGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLEA GPE Sbjct: 151 REGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPE 210 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEND 254 K G G E+++ E + + + + P AE + Sbjct: 211 GKNNI--GEPG------EEAAAEGDGGAPAHVAPPAAPPSATPFRPAQQRGAAPAEAEGE 262 Query: 255 ---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDEKS 310 E + D+DE ++ +L+A+E +L+PKV+ D+IA+ Y++LR LQ+ + Q ++E+ Sbjct: 263 GAPEGDGDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKLQEQDIANQLQNEQL 322 Query: 311 SV----KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK 366 S K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ E L+RLA S+G+ Sbjct: 323 SPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFESRLMRLADSHGVA 382 Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 RD FL +QG ELDP W++ WKNFV E D I +R E++S++ TG+ I E Sbjct: 383 RDDFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHHEKDRIKDLRQEVQSMAALTGLEIGE 442 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 443 FRKIVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 502 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M N+I RE Sbjct: 503 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGRE 562 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDFIEDKNAV P+D+AIQ Sbjct: 563 PTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQ 622 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RK Sbjct: 623 SNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 682 Query: 667 LKHPSRSKKLRSFLD 681 LKHPSRS+KLRSFLD Sbjct: 683 LKHPSRSRKLRSFLD 697 >gi|86751238|ref|YP_487734.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris HaA2] gi|86574266|gb|ABD08823.1| sigma 70 (RpoD) [Rhodopseudomonas palustris HaA2] Length = 714 Score = 741 bits (1912), Expect = 0.0, Method: Compositional matrix adjust. Identities = 398/694 (57%), Positives = 495/694 (71%), Gaps = 32/694 (4%) Query: 16 EDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 +DS D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+M Sbjct: 24 KDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDM 83 Query: 74 GINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQK-----RKDSADRSTDDPVRMYLREM 128 GINV + ++ + E+ ++ QK +K TDDPVRMYLREM Sbjct: 84 GINVSEAEESDSEDEDAKDEAEEEPDNDLVEVTQKAVTETKKSEPGERTDDPVRMYLREM 143 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 G++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLE Sbjct: 144 GTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLE 203 Query: 189 ACI-GPESKGGFFHG-TEGHSYQKREDSSQEKERD----------DVQETEGDIESAAKV 236 A GP++K EG E++S E E D T A + Sbjct: 204 ATYAGPDAKANMNPAMAEGAG----EEASAEGEADAGAPAHVAPPAAPPTATPFRPAQQR 259 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 S + E ++D+DE ++ +L+A+E +L+PKV+ D+IA+ Y++LR Sbjct: 260 SAPAAAPAAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRK 319 Query: 297 LQDNAVNGQKDEKSS---------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 LQ+ + Q + S K K LK++++ V SL LNQ+RID LVEQLYDI+K Sbjct: 320 LQEQDIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINK 379 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 +++ EG LLRL S+G+ R+ FL +QG ELDP W++ WKNFV E D I Sbjct: 380 KLVSFEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHFEKDRIR 439 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 ++R EI+S++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 440 ELRQEIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRG 499 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 500 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 559 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SH Sbjct: 560 TINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSH 619 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIEDKNAV P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+ Sbjct: 620 LGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 679 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 680 QFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 713 >gi|254470295|ref|ZP_05083699.1| sigma 70 [Pseudovibrio sp. JE062] gi|211960606|gb|EEA95802.1| sigma 70 [Pseudovibrio sp. JE062] Length = 701 Score = 741 bits (1912), Expect = 0.0, Method: Compositional matrix adjust. Identities = 397/699 (56%), Positives = 499/699 (71%), Gaps = 50/699 (7%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 + D + D S + KKMIK A++RGY+T +ELN LPPD+VSSEQ+EDT+++LS MGIN Sbjct: 18 EGQDGPLLDLSVAAVKKMIKTAKKRGYITYDELNEVLPPDQVSSEQIEDTMSLLSEMGIN 77 Query: 77 VVDGDDLEDEE------GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 VV+ +D E+ + + D +L ++S + K+ DR TDDPVRMYLREMGS Sbjct: 78 VVEAEDAEEGKEEEDAPAAVDGGELVVASSTAVTKTSTAKEPTDR-TDDPVRMYLREMGS 136 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 +ELLSREGEIAIAKRIEAGR M++ LCESPLTFQA+IIW +EL +G LLR+IIDL+A Sbjct: 137 VELLSREGEIAIAKRIEAGREAMISGLCESPLTFQAIIIWGEELAEGKVLLRDIIDLDAT 196 Query: 191 I-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAK-------------- 235 GP GG +D E+E + EG++ A + Sbjct: 197 YSGPGDAGG-----------PSDDDLSEQE----EAGEGEVPEAVRQKEKEEARKRKEEE 241 Query: 236 -------VSKDDRSKVDSPPENAENDERNLDEDEDDSAH-TLSAMEDQLRPKVMCALDEI 287 + + + E E D+D++ A+ +LS ME +L+P V+ D+I Sbjct: 242 ARKANGAAAPAPAADGAQGEQTGEGGESTDDDDDEYEANVSLSVMEAELKPMVVEIFDKI 301 Query: 288 AEVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 E Y++LR LQD V + K+ + K LKE ++ V SL LN +RI+ LV+QL Sbjct: 302 TEDYKKLRKLQDQLVENKLANKTLSPSQERRYKKLKEDIIAEVKSLHLNANRIETLVQQL 361 Query: 343 YDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 Y I+K +M EG LLRLA S G+ R F++ +QG ELDP+W+ + WK FV + Sbjct: 362 YSINKMLMGYEGRLLRLADSNGVNRADFIKHYQGSELDPNWIRKVANLSGRGWKKFVTND 421 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 D I ++R EI+S++ ETG+ I+EFR +VSMV+KGE EA IAKKEMVEANLRLVIS+AKK Sbjct: 422 GDMIRELRGEIQSLATETGLEITEFRTLVSMVQKGEREARIAKKEMVEANLRLVISIAKK 481 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 482 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 541 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+VRT+R+M ++I REPTPEE+++KL MP+E VRKVLKI KEPISLETPIGD Sbjct: 542 VHMIETINKIVRTSRQMLHEIGREPTPEELSEKLQMPLEKVRKVLKIAKEPISLETPIGD 601 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 E+ SHLGDFIEDKNA+ P+D+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL Sbjct: 602 EEDSHLGDFIEDKNAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 661 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 662 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 700 >gi|91978433|ref|YP_571092.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisB5] gi|91684889|gb|ABE41191.1| RNA polymerase sigma factor RpoD-like [Rhodopseudomonas palustris BisB5] Length = 711 Score = 740 bits (1910), Expect = 0.0, Method: Compositional matrix adjust. Identities = 394/690 (57%), Positives = 494/690 (71%), Gaps = 27/690 (3%) Query: 16 EDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 +DS D S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+M Sbjct: 24 KDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDM 83 Query: 74 GINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQK-----RKDSADRSTDDPVRMYLREM 128 GINV + ++ + E+ ++ QK +K TDDPVRMYLREM Sbjct: 84 GINVSEAEESDSEDEESKDEAEEEPDNDLVEVTQKAVTETKKSEPGERTDDPVRMYLREM 143 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 G++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLE Sbjct: 144 GTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLE 203 Query: 189 ACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 A GP++K G + E++S E E + + +P Sbjct: 204 ATYAGPDAKNNMNPAMAGETG---EEASAEGEGGAPAHLAPPAAPPSATPFRPAQQRAAP 260 Query: 248 PE-------NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 + E ++D+DE ++ +L+A+E +L+PKV+ D+IA+ Y++LR LQ+ Sbjct: 261 SQAPAGEGGGEGAAEGDMDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKLQEQ 320 Query: 301 AVNGQKDEKSSV---------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 + Q + S K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ Sbjct: 321 DIANQLESASQGPSLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVS 380 Query: 352 NEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRN 411 EG LLRL S+G+ R+ FL +QG ELDP W++ WKNFV E D I ++R Sbjct: 381 FEGRLLRLGDSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHHEKDRIKELRQ 440 Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 EI+S++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFL Sbjct: 441 EIQSMAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFL 500 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K Sbjct: 501 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 560 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 +VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDF Sbjct: 561 IVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDF 620 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IEDKNAV P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF V Sbjct: 621 IEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSV 680 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 681 TRERIRQIEAKALRKLKHPSRSRKLRSFLD 710 >gi|39934363|ref|NP_946639.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris CGA009] gi|39648212|emb|CAE26731.1| RNA polymerase sigma 70 subunit, RpoD [Rhodopseudomonas palustris CGA009] Length = 698 Score = 740 bits (1910), Expect = 0.0, Method: Compositional matrix adjust. Identities = 391/672 (58%), Positives = 490/672 (72%), Gaps = 16/672 (2%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--- 77 S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+MGINV Sbjct: 31 SPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDMGINVSEA 90 Query: 78 --VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 + ++ E +E +++ LD + + +K TDDPVRMYLREMG++ELLS Sbjct: 91 EDTEAEEEEAKEEADEELDNDLVEVTAKAVTETKKSEPGERTDDPVRMYLREMGTVELLS 150 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPE 194 REGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLEA GPE Sbjct: 151 REGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPE 210 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEND 254 K E + + + + A + R + E Sbjct: 211 GKNNIGEPGEEAAAEGEGGAPAHVAPPAAPPSATPFRPAQQ-----RGAAPAEAEGEGAP 265 Query: 255 ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDEKSSV- 312 E + D+DE ++ +L+A+E +L+PKV+ D+IA+ Y++LR LQ+ + Q ++E+ S Sbjct: 266 EGDGDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKLQEQDIANQLQNEQLSPS 325 Query: 313 ---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDV 369 K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ E L+RLA S+G+ RD Sbjct: 326 QERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFESRLMRLADSHGVARDD 385 Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 FL +QG ELDP W++ WKNFV E D I +R E++S++ TG+ I EFR Sbjct: 386 FLRNYQGSELDPRWLNRVSKLSAKGWKNFVHHEKDRIKDLRQEVQSMAALTGLEIGEFRK 445 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 446 IVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 505 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M N+I REPTP Sbjct: 506 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGREPTP 565 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDFIEDKNAV P+D+AIQ+NL Sbjct: 566 EELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNL 625 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 626 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKH 685 Query: 670 PSRSKKLRSFLD 681 PSRS+KLRSFLD Sbjct: 686 PSRSRKLRSFLD 697 >gi|146338438|ref|YP_001203486.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. ORS278] gi|146191244|emb|CAL75249.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS278] Length = 703 Score = 739 bits (1907), Expect = 0.0, Method: Compositional matrix adjust. Identities = 395/697 (56%), Positives = 502/697 (72%), Gaps = 30/697 (4%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K ++ +D+ +D+ D S + D SD + KKMIK A++RG+VT ++LN LPPD S EQ+ Sbjct: 15 KDDKAADAPEKDAADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPPDTTSPEQI 74 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASS----ASNSSVFLQKRKDSADRSTDD 119 ED ++MLS+MGINV + ++ ++ E +D D + + +V K+ + +R TDD Sbjct: 75 EDIMSMLSDMGINVTEAEETDEAEDKDDGDDETDNELVEITQKAVTEVKKSEPGER-TDD 133 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 134 PVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKI 193 Query: 180 LLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSK 238 LR+IIDLEA GPESKGG G + + +A + Sbjct: 194 FLRDIIDLEATYAGPESKGGMNPQIAG--------PANGEAAAGEGGEIQAAVAAPPAAP 245 Query: 239 DDRSKVDSPPENAENDERNLDEDED---------DSAHTLSAMEDQLRPKVMCALDEIAE 289 + + P A +E++ E ++ +L+A+E +L+PKV+ D+IA Sbjct: 246 QQATPFRAAPNGAPAEEKDPGEAAAEADMDDDEFENQMSLAAIEAELKPKVVETFDKIAS 305 Query: 290 VYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYD 344 Y++LR LQ+ + Q +S K K LK++++ V SL LNQ+RID LVEQLYD Sbjct: 306 EYKKLRRLQEQDIANQLQSESLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYD 365 Query: 345 ISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 I+K+++ E L+RLA S+G+ R+ FL +QG ELDP W++ WKNFV E D Sbjct: 366 INKKLVSFESRLMRLADSHGVAREDFLRNYQGSELDPRWLNRVSKLSAKGWKNFVHYEKD 425 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 I +R E++S++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYT Sbjct: 426 RIKDLRQEVQSLAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANLRLVISIAKKYT 485 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 486 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 545 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ Sbjct: 546 MIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEE 605 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE Sbjct: 606 DSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 665 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 666 VGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 702 >gi|316935466|ref|YP_004110448.1| RpoD subfamily RNA polymerase sigma 70 subunit [Rhodopseudomonas palustris DX-1] gi|315603180|gb|ADU45715.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopseudomonas palustris DX-1] Length = 698 Score = 736 bits (1900), Expect = 0.0, Method: Compositional matrix adjust. Identities = 392/673 (58%), Positives = 490/673 (72%), Gaps = 16/673 (2%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--- 77 S + D SD + KKMIK A++RG+VT ++LN LP D S EQ+ED ++MLS+MGINV Sbjct: 31 SPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDTTSPEQIEDIMSMLSDMGINVSEA 90 Query: 78 --VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 + ++ E +E +++ LD + + +K TDDPVRMYLREMG++ELLS Sbjct: 91 EDTEAEEEEAKEEADEELDNDLVEVTAKAVTETKKSEPGERTDDPVRMYLREMGTVELLS 150 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPE 194 REGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LR+IIDLEA GPE Sbjct: 151 REGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKIFLRDIIDLEATYAGPE 210 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEND 254 K G S ++ + V + R + E Sbjct: 211 GKNNI-----GDSGEEAAAEGEGGAPAHVAPPAAPPSATPFRPAQQRGAAPAEGEGEGAP 265 Query: 255 ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDEKSSV- 312 E + D+DE ++ +L+A+E +L+PKV+ D+IA+ Y++LR LQ+ + Q ++E+ S Sbjct: 266 EGDGDDDEFENQMSLAAIEAELKPKVVETFDKIADNYKKLRKLQEQDIANQLQNEQLSPS 325 Query: 313 ---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDV 369 K K LK++++ V SL LNQ+RID LVEQLYDI+K+++ E L+RLA S+G+ RD Sbjct: 326 QERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKKLVSFESRLMRLADSHGVARDD 385 Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 FL +QG ELDP W++ WKNFV E D I +R E++S++ TG+ I EFR Sbjct: 386 FLRNYQGSELDPRWLNRVSKLSAKGWKNFVHHEKDRIKDLRQEVQSMAALTGLEIGEFRK 445 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 446 IVHSVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 505 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M N+I REPTP Sbjct: 506 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLNEIGREPTP 565 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KL MP+E VRKVLKI KEP+SLETP+GDE+ SHLGDFIEDKNAV P+D+AIQ+NL Sbjct: 566 EELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAIQSNL 625 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 626 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKH 685 Query: 670 PSRSKKLRSFLDG 682 PSRS+KLRSFLD Sbjct: 686 PSRSRKLRSFLDN 698 >gi|299131999|ref|ZP_07025194.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Afipia sp. 1NLS2] gi|298592136|gb|EFI52336.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Afipia sp. 1NLS2] Length = 709 Score = 733 bits (1893), Expect = 0.0, Method: Compositional matrix adjust. Identities = 399/698 (57%), Positives = 499/698 (71%), Gaps = 26/698 (3%) Query: 6 KRNRDSDSEHEDSDD--SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K + +++ +DS D S + D SD + KKMIK A++RG+VT ++LN LP D+ S EQ+ Sbjct: 15 KEAKAAETPEKDSADAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDQTSPEQI 74 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSAS----NSSVFLQKRKDSADRSTDD 119 ED +AMLS+MGINV + DD DE+ +D D + S + +K TDD Sbjct: 75 EDIMAMLSDMGINVSEADDANDEDEEKDEADDDTDNELVEVTSKAVTETKKSEPGERTDD 134 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G Sbjct: 135 PVRMYLREMGTVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKI 194 Query: 180 LLREIIDLEACI-GPESKGG----FFHGTEGHSYQKR------EDSSQEKERDDVQETEG 228 LR+IIDLEA GPE K G G G Q + + Q + Sbjct: 195 FLRDIIDLEATYAGPEGKNGVNPAMIAGPVGPDGQPTAAVVNGDGTVQVIAAQQAAPAQT 254 Query: 229 DIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIA 288 ++A + D+ + DE +DE ++ +L+A+E +L+P+V+ D+IA Sbjct: 255 APQTATPFRPAPAAGDDAAAPEGDGDE----DDEFENQMSLAAIEAELKPRVVETFDKIA 310 Query: 289 EVYRELRSLQDNAVNGQKDEKS-----SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 Y++LR LQ+ + Q +S K K LK++++ V SL LNQ+RID LVEQLY Sbjct: 311 SEYKKLRRLQEQDIANQLQSESLSPSQERKYKKLKDEIIVEVKSLRLNQARIDSLVEQLY 370 Query: 344 DISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV 403 DI+KR++ EG L RL S+G+ R+ FL+ + G ELDP W++ WKNFVA E Sbjct: 371 DINKRLVSYEGRLFRLGDSHGVGREDFLKNYVGSELDPRWLNRVSKLAAKGWKNFVAHEK 430 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D I +R+EI+ ++ TG+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKY Sbjct: 431 DKIKDLRHEIQQLAALTGLEIGEFRKIVLGVQKGEREARQAKKEMVEANLRLVISIAKKY 490 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 491 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 550 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+VRT+R+M N+I REPTPEE+A+KL MP+E VRKVLKI KEP+SLETP+GDE Sbjct: 551 HMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDE 610 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIEDKNA+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE Sbjct: 611 EDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 670 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 671 EVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 708 >gi|300023333|ref|YP_003755944.1| RNA polymerase, sigma 70 subunit, RpoD [Hyphomicrobium denitrificans ATCC 51888] gi|299525154|gb|ADJ23623.1| RNA polymerase, sigma 70 subunit, RpoD [Hyphomicrobium denitrificans ATCC 51888] Length = 666 Score = 733 bits (1891), Expect = 0.0, Method: Compositional matrix adjust. Identities = 388/673 (57%), Positives = 488/673 (72%), Gaps = 43/673 (6%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 DS + D SD + K+++K A+ +GYVT+++LN+ LP +EVSS+Q+ED A LS+MGI VV+ Sbjct: 25 DSPLLDLSDQAVKRLLKSAKAKGYVTLDQLNSVLPSEEVSSDQIEDLYATLSDMGITVVE 84 Query: 80 GDDLEDEEGSEDSLDL-----ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 +D E+ + A A N+++ + K TDDPVRMYLREMGS+ELL Sbjct: 85 NEDGEEAAEGSEESGDEEEGRALVAQNNALVKSETKSEPAERTDDPVRMYLREMGSVELL 144 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GP 193 SREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LLR+IIDLEA GP Sbjct: 145 SREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELNEGKILLRDIIDLEATYEGP 204 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 E+K QE +D E E + + P A Sbjct: 205 EAK-----------------EVQEAASEDSPEPE-------------QPAANQRPSGAPE 234 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ--KDEKSS 311 E + D+DE ++A +L+AME +L+PKV+ D+IA Y++LR QD + Q D+ S Sbjct: 235 GEGD-DDDEFENAMSLAAMEAELKPKVLETFDQIAATYKKLRKQQDKKLEQQLVGDQGSR 293 Query: 312 VKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 + K ++++++ V SLSLN +RI+ LVEQLY I+KR++ EG L+RLA SYG+ R Sbjct: 294 QQQKAYEKIRDEIIVDVKSLSLNNNRIESLVEQLYAINKRLIGLEGRLMRLADSYGVPRQ 353 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 F++ + G ELD W+ + +W FV E ++ IR EI ++ ETG+ I E+R Sbjct: 354 HFIDEYYGNELDQTWLDRVAGNGK-KWGQFVKTERTQVVDIRTEIHQLATETGLEIPEYR 412 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 413 RIVKAVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 472 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPT Sbjct: 473 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPT 532 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIED+NAV P+++AIQ+N Sbjct: 533 PEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDRNAVLPIEAAIQSN 592 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLK Sbjct: 593 LRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 652 Query: 669 HPSRSKKLRSFLD 681 HPSRS+KLRSFLD Sbjct: 653 HPSRSRKLRSFLD 665 >gi|188579854|ref|YP_001923299.1| RNA polymerase sigma factor RpoD [Methylobacterium populi BJ001] gi|179343352|gb|ACB78764.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium populi BJ001] Length = 667 Score = 727 bits (1877), Expect = 0.0, Method: Compositional matrix adjust. Identities = 386/693 (55%), Positives = 488/693 (70%), Gaps = 57/693 (8%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+D+ + D + D +D + K+M+KLA++RGYVT EE+N LP +V +Q+ED +A Sbjct: 10 DADAAQDQPTDGPLLDLTDAAVKRMVKLAKKRGYVTYEEINEVLPDGQVDGDQIEDVLAQ 69 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLD-------------LASSASNSSVFLQK--RKDSAD 114 L +MGI VV+ ++ E+ + +A +A + +V + ++ D Sbjct: 70 LDDMGIRVVEAEESEETATEAKANGEAAEEEESAEGGEVAETAGSRAVAVATPTTREPTD 129 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 130 R-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDEL 188 Query: 175 NDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 DG LLR+IIDLEA GP+++G A Sbjct: 189 VDGKVLLRDIIDLEATYAGPDARGA-----------------------------PQGGEA 219 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 + + + PPE + DED+ ++ +L+AME +++P+V+ D IA YR+ Sbjct: 220 EEGEESEDGDGAVPPEGGD------DEDDMENNVSLAAMEAEIKPRVLETFDNIASNYRK 273 Query: 294 LRSLQD-----NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR LQ+ A G + K LK+ +V V SLSLN +RI+ LVEQLYDI+KR Sbjct: 274 LRKLQNEETDLKAGGGTVTSAQTKKQAELKDIVVTDVKSLSLNANRIEALVEQLYDINKR 333 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ +EG L+R A+ +G+ RD FL +QG ELDP+W+ WKNFV + Sbjct: 334 LISHEGRLMRAAEHHGVARDEFLRHYQGYELDPNWMDRVATLGGKGWKNFVERGGRQVAD 393 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +I +++ ETG+ I E+R IV+MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 394 LREQILTLASETGLQIGEYRKIVAMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGL 453 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 454 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 513 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 514 INKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 573 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 574 GDFIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 633 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 634 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 666 >gi|218528655|ref|YP_002419471.1| RNA polymerase sigma factor RpoD [Methylobacterium chloromethanicum CM4] gi|240137186|ref|YP_002961655.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens AM1] gi|218520958|gb|ACK81543.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium chloromethanicum CM4] gi|240007152|gb|ACS38378.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens AM1] Length = 666 Score = 726 bits (1873), Expect = 0.0, Method: Compositional matrix adjust. Identities = 388/693 (55%), Positives = 493/693 (71%), Gaps = 58/693 (8%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+D+ + D + D +D + K+M+KLA++RGYVT EE+N LP +V +Q+ED +A Sbjct: 10 DADAAQDQPTDGPLLDLTDAAVKRMVKLAKKRGYVTYEEINEVLPDGQVDGDQIEDVLAQ 69 Query: 70 LSNMGINVVD-------------GDDLEDEEGSEDSLDLASSASNSSVFLQK--RKDSAD 114 L +MGI VV+ + +EE S + ++A ++ +V + ++ D Sbjct: 70 LDDMGIRVVEAEESEEAAPEAKANGEASEEEESTEGGEVAETSGTRAVAVATPTTREPTD 129 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 130 R-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDEL 188 Query: 175 NDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 DG LLR+IIDLEA GP+++G E+ Sbjct: 189 VDGKVLLRDIIDLEATYAGPDARGA------------------------------PQEAE 218 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 A+ + + ++ PPE A+ DED+ ++ +L+AME +++P+V+ D IA YR+ Sbjct: 219 AEGEESEEAEGAVPPEGAD------DEDDMENNVSLAAMEAEIKPRVLETFDNIASNYRK 272 Query: 294 LRSLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR LQ+ G + K LK+ +V V SLSLN +RI+ LVEQLYDI+KR Sbjct: 273 LRKLQNEETELKTGGGTVTSAQTKKQAELKDIVVTDVKSLSLNANRIEALVEQLYDINKR 332 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ +EG L+R A+ +G+ RD FL +QG ELDP+W+ WKNFV + Sbjct: 333 LISHEGRLMRAAEHHGVARDEFLRHYQGYELDPNWMDRVATLGGKGWKNFVERGGRQVAD 392 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +I +++ ETG+ I E+R IV+MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 393 LREQILTLASETGLQIGEYRKIVAMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGL 452 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 453 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 512 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 513 INKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 572 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 573 GDFIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 632 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 633 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 665 >gi|170747007|ref|YP_001753267.1| RNA polymerase sigma factor RpoD [Methylobacterium radiotolerans JCM 2831] gi|170653529|gb|ACB22584.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacterium radiotolerans JCM 2831] Length = 659 Score = 726 bits (1873), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/688 (55%), Positives = 482/688 (70%), Gaps = 55/688 (7%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++D+ E D + D +D S K+M+KLA++RGYVT EE+N LP + +Q+ED ++ Sbjct: 10 ETDAAPEQQTDGPLLDLTDASVKRMVKLAKKRGYVTYEEVNEVLPEGQSDPDQLEDVLSQ 69 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR----------KDSADRSTDD 119 LS MGINVV+ ++ ++ G + + A V K+ DR TDD Sbjct: 70 LSEMGINVVEAEETDEAAGEKAADGEEEEAEGGEVAEVAPARAVAVATTTKEPTDR-TDD 128 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL +G Sbjct: 129 PVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELVEGKV 188 Query: 180 LLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSK 238 LLR+IIDLEA GP+ K +A ++++ Sbjct: 189 LLRDIIDLEATYAGPDGK-----------------------------------NAPQLAE 213 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 + S+ PP E + DED+ ++ +L+AME +++P+V+ D IA YR+LR Q Sbjct: 214 GEESEDGEPPAPPEGGD---DEDDLENNVSLAAMEAEIKPRVLETFDAIAANYRKLRKFQ 270 Query: 299 -----DNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 A Q K LK+ +V V SLSLN +RI+ LV QLY I+K+++ +E Sbjct: 271 IEGTERKAAGEQNTPAQDQKQAELKDIVVADVKSLSLNNNRIEALVGQLYSINKQLIGHE 330 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI 413 G L+R A+S+G+ RD FL +QG ELDP+W+ WKN V + ++R +I Sbjct: 331 GRLMRFAESHGVARDEFLRHYQGYELDPNWMERVGTLGGKGWKNLVERGSKQVAELRAQI 390 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 ++ ETG+ I E+R IV+MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGLQFLDL Sbjct: 391 LDLASETGLEIGEYRRIVNMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGLQFLDL 450 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+V Sbjct: 451 IQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIV 510 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 RT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIE Sbjct: 511 RTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIE 570 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 DKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTR Sbjct: 571 DKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTR 630 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 631 ERIRQIEAKALRKLKHPSRSRKLRSFLD 658 >gi|254559198|ref|YP_003066293.1| sigma D factor of RNA polymerase [Methylobacterium extorquens DM4] gi|254266476|emb|CAX22240.1| sigma D (sigma 70) factor of RNA polymerase [Methylobacterium extorquens DM4] Length = 666 Score = 724 bits (1869), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/693 (55%), Positives = 492/693 (70%), Gaps = 58/693 (8%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+D+ + D + D +D + K+M+KLA++RGYVT EE+N LP +V +Q+ED +A Sbjct: 10 DADAAQDQPTDGPLLDLTDAAVKRMVKLAKKRGYVTYEEINEVLPDGQVDGDQIEDVLAQ 69 Query: 70 LSNMGINVVD-------------GDDLEDEEGSEDSLDLASSASNSSVFLQK--RKDSAD 114 L +MGI VV+ + +EE S + ++A ++ +V + ++ D Sbjct: 70 LDDMGIRVVEAEESEEAAPEAKANGEASEEEESTEGGEVAETSGTRAVAVATPTTREPTD 129 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 130 R-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDEL 188 Query: 175 NDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 DG LLR+IIDLEA GP+++G E+ Sbjct: 189 VDGKVLLRDIIDLEATYAGPDARGA------------------------------PQEAE 218 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 A+ + + ++ PPE + DED+ ++ +L+AME +++P+V+ D IA YR+ Sbjct: 219 AEGEESEEAEGAVPPEGGD------DEDDMENNVSLAAMEAEIKPRVLETFDNIASNYRK 272 Query: 294 LRSLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR LQ+ G + K LK+ +V V SLSLN +RI+ LVEQLYDI+KR Sbjct: 273 LRKLQNEETELKTGGGTVTSAQTKKQAELKDIVVTDVKSLSLNANRIEALVEQLYDINKR 332 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ +EG L+R A+ +G+ RD FL +QG ELDP+W+ WKNFV + Sbjct: 333 LISHEGRLMRAAEHHGVARDEFLRHYQGYELDPNWMDRVATLGGKGWKNFVERGGRQVAD 392 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +I +++ ETG+ I E+R IV+MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 393 LREQILTLASETGLQIGEYRKIVAMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGL 452 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 453 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 512 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 513 INKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 572 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 573 GDFIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 632 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 633 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 665 >gi|163850052|ref|YP_001638095.1| RNA polymerase sigma factor RpoD [Methylobacterium extorquens PA1] gi|163661657|gb|ABY29024.1| RNA polymerase sigma factor RpoD [Methylobacterium extorquens PA1] Length = 718 Score = 724 bits (1868), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/693 (55%), Positives = 492/693 (70%), Gaps = 58/693 (8%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+D+ + D + D +D + K+M+KLA++RGYVT EE+N LP +V +Q+ED +A Sbjct: 62 DADAAQDQPTDGPLLDLTDAAVKRMVKLAKKRGYVTYEEINEVLPDGQVDGDQIEDVLAQ 121 Query: 70 LSNMGINVVD-------------GDDLEDEEGSEDSLDLASSASNSSVFLQK--RKDSAD 114 L +MGI VV+ + +EE S + ++A ++ +V + ++ D Sbjct: 122 LDDMGIRVVEAEESEEAAPEAKANGEASEEEESTEGGEVAETSGTRAVAVATPTTREPTD 181 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDEL Sbjct: 182 R-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDEL 240 Query: 175 NDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 DG LLR+IIDLEA GP+++G E+ Sbjct: 241 VDGKVLLRDIIDLEATYAGPDARGA------------------------------PQEAE 270 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 A+ + + ++ PPE + DED+ ++ +L+AME +++P+V+ D IA YR+ Sbjct: 271 AEGEESEEAEGAVPPEGGD------DEDDMENNVSLAAMEAEIKPRVLETFDNIASNYRK 324 Query: 294 LRSLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 LR LQ+ G + K LK+ +V V SLSLN +RI+ LVEQLYDI+KR Sbjct: 325 LRKLQNEETELKTGGGTVTSAQTKKQAELKDIVVTDVKSLSLNANRIEALVEQLYDINKR 384 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 ++ +EG L+R A+ +G+ RD FL +QG ELDP+W+ WKNFV + Sbjct: 385 LISHEGRLMRAAEHHGVARDEFLRHYQGYELDPNWMDRVATLGGKGWKNFVERGGRQVAD 444 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +I +++ ETG+ I E+R IV+MV+KGE EA AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 445 LREQILTLASETGLQIGEYRKIVAMVQKGEREARQAKKEMIEANLRLVISIAKKYTNRGL 504 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 505 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 564 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 565 INKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 624 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKN V P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 625 GDFIEDKNVVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 684 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 685 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 717 >gi|154252764|ref|YP_001413588.1| RNA polymerase sigma factor RpoD [Parvibaculum lavamentivorans DS-1] gi|154156714|gb|ABS63931.1| RNA polymerase, sigma 70 subunit, RpoD [Parvibaculum lavamentivorans DS-1] Length = 656 Score = 712 bits (1838), Expect = 0.0, Method: Compositional matrix adjust. Identities = 388/668 (58%), Positives = 476/668 (71%), Gaps = 38/668 (5%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SD + KKMIK A+ RG+VT +ELN LP +E SSEQ+EDT++MLS MGINVV+ Sbjct: 20 DGPLLDMSDAAVKKMIKAAKARGFVTYDELNKVLPSEEFSSEQIEDTLSMLSEMGINVVE 79 Query: 80 GDDLEDEEGSEDSLDLASSA-----SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 D+ ED D + +V S+ TDDPVRMYLREMGS+ELL Sbjct: 80 NDEAEDNAEGADGEADEDRDDEEAPTGKAVATTTTTSSSLDRTDDPVRMYLREMGSVELL 139 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GP 193 SREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRDELN+G LLR+IIDL+A GP Sbjct: 140 SREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDELNEGKILLRDIIDLDATFAGP 199 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 ++K H + + E+E D + + S A + + + KV + Sbjct: 200 DAK-KVDHSQAALAGEAPPRIEPEEEEVDEDGEDDNSMSLAAMEAELKPKVLETFDTIAA 258 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVK 313 D + L + ++DQ KV AL Q A++ +++K Sbjct: 259 DYKKLRK-----------LQDQ---KVELAL-------------QGEALSSAQEKK---- 287 Query: 314 CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLER 373 + L L++ V SLSLN +RI+ LVEQLY I+KR+M EG LLRLA+S+GI RD FL++ Sbjct: 288 YQKLTSDLIEEVKSLSLNNNRIESLVEQLYAINKRLMGLEGRLLRLAESHGIPRDEFLKQ 347 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 + G ELDP+W+ W NF E D + +R EI++++ ETG+ I E+R IVS Sbjct: 348 YFGNELDPNWIRRVSRLKGKGWVNFTKDERDQVKDLRQEIQTLASETGLDIQEYRRIVSG 407 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G Sbjct: 408 VQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 467 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A Sbjct: 468 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELA 527 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ+NLRETT Sbjct: 528 EKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETT 587 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS Sbjct: 588 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRS 647 Query: 674 KKLRSFLD 681 +KLRSFLD Sbjct: 648 RKLRSFLD 655 >gi|295690890|ref|YP_003594583.1| RNA polymerase sigma 70 factor subunit RpoD [Caulobacter segnis ATCC 21756] gi|295432793|gb|ADG11965.1| RNA polymerase, sigma 70 subunit, RpoD [Caulobacter segnis ATCC 21756] Length = 652 Score = 707 bits (1824), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/677 (56%), Positives = 479/677 (70%), Gaps = 38/677 (5%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++++ D + D +D KK IK A+ RGYVT++ELN LP +EVS + +EDT+AM Sbjct: 8 ETEAPEATGGDGPLLDLTDAGVKKFIKQAKARGYVTMDELNKVLPSEEVSPDAIEDTLAM 67 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MG+NVV+ E++ + ++A+ N++V + + DR TDDPVRMYLREMG Sbjct: 68 LSEMGVNVVE---AEEDAEGGEGGEVATRDENTTVITSDKPAAYDR-TDDPVRMYLREMG 123 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLRE+IDLE Sbjct: 124 SVELLSREGEIAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELGSGRILLREVIDLE- 182 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G + G + Q ++ EG E DD + ++ PE Sbjct: 183 --------GTYAAINGVAAQP-----------AAEDEEGPAEPI-----DDEAG-EAKPE 217 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK--- 306 AE ++ + + +D + T+SAME +LR VM LD IA + R LQD V + Sbjct: 218 GAEGEDDD--DFDDGAGPTVSAMEGELREGVMAILDAIASEFESFRKLQDKLVGSRLKGE 275 Query: 307 --DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 E + L +++ + +L LN +RI+ LVEQLY I+KR++ EG LLRLA SYG Sbjct: 276 DLSEADRKAYEGLSATIIQHLKTLKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADSYG 335 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 I R FL+ + G EL+P W K W FV + SI IR EI +++ ETG+ I Sbjct: 336 ISRAEFLKAYFGSELNPTWGEQVKAMGV-RWTKFVENDNSSISDIRQEIAALATETGVPI 394 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++R IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 395 DDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 454 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 455 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIG 514 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+A Sbjct: 515 REPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAA 574 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 IQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+ Sbjct: 575 IQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 634 Query: 665 RKLKHPSRSKKLRSFLD 681 RKLKHPSRS+KLRSFLD Sbjct: 635 RKLKHPSRSRKLRSFLD 651 >gi|159044804|ref|YP_001533598.1| RNA polymerase sigma factor RpoD [Dinoroseobacter shibae DFL 12] gi|157912564|gb|ABV93997.1| RNA polymerase sigma factor [Dinoroseobacter shibae DFL 12] Length = 664 Score = 706 bits (1823), Expect = 0.0, Method: Compositional matrix adjust. Identities = 379/680 (55%), Positives = 474/680 (69%), Gaps = 56/680 (8%) Query: 23 VFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 + D S + KKMI AR RGY+T ++LN LPPD+VSSEQ+ED ++MLS MGIN+++ D+ Sbjct: 19 MLDMSQAAVKKMIAEARTRGYITYDQLNQVLPPDQVSSEQIEDVMSMLSEMGINIIEEDE 78 Query: 83 LEDEEGSED-SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 ED + + S + S+S+ V + TDDPVRMYLREMGS+ELLSREGEIA Sbjct: 79 AEDGDAPANASTQVVESSSSREVAVSTSSSETLDRTDDPVRMYLREMGSVELLSREGEIA 138 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA +G G Sbjct: 139 IAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEATMG----GAM-- 192 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE-NDERNLDE 260 D+ +E+ +E AA +SP +E +DE LD Sbjct: 193 -------------------DEDEESSSVVEMAA----------NSPAAPSEKSDEPELDA 223 Query: 261 DEDDSAHT-------------LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG--Q 305 D + A T L+AME L+PKV+ LD IA Y +L +QD ++ Sbjct: 224 DGNPIAKTDDEDDEDDQANMSLAAMEAALKPKVLETLDLIARDYAQLSEMQDLRISATLN 283 Query: 306 KDEKSSVK----CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ 361 +DE SV+ + L+ ++V LV L L+ +RI+ L++QLY I++RIM + +++LA Sbjct: 284 EDESFSVEDESNYQKLRAEIVLLVNELHLHNNRIEALIDQLYGINRRIMAIDSSMVKLAD 343 Query: 362 SYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 I R F+E ++G ELDP W+ + P W+ F+ I ++R+++ + G Sbjct: 344 QARINRREFVEAYRGYELDPTWLERMAEKPGRGWQAFIERSTTKIEELRSDMAQVGTYVG 403 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + I+EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 404 VDITEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 463 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M + Sbjct: 464 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLH 523 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PL Sbjct: 524 EIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPL 583 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 DSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEA Sbjct: 584 DSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 643 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+KLRSFLD Sbjct: 644 KALRKLKHPSRSRKLRSFLD 663 >gi|167648221|ref|YP_001685884.1| RNA polymerase sigma factor RpoD [Caulobacter sp. K31] gi|167350651|gb|ABZ73386.1| RNA polymerase, sigma 70 subunit, RpoD [Caulobacter sp. K31] Length = 649 Score = 706 bits (1822), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/670 (56%), Positives = 471/670 (70%), Gaps = 47/670 (7%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D +D KK IK A+ RGYVT++ELN LP +EV+SE +EDT+AMLS MG+NVV+ Sbjct: 18 DGPLLDLTDAGVKKFIKQAKARGYVTMDELNKVLPSEEVTSEAIEDTLAMLSEMGVNVVE 77 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 + ED E SE ++ + N V + + DR TDDPVRMYLREMGS+ELLSREGE Sbjct: 78 AE--EDAETSEGG-EVVAREDNQQVITSDKPAAYDR-TDDPVRMYLREMGSVELLSREGE 133 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 IAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLRE+IDLE G Sbjct: 134 IAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELGTGRILLREVIDLE---------GT 184 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 + G + D + D +E + ++ + +DD P Sbjct: 185 YAAINGVAAAPAADDEPAEPSD--EEPGSEPKAEGEEDEDDFDDGAGP------------ 230 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ--------KDEKSS 311 T+SAME +LR VM LD IA + R LQD V + D K+ Sbjct: 231 --------TVSAMEGELREGVMAILDAIASEFETFRKLQDKLVGSRLKGADLSDADRKA- 281 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFL 371 + L +++ + +L LN +RI+ LVEQLY I+KR++ EG LLRLA SYGI R FL Sbjct: 282 --YEGLSNTIIQHLKTLKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADSYGISRSEFL 339 Query: 372 ERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 + + G EL+P+W+ K W FV + +S+ IR EI +++ ETG+ I ++R IV Sbjct: 340 KAYFGSELNPNWIDQVKAMGV-RWTKFVENDTNSVGDIRQEIAALATETGVPIDDYRRIV 398 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 399 QTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 458 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE Sbjct: 459 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEE 518 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ+NLRE Sbjct: 519 LAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRE 578 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPS Sbjct: 579 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPS 638 Query: 672 RSKKLRSFLD 681 RS+KLRSFLD Sbjct: 639 RSRKLRSFLD 648 >gi|149914287|ref|ZP_01902818.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b] gi|149811806|gb|EDM71639.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b] Length = 662 Score = 705 bits (1820), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/682 (55%), Positives = 486/682 (71%), Gaps = 36/682 (5%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D + ED + L D S + KKMI AR++G++T ++LN LPPD+VSSEQ+ED ++M Sbjct: 6 NDDQKPEDQEAELSLDMSQAAVKKMIGEAREKGFITYDQLNKVLPPDQVSSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGIN+++ + + E+ + S +A + L KD TDDPVRMYLREMG Sbjct: 66 LSEMGINIIE--EEDAEDEEQKSTAVAEIGRRGELALGSGKDEKLDRTDDPVRMYLREMG 123 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 124 SVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLGEDILLRDVIDLEA 183 Query: 190 CIGPESKGGFFHGTEGHSYQKRE----DSSQEKERDDVQETEGDIESAAKVSKDDRSKVD 245 G + G +G + E ++ ER D + E D D + + Sbjct: 184 TFGTQ------MGEDGEAEAVVEAANVTTAPASERRDDGQPELDA---------DGNPIA 228 Query: 246 SPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ 305 S ++ E+++ N+ +L+AME L+P+V+ LD IA+ Y +L +QD+ ++ Sbjct: 229 SEDDDDEDEQANM---------SLAAMEAALKPRVLETLDRIADDYEKLSEMQDSRISAT 279 Query: 306 KDEKSSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 +E S K L+ ++V+LV SL L+ +RI+ L++QLY I++RIM +G +++L Sbjct: 280 LNEDGSFSAKQEQTYQTLRSEIVQLVNSLHLHNNRIEALIDQLYGINRRIMQIDGAMVKL 339 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A I R F++ ++GRELDP+W+ + WK F+ +D + ++R ++ + Sbjct: 340 ADQARINRREFIDEYRGRELDPNWLDDMAEKDGRGWKMFMERSLDKVSELRADMAQVGQY 399 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G+ ISEFR IV+ V+KGE EA +AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 400 VGLDISEFRRIVAQVQKGEKEARLAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 459 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 460 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQM 519 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKN V Sbjct: 520 LHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNVVL 579 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PLDSAIQ NLRETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 580 PLDSAIQDNLRETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 639 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 640 EAKALRKLKHPSRSRKLRSFLD 661 >gi|197106036|ref|YP_002131413.1| RNA polymerase sigma factor RpoD [Phenylobacterium zucineum HLK1] gi|196479456|gb|ACG78984.1| RNA polymerase sigma factor RpoD [Phenylobacterium zucineum HLK1] Length = 638 Score = 705 bits (1820), Expect = 0.0, Method: Compositional matrix adjust. Identities = 382/669 (57%), Positives = 464/669 (69%), Gaps = 55/669 (8%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D +D + KK IK A+ RGYVT++ELN +P +EV+SE +EDT+AML+ MG+NVV+ Sbjct: 17 DGPLLDLTDAAVKKFIKQAKARGYVTMDELNKVMPSEEVTSEAIEDTLAMLNEMGVNVVE 76 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 + ED EG E + S ++ K+ A TDDPVRMYLREMGS+ELLSREGE Sbjct: 77 SE--EDAEGGE------VAVREESAVVETTKEPAYDRTDDPVRMYLREMGSVELLSREGE 128 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 IAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLRE+IDLE G +++G Sbjct: 129 IAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELEGGRILLREVIDLEQTYGGQNQGEA 188 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 + E + E E DD Sbjct: 189 PAEAAEAEEPEAEGAEGEGESDD------------------------------------- 211 Query: 260 EDEDDSAH-TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-----KDEKSSVK 313 D DD A T+SAME +LR VM LD IA + R LQ+ V + E Sbjct: 212 -DFDDGAGPTISAMEAELREGVMATLDAIAAEFESFRLLQEKLVAAKLKGEDLSEGDRKA 270 Query: 314 CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLER 373 + +V+ + +L LN +RI+ LVEQLY I+KR+M EG LLRLA SYGI R FL+ Sbjct: 271 YQAATGAIVQHLKTLKLNNNRIEALVEQLYAINKRLMVLEGRLLRLADSYGISRQEFLKA 330 Query: 374 HQGRELDPHWVSYAKDFPEG-EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 + G E+ P W K P G W F + I +IRNEI +++ ETG+ I ++R IV Sbjct: 331 YFGNEMRPDWTDMVK--PLGVRWTKFAENDASQIGEIRNEIAALAQETGVPIDDYRRIVQ 388 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 389 TVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 448 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+ Sbjct: 449 GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEEL 508 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+AIQ+NLRET Sbjct: 509 AEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRET 568 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSR Sbjct: 569 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSR 628 Query: 673 SKKLRSFLD 681 S+KLRSFLD Sbjct: 629 SRKLRSFLD 637 >gi|16127277|ref|NP_421841.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus CB15] gi|1710678|sp|P52324|RPOD_CAUCR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1079588|gb|AAA82054.1| RNA polymerase principal sigma factor [Caulobacter crescentus CB15] gi|13424691|gb|AAK25009.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus CB15] gi|1585612|prf||2201399A sigma73 factor Length = 652 Score = 703 bits (1815), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/679 (56%), Positives = 473/679 (69%), Gaps = 42/679 (6%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++++ D + D +D KK IK A+ RGYVT++ELN LP +EVS + +EDT+AM Sbjct: 8 ETEAPETTGGDGPLLDLTDAGVKKFIKQAKARGYVTMDELNKVLPSEEVSPDAIEDTLAM 67 Query: 70 LSNMGINVVDGDDLEDEE-GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 LS MG+NVV+ ++ + G E +A+ N++V + + DR TDDPVRMYLREM Sbjct: 68 LSEMGVNVVEAEEDAENAEGGE----VATRDENTTVIASDKPAAYDR-TDDPVRMYLREM 122 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 GS+ELLSREGEIAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLRE+IDLE Sbjct: 123 GSVELLSREGEIAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELGTGRILLREVIDLE 182 Query: 189 ACIGPESKGGFFHGTEGHSYQ-KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 G + G + Q ED E D + E E A +DD P Sbjct: 183 ---------GTYAAINGVAAQPAAEDDEGPAEPVDDEAGEAKAEGAEGEDEDDFDDGAGP 233 Query: 248 PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG--Q 305 T+SAME +LR VM LD IA + R LQD V + Sbjct: 234 --------------------TVSAMEGELREGVMAILDAIASEFEAFRKLQDKLVGSRLK 273 Query: 306 KDEKSSVKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 ++ S K L +++ + +L LN +RI+ LVEQLY I+KR++ EG LLRLA S Sbjct: 274 GEDLSDADRKAYEGLSATIIQHLKTLKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADS 333 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 YGI R FL+ + G EL+P W K W FV + S+ IR+EI +++ ETG+ Sbjct: 334 YGISRGEFLKAYFGSELNPTWSEQVKAMGV-RWTKFVENDSQSVTDIRSEIAALATETGV 392 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 I ++R IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 393 PIDDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 452 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++ Sbjct: 453 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHE 512 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D Sbjct: 513 IGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPID 572 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 573 AAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 632 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 633 ALRKLKHPSRSRKLRSFLD 651 >gi|221236078|ref|YP_002518515.1| RNA polymerase sigma factor RpoD [Caulobacter crescentus NA1000] gi|220965251|gb|ACL96607.1| RNA polymerase sigma factor rpoD [Caulobacter crescentus NA1000] Length = 653 Score = 703 bits (1814), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/679 (56%), Positives = 473/679 (69%), Gaps = 42/679 (6%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 ++++ D + D +D KK IK A+ RGYVT++ELN LP +EVS + +EDT+AM Sbjct: 9 ETEAPETTGGDGPLLDLTDAGVKKFIKQAKARGYVTMDELNKVLPSEEVSPDAIEDTLAM 68 Query: 70 LSNMGINVVDGDDLEDEE-GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 LS MG+NVV+ ++ + G E +A+ N++V + + DR TDDPVRMYLREM Sbjct: 69 LSEMGVNVVEAEEDAENAEGGE----VATRDENTTVIASDKPAAYDR-TDDPVRMYLREM 123 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 GS+ELLSREGEIAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLRE+IDLE Sbjct: 124 GSVELLSREGEIAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELGTGRILLREVIDLE 183 Query: 189 ACIGPESKGGFFHGTEGHSYQ-KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 G + G + Q ED E D + E E A +DD P Sbjct: 184 ---------GTYAAINGVAAQPAAEDDEGPAEPVDDEAGEAKAEGAEGEDEDDFDDGAGP 234 Query: 248 PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG--Q 305 T+SAME +LR VM LD IA + R LQD V + Sbjct: 235 --------------------TVSAMEGELREGVMAILDAIASEFEAFRKLQDKLVGSRLK 274 Query: 306 KDEKSSVKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 ++ S K L +++ + +L LN +RI+ LVEQLY I+KR++ EG LLRLA S Sbjct: 275 GEDLSDADRKAYEGLSATIIQHLKTLKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADS 334 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 YGI R FL+ + G EL+P W K W FV + S+ IR+EI +++ ETG+ Sbjct: 335 YGISRGEFLKAYFGSELNPTWSEQVKAMGV-RWTKFVENDSQSVTDIRSEIAALATETGV 393 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 I ++R IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 394 PIDDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 453 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++ Sbjct: 454 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHE 513 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D Sbjct: 514 IGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPID 573 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 574 AAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 633 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 634 ALRKLKHPSRSRKLRSFLD 652 >gi|229526927|ref|ZP_04416329.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] gi|229336054|gb|EEO01074.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] Length = 547 Score = 703 bits (1814), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/571 (63%), Positives = 440/571 (77%), Gaps = 35/571 (6%) Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 +RMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+IIWRD+LND L Sbjct: 1 MRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIIIWRDQLNDSNIL 60 Query: 181 LREIIDLEACI-GPESK-GGFFHGTEGHSYQKREDSSQEKERDD--VQETEGDIESAAKV 236 LREIIDLE GPE+K E + R+D Q + RDD + GD+ + Sbjct: 61 LREIIDLETTYAGPEAKQAPVIERVEEE--KPRDDKPQRRSRDDDDITNVGGDMPVEEEE 118 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 +D + + +L+AME +LRP+VM LD IA+ Y++LR Sbjct: 119 EDEDEANL-----------------------SLAAMEAELRPQVMETLDLIADTYKKLRK 155 Query: 297 LQDNAVNGQ---KDEKSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 LQD V G+ E SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ Sbjct: 156 LQDQQVEGRLAATGELSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLV 215 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 NEG+LLRLA+S+G++R+ FL+ +QG ELDP WV WK F A E +I ++R Sbjct: 216 QNEGKLLRLAESFGVRREEFLKEYQGHELDPKWVERVSTLSARGWKEFAAKEERTIDRLR 275 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +EI+ ++ ET ISI EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQF Sbjct: 276 SEIQMLATETAISIGEFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQF 335 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 336 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 395 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGD Sbjct: 396 KIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGD 455 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDKNA+ P+D+AIQANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 456 FIEDKNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 515 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 516 VTRERIRQIEAKALRKLKHPSRSRKLRSFLD 546 >gi|163747450|ref|ZP_02154802.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45] gi|161379303|gb|EDQ03720.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45] Length = 671 Score = 702 bits (1812), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/681 (54%), Positives = 490/681 (71%), Gaps = 31/681 (4%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 ++ + D++ +DSD D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ED Sbjct: 15 KDTNDDAKTDDSDSGHSLDMSQAAVKKMIGEAREKGYITYDQLNTVLPPDQVSSEQIEDV 74 Query: 67 VAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 ++MLS MGIN+++ ++ E+EE ++ S ++A++ SN V L TDDPVRMYLR Sbjct: 75 MSMLSEMGINIIEDEEAEEEE-AKGSTEVATTESNRDVALSSGTSEKLDRTDDPVRMYLR 133 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++ID Sbjct: 134 EMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVID 193 Query: 187 LEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDS 246 LEA G + G E + ++ + D +TE D D + S Sbjct: 194 LEATFGTQ------MGDEEETTPVVAPTATSDTKSDEGKTELDA---------DGHPISS 238 Query: 247 PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 ++ E+++ N+ +L+AME+ L+P+V+ ALD IA+ Y +L ++QD+ ++ Sbjct: 239 DDDDDEDEQANM---------SLAAMEEALKPQVLEALDIIADDYEKLSAMQDSRISATL 289 Query: 307 DEKSSVK------CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 +E S + L+ ++V LV L L+ +RI+ L++QLY I++RIM + +++LA Sbjct: 290 NEDGSFTKDEEAMYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRRIMQIDSAMVKLA 349 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 I R F++ ++G ELDP+W+ + W+ F+ + + ++RN++ + Sbjct: 350 DQARINRKEFVDNYRGYELDPNWMERMAEKSGRGWQMFIERSSEKVDELRNDMAQVGQYV 409 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 410 GLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 469 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 470 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQML 529 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV P Sbjct: 530 HEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLP 589 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE Sbjct: 590 LDSAIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIE 649 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKLKHPSRS+KLRSFLD Sbjct: 650 AKALRKLKHPSRSRKLRSFLD 670 >gi|254476970|ref|ZP_05090356.1| Sigma-70, region 3 family [Ruegeria sp. R11] gi|214031213|gb|EEB72048.1| Sigma-70, region 3 family [Ruegeria sp. R11] Length = 661 Score = 700 bits (1806), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/678 (55%), Positives = 485/678 (71%), Gaps = 33/678 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D + + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQEPEISLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE + S DL ++ SN V + + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEEAEEEE-QKGSTDLVTTDSNREVAVAGAQTEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAA--KVSKDDRSKVDSPPE 249 G +Q E DV E D + A K +KD ++D+ Sbjct: 187 G----------------------NQMDEDGDVAEPVVDTSAVAANKPAKDTGPELDADGN 224 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK 309 +D+ + D+++ + +L+AME L+ KV+ L++I+ Y +L +QD+ ++ +E Sbjct: 225 PIASDDDDDDDEQ--ANMSLAAMEAALKDKVLTTLEQISSDYSQLSEMQDSRISATLNED 282 Query: 310 SSVK------CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 S + L+ ++V+LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 283 GSFSDNDEQIYQSLRSEIVELVNGLHLHNNRIEALIDQLYGINRRVMQIDSSMVKLADQA 342 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F+E ++GRELDP+W++ + P W+ F+ D + ++R ++ + G+ Sbjct: 343 RINRREFVEAYRGRELDPNWLADMGEKPGRGWQMFIERSTDKVEELRADMAQVGQYVGLD 402 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 403 ISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 462 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 463 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 522 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDS Sbjct: 523 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 582 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 583 AIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 642 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 643 LRKLKHPSRSRKLRSFLD 660 >gi|126727888|ref|ZP_01743716.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] gi|126702829|gb|EBA01934.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] Length = 661 Score = 700 bits (1806), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/679 (56%), Positives = 479/679 (70%), Gaps = 31/679 (4%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + DS+ D D+ + D S + KKMI AR +GY+T ++LNA LPP++VSSEQ+ED ++M Sbjct: 6 NDDSKQNDQDNDGMTDTSQTAVKKMIAEARVKGYITYDQLNAVLPPEQVSSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGIN+++ ++ EDE S D + + V K+ DR TDDPVRMYLREMG Sbjct: 66 LSEMGINIIEDEEAEDEVKSTDVV--TTDQERGLVLAGADKEKLDR-TDDPVRMYLREMG 122 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLE Sbjct: 123 SVELLSREGEIAIAKRIEAGRKTMILGLCESPLTFQAITIWRDELLSEDILLRDVIDLET 182 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAK-VSKDDRSKVDSPP 248 G G EG ED ET+ E+AA+ + D + Sbjct: 183 TFGNT------MGEEG------EDGVTAVPGAATAETKPSGETAAQELDADGNPISNDDD 230 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 ++ E+++ NL +L+AME L+P+V+ L+EIA+ Y EL +QD ++ +E Sbjct: 231 DDDEDEQANL---------SLAAMEAVLKPRVLETLEEIADYYAELSDMQDVRISATLNE 281 Query: 309 KSSVK------CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S + L+ K+V LV S+ L+ +RI+ L++QLY I++RIM + +++LA Sbjct: 282 SESYSSKEEDAYQALRTKIVDLVTSMHLHNNRIEALIDQLYGINRRIMQIDSSMVKLADQ 341 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F++ ++G ELDP W+ + P W F+ D + ++R E+ + G+ Sbjct: 342 ARINRKEFIDAYRGHELDPTWLETIAELPGRGWAAFLERSADKVSELRTEMAQVGTYVGL 401 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 402 DISEFRRIVQQVQKGEKEARAAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 461 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 462 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 521 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+AKKL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 522 IGREPTPEELAKKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 581 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 582 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 641 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 642 ALRKLKHPSRSRKLRSFLD 660 >gi|260434101|ref|ZP_05788072.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis ITI-1157] gi|260417929|gb|EEX11188.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis ITI-1157] Length = 662 Score = 699 bits (1803), Expect = 0.0, Method: Compositional matrix adjust. Identities = 377/683 (55%), Positives = 487/683 (71%), Gaps = 35/683 (5%) Query: 9 RDSDSEH--EDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 +D++ E +D + + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED Sbjct: 4 KDTNEERKSDDQEQEISLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDV 63 Query: 67 VAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 ++MLS MGIN+++ ++ E+EE + S DL ++ SN V L + TDDPVRMYLR Sbjct: 64 MSMLSEMGINIIEDEEAEEEE-QKGSTDLVTADSNREVALAGSQAEKLDRTDDPVRMYLR 122 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++ID Sbjct: 123 EMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAISIWHDELLSEDILLRDVID 182 Query: 187 LEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE--SAAKVSKDDRSKV 244 LEA G +Q E DV+E D AAK +KD ++ Sbjct: 183 LEATFG----------------------NQLDEDGDVEEPVVDTSKVQAAKPAKDTGPEL 220 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 D+ +D+ + ++++ + +L+AME L+ +V+ L+ I+ + L +QD+ ++ Sbjct: 221 DADGNPIASDDDDDEDEQ--ANMSLAAMEAALKDQVLTTLERISNDFAMLSEMQDSRISA 278 Query: 305 QKDEKSSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 +E S + L+ ++V+LV L L+ +RI+ L++QLY I+KR+M + +++ Sbjct: 279 TLNEDGSFSAEDEATYQKLRSEIVELVNGLHLHNNRIEALIDQLYGINKRVMALDSAMVK 338 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 LA I R F++ ++GRELDP+W+S P W+ F+ D + ++RN++ I Sbjct: 339 LADQARINRREFIDEYRGRELDPNWLSDMAQKPGRGWQMFIERSSDKVEELRNDMAQIGQ 398 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 399 YVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 458 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+ Sbjct: 459 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQ 518 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV Sbjct: 519 MLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAV 578 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 579 LPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 639 IEAKALRKLKHPSRSRKLRSFLD 661 >gi|254464472|ref|ZP_05077883.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I] gi|206685380|gb|EDZ45862.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I] Length = 662 Score = 698 bits (1801), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/678 (55%), Positives = 488/678 (71%), Gaps = 32/678 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D D + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQDAEISLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE ++ + DL ++ V L + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEEAEEEE-NKGATDLVTTEGPREVALAGAQTEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP--PE 249 G + +G D S +++AAK S+++ ++D+ P Sbjct: 187 GNQLD------EDGEDAAPVVDPSA-------------VQAAAKPSREEGPELDADGNPI 227 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV------N 303 +A++DE D+ + +L+AME L+ +V+ L+ I+ + EL +QD+ + + Sbjct: 228 SADDDEDEDDQ----ANMSLAAMEAALKDRVLTTLERISTDFAELSEMQDSRISATLNED 283 Query: 304 GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 G E+ V+ + L+ ++V+LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 284 GSFSEQDEVRYQSLRSEIVELVNGLHLHNNRIEALIDQLYGINRRVMQIDSSMVKLADQA 343 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F++ ++GRELDP+W+S + P W+ F+ D + ++R+++ + G+ Sbjct: 344 RINRREFVDAYRGRELDPNWLSEMGEKPGRGWQMFIERSTDKVEELRSDMAQVGQYVGLD 403 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 404 ISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 463 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 464 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 523 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDS Sbjct: 524 GREPTPEELADKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 583 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 584 AIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 643 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 644 LRKLKHPSRSRKLRSFLD 661 >gi|56696627|ref|YP_166988.1| RNA polymerase sigma factor RpoD [Ruegeria pomeroyi DSS-3] gi|56678364|gb|AAV95030.1| RNA polymerase sigma-70 factor RpoD [Ruegeria pomeroyi DSS-3] Length = 660 Score = 698 bits (1801), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/679 (54%), Positives = 481/679 (70%), Gaps = 37/679 (5%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + ED +D + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 9 DQKPEDQEDEVSLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 68 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE + S DL ++ SN V L + TDDPVRMYLREMGS+ Sbjct: 69 EMGINIIEDEEAEEEE-QKGSTDLITTESNREVALAGAQAEKLDRTDDPVRMYLREMGSV 127 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 128 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 187 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G + DD + SA + K R ++P +A Sbjct: 188 G-------------------------NQLDDEDDEPVVATSAVQAVKPQRE--ETPEYDA 220 Query: 252 END---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 + + + ++++D + +L+AME L+ KV+ L+ I+ Y +L +QD+ ++ +E Sbjct: 221 DGNPIVTEDDEDEDDQANMSLAAMEAALKDKVLITLERISSDYAQLSEMQDSRISATLNE 280 Query: 309 KSSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S + L+ ++V LV L L+ +RI+ L++QLY I+KR+M + +++LA Sbjct: 281 DGSFSAHDEATYQSLRSEIVLLVNELHLHNNRIEALIDQLYGINKRVMSIDSSMVKLADQ 340 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F++ ++GRELDP+W++ + P W+ F+ D + ++R ++ + G+ Sbjct: 341 ARINRREFIDAYRGRELDPNWLAEMAEKPGRGWQMFIERSSDKVEELRADMAQVGQYVGL 400 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 401 DISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 460 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 461 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 520 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 521 IGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 580 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 581 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 640 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 641 ALRKLKHPSRSRKLRSFLD 659 >gi|259416365|ref|ZP_05740285.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B] gi|259347804|gb|EEW59581.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B] Length = 664 Score = 697 bits (1799), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/679 (55%), Positives = 484/679 (71%), Gaps = 32/679 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D D + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQDAEISLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ +D E+EE ++ + +L ++ SN V + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEDAEEEE-NKGTTELVTTESNREVAVAGTGTEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGD---IESAAKVSKDDRSKVDSPP 248 G +Q E DV E D + AAK KD ++D+ Sbjct: 187 G----------------------NQMDEEGDVAEPVVDPSAVSGAAKPEKDSGPELDADG 224 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 N++ + D+D+D + +L+AME L+ +V+ L+ I+ + L +QD ++ +E Sbjct: 225 NPILNNDDDDDDDDDQANMSLAAMEAALKDRVLETLERISNDFVTLSEMQDLRISATLNE 284 Query: 309 KSS------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S + + L+ ++V+LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 285 DGSFSKDDEARYQQLRSEIVELVNGLHLHNNRIEALIDQLYGINRRVMQIDSAMVKLADQ 344 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F+E ++GRELDP+W++ + P W+ F+ D + ++R+++ + G+ Sbjct: 345 ARINRKEFVEAYRGRELDPNWLAEMGEKPGRGWQMFIERSTDKVEELRSDMAQVGQYVGL 404 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 405 DISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 464 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 465 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 524 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 525 IGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 584 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 585 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 644 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 645 ALRKLKHPSRSRKLRSFLD 663 >gi|83941156|ref|ZP_00953618.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83955715|ref|ZP_00964295.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83840009|gb|EAP79185.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83846976|gb|EAP84851.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 660 Score = 697 bits (1798), Expect = 0.0, Method: Compositional matrix adjust. Identities = 375/688 (54%), Positives = 486/688 (70%), Gaps = 41/688 (5%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N D+ S+ +D+ SL D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ Sbjct: 3 AKDTNEDAKSDDQDAGHSL--DMSQAAVKKMIGEAREKGYITYDQLNTVLPPDQVSSEQI 60 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 ED ++MLS MGINV++ ++ E+E+ ++ ++A++ SN V L TDDPVRM Sbjct: 61 EDVMSMLSEMGINVIEDEEAEEED-AKGGTEIATTESNRDVALSSGTSEKLDRTDDPVRM 119 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR+ Sbjct: 120 YLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRD 179 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGD----IESAAKVSKD 239 +IDLEA G + E+E V T G ES ++V D Sbjct: 180 VIDLEATFGTQM-------------------GDEEETTPVVPTAGTETKPAESTSEVDAD 220 Query: 240 DRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD 299 + + ++++ N+ +L+AME L+P+V+ ALD IA+ Y +L +QD Sbjct: 221 GNPISNDDDDEDDDEQANM---------SLAAMEAALKPQVLEALDIIADDYVKLSQIQD 271 Query: 300 NAVNGQKDEKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 + ++ +E + + + ++ ++V LV L L+ +RI+ L++QLY I++RIM + Sbjct: 272 SRISATLNEDGTFSKTDEEEYQRVRSEIVALVNDLHLHNNRIEALIDQLYGINRRIMQID 331 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI 413 +++LA I R F++ ++G ELDP+W+ + W+ F+ D + ++R ++ Sbjct: 332 SAMVKLADQARINRKEFVDAYRGYELDPNWMERMAEKSGRGWQMFIERSSDKVDELRADM 391 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDL Sbjct: 392 AQVGQYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDL 451 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+V Sbjct: 452 IQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLV 511 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 RT R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIE Sbjct: 512 RTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIE 571 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 DKNAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTR Sbjct: 572 DKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTR 631 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 632 ERIRQIEAKALRKLKHPSRSRKLRSFLD 659 >gi|99081981|ref|YP_614135.1| RNA polymerase sigma factor RpoD [Ruegeria sp. TM1040] gi|99038261|gb|ABF64873.1| RNA polymerase, sigma 38 subunit, RpoS [Ruegeria sp. TM1040] Length = 664 Score = 696 bits (1797), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/679 (55%), Positives = 483/679 (71%), Gaps = 32/679 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D D + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQDAEISLDMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE ++ + +L ++ SN V + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEEAEEEE-NKGTTELVTTESNREVAVAGAATEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGD---IESAAKVSKDDRSKVDSPP 248 G +Q E DV E D + AAK KD ++D+ Sbjct: 187 G----------------------NQMDEDGDVAEPVVDPSAVSGAAKPEKDSGPELDADG 224 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 N++ + D+D+D + +L+AME L+ +V+ L+ I+ + L +QD ++ +E Sbjct: 225 NPILNNDDDDDDDDDQANMSLAAMEAALKDRVLETLERISSDFAMLSEMQDLRISATLNE 284 Query: 309 KSS------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S K + L+ ++V+LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 285 DGSFSADDEAKYQQLRSEIVELVNGLHLHNNRIEALIDQLYGINRRVMQIDSAMVKLADQ 344 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F+E ++GRELDP+W+S + P W+ F+ + + ++R ++ + G+ Sbjct: 345 ARINRKEFVEAYRGRELDPNWLSEMSEKPGRGWQMFIERSTEKVEELRADMAQVGQYVGL 404 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 405 DISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 464 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 465 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 524 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 525 IGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 584 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 585 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 644 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 645 ALRKLKHPSRSRKLRSFLD 663 >gi|254461643|ref|ZP_05075059.1| RNA polymerase sigma-70 factor RpoD [Rhodobacterales bacterium HTCC2083] gi|206678232|gb|EDZ42719.1| RNA polymerase sigma-70 factor RpoD [Rhodobacteraceae bacterium HTCC2083] Length = 660 Score = 696 bits (1796), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/678 (54%), Positives = 477/678 (70%), Gaps = 30/678 (4%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D + +D D + D S + KKMI AR+RG++T ++LNA LPPD+VSS+Q+ED ++M Sbjct: 6 NDDRKSDDQDSAHTLDMSQTAVKKMIADARERGFITYDQLNAVLPPDQVSSDQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGI V + D+ +EE + + DL ++ +N V + TDDPVRMYLREMG Sbjct: 66 LSEMGIQVTEEDEDAEEE-DKGTTDLVAAGTNKEVAVSTAASEKLDRTDDPVRMYLREMG 124 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 125 SVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEA 184 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G D E+E V T + +A K D P Sbjct: 185 TFG--------------------DQMGEEETTPVVPTAANSTTAPKAEGMAELDADGNPI 224 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE- 308 +++D+ + DE + S L+AME L+P+V+ +L+ IA +Y +L +QD+ ++ +E Sbjct: 225 TSDDDDDDEDEQANMS---LAAMEAALKPQVLESLEVIAGLYEQLSQMQDSRISATLNED 281 Query: 309 -----KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 K + L+ ++V LV + L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 282 DSFSDKQEANYQKLRSEIVVLVNEMHLHNNRIEALIDQLYGINRRVMSIDSSIVKLADQA 341 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F+E ++GRELDP+W+ W+ F+ D + ++R ++ + G+ Sbjct: 342 RINRREFVEAYRGRELDPNWLEEMAGKAGRGWQMFIERSTDKVEELRADMAQVGQYVGLD 401 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 402 ISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 461 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 462 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 521 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDS Sbjct: 522 GREPTPEELAAKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 581 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 582 AIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 641 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 642 LRKLKHPSRSRKLRSFLD 659 >gi|163738642|ref|ZP_02146056.1| RNA polymerase, sigma 38 subunit, RpoS [Phaeobacter gallaeciensis BS107] gi|161387970|gb|EDQ12325.1| RNA polymerase, sigma 38 subunit, RpoS [Phaeobacter gallaeciensis BS107] Length = 662 Score = 696 bits (1796), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/679 (54%), Positives = 484/679 (71%), Gaps = 34/679 (5%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D + + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQEPEISLDMSQTQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE + S +L ++ SN V + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEEAEEEE-QKGSTELVTTESNREVAVAGAAAEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G + +D + +E ++++A + +K P +A Sbjct: 187 GNQLD------------------------EDGEVSEPVVDTSAVAANKPAAKETGPELDA 222 Query: 252 END---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 + + + + D+++D + +L+AME L+ KV+ L++I+ Y +L +QD+ ++ +E Sbjct: 223 DGNPIAQDDDDDEDDQANMSLAAMEAALKDKVLTTLEQISSDYAQLSEMQDSRISATLNE 282 Query: 309 KSSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S + L+ ++V LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 283 DGSFSARDEQVYQSLRAEIVLLVNELHLHNNRIEALIDQLYGINRRVMSIDSSMVKLADQ 342 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F+E ++GRELDP+W+S D P W+ FV D I ++R ++ + G+ Sbjct: 343 ARINRREFVEAYRGRELDPNWLSDMGDKPGRGWQMFVERSTDKIEELRADMAQVGQYVGL 402 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 403 DISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 462 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 463 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 522 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 523 IGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 582 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 583 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 642 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 643 ALRKLKHPSRSRKLRSFLD 661 >gi|83594214|ref|YP_427966.1| RNA polymerase sigma factor RpoD [Rhodospirillum rubrum ATCC 11170] gi|83577128|gb|ABC23679.1| Sigma 70 (RpoD) [Rhodospirillum rubrum ATCC 11170] Length = 696 Score = 696 bits (1795), Expect = 0.0, Method: Compositional matrix adjust. Identities = 394/704 (55%), Positives = 482/704 (68%), Gaps = 60/704 (8%) Query: 15 HEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMG 74 E+ DS + D + + KK++ + RGY+T +ELN LPPD+VSSEQ+EDT+AMLS+MG Sbjct: 15 QEEGGDSPLLDSMNAAVKKLVNRGKDRGYITYDELNNALPPDDVSSEQIEDTMAMLSDMG 74 Query: 75 INVVDGDDLEDEE------------GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 INVV EDEE G E+ ++ N S +D R TDDPVR Sbjct: 75 INVV-----EDEEEGEASAAPPAEAGEEEPGREVAATGNVS------EDDIGR-TDDPVR 122 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MYLREMGS+ELLSREGEIAIAKRIEAGR MM+ +CESPLT +AL+ W D L DG LLR Sbjct: 123 MYLREMGSVELLSREGEIAIAKRIEAGREMMIGGICESPLTIRALLQWHDALVDGRMLLR 182 Query: 183 EIIDLEACIGPESKGGFFHGTEGHSYQKREDS-------------SQEKERDDVQE--TE 227 +IIDL+A G S G EG EDS + KE D+ +E T Sbjct: 183 DIIDLDATYG--SGAGPDVVAEGL-----EDSVVPLSPLALSPARALPKEADEAEEAVTP 235 Query: 228 GDIESAAKVSKDDRSKVDSPPENAENDERNL--DEDEDDSAH---TLSAMEDQLRPKVMC 282 G + + + D +K P + DE EDE D + +L+AME +L P+V+ Sbjct: 236 GRDDDSEDEDEGDDAK----PADGAGDEEAAPSGEDEGDGSENNVSLAAMEQELMPRVLE 291 Query: 283 ALDEIAEVYRELRSLQDNAVNG-QKDEKSSV----KCKVLKEKLVKLVGSLSLNQSRIDL 337 + IA Y +L+ QD + QK E+ K LK +LV L+ + LN +RI+ Sbjct: 292 TFEHIATTYGKLKKAQDQRIAALQKGEEPGAALERKYDKLKLELVGLMEDVHLNNARIEQ 351 Query: 338 LVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKN 397 LVEQL ++K ++ EG+LLRLA+ I+RD FL+ + GRE+DP W P W++ Sbjct: 352 LVEQLNALNKGLITQEGKLLRLAERAKIRRDEFLDHYFGREMDPSWREDVAALPGKGWRD 411 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 F D I IR I I+ + + I EFR IVS V+KGE EAS AKKEM+EANLRLVI Sbjct: 412 FTTRFADEIKDIRGSIAEIAERSLLPIPEFRRIVSTVQKGEREASRAKKEMIEANLRLVI 471 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 472 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 531 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KL MP+E VRKVLKI KEPISLE Sbjct: 532 TIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAEKLQMPLEKVRKVLKIAKEPISLE 591 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGDE+ SHLGDFIEDKNAV PLD+AI +NLRET TRVLASLTPREERVLRMRFGIGMN Sbjct: 592 TPIGDEEDSHLGDFIEDKNAVQPLDAAINSNLRETCTRVLASLTPREERVLRMRFGIGMN 651 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 652 TDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 695 >gi|254488657|ref|ZP_05101862.1| Sigma-70, region 3 family [Roseobacter sp. GAI101] gi|214045526|gb|EEB86164.1| Sigma-70, region 3 family [Roseobacter sp. GAI101] Length = 671 Score = 695 bits (1794), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/684 (54%), Positives = 487/684 (71%), Gaps = 33/684 (4%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N D+ S+ +++ SL D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ Sbjct: 14 AKDTNEDTKSDDQEAGHSL--DMSQAAVKKMIGDAREKGYITYDQLNTVLPPDQVSSEQI 71 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 ED ++MLS MGIN+++ +D E+EE ++ DL ++ SN V L TDDPVRM Sbjct: 72 EDVMSMLSEMGINIIEDEDAEEEE-AKGGTDLTTTDSNRDVTLSSGTSEKLDRTDDPVRM 130 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR+ Sbjct: 131 YLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRD 190 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSK 243 +IDLEA G +Q + D+ + + +D S+ Sbjct: 191 VIDLEATFG----------------------TQMGDEDETTPVVPVVSGTEAKTNEDTSE 228 Query: 244 VDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN 303 VD+ ND+ + ++++ + +L+AME L+P+V+ ALD IA+ Y +L +QD+ ++ Sbjct: 229 VDADGNPIANDDDDDEDEQ--ANMSLAAMEAALKPQVLEALDIIADDYVKLSEIQDSRIS 286 Query: 304 GQKDEKSSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELL 357 +E S K ++ ++V LV L L+ +RI+ L++QLY I++RIM + ++ Sbjct: 287 ATLNEDGSFSKKDEEEYQKVRSEIVLLVNELHLHNNRIEALIDQLYGINRRIMQIDSAMV 346 Query: 358 RLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSIS 417 +LA I R F++ ++G ELDP+W+ + W+ F+ D + ++R+++ + Sbjct: 347 KLADQARINRKEFVDNYRGYELDPNWMERMAEKSGRGWQMFIERSADKVEELRSDMAQVG 406 Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 407 QYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 466 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R Sbjct: 467 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGR 526 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA Sbjct: 527 QMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNA 586 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 V PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIR Sbjct: 587 VLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 646 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 647 QIEAKALRKLKHPSRSRKLRSFLD 670 >gi|304322159|ref|YP_003855802.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] gi|303301061|gb|ADM10660.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] Length = 650 Score = 695 bits (1794), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/675 (55%), Positives = 470/675 (69%), Gaps = 51/675 (7%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D V D + S KKMI A++RGYVT ++LNA LP E +SEQ+ED + LS+MGINV + Sbjct: 13 DRPVLDLNLASVKKMIDAAKKRGYVTYDQLNAALPESEYTSEQIEDIMTKLSDMGINVTE 72 Query: 80 GDDLEDEEGSEDSLDLASSAS------NSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ + +++ + +S +S+ K +DR TDDPVRMYLREMG++EL Sbjct: 73 DDEDGGDGDADEEGGEKAQSSAVVKKESSATVATNTKADSDR-TDDPVRMYLREMGAVEL 131 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-- 191 LSREGEIAIAKRIEAGR M+ +LCES LTF+A+ +WR+EL +G LLR+IIDL+A Sbjct: 132 LSREGEIAIAKRIEAGRESMIRALCESSLTFEAITVWREELEEGRVLLRDIIDLDATYDG 191 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 GPESK + Q+ ++ + DD EGD+ Sbjct: 192 GPESKPDMTKPEVAEAVQREQEERAAQGLDDEDIDEGDL--------------------- 230 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD----NAVNGQKD 307 +LSA E +LR VM EIAE +++LR LQD ++G+ Sbjct: 231 ----------------SLSAKEAELREGVMDTFSEIAEDFKKLRRLQDIQIEQQLSGEDL 274 Query: 308 EKSSVK-CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK 366 S +K + L++ +V+ V S+ L+ RI+ LVEQLY+I++ +M EG L+RLA SYG+ Sbjct: 275 SDSQLKRLRKLQKDIVERVRSVRLHNHRIEALVEQLYEINRSLMALEGRLVRLADSYGVN 334 Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 R FL + G ELDP W+ W F D I+ +R I ++ ETG+++ + Sbjct: 335 RQDFLTSYLGYELDPEWLDRVSAMDGRGWTQFTTKGRDQIVDLRENIGQLAQETGLTVKD 394 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR IV V+KGE EA IAKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 395 FRRIVQTVQKGEREARIAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 454 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ N+I RE Sbjct: 455 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILNEIGRE 514 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+A KL+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ Sbjct: 515 PTPEELAAKLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQ 574 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RK Sbjct: 575 SNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 634 Query: 667 LKHPSRSKKLRSFLD 681 LKHPSRS+KLRSFLD Sbjct: 635 LKHPSRSRKLRSFLD 649 >gi|302382122|ref|YP_003817945.1| RNA polymerase, sigma 70 subunit, RpoD [Brevundimonas subvibrioides ATCC 15264] gi|302192750|gb|ADL00322.1| RNA polymerase, sigma 70 subunit, RpoD [Brevundimonas subvibrioides ATCC 15264] Length = 652 Score = 695 bits (1793), Expect = 0.0, Method: Compositional matrix adjust. Identities = 380/677 (56%), Positives = 474/677 (70%), Gaps = 33/677 (4%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ E + D + D +D KK IK A+ RGYVT+EELN LP +EV+ + +EDT+AM Sbjct: 3 DTQEAPEATTDGPLLDLTDAGVKKFIKQAKARGYVTMEELNKVLPSEEVTPDAIEDTLAM 62 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MG+NVV+ + E+ +E + + + +SV K + DR TDDPVRMYLREMG Sbjct: 63 LSEMGVNVVEAE----EDAAESTGGELAEKAETSVTEGDAKPTYDR-TDDPVRMYLREMG 117 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M++ LCES LTF+A+++WRDEL + LLRE+IDL+A Sbjct: 118 SVELLSREGEIAIAKRIEAGRDAMISGLCESALTFEAIMVWRDELANNRILLREVIDLDA 177 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G + H + + + E E D Sbjct: 178 TYGVLNPSSLPHNQPQPPIPGQPIPPKPEPEPGA-EAEAD-------------------- 216 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDE 308 AE DE + ++ +D ++SA+E +LR VM LD IA + R LQ+ V + K E Sbjct: 217 KAEQDEED-EDFDDGGGMSISALEAELRDGVMETLDAIAGDFDAFRKLQEKLVESRLKGE 275 Query: 309 KSSVKCK----VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 + S K + L + + +L LN +RI+ LVEQLY I+KR++ EG LLRLA SYG Sbjct: 276 ELSAKDRKAYDTLSAAISGRLKTLKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADSYG 335 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 I R FL+ + ELDP W + KD W F E I IR+++ +++VE G+ I Sbjct: 336 ISRPEFLKAYFTAELDPTWSTRVKDMGV-RWTKFSDNEATQIATIRHDVAAVAVEAGLPI 394 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++R IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 395 DDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 454 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I Sbjct: 455 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIG 514 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+KLAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+A Sbjct: 515 REPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAA 574 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 IQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+ Sbjct: 575 IQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKAL 634 Query: 665 RKLKHPSRSKKLRSFLD 681 RKLKHPSRS+KLRSFLD Sbjct: 635 RKLKHPSRSRKLRSFLD 651 >gi|84687692|ref|ZP_01015565.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84664275|gb|EAQ10766.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 670 Score = 694 bits (1790), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/689 (53%), Positives = 490/689 (71%), Gaps = 33/689 (4%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N D + + +D + + D + KKMI AR++GY+T ++LN LPPD+VSSEQ+ Sbjct: 3 AKDANDDQNKDEQDDGSNPMGDMDQAAVKKMIAEAREKGYITYDQLNNVLPPDQVSSEQI 62 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGS-EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 ED ++MLS MGIN+++ ++ ED+ + S ++ + +V + TDDPVR Sbjct: 63 EDVMSMLSEMGINIIEDEEAEDDNDDAKGSTEVVAKNQGGAVAVSSGDTEKLDRTDDPVR 122 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL + LLR Sbjct: 123 MYLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLNEDILLR 182 Query: 183 EIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRS 242 ++IDL+A G + G +G E +DV + G+ AA + + + Sbjct: 183 DVIDLDATFGRQ------MGEDG-------------EDEDVVQGLGE---AAATNTESQK 220 Query: 243 KVDSPPENAEND----ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 K D P +A+ + + + ++++D + +L+AME L+P+V+ L+ IA Y +L +Q Sbjct: 221 KDDGPELDADGNPIAKDDDDEDEDDQANMSLAAMEAALKPRVLETLELIARDYTKLSEMQ 280 Query: 299 DNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN 352 D + +G +K+ + + L+ ++V LV L L+ +RI+ LV+QLY I++RIM Sbjct: 281 DLRMSATLNEDGSFSDKAEAEYQKLRSEIVLLVNELHLHNNRIEALVDQLYGINRRIMSI 340 Query: 353 EGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNE 412 + +++LA I R F++ ++G ELDP+W+ + P W+ F+ D + ++R + Sbjct: 341 DSAMVKLADQARINRREFVDAYRGEELDPNWLERMAEKPGRGWQAFIERSSDKVAELRGD 400 Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + + G+ ISEFR IVS V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLD Sbjct: 401 MAQVGQYVGVDISEFRRIVSQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD 460 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ Sbjct: 461 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 520 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 VRT R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFI Sbjct: 521 VRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFI 580 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDKNAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VT Sbjct: 581 EDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT 640 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 641 RERIRQIEAKALRKLKHPSRSRKLRSFLD 669 >gi|89070863|ref|ZP_01158102.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89043551|gb|EAR49761.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 657 Score = 693 bits (1789), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/683 (54%), Positives = 478/683 (69%), Gaps = 40/683 (5%) Query: 9 RDSDSEHEDSDD-SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTV 67 +D+D ED D ++ D S + KKMI AR+RGY+T ++LN+ LPPD+VSS+Q+ED + Sbjct: 4 KDTDERKEDEQDGAMSLDMSQTAVKKMIADARERGYITYDQLNSVLPPDQVSSDQIEDVM 63 Query: 68 AMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 +MLS MGI V + ++ E+ E S DL ++ + V + + TDDPVRMYLRE Sbjct: 64 SMLSEMGIQVTEEEESEETE-ETKSTDLVTTGGSRDVAVSSGETEKLDRTDDPVRMYLRE 122 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL + LLR++IDL Sbjct: 123 MGSVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWRDELLNEDILLRDVIDL 182 Query: 188 EACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 EA G + E EGD + D K + P Sbjct: 183 EATFGNQL-----------------------------EEEGDTPVVEPGAADGAKKEEGP 213 Query: 248 PENAEND---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 +A+ + + + ++++D + +L+AME L+P+V+ LD IA + L +QD ++ Sbjct: 214 ELDADGNPIAKDDDEDEDDAANMSLAAMEAALKPRVLETLDTIAADFGNLSEMQDARISA 273 Query: 305 QKDEKSSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 Q +E SS K L+ ++V+LV SL L+ +RI+ L++QLY I++RIM + +++ Sbjct: 274 QLNEDSSFTEKDEETYQKLRGEIVELVNSLHLHNNRIEALIDQLYGINRRIMSIDSSMVK 333 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 LA I R F++ ++G ELDP W+ P W+ F+ + ++R E+ + Sbjct: 334 LADQARINRREFIDAYRGYELDPTWLDRMGQNPGRAWQAFIERSTGKVEELRAEMAQVGQ 393 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 394 YVGVDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 453 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+ Sbjct: 454 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQ 513 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV Sbjct: 514 MLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAV 573 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 574 LPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 633 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 634 IEAKALRKLKHPSRSRKLRSFLD 656 >gi|163733984|ref|ZP_02141425.1| RNA polymerase sigma-70 factor RpoD [Roseobacter litoralis Och 149] gi|161392520|gb|EDQ16848.1| RNA polymerase sigma-70 factor RpoD [Roseobacter litoralis Och 149] Length = 660 Score = 693 bits (1788), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/686 (54%), Positives = 486/686 (70%), Gaps = 41/686 (5%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 ++ + D++ +D D D S + KKMI AR++GY+T ++LN LPPD+V+SEQ+ED Sbjct: 4 KDTNDDAKPDDQDAGHSLDMSQTAVKKMIAEAREKGYITYDQLNTVLPPDQVNSEQIEDV 63 Query: 67 VAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 ++MLS MGIN+++ +D E+EE ++ S +LA++ V L TDDPVRMYLR Sbjct: 64 MSMLSEMGINIIEDEDAEEEE-AKGSTELATTEGTREVTLGSGTSEKLDRTDDPVRMYLR 122 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M++ LCESPLTFQA+ IWRDEL LLR++ID Sbjct: 123 EMGSVELLSREGEIAIAKRIEAGRNTMISGLCESPLTFQAITIWRDELLSEDILLRDVID 182 Query: 187 LEACIGPE-----SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDR 241 LEA G + S G TEG + QK E++S E + D Sbjct: 183 LEATFGNQLDEDVSVGEPVVATEGAAPQK-EEASPELDADG------------------- 222 Query: 242 SKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNA 301 +P N ++D+ + + +L+AME L+P+V+ ALD IA+ Y +L +QD+ Sbjct: 223 ----NPIANDDDDDEDEQAN-----MSLAAMEAALKPQVLEALDIIADDYTKLSEMQDSR 273 Query: 302 VNGQKDEKSSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 ++ +E S + L+ ++V LV L L+ +RI+ L++QLY I++RIM + Sbjct: 274 ISATLNEDGSFNAGDEALYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRRIMQIDSA 333 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +++LA I R F++ ++G ELDP+W+ + W+ F+ D + ++R ++ Sbjct: 334 MVKLADQARINRREFVDEYRGYELDPNWMERMAEKSGRGWQMFIERSSDKVEELRTDMAQ 393 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 394 VGQYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 453 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 454 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 513 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDK Sbjct: 514 GRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDK 573 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 574 NAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 633 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 634 IRQIEAKALRKLKHPSRSRKLRSFLD 659 >gi|254293486|ref|YP_003059509.1| RNA polymerase sigma factor RpoD [Hirschia baltica ATCC 49814] gi|254042017|gb|ACT58812.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hirschia baltica ATCC 49814] Length = 683 Score = 692 bits (1787), Expect = 0.0, Method: Compositional matrix adjust. Identities = 377/689 (54%), Positives = 491/689 (71%), Gaps = 23/689 (3%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 + + + E ++ D V D S+ S KK I + RG++T +ELN LP DEV+ +Q+ED Sbjct: 3 KTKADNEEVAENQDGPVLDLSNASVKKFIAAGKARGFITHDELNKVLPSDEVNPDQIEDV 62 Query: 67 VAMLSNMGINVVDGDDLEDEEGSEDSLD------LASSASNSSVFLQKRKDSADRSTDDP 120 ++ LS MGINVVD D+ + +G E S D + A +++ R D DR TDDP Sbjct: 63 MSALSEMGINVVDSDEEGEGDGDEASSDGENASGAVTKAKSTAAATGGRSDRYDR-TDDP 121 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+++WR EL D L Sbjct: 122 VRMYLREMGTVELLSREGEIAIAKRIEAGRDAMIRGLCESPLTFEAIMVWRQELEDERVL 181 Query: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 LR+IIDLEA + G + + +K E + E+ + +E E ++K Sbjct: 182 LRDIIDLEATYAAANGGVPDNSAAAVALEKGEPLEKTPEQLEAEEKAKQDE----IAKKK 237 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 R + PPE ++ + D+ +D A ++SAME +LR V LD +A ++ R LQ+ Sbjct: 238 RIEEGLPPEEEGKEDDDDDDFDDGGAMSMSAMEAELREGVTDILDNVASEFQAYRRLQEK 297 Query: 301 AVN--------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN 352 VN KD + VK L++ +++ + L LN +RI+ LVEQLY I+KR+M Sbjct: 298 LVNRHMEGKELSPKDSEEYVK---LQDDIIENLKKLHLNNARIETLVEQLYAINKRLMGL 354 Query: 353 EGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNE 412 EG L+RLA ++G+ R FL+ + G EL+P W + +WK F+A E + + ++R+E Sbjct: 355 EGGLMRLADAHGVPRKSFLDNYFGTELEPDWGTRV-SLISAKWKKFIAAETNKVEEMRSE 413 Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I S++ E G+ I +FR IV+ V+KGE EA +AKKEMVEANLRLVIS+AKKYTNRGLQFLD Sbjct: 414 ISSLAQEMGVPIEDFRRIVATVQKGEREARVAKKEMVEANLRLVISIAKKYTNRGLQFLD 473 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ Sbjct: 474 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKI 533 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 VRT R+M ++I REPTPEE+A+KL +P+E +RKVLKI KEPISLETPIGD++ S+LGDFI Sbjct: 534 VRTQRQMLHEIGREPTPEELAEKLGLPLEKIRKVLKIAKEPISLETPIGDDEDSNLGDFI 593 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDK A+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VT Sbjct: 594 EDKMALLPVDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT 653 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 654 RERIRQIEAKALRKLKHPSRSRKLRSFLD 682 >gi|254511749|ref|ZP_05123816.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11] gi|221535460|gb|EEE38448.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11] Length = 662 Score = 692 bits (1786), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/686 (55%), Positives = 485/686 (70%), Gaps = 35/686 (5%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N D S+ ++ + SL D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ Sbjct: 3 AKDTNEDRKSDEQEQEISL--DMSQAQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQI 60 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 ED ++MLS MGIN+++ ++ E+EE ++ S DL ++ V L + TDDPVRM Sbjct: 61 EDVMSMLSEMGINIIEDEEAEEEE-NKGSTDLVTTEGPREVALAGAQTEKLDRTDDPVRM 119 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR+ Sbjct: 120 YLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRD 179 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIES--AAKVSKDDR 241 +IDLE G +Q E DVQE D S AAK KD Sbjct: 180 VIDLETTFG----------------------NQLDEDGDVQEPVVDTSSVQAAKPEKDTG 217 Query: 242 SKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNA 301 ++D+ +D+ + D+D+ + +L+AME L+ +V+ L+ I+ + L +QD+ Sbjct: 218 PELDADGNPIASDDDDDDDDQ--ANMSLAAMEAALKDQVLTTLERISNDFAMLSEMQDSR 275 Query: 302 V------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 + +G EK + L+ ++V+LV L L+ +RI+ L++QLY I++RIM + Sbjct: 276 ISATLNEDGSFSEKDEETYQKLRAEIVELVNGLHLHNNRIEALIDQLYGINRRIMSLDSS 335 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +++LA I R F++ ++GRELDP+W++ + P W+ F+ + ++RN++ Sbjct: 336 MVKLADQARINRREFIDAYRGRELDPNWLAEMAEKPGRGWQMFIERSTAKVEELRNDMAQ 395 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + G+ I EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 396 VGQYVGLDIPEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 455 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 456 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 515 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDK Sbjct: 516 GRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDK 575 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 576 NAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 635 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 IRQIEAKALRKLKHPSRSRKLRSFLD 661 >gi|163742972|ref|ZP_02150355.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161383655|gb|EDQ08041.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] Length = 662 Score = 692 bits (1785), Expect = 0.0, Method: Compositional matrix adjust. Identities = 368/679 (54%), Positives = 484/679 (71%), Gaps = 34/679 (5%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D + + D S KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DRKPDDQEPEISLDMSQTQVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ ++ E+EE + S +L ++ SN V + TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEDEEAEEEE-QKGSTELVTTESNREVAVAGAAAEKLDRTDDPVRMYLREMGSV 126 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 127 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEATF 186 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G + +D + +E ++++A + +K P +A Sbjct: 187 GNQLD------------------------EDGEVSEPVVDTSAVAANKPAAKETGPELDA 222 Query: 252 END---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE 308 + + + + D+++D + +L+AME L+ KV+ L++I+ Y +L +QD+ ++ +E Sbjct: 223 DGNPIAQDDDDDEDDQANMSLAAMEAALKDKVLTTLEQISSDYAQLSEMQDSRISATLNE 282 Query: 309 KSSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 S + L+ ++V LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 283 DGSFSARDEQVYQSLRSEIVLLVNELHLHNNRIEALIDQLYGINRRVMSIDSSMVKLADQ 342 Query: 363 YGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I R F+E ++GRELDP+W++ + P W+ FV + + ++R ++ + G+ Sbjct: 343 ARINRREFVEAYRGRELDPNWLAEMGEKPGRGWQMFVERSTEKVEELRADMAQVGQYVGL 402 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 403 DISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 462 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ Sbjct: 463 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHE 522 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLD Sbjct: 523 IGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLD 582 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAK Sbjct: 583 SAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAK 642 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKLKHPSRS+KLRSFLD Sbjct: 643 ALRKLKHPSRSRKLRSFLD 661 >gi|310816221|ref|YP_003964185.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25] gi|308754956|gb|ADO42885.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25] Length = 658 Score = 691 bits (1784), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/681 (54%), Positives = 480/681 (70%), Gaps = 35/681 (5%) Query: 9 RDSDSEHEDSDDS-LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTV 67 +DSD ++ DS + FD S + K+MI AR+RGY+T ++LN+ LPPD+VSS+Q+ED + Sbjct: 4 KDSDDVKDNEQDSDISFDMSQAAVKRMIADARERGYITYDQLNSVLPPDQVSSDQIEDVM 63 Query: 68 AMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 +MLS MGI V D ++ E+ S ++A+ + + DR TDDPVRMYLRE Sbjct: 64 SMLSEMGIQVTDEEETEEVADDGTSREVATVGARELTLAGPEVEKTDR-TDDPVRMYLRE 122 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTF A+ IWRDEL D LLR++IDL Sbjct: 123 MGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFNAITIWRDELMDEAVLLRDVIDL 182 Query: 188 EACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV-SKDDRSKVDS 246 EA G +Q E DD + S K+ + D Sbjct: 183 EATFG----------------------NQMGEDDDAPVVDAAGGSEPKMRERGAELDADG 220 Query: 247 PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 P + ++D+ + D++ + +L+AME LRP+V+ ALD IAE L LQ+ + + Sbjct: 221 NPISRDDDDEDDDQN----SMSLAAMEATLRPRVLEALDTIAEQAMALEELQEARMRAKM 276 Query: 307 DEKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 +E + + +VL++K+V++V SL L+ +RID L++QLY I++RIM + +++LA Sbjct: 277 EEGADFSVAEEGQYQVLRQKIVEVVNSLHLHSNRIDALIDQLYGINRRIMSIDSSMVKLA 336 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 I R F++ ++G ELDP W+ P W + + + ++R E+ + Sbjct: 337 DQARINRKEFIDEYRGSELDPSWLERMGQKPGRGWAMLIERSREKVEELRAEMAQVGQYV 396 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ I+EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 397 GVDINEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 456 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M Sbjct: 457 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQML 516 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ P Sbjct: 517 HEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILP 576 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE Sbjct: 577 LDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIE 636 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKLKHPSRS+KLRSFLD Sbjct: 637 AKALRKLKHPSRSRKLRSFLD 657 >gi|84515379|ref|ZP_01002741.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510662|gb|EAQ07117.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 659 Score = 691 bits (1783), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/676 (54%), Positives = 475/676 (70%), Gaps = 31/676 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + D D + D S + K+MI AR+RGY+T ++LNA LPP++VSS+Q+ED ++MLS Sbjct: 8 DRKDNDQDGDISLDMSQAAVKRMIADARERGYITYDQLNAVLPPEQVSSDQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGI V + ++ E+ + D+A+ + + V + + TDDPVRMYLREMGS+ Sbjct: 68 EMGIQVTEEEESEESDDGAGGTDIATVSGSRDVTIGGAEAEKLDRTDDPVRMYLREMGSV 127 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLE Sbjct: 128 ELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWRDELLSEDILLRDVIDLETTF 187 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G + G EG ET S + +D S++D+ Sbjct: 188 GNQ------LGEEGEV-----------------ETVVTAASVSDTKEDGGSELDADGNPI 224 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 D+ + D+D+ + +L+AME L+P+V+ L+ IA + +L +QD ++ +E SS Sbjct: 225 SKDDDDDDDDQ--ANMSLAAMEAALKPRVLETLEIIARGFADLSDMQDARMSATLNEDSS 282 Query: 312 VKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 K L+ ++V LV SL L+ +RI+ L++QLY I++RIM + +++LA I Sbjct: 283 FSVKEEERYQTLRSEIVVLVNSLHLHNNRIEALIDQLYGINRRIMSIDSAMVKLADQARI 342 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 R F++ ++GRELDP+W+ + W+ V D I ++RN++ + G+ I+ Sbjct: 343 NRREFIDEYRGRELDPNWLEQMAEKSGRGWQALVEKSTDKIEELRNDMAQVGQYVGVDIT 402 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 403 EFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 462 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I R Sbjct: 463 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGR 522 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PLDSAI Sbjct: 523 EPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAI 582 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 583 QENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 642 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 643 KLKHPSRSRKLRSFLD 658 >gi|83951483|ref|ZP_00960215.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83836489|gb|EAP75786.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 660 Score = 690 bits (1781), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/684 (53%), Positives = 474/684 (69%), Gaps = 42/684 (6%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D + +D D + D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++M Sbjct: 6 NDDQKPDDQDAEISLDLSQTAIKKMIAEAREKGYITYDQLNQALPPDQVSSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGIN+++ + EE + LA V L K+ TDDPVRMYLREMG Sbjct: 66 LSEMGINIIE--AEDVEEEEQRVTALAEVGKRGEVTLGSGKEEKLDRTDDPVRMYLREMG 123 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 124 SVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWRDELLTEDILLRDVIDLEA 183 Query: 190 CIGPE------SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSK 243 G + + G + K+ +++QE + D + Sbjct: 184 TFGNQLGDDEDEEAPVVAANVGEAPGKKSETTQELDADG-------------------NP 224 Query: 244 VDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN 303 + S + E+D+ N+ +L+AME L+P+V+ LD IA Y +L +QD+ ++ Sbjct: 225 ISSDDDEDEDDQANM---------SLAAMEAALKPRVLETLDRIANDYEKLSEMQDSRIS 275 Query: 304 GQKDEKSSVKCKV------LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELL 357 +E S K L+ ++V+LV L L+ +RI+ L++QLY I++RIM + ++ Sbjct: 276 ATLNEDGSFSAKQEATYQKLRSEIVELVNELHLHNNRIEALIDQLYGINQRIMSIDSAMV 335 Query: 358 RLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSIS 417 +LA I R F++ ++GRELDP+W+ W+ F+ + + ++R ++ + Sbjct: 336 KLADQARINRREFIDAYRGRELDPNWLDDMASKSGRGWQMFMERSPEKVAELRADMAQVG 395 Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 396 QYVGLDISEFRRIVGQVQKGEQEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 455 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R Sbjct: 456 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGR 515 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA Sbjct: 516 QMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNA 575 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 V PLDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIR Sbjct: 576 VLPLDSAIQDNLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 635 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 636 QIEAKALRKLKHPSRSRKLRSFLD 659 >gi|83859451|ref|ZP_00952972.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852898|gb|EAP90751.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 678 Score = 690 bits (1781), Expect = 0.0, Method: Compositional matrix adjust. Identities = 384/698 (55%), Positives = 487/698 (69%), Gaps = 38/698 (5%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M+ N ++ SE++D + D +D + K MIK A++RGYVT +ELN LP +E SS Sbjct: 1 MSKAAAENAEATSENQDGP---LLDLTDQTVKAMIKTAKKRGYVTHDELNKVLPSEEFSS 57 Query: 61 EQMEDTVAMLSNMGINVVDGD-DLEDEEGSEDSLDLASSASNSSVFLQKRKD-------- 111 EQ+ED +A LS MGI VVD + D+++E S D + S+ +K K Sbjct: 58 EQIEDILAQLSEMGITVVDSEEDVDNEASSSDDEEDDEDEEKSTAVAKKAKSEVAAGQNT 117 Query: 112 -SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIW 170 SA TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+++W Sbjct: 118 TSAQDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRNAMIRGLCESPLTFEAIMVW 177 Query: 171 RDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI 230 RDEL +G LLR+IIDL+A G G S + E E + DD E + D Sbjct: 178 RDELQEGQVLLRDIIDLDATYG-----GVREDATAVSDDEEEGEGDEAKADDA-EAKSDD 231 Query: 231 ESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEV 290 ES+ + + E+D N+ +L+AME +LR VM LD IA Sbjct: 232 ESSDSEDGEKSEGESDEDGDDEDDGANM---------SLAAMEAELRDGVMETLDAIATD 282 Query: 291 YRELRSLQDNAVNGQKD-----EKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 + R LQD V+ + +K + E++V + SL LN +RI+ LVEQL I Sbjct: 283 FDVFRQLQDRLVSSRLSGKHLSDKDQAAYDDVFERIVANLNSLHLNNARIEALVEQLDAI 342 Query: 346 SKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP--EGEWKNFVACEV 403 +K++M EG+LLR+A+++G+ R FL+ +QG ELDP+W+ KD W FV E Sbjct: 343 NKKLMGLEGKLLRMAEAHGVPRTDFLKSYQGHELDPNWL---KDMAGKSKAWGRFVEREE 399 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 ++R +I +++ E+G+ I ++R IV+ V+KG EA +AKKEMVEANLRLVIS+AKKY Sbjct: 400 KEAGELREQIATLAQESGVPIDDYRRIVATVQKGAREARVAKKEMVEANLRLVISIAKKY 459 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 460 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 519 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+VRT+R+M ++I REPTPEE+A+KL+MP+E VRKV+KI KEPISLETPIGDE Sbjct: 520 HMIETINKIVRTSRQMLHEIGREPTPEELAEKLSMPLEKVRKVMKIAKEPISLETPIGDE 579 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIEDKNAV P+D+AI +NLRETTT VLASLTPREERVLRMRFGIGMNTDHTLE Sbjct: 580 EDSHLGDFIEDKNAVLPIDAAIHSNLRETTTLVLASLTPREERVLRMRFGIGMNTDHTLE 639 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 640 EVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 677 >gi|86137897|ref|ZP_01056473.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193] gi|85825489|gb|EAQ45688.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193] Length = 663 Score = 690 bits (1780), Expect = 0.0, Method: Compositional matrix adjust. Identities = 367/678 (54%), Positives = 478/678 (70%), Gaps = 27/678 (3%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D + +D D + D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++M Sbjct: 6 NDDRKPDDQDAEISLDMSQAAVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGIN+++ +++E+EE + S +L S+ S V + TDDPVRMYLREMG Sbjct: 66 LSEMGINIIEDEEVEEEE-QKGSTELVSADSPREVAVAGAASEKLDRTDDPVRMYLREMG 124 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 ++ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLEA Sbjct: 125 TVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLEA 184 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G + + ++ QE + D + + S + Sbjct: 185 TFGNQLDEDGEAEDPVVPVVPGAAPAAPAAKEQTQELDAD-----------GNPIASDDD 233 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK 309 + E+++ N+ +L+AME L+ +V+ L+ I+ + +L +QD+ ++ +E Sbjct: 234 DDEDEQANM---------SLAAMEAALKDRVLTTLERISTDFSQLSEMQDSRISATLNED 284 Query: 310 SSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 S K L+ ++V+LV L L+ +RID L++QLY I++R+M + +++LA Sbjct: 285 GSFSKKDEATYQSLRSEIVELVNGLHLHNNRIDALIDQLYGINRRVMQIDSSMVKLADQA 344 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F+E ++GRELDP+W+S + P W+ F+ D + ++R ++ + G+ Sbjct: 345 RINRREFVEAYRGRELDPNWLSDMGEKPGRGWQMFIERSTDKVEELRADMAQVGQYVGLD 404 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 405 ISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 464 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 465 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 524 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDS Sbjct: 525 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 584 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 585 AIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 644 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 645 LRKLKHPSRSRKLRSFLD 662 >gi|110679091|ref|YP_682098.1| RNA polymerase sigma factor RpoD [Roseobacter denitrificans OCh 114] gi|109455207|gb|ABG31412.1| RNA polymerase sigma-70 factor RpoD [Roseobacter denitrificans OCh 114] Length = 661 Score = 690 bits (1780), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/686 (54%), Positives = 484/686 (70%), Gaps = 40/686 (5%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 ++ + D++ +D D D S + KKMI AR++GY+T ++LN LPPD+V+SEQ+ED Sbjct: 4 KDTNDDAKPDDQDAGHSLDMSQAAVKKMIAEAREKGYITYDQLNTVLPPDQVNSEQIEDV 63 Query: 67 VAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 ++MLS MGIN+++ +D E+EE ++ S ++A++ V L TDDPVRMYLR Sbjct: 64 MSMLSEMGINIIEDEDAEEEE-AKGSTEIATTEGTREVTLGSGTSEKLDRTDDPVRMYLR 122 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M++ LCESPLTFQA+ IWRDEL LLR++ID Sbjct: 123 EMGSVELLSREGEIAIAKRIEAGRNTMISGLCESPLTFQAITIWRDELLSEDILLRDVID 182 Query: 187 LEACIGPE-----SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDR 241 LEA G + S G +G + ++E+SS E + D Sbjct: 183 LEATFGNQLDEDVSVGEPVVAADGATAPQKEESSPELDADG------------------- 223 Query: 242 SKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNA 301 +P N ++D+ + + +L+AME L+P+V+ ALD IA Y +L +QD+ Sbjct: 224 ----NPIANDDDDDEDEQAN-----MSLAAMEAALKPQVLEALDIIASDYTKLSEMQDSR 274 Query: 302 V------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 + +G DE + L+ ++V LV L L+ +RI+ L++QLY I++RIM + Sbjct: 275 ISATLNEDGSFDEGDEALYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRRIMQIDSA 334 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +++LA I R F++ ++G ELDP+W+ + W+ F+ D + ++R ++ Sbjct: 335 MVKLADQARINRREFVDEYRGYELDPNWMERMTEKSGRGWQMFIERSSDKVEELRADMAQ 394 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 395 VGQYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 454 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 455 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 514 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDK Sbjct: 515 GRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDK 574 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 575 NAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 634 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 635 IRQIEAKALRKLKHPSRSRKLRSFLD 660 >gi|260753821|ref|YP_003226714.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|258553184|gb|ACV76130.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 671 Score = 688 bits (1776), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/676 (53%), Positives = 486/676 (71%), Gaps = 28/676 (4%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 ++ D+ + D ++ S +K I A++RGYVT ++LN LP D++SSEQ+ED ++ LS MGIN Sbjct: 12 NAGDAPLIDLNETSIRKFITQAKKRGYVTYDQLNEALPQDQMSSEQIEDIMSALSEMGIN 71 Query: 77 VVDGDDLEDEEGSEDSLDL-----ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 +V+ +D E+G ++ D ++ + + +K+++DR TDDPVRMYLREMG++ Sbjct: 72 IVENED-SGEDGQQEEEDAAEELQGDGGTSPAPAITTKKETSDR-TDDPVRMYLREMGAV 129 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+ LCESP+TF +I W + LN+GT LREIIDL+A + Sbjct: 130 ELLSREGEIAIAKRIEAGRDTMILGLCESPITFDNIIEWSNALNEGTLQLREIIDLDAML 189 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 T+G S + E+ + + + + G + + +D EN Sbjct: 190 -----------TQGPSPDQFEEEGDDNDNEISERNAGP--TFKEDDDEDDDSEGELDENG 236 Query: 252 ENDER-NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-----AVNGQ 305 + +R N+DE ED++ +L+ ME+QL+P + +IA++YR+ LQ+ N + Sbjct: 237 QRIQRENMDE-EDENTLSLAQMEEQLKPASLEKFAKIADLYRQFSVLQNARMRALGANEE 295 Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 E + L+E+L V S+ + +RI+ LVEQLY+ + R+ G++LRLA+ Y + Sbjct: 296 FPEDQENAYQQLREELTAEVESVKFHNARIEFLVEQLYNYNSRLRTLNGQMLRLAERYKV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 RD FL + G E++ WV + +W NF E +SI +IR+E+ I+ TG+++ Sbjct: 356 PRDSFLNAYLGNEMEEGWVERVSKI-DKKWANFTTSEAESIERIRSEVAEIAQVTGMTLK 414 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R IV+MV+KGE EA IAK EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 415 ELRRIVTMVQKGEREARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 474 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I R Sbjct: 475 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGR 534 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 535 EPTPEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAI 594 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 595 QANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 654 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+K+RSFLD Sbjct: 655 KLKHPSRSRKMRSFLD 670 >gi|209545152|ref|YP_002277381.1| RNA polymerase sigma factor RpoD [Gluconacetobacter diazotrophicus PAl 5] gi|209532829|gb|ACI52766.1| RNA polymerase, sigma 70 subunit, RpoD [Gluconacetobacter diazotrophicus PAl 5] Length = 650 Score = 688 bits (1776), Expect = 0.0, Method: Compositional matrix adjust. Identities = 358/670 (53%), Positives = 471/670 (70%), Gaps = 46/670 (6%) Query: 19 DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 +D+ + D + K++I ++RGY+T +ELNA LP D++SSEQ+ED +A+LS MGI VV Sbjct: 18 NDTTLLDTQSGAVKRLIARGKERGYITFDELNAVLPQDQMSSEQIEDVMAVLSEMGIQVV 77 Query: 79 DGDDLEDEEGS-EDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSR 136 + +D +D E + E+ + A + + D+ TDDPVRMYLREMGS+ELLSR Sbjct: 78 ENEDNDDSEANREEKAEEADTEGEEAGGAAGNVDTESLGRTDDPVRMYLREMGSVELLSR 137 Query: 137 EGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 EGEIAIAKRIEAGR M+ LCESPLTF+A+I W + L G LLR+I+DLEA Sbjct: 138 EGEIAIAKRIEAGRDEMIGGLCESPLTFRAIISWHERLKAGEMLLRDIVDLEA------- 190 Query: 197 GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 +Q + E+ A+ + + D+ PE+ + Sbjct: 191 --------------------------MQSGGAEAEAGAEGGEQEDGSFDAAPESEDG--- 221 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV-----NGQKDEKSS 311 E+ D + +LSA+E++L+P+++ +EI E+Y L+ LQ + + +KS Sbjct: 222 ---EEGDSAGLSLSALEEKLKPEILAQFEEIEELYSRLQKLQSKRLETLTSGAEMSDKSE 278 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFL 371 + L+E+LV V + L+ +RI++LV+ L +I +R+ EG +LRLA+S + R+ FL Sbjct: 279 KSYEKLREELVGKVQQVHLHNTRIEVLVQHLKEIFQRLNGLEGRMLRLAESTKVSREDFL 338 Query: 372 ERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 +++G ELDP W+ P WKNFVA S+L +R ++ S+S ETG+ + EFR + Sbjct: 339 IKYRGSELDPGWMDMVSALPGKAWKNFVAKHSASVLDLRGQVASLSQETGLPVGEFRRVY 398 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + V +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 399 ATVSRGERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 458 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP PEE Sbjct: 459 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPAPEE 518 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK AV PLD+AIQ NLRE Sbjct: 519 LAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKTAVIPLDAAIQTNLRE 578 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 TTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPS Sbjct: 579 ATTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPS 638 Query: 672 RSKKLRSFLD 681 RS+KLRSFLD Sbjct: 639 RSRKLRSFLD 648 >gi|56552519|ref|YP_163358.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis ZM4] gi|241762241|ref|ZP_04760323.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|56544093|gb|AAV90247.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ZM4] gi|241373288|gb|EER62907.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp. mobilis ATCC 10988] Length = 671 Score = 688 bits (1776), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/676 (53%), Positives = 486/676 (71%), Gaps = 28/676 (4%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 ++ D+ + D ++ S +K I A++RGYVT ++LN LP D++SSEQ+ED ++ LS MGIN Sbjct: 12 NAGDAPLIDLNETSIRKFITQAKKRGYVTYDQLNEALPQDQMSSEQIEDIMSALSEMGIN 71 Query: 77 VVDGDDLEDEEGSEDSLDL-----ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 +V+ +D E+G ++ D ++ + + +K+++DR TDDPVRMYLREMG++ Sbjct: 72 IVENED-SGEDGQQEEEDAAEELQGDGGTSPAPAITTKKETSDR-TDDPVRMYLREMGAV 129 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+ LCESP+TF +I W + LN+GT LREIIDL+A + Sbjct: 130 ELLSREGEIAIAKRIEAGRDTMILGLCESPITFDNIIEWSNALNEGTLQLREIIDLDAML 189 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 T+G S + E+ + + + + G + + +D EN Sbjct: 190 -----------TQGPSPDQFEEDGDDNDNEISERNAGP--TFKEDDDEDDDSEGELDENG 236 Query: 252 ENDER-NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-----AVNGQ 305 + +R N+DE ED++ +L+ ME+QL+P + +IA++YR+ LQ+ N + Sbjct: 237 QRIQRENMDE-EDENTLSLAQMEEQLKPASLEKFAKIADLYRQFSVLQNARMRALGANEE 295 Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 E + L+E+L V S+ + +RI+ LVEQLY+ + R+ G++LRLA+ Y + Sbjct: 296 FPEDQENAYQQLREELTAEVESVKFHNARIEFLVEQLYNYNSRLRTLNGQMLRLAERYKV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 RD FL + G E++ WV + +W NF E +SI +IR+E+ I+ TG+++ Sbjct: 356 PRDSFLNAYLGNEMEEGWVERVSKI-DKKWANFTTSEAESIERIRSEVAEIAQVTGMTLK 414 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R IV+MV+KGE EA IAK EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 415 ELRRIVTMVQKGEREARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 474 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I R Sbjct: 475 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGR 534 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 535 EPTPEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAI 594 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 595 QANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 654 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+K+RSFLD Sbjct: 655 KLKHPSRSRKMRSFLD 670 >gi|85705219|ref|ZP_01036318.1| RNA polymerase sigma factor [Roseovarius sp. 217] gi|85670092|gb|EAQ24954.1| RNA polymerase sigma factor [Roseovarius sp. 217] Length = 661 Score = 688 bits (1775), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/695 (53%), Positives = 478/695 (68%), Gaps = 60/695 (8%) Query: 9 RDSDSEHED-SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTV 67 +D+D + D SD + D S + K+MI AR++G++T ++LN LPPD+VSSEQ+ED + Sbjct: 4 KDTDDQKPDESDTEVSLDMSQAAVKRMIAEAREKGFITYDQLNEVLPPDQVSSEQIEDVM 63 Query: 68 AMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 +MLS MGIN+++ +D E+EEG S +A + L K+ TDDPVRMYLRE Sbjct: 64 SMLSEMGINIIEAEDAEEEEGR--STAVAEIGRRGEITLGSGKEEKLDRTDDPVRMYLRE 121 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDL Sbjct: 122 MGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLGEDILLRDVIDL 181 Query: 188 EACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 EA G + GD ++ V + V S Sbjct: 182 EATFGTQL--------------------------------GDEDAEPVVGA---ANVTSA 206 Query: 248 PENAENDERNLDEDED--------------DSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 P N D+ D D D + +L+AME L+P+V+ LD IA+ Y + Sbjct: 207 PGNLGRDDNEPDLDADGNPIHSDDDDEEDEQANMSLAAMEAALKPRVLETLDRIADDYAK 266 Query: 294 LRSLQDNAVNGQKDEKSSVK------CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 L +QD+ ++ +E S + L+ ++V+LV L L+ +RI+ L++QLY I++ Sbjct: 267 LSEMQDSRISATLNEDGSFSREQEQTYQTLRSEIVELVNELHLHNNRIEALIDQLYGINR 326 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS-YAKDFPEGEWKNFVACEVDSI 406 RIM + +++LA I R F++ ++GRELDP+W+ A+ G W+ F+ + + Sbjct: 327 RIMQIDSAMVKLADQARINRSEFIDEYRGRELDPNWLDDMARKAGRG-WQMFIERSPEKV 385 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 ++R ++ + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNR Sbjct: 386 SELRADMAQVGQYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNR 445 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 446 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 505 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+VRT R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S Sbjct: 506 ETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDS 565 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 LGDFIEDKN + PLDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG Sbjct: 566 QLGDFIEDKNVILPLDSAIQDNLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVG 625 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 626 QQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 660 >gi|114570679|ref|YP_757359.1| RNA polymerase sigma factor RpoD [Maricaulis maris MCS10] gi|114341141|gb|ABI66421.1| RNA polymerase, sigma 70 subunit, RpoD [Maricaulis maris MCS10] Length = 710 Score = 688 bits (1775), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/724 (53%), Positives = 488/724 (67%), Gaps = 66/724 (9%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 ++ +++ E+SD L D +D S K M+K A++RGYVT +ELNA LP +E SSEQ+ED Sbjct: 3 KSAEANDATENSDGPL-LDLTDQSVKNMVKTAKKRGYVTHDELNAVLPSEEFSSEQIEDV 61 Query: 67 VAMLSNMGINVVDGDDL------EDEEGSEDSLDLASS---------------------- 98 +A LS MGINVVD D E + ++ + A++ Sbjct: 62 LAQLSEMGINVVDNDSDVDDDSAETPKPAKGAASAATTSSDDDEEDSDDEEESDSRAVAG 121 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLC 158 AS ++V SADR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+ LC Sbjct: 122 ASKTAVTGLNTPSSADR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRNAMIRGLC 180 Query: 159 ESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEK 218 ESPLTF+A+++WRDEL +G LLR+IIDL+A G G + ED + Sbjct: 181 ESPLTFEAIMVWRDELQEGQVLLRDIIDLDATYG------------GQQAEAAEDDDENA 228 Query: 219 ERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH----------- 267 D E E + K + D + + E++ D+DE+D Sbjct: 229 --DGTGEGETPTPAGGTTPKPESDDEDDGEDGEKKSEKSGDDDEEDGETSSSDDDDDDDE 286 Query: 268 -----TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KD--EKSSVKCKVL 317 +LSAME +LR VM LD IA + R LQD V + KD ++S K + Sbjct: 287 DGVSLSLSAMEAELRDGVMETLDSIATDFAAFRKLQDKLVAARIEGKDLTKQSREKYEGF 346 Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + +V + ++ LN +RI+ LVEQLY I+K M EG+LLR+A ++G+ R F++ + G Sbjct: 347 QNAIVTNLNTMHLNNARIEALVEQLYAINKERMALEGKLLRMADAHGVPRAQFMDSYFGN 406 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 EL+P W + + W F+ E KIR+++ ++ G+ I + R IV V+KG Sbjct: 407 ELNPEWPTSMASTSKA-WARFIDREGVDAGKIRDDLADLTQRAGVPIEDLRRIVRTVQKG 465 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E EA +AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 466 EREARVAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 525 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLA Sbjct: 526 TYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLA 585 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+AIQANLRETTTRVL Sbjct: 586 MPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQANLRETTTRVL 645 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLR Sbjct: 646 ASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLR 705 Query: 678 SFLD 681 SFLD Sbjct: 706 SFLD 709 >gi|162149105|ref|YP_001603566.1| RNA polymerase sigma factor RpoD [Gluconacetobacter diazotrophicus PAl 5] gi|161787682|emb|CAP57278.1| RNA polymerase sigma factor rpoD (Sigma-A) [Gluconacetobacter diazotrophicus PAl 5] Length = 656 Score = 687 bits (1774), Expect = 0.0, Method: Compositional matrix adjust. Identities = 358/670 (53%), Positives = 471/670 (70%), Gaps = 46/670 (6%) Query: 19 DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 +D+ + D + K++I ++RGY+T +ELNA LP D++SSEQ+ED +A+LS MGI VV Sbjct: 24 NDTTLLDTQSGAVKRLIARGKERGYITFDELNAVLPQDQMSSEQIEDVMAVLSEMGIQVV 83 Query: 79 DGDDLEDEEGS-EDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSR 136 + +D +D E + E+ + A + + D+ TDDPVRMYLREMGS+ELLSR Sbjct: 84 ENEDNDDSEANREEKAEEADTEGEEAGGAAGNVDTESLGRTDDPVRMYLREMGSVELLSR 143 Query: 137 EGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 EGEIAIAKRIEAGR M+ LCESPLTF+A+I W + L G LLR+I+DLEA Sbjct: 144 EGEIAIAKRIEAGRDEMIGGLCESPLTFRAIISWHERLKAGEMLLRDIVDLEA------- 196 Query: 197 GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 +Q + E+ A+ + + D+ PE+ + Sbjct: 197 --------------------------MQSGGAEAEAGAEGGEQEDGSFDAAPESEDG--- 227 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV-----NGQKDEKSS 311 E+ D + +LSA+E++L+P+++ +EI E+Y L+ LQ + + +KS Sbjct: 228 ---EEGDSAGLSLSALEEKLKPEILAQFEEIEELYSRLQKLQSKRLETLTSGAEMSDKSE 284 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFL 371 + L+E+LV V + L+ +RI++LV+ L +I +R+ EG +LRLA+S + R+ FL Sbjct: 285 KSYEKLREELVGKVQQVHLHNTRIEVLVQHLKEIFQRLNGLEGRMLRLAESTKVSREDFL 344 Query: 372 ERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 +++G ELDP W+ P WKNFVA S+L +R ++ S+S ETG+ + EFR + Sbjct: 345 IKYRGSELDPGWMDMVSALPGKAWKNFVAKHSASVLDLRGQVASLSQETGLPVGEFRRVY 404 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + V +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 405 ATVSRGERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 464 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP PEE Sbjct: 465 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPAPEE 524 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK AV PLD+AIQ NLRE Sbjct: 525 LAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKTAVIPLDAAIQTNLRE 584 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 TTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPS Sbjct: 585 ATTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPS 644 Query: 672 RSKKLRSFLD 681 RS+KLRSFLD Sbjct: 645 RSRKLRSFLD 654 >gi|260576520|ref|ZP_05844509.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp. SW2] gi|259021243|gb|EEW24550.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp. SW2] Length = 668 Score = 687 bits (1772), Expect = 0.0, Method: Compositional matrix adjust. Identities = 371/691 (53%), Positives = 476/691 (68%), Gaps = 50/691 (7%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D + +++D SL D S + K+MI AR+RGY+T ++LNA LPP++ SSEQ+ED ++M Sbjct: 8 DGKPDEQEADTSL--DMSQAAVKRMIADARERGYITYDQLNAVLPPEQASSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGINV++ D++++ E + +L ++++ + + A TDDPVRMYLREMG Sbjct: 66 LSEMGINVIENDEIDE---GEPAGELVETSTSREIAVSGASAEALDRTDDPVRMYLREMG 122 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 123 SVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEA 182 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G G DD G +E+ + D+ V +P Sbjct: 183 TFGRSLDG-----------------------DDDMVGPG-LETGIEAGLDE-VGVAAPRR 217 Query: 250 NAENDERNLDEDEDD-------------SAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 N DE LD D + SA +L+AME L+P+V+ L+ IA Y L Sbjct: 218 NGA-DEPELDADGNPISRADDDDEDDEASAMSLAAMEAALKPRVLETLEVIARDYATLAE 276 Query: 297 LQDNAVNGQKDEKSSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 +QD ++ ++ S + L+ ++V LV L L+ +RI+ L++QLY I+++IM Sbjct: 277 MQDRRMHATMNDASRFSANDEAIYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIM 336 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 +++LA + I R F++ +QG ELDP W W++ + D + ++R Sbjct: 337 AINSGMVKLADAARINRREFIDEYQGYELDPTWGDRMAAKAGRGWQSLMEKSRDKVEELR 396 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 ++ + G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQF Sbjct: 397 ADMAQVGQYIGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQF 456 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 457 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 516 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VRT R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGD Sbjct: 517 KLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGD 576 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDKNA+ PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 577 FIEDKNAILPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 636 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 637 VTRERIRQIEAKALRKLKHPSRSRKLRSFLD 667 >gi|126738765|ref|ZP_01754461.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6] gi|126719946|gb|EBA16653.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6] Length = 663 Score = 687 bits (1772), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/678 (53%), Positives = 480/678 (70%), Gaps = 27/678 (3%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D + ED + + D S + KKMI AR++GY+T ++LN LPPD+VSSEQ+ED ++M Sbjct: 6 NDDRKPEDQEAEISLDMSQAAVKKMIAEAREKGYITYDQLNQVLPPDQVSSEQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGIN+++ +++E+EE ++ + DL ++ V L + TDDPVRMYLREMG Sbjct: 66 LSEMGINIIEDEEVEEEE-NKGATDLVTTEGPREVALAGAQAEKLDRTDDPVRMYLREMG 124 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW DEL LLR++IDLE Sbjct: 125 SVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHDELLSEDILLRDVIDLET 184 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G + + + + E+D+ E + D + + S + Sbjct: 185 TFGNQMDEDGEVDEPVVAPGAAAAPAAKSEKDEGPELDAD-----------GNPIASDDD 233 Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK 309 + E+++ N+ +L+AME L+ +V+ L+ I+ + +L +QD+ ++ +E Sbjct: 234 DDEDEQANM---------SLAAMEAALKDRVLVTLERISTDFAQLSEMQDSRISATLNED 284 Query: 310 SSVKCK------VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 S + L+ ++V+LV L L+ +RI+ L++QLY I++R+M + +++LA Sbjct: 285 GSFSSQDEKTYQSLRSEIVELVNGLHLHNNRIEALIDQLYGINRRVMQIDSNMVKLADQA 344 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F+E ++GRELDP+W+S + P W+ F+ + + +R E+ + G+ Sbjct: 345 RINRREFVEAYRGRELDPNWLSEMSEKPGRGWQMFIERSTEKVEDLRAEMAQVGQYVGLD 404 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 405 ISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 464 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 465 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 524 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDS Sbjct: 525 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 584 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 585 AIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 644 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 645 LRKLKHPSRSRKLRSFLD 662 >gi|149202116|ref|ZP_01879089.1| RNA polymerase sigma factor RpoD [Roseovarius sp. TM1035] gi|149144214|gb|EDM32245.1| RNA polymerase sigma factor RpoD [Roseovarius sp. TM1035] Length = 661 Score = 687 bits (1772), Expect = 0.0, Method: Compositional matrix adjust. Identities = 371/684 (54%), Positives = 483/684 (70%), Gaps = 45/684 (6%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + E+++ + D S + K+MI AR++G++T ++LN LPPD+VSSEQ+ED ++MLS Sbjct: 8 DDKPEEAEAEVSLDMSQAAVKRMIAEAREKGFITYDQLNEVLPPDQVSSEQIEDVMSMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGIN+++ +D E+EEG S +A + L K+ TDDPVRMYLREMGS+ Sbjct: 68 EMGINIIEAEDAEEEEGR--STAVAEIGRRGEITLGSGKEEKLDRTDDPVRMYLREMGSV 125 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 126 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLGEDILLRDVIDLEATF 185 Query: 192 G-------PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 G E G + T R+DS E D+++ D + + Sbjct: 186 GTQLGDEDAEPVVGAANVTSAPGGMGRDDS------------EPDLDA-------DGNPI 226 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 S ++ ++++ N+ +L+AME L+P+V+ LD IA Y +L +QD+ ++ Sbjct: 227 HSDDDDEDDEQANM---------SLAAMEAALKPRVLDTLDRIAADYAKLSEMQDSRISA 277 Query: 305 QKDEKSS------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 +E S + L+ ++V+LV L L+ +RI+ L++QLY I++RIM + +++ Sbjct: 278 TLNEDGSFSREQEATYQTLRSEIVELVNELHLHNNRIEALIDQLYGINRRIMQIDSAMVK 337 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSIS 417 LA I R F+E ++GRELDP+W+ A+ G W+ F+ + + ++R ++ + Sbjct: 338 LADQARINRSEFIEEYRGRELDPNWLDDMARKAGRG-WQMFIERSPEKVAELRADMAQVG 396 Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 397 QYVGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 456 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R Sbjct: 457 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGR 516 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKN Sbjct: 517 QMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNV 576 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + PLDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIR Sbjct: 577 ILPLDSAIQDNLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 636 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 637 QIEAKALRKLKHPSRSRKLRSFLD 660 >gi|126730240|ref|ZP_01746051.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37] gi|126708973|gb|EBA08028.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37] Length = 667 Score = 686 bits (1769), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/682 (54%), Positives = 484/682 (70%), Gaps = 31/682 (4%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D++ ED ++ + D S + KKMI AR+RGY+T ++LN LPPD+VSS+Q+ED ++M Sbjct: 6 NEDAKSEDQEEEISLDMSQAAVKKMIAEARERGYITYDQLNQVLPPDQVSSDQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEE-GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 LS MGI V + D+ +EE ++ S DL + V L TDDPVRMYLREM Sbjct: 66 LSEMGIQVTEDDEESEEEDANKGSTDLVETKRGGEVALGSGTTEKLDRTDDPVRMYLREM 125 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 GS+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IW +EL LLR++IDLE Sbjct: 126 GSVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWHEELLSEDILLRDVIDLE 185 Query: 189 ACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 + G +G + D+S V+ + G+ + + K D P Sbjct: 186 TTFSGQ------MGEDGELDEPVVDAS-------VETSNGEAGT--------QKKSDEPE 224 Query: 249 ENAEND--ERNLDEDEDDSAH-TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV--- 302 +A+ + R+ DED+D+ A+ +L+AME L+P+V+ LD IA Y +L +QD+ + Sbjct: 225 YDADGNPISRDDDEDDDEQANMSLAAMETALKPRVLETLDRIARDYEQLAEMQDSRISAT 284 Query: 303 ---NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 +G D + L+ ++V+LV L L+ +RI+ L++QLY I+KRIM + +++L Sbjct: 285 LNEDGSFDSDDEATYQKLRGEIVELVNGLHLHNNRIEALIDQLYGINKRIMSIDSAMVKL 344 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A I R F++ ++G ELDP+W+ + W+ F+ D + ++R+++ + Sbjct: 345 ADQARINRREFVDEYRGHELDPNWLERMAEKSGRGWQMFIERSADKVEELRSDMAQVGQY 404 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 405 VGLDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 464 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 465 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQM 524 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ Sbjct: 525 LHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAIL 584 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PLDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 585 PLDSAIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 644 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 645 EAKALRKLKHPSRSRKLRSFLD 666 >gi|83309796|ref|YP_420060.1| RNA polymerase sigma factor RpoD [Magnetospirillum magneticum AMB-1] gi|82944637|dbj|BAE49501.1| DNA-directed RNA polymerase [Magnetospirillum magneticum AMB-1] Length = 679 Score = 685 bits (1768), Expect = 0.0, Method: Compositional matrix adjust. Identities = 381/685 (55%), Positives = 486/685 (70%), Gaps = 18/685 (2%) Query: 5 KKRNRDSDSEHED-SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N SE++D + D + D + KKM+ ++RGYVT +ELNA +PP+EVSSEQ+ Sbjct: 4 KSTNTAEVSENQDEAMDGPLLDTLGVAVKKMVAKGKERGYVTYDELNAAMPPEEVSSEQI 63 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 EDT+AMLS +GINVV+ ++ ED + + S +D TDDPVRM Sbjct: 64 EDTMAMLSELGINVVESEEGEDNTPEAAEEETTETEGYSGAGNVDEEDLG--RTDDPVRM 121 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMGS+ELLSREGEIAIAKRIEAGR MM+ +CESPLT +A++ W D L +G LLR+ Sbjct: 122 YLREMGSVELLSREGEIAIAKRIEAGREMMIGGICESPLTLRAVVDWHDALVEGKMLLRD 181 Query: 184 IIDLEACIG--PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDR 241 IIDL+A G PE + EG ++ + + + EG+ E K ++ Sbjct: 182 IIDLDATYGADPEPEELAEVEAEGVIVEEAAPAGAAEAK-----PEGEAEP--KAEGEEG 234 Query: 242 SKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN- 300 K + E + E+ ++++ +L+AME +L P V+ + IA + +L +QD Sbjct: 235 EKEEGAEGEPEVEGEGEAEEGEENSISLAAMETELLPIVLETFEVIAATHHKLEKVQDQR 294 Query: 301 --AVNGQKDEKSSVKCKV--LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGEL 356 A+N + +++ K LK +LV+L+ + LN +RI+ LVEQL +++R+M EG L Sbjct: 295 LAALNKGEAVTPAMEKKYDKLKLELVRLMDGIHLNNARIEQLVEQLNGLNRRLMMQEGRL 354 Query: 357 LRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSI 416 LRLA+S +KR FL+ + G ELDP+W+ + +WK+F A IR I I Sbjct: 355 LRLAESCRVKRQDFLDAYYGSELDPNWIEQVTQRSK-QWKDFGARHGKDAADIRATIADI 413 Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S E G+ ISE+R IV V++GE EAS AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQE Sbjct: 414 SAEAGLPISEYRRIVQTVQRGEREASRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQE 473 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+ Sbjct: 474 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTS 533 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R+M ++I REPTPEE+A+KL+MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKN Sbjct: 534 RQMLHEIGREPTPEELAEKLSMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKN 593 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 AV PLD+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERI Sbjct: 594 AVLPLDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI 653 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 654 RQIEAKALRKLKHPSRSRKLRSFLD 678 >gi|255261823|ref|ZP_05341165.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp. R2A62] gi|255104158|gb|EET46832.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp. R2A62] Length = 658 Score = 685 bits (1767), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/690 (54%), Positives = 476/690 (68%), Gaps = 44/690 (6%) Query: 3 IGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 + K N D S++ D+D SL D S + KKMI AR+RGY+T ++LN LPP++VSSEQ Sbjct: 1 MAAKDNDDRKSDNSDADISL--DMSQAAVKKMIGEARERGYITYDQLNQVLPPEQVSSEQ 58 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +ED ++MLS MGIN+++ + ++E+ + D+ ++ N V + + TDDPVR Sbjct: 59 IEDVMSMLSEMGINIIEEETEDEEQ--KGGTDVTTTGGNREVAVSSGETEKLDRTDDPVR 116 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MYLREMGS+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL LLR Sbjct: 117 MYLREMGSVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWRDELLSEDILLR 176 Query: 183 EIIDLEACIGP-----ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVS 237 ++IDLE G E + T G + K+E++ QE + D AK Sbjct: 177 DVIDLETTFGDQMGEDEEEAPVVDTTAGAAAPKKEEA---------QELDADGNPIAKED 227 Query: 238 KDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSL 297 DD + + +L+AME L+P+V+ LD IA + +L + Sbjct: 228 DDDEDE--------------------QANMSLAAMEAALKPRVLETLDLIANDFAKLSEM 267 Query: 298 QDNAVNGQKDEKSSVKCKV------LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 QD ++ +E S K L+ ++V+LV S+ L+ +RI+ L++QLY I++RIM Sbjct: 268 QDARISATLNEDESFSDKAEKSYQKLRSEIVELVNSMHLHNNRIEALIDQLYGINRRIMS 327 Query: 352 NEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRN 411 + +++LA I R F++ ++G ELDP W+ + P W+ + I +R Sbjct: 328 IDSSMVKLADQARINRREFIDAYRGHELDPTWLEQMGEKPGRGWQALIEKSTGKIEDLRA 387 Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 ++ + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFL Sbjct: 388 DMAQVGQYIGLDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFL 447 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K Sbjct: 448 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 507 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 +VRT R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDF Sbjct: 508 LVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDF 567 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IEDKNAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF V Sbjct: 568 IEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSV 627 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 628 TRERIRQIEAKALRKLKHPSRSRKLRSFLD 657 >gi|126733203|ref|ZP_01748950.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2] gi|126716069|gb|EBA12933.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2] Length = 660 Score = 684 bits (1764), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/664 (54%), Positives = 466/664 (70%), Gaps = 29/664 (4%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 D S + KKMI AR+RGY+T ++LNA LPP++VSS+Q+ED ++MLS MGI V + ++ Sbjct: 19 LDMSQTAVKKMIADARERGYITYDQLNAVLPPEQVSSDQIEDVMSMLSEMGIQVTEEEES 78 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E+ E ++ + +A+ A + V L + TDDPVRMYLREMGS+ELLSREGEIAIA Sbjct: 79 EETEENQGNTAVATVAGSREVTLGGAEAEKLDRTDDPVRMYLREMGSVELLSREGEIAIA 138 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLE G + G Sbjct: 139 KRIEAGRNTMILGLCESPLTFQAITIWRDELLSEDILLRDVIDLETTFGNQLGE---DGE 195 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 E + E ++++ QE + D AK DD Sbjct: 196 EETVVAAPAAAGTETKKEETQELDADGNPIAKDDDDDEED-------------------- 235 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSV------KCKVL 317 + +L+AME L+P+V+ L+ IA + L +QD ++ +E SS K + L Sbjct: 236 QANMSLAAMEAALKPRVLETLELIARDFAALSDMQDARMSATLNEDSSFSDKQEKKYQKL 295 Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + ++V+LV SL L+ +RI+ L++QLY I++RIM + +++LA I R F+E ++GR Sbjct: 296 RSEIVELVNSLHLHNNRIEALIDQLYGINRRIMSIDSSMVKLADQARINRREFIEAYRGR 355 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 ELDP+W+ + W+ + I ++R ++ + G+ I+EFR IV V+KG Sbjct: 356 ELDPNWLDDMGEKSGRGWQMMIEKSTGKIEELRGDMAQVGQYVGVDITEFRRIVQQVQKG 415 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 416 EKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 475 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I REPTPEE+A+KL Sbjct: 476 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQ 535 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PLDSAIQ NL+ETTTRVL Sbjct: 536 MPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAIQENLKETTTRVL 595 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLR Sbjct: 596 ASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLR 655 Query: 678 SFLD 681 SFLD Sbjct: 656 SFLD 659 >gi|254441274|ref|ZP_05054767.1| Sigma-70 region 3 family [Octadecabacter antarcticus 307] gi|198251352|gb|EDY75667.1| Sigma-70 region 3 family [Octadecabacter antarcticus 307] Length = 655 Score = 683 bits (1763), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/691 (54%), Positives = 475/691 (68%), Gaps = 58/691 (8%) Query: 9 RDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVA 68 +D++ + +D+D SL D S + KKMI AR+RG +T ++LNA LPPD+VSS+Q+ED ++ Sbjct: 4 KDTNVQRDDADHSL--DMSQAAVKKMIAEARERGTITYDQLNAVLPPDQVSSDQIEDVMS 61 Query: 69 MLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 ML+ MGI V + ++ E+ + S +LA+ A V L + TDDPVRMYLREM Sbjct: 62 MLNEMGIQVTEEEESEEVDDDGTSKELATVAGGRDVVLGGAEAEKLDRTDDPVRMYLREM 121 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 GS+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLE Sbjct: 122 GSVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWRDELLSEDILLRDVIDLE 181 Query: 189 ACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 G + ++E E E + SA V + K D P Sbjct: 182 TTFG-------------------DQLAEETE-------ETAVVSAVSVGE----KSDEKP 211 Query: 249 ENAENDERNLDEDED------------DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 E LD D + + +L+AME QL+P+V+ L+ IA+ + +L Sbjct: 212 E--------LDADGNPIANDDDDDEEEAANLSLAAMEAQLKPQVLDTLEVIAKGFAKLSD 263 Query: 297 LQDNAVNGQKDEKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 +QD ++ +E S K + L+ ++V+LV SL L+ +RI+ L++QLY I++RIM Sbjct: 264 MQDLRMSATLNEDDSFSGKEEKKYQKLRSEIVQLVNSLHLHNNRIEALIDQLYGINRRIM 323 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 + +++LA I R F++ ++GRELDP W+ W+ + I ++R Sbjct: 324 QIDSNMVKLADQSRINRREFIDAYRGRELDPSWLDEMGQKAGRGWQMLIERSTTKIEELR 383 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 E+ + G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQF Sbjct: 384 AEMAQVGQYVGVDISEFRRIVQQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQF 443 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 444 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 503 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VRT R+M ++I REPTPEE+A KL MP+E VRKV+KI KEPISLETPIGDE+ S LGD Sbjct: 504 KLVRTGRQMLHEIGREPTPEELAAKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGD 563 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDKNAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 564 FIEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 623 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS++LRSFLD Sbjct: 624 VTRERIRQIEAKALRKLKHPSRSRRLRSFLD 654 >gi|114764808|ref|ZP_01443990.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114542694|gb|EAU45717.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 661 Score = 682 bits (1761), Expect = 0.0, Method: Compositional matrix adjust. Identities = 367/681 (53%), Positives = 479/681 (70%), Gaps = 35/681 (5%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 + D++ E DD+ D S + KKMI AR+RGY+T ++LN LPPD+VSS+Q+ED ++M Sbjct: 6 NDDAKPETQDDAHSLDMSQAAVKKMIAEARERGYITYDQLNQVLPPDQVSSDQIEDVMSM 65 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 LS MGI V + D+ +E+ ++ S +L ++ V L + TDDPVRMYLREMG Sbjct: 66 LSEMGIQVTEEDEEAEEDANKGSTELVDASKGRDVALSSGANEKLDRTDDPVRMYLREMG 125 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 S+ELLSREGEIAIAKRIEAGR M+ LCESPLTFQA+ IW EL + LLR++IDLE Sbjct: 126 SVELLSREGEIAIAKRIEAGRNTMILGLCESPLTFQAITIWHQELLEEEILLRDVIDLET 185 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE 249 G +Q E ++E D A + ++ K D P Sbjct: 186 TFG----------------------NQMDEEGGLEEPVVD----ATAATAEKPKKDEPEY 219 Query: 250 NAEND---ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 +A+ + + D+DE+ + +L+AME L+P+V+ L+ IA Y +L ++QD ++ Sbjct: 220 DADGNPIARDDDDDDEEQANMSLAAMEAALKPRVLETLERIAGDYEQLAAMQDARISATL 279 Query: 307 DEKSS------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 +E S + + L+ ++V+LV L L+ +RI+ L++QLY I++RIM + +++LA Sbjct: 280 NEDGSFSQADEAQYQQLRSEIVELVNGLHLHNNRIEALIDQLYGINRRIMSIDSSMVKLA 339 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 I R F++ ++G ELDP+W+ + P W+ + D I +R+++ + Sbjct: 340 DQARINRREFIDEYRGHELDPNWIERMSEKPGRGWQMLIERFEDKIEGLRSDMAQVGQYV 399 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ ISEFR IV V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 400 GLDISEFRRIVGQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 459 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 460 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQML 519 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ P Sbjct: 520 HEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILP 579 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE Sbjct: 580 LDSAIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIE 639 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKLKHPSRS+KLRSFLD Sbjct: 640 AKALRKLKHPSRSRKLRSFLD 660 >gi|146276891|ref|YP_001167050.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC 17025] gi|145555132|gb|ABP69745.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodobacter sphaeroides ATCC 17025] Length = 667 Score = 682 bits (1760), Expect = 0.0, Method: Compositional matrix adjust. Identities = 375/683 (54%), Positives = 477/683 (69%), Gaps = 37/683 (5%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + ED D D S + K+MI AR+RGY+T ++LN LP D+VSSEQ+ED +AMLS Sbjct: 8 DGKPEDQDAETSLDMSQAAVKRMIAEARERGYITYDQLNTVLPQDQVSSEQIEDVMAMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGINV++ ++ E+ E + + ++ S + +V + ++ DR TDDPVRMYLREMGS+ Sbjct: 68 EMGINVIENEEAEEGEPAGELVEQGSGSREIAV-AGTQGETLDR-TDDPVRMYLREMGSV 125 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 126 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEATF 185 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G + D + + +++E E + +AA R+ P +A Sbjct: 186 G-----------------RSLDGDDDLDGPEIEEVE--VTAAAPSPAPRRTNASEPELDA 226 Query: 252 END----ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ--------- 298 + + DED++ SA +L+AME L+P+V+ L+ IA Y L +Q Sbjct: 227 DGNPISRAEEEDEDDEASAMSLAAMEAALKPRVLETLELIARDYATLAEMQTKRMSATLN 286 Query: 299 DNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 DN +DE + K L+ ++V LV L L+ +RI+ L++QLY I+++IM +++ Sbjct: 287 DNIRFNPEDEAAYQK---LRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSINSAMVK 343 Query: 359 LAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 LA + I R F+E +QG ELDP W W+ + D + +R ++ + Sbjct: 344 LADAARINRREFIEEYQGYELDPTWAERMAQKSGRGWQTLMEKSRDKVEDLRGDMAQVGQ 403 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 404 YVGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 463 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+ Sbjct: 464 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQ 523 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ Sbjct: 524 MLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAI 583 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQ Sbjct: 584 LPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 643 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKLKHPSRS+KLRSFLD Sbjct: 644 IEAKALRKLKHPSRSRKLRSFLD 666 >gi|114771658|ref|ZP_01449062.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] gi|114547730|gb|EAU50620.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] Length = 656 Score = 682 bits (1759), Expect = 0.0, Method: Compositional matrix adjust. Identities = 367/664 (55%), Positives = 476/664 (71%), Gaps = 34/664 (5%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D S + KKMI +AR+RGY+T +ELN +PPD+V+SEQ+ED ++MLS MGIN+++ D++E Sbjct: 19 DMSQAAVKKMIAVARERGYITYDELNDVMPPDQVASEQIEDVMSMLSEMGINIIEADEVE 78 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DE G D +A+ A ++ K++ DR TDDPVRMYLREMGS+ELLSREGEIAIAK Sbjct: 79 DE-GPTDVTVVANDAKEVTLAATG-KETLDR-TDDPVRMYLREMGSVELLSREGEIAIAK 135 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIEAGR M+ LCESPLTFQA+ IWRDEL + LLR++IDLE F T Sbjct: 136 RIEAGRKTMIEGLCESPLTFQAITIWRDELLEEEILLRDVIDLETT---------FSDTL 186 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 DD G + A K S ++D+ +DE ++++D Sbjct: 187 D---------------DDEDPMVGPLTGAPKPSSSPAHELDADGNRLNDDEDEDEDEDDA 231 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE------KSSVKCKVLK 318 + +L+AME+ L+P V+ L +IA+ Y +L S+QD ++ +E KS + L+ Sbjct: 232 ANISLAAMEETLKPDVLATLAKIAKDYNKLASMQDERISATINEDDTFSDKSEKSYQKLR 291 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRE 378 LV+ V +L + +RID L++QLY I+++IM + ++++A I R F+++++G+E Sbjct: 292 NSLVEQVNALHFHNNRIDALIDQLYGINRKIMSIDSGMVKIADQSRINRREFVDKYRGQE 351 Query: 379 LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 LDP W+ + +G WK F+ + ++R ++ + G+ I EFR IV+ V+KG Sbjct: 352 LDPMWLDKIAENEDGRGWKTFIEKHREKAEELRADMAQVGHYVGVDIPEFRRIVNQVQKG 411 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 412 EKEARSAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 471 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I REPTPEE+A KL Sbjct: 472 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELASKLQ 531 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP++ VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PL+SAIQ NL+ETTTRVL Sbjct: 532 MPLDKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLESAIQGNLKETTTRVL 591 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLR Sbjct: 592 ASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLR 651 Query: 678 SFLD 681 SFLD Sbjct: 652 SFLD 655 >gi|148553355|ref|YP_001260937.1| RNA polymerase sigma factor RpoD [Sphingomonas wittichii RW1] gi|148498545|gb|ABQ66799.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingomonas wittichii RW1] Length = 674 Score = 681 bits (1757), Expect = 0.0, Method: Compositional matrix adjust. Identities = 359/673 (53%), Positives = 487/673 (72%), Gaps = 26/673 (3%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D+ + D ++ S KK+I A+++GY+T E+LN LP D+++S+Q+ED ++ L+ MG+N+V+ Sbjct: 16 DAPLIDLNEGSLKKLIARAKRKGYITYEQLNEALPQDQMTSDQLEDVMSALNEMGVNIVE 75 Query: 80 GDDL-EDEEGSEDSLDLASSA----SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 +D EDE+ ED +D + + + ++ +K++ DR TDDPVRMYLREMG++ELL Sbjct: 76 NEDAGEDEQPEEDGIDEVAGSEEGDTGPALTTTAKKETVDR-TDDPVRMYLREMGAVELL 134 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE 194 SREGEIAIAKRIEAGR M+ LCESP+TF A+I W + LN+GT LREI+DL+A + Sbjct: 135 SREGEIAIAKRIEAGRDTMILGLCESPITFNAIIEWSNALNEGTMQLREILDLDAML--- 191 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN- 253 SKG E ED+ E ET G + +++ S + E Sbjct: 192 SKGPTAEQVEN------EDADAEIS----AETAGPTFKEEEEPEEEASADEDEDSMTERR 241 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSS 311 R ++D++D+ +L+ ME+QL+P + I ++Y+ +Q V G D+ + Sbjct: 242 APRPQEDDDEDNTLSLAQMEEQLKPMALERFAAITDLYKTFSQVQSARVAALGVGDDFPA 301 Query: 312 V---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 + + L+E+L V S+ + ++I+ LV+QLY ++R+ G++LRLA+ + + R Sbjct: 302 AEEERYQGLREQLTAEVESVQFHGAKIEYLVDQLYSFNRRLTTLGGQMLRLAERHKVPRR 361 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FLE + E++ W+ + +W NF A E D++ +IRNEI I+ TG+++SEFR Sbjct: 362 DFLEAYVNHEMEDGWLDRVGRI-DKKWANFAANEADAVDRIRNEIGEIAQATGMALSEFR 420 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 421 RIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 480 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I REPT Sbjct: 481 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPT 540 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ+N Sbjct: 541 PEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSN 600 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLK Sbjct: 601 LKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660 Query: 669 HPSRSKKLRSFLD 681 HPSRS+K+RSFLD Sbjct: 661 HPSRSRKMRSFLD 673 >gi|144900406|emb|CAM77270.1| RNA polymerase sigma factor rpod [Magnetospirillum gryphiswaldense MSR-1] Length = 664 Score = 680 bits (1755), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/673 (56%), Positives = 473/673 (70%), Gaps = 30/673 (4%) Query: 15 HEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMG 74 E++ D + D + KKM+ R+RGYVT +ELNA LPPDEVSSEQ+EDT+AMLS MG Sbjct: 15 QEENLDGPLLDALGVAVKKMVTRGRERGYVTYDELNAALPPDEVSSEQIEDTMAMLSEMG 74 Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIEL 133 INVV+ ++ ++ E + A +S + D D TDDPVRMYLREMGS+EL Sbjct: 75 INVVESEETDEAAAVETEEEEAEPSSGAGNV-----DEEDLGRTDDPVRMYLREMGSVEL 129 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGP 193 LSREGEIAIAKRIEAGR MM+ +CESPLT +A+I W D L +G LLR+IIDL+A G Sbjct: 130 LSREGEIAIAKRIEAGREMMIGGICESPLTIRAIIEWHDALQNGRMLLRDIIDLDATYGS 189 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 G E S +E E +E + + + R P Sbjct: 190 GPGG--------------ELSEEEMEAGPAEEEPAAAPAEGEEGAEPR----DPNAPEGE 231 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN--AVNGQKDEKSS 311 E D + +D++ +L+AME QL P+V+ + IA + + LQ + A + D S+ Sbjct: 232 VEGEGDGEGEDNSISLAAMEAQLMPQVLETFEAIAANFLRMEKLQKDRMAALSKGDTVSA 291 Query: 312 V---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 K LK ++V+L+ + LN +RI+ LV+ + ++KR+M EG LLRLA+S +KR Sbjct: 292 ATEKKYDKLKAEMVRLMEDVHLNNARIEQLVDHMNGLNKRLMGFEGRLLRLAESCKVKRQ 351 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FL+ + G ELDP+W+ WK+F + IR +I +S E G+ I+EFR Sbjct: 352 DFLDSYFGSELDPNWLETVA-VKSKHWKDFSEKHRRDVGDIRTQIGVVSGEAGLPITEFR 410 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 I+ V++GE EAS AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 411 RIIQTVQRGEREASKAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 470 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPT Sbjct: 471 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPT 530 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A+KL+MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV PLD+AIQAN Sbjct: 531 PEELAEKLSMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPLDAAIQAN 590 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLK Sbjct: 591 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 650 Query: 669 HPSRSKKLRSFLD 681 HPSRS+KLRSFLD Sbjct: 651 HPSRSRKLRSFLD 663 >gi|84502758|ref|ZP_01000877.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84389153|gb|EAQ01951.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 663 Score = 680 bits (1754), Expect = 0.0, Method: Compositional matrix adjust. Identities = 368/682 (53%), Positives = 474/682 (69%), Gaps = 30/682 (4%) Query: 7 RNRDSDSEHEDSDDSLV-FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMED 65 ++ D D +D + V D S KKMI AR+RG++T ++LN LP D+VSSEQ+ED Sbjct: 4 KDTDEDQRQDDEQEQDVSLDLSQAQIKKMIAEARERGFITYDQLNQVLPQDQVSSEQIED 63 Query: 66 TVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 ++MLS MGIN+++ ++ E+EE S + + SN V L TDDPVRMYL Sbjct: 64 VMSMLSEMGINIIEDEEAEEEESK--STAVVETTSNREVALGSGSQEKLDRTDDPVRMYL 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++I Sbjct: 122 REMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVI 181 Query: 186 DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVD 245 DLE G + G E ++ QE + + ++ D + + Sbjct: 182 DLETTFGDQ-----MEGDEDAPVVDPAQAAPAAPAAKPQEEQPEYDA-------DGNPIA 229 Query: 246 SPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ 305 + E+++ N+ +L+AME L+P+V+ LD IA + L +QDN ++ Sbjct: 230 KDEDEDEDEQANM---------SLAAMETALKPRVLETLDTIARDFAVLSEIQDNRISAT 280 Query: 306 KDEKSSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 +E S + L+ ++V+LV L L+ +RI+ L++QLY I++RIM + +++L Sbjct: 281 LNEDDSFNASDEAEYQKLRAEIVELVNGLHLHNNRIEALIDQLYGINRRIMQIDSAMVKL 340 Query: 360 AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 A I R F+E ++G ELDP+W+ + W+ F+ D + +R+++ + Sbjct: 341 ADQARINRREFIEEYRGHELDPNWMERMSEKSGRGWQMFIDRFSDKVEDLRSDMAQVGQY 400 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 401 VGLDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 460 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 461 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQM 520 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ Sbjct: 521 LHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAIL 580 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQI Sbjct: 581 PLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 640 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKLKHPSRS+KLRSFLD Sbjct: 641 EAKALRKLKHPSRSRKLRSFLD 662 >gi|103486468|ref|YP_616029.1| RNA polymerase sigma factor RpoD [Sphingopyxis alaskensis RB2256] gi|98976545|gb|ABF52696.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingopyxis alaskensis RB2256] Length = 669 Score = 678 bits (1749), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/680 (52%), Positives = 486/680 (71%), Gaps = 25/680 (3%) Query: 13 SEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN 72 +++E D+ + D ++ KK+I ++RGY+T +ELNA LP DE+SSEQ+ED ++ +S+ Sbjct: 3 TKNEADTDAPLIDLNEADVKKLIARGKKRGYLTYDELNAALPQDEMSSEQIEDIMSAISD 62 Query: 73 MGINVVDGDDLEDEEGSE---DSLDL-ASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 MGIN+V+ D+ EE + D +D+ A + S S+ ++K+K++ DR TDDPVRMYLREM Sbjct: 63 MGINIVESDEDVQEEAEQEVDDEVDVSAGTGSVSNPAIEKKKETVDR-TDDPVRMYLREM 121 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 G++ELLSREGEIAIAKRIEAGR M+ LCESPLTF A+I W + LN+G LREI+DLE Sbjct: 122 GAVELLSREGEIAIAKRIEAGRDTMILGLCESPLTFNAIIEWSNALNNGDMQLREIVDLE 181 Query: 189 ACIG--PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDS 246 A + P + G E ++ K+ D+V+E E AA +D Sbjct: 182 AMLSKDPAPENLDEEGAEDGEISEKTAGVSFKDEDEVEE-----EPAADGDDED------ 230 Query: 247 PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-- 304 E + D+D++D+ +L+AME+ L+P + I + ++ + LQ+ + Sbjct: 231 -GEGTSGKRESFDDDDEDNTLSLAAMEELLKPDALEKFANITKSFKAFQKLQEARLEALS 289 Query: 305 ---QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ 361 + S K L+E+L V S+ + ++I+ LV+QLY ++R+ G++LRLA+ Sbjct: 290 SGEEFPAASEKKYHKLREELTAQVESVQFHGTKIEYLVDQLYSYNRRLTALGGQMLRLAE 349 Query: 362 SYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 + + R FL+ + GREL+ +W+ + +W F E ++ +IR EI I+ G Sbjct: 350 RHKVPRKSFLDHYVGRELEENWLEEVAGI-DKKWAAFAENEAAAVDRIRVEISEIAQAAG 408 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S++EFR +V+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 409 MSLTEFRRVVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 468 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR +R+ + Sbjct: 469 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLH 528 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNAV P+ Sbjct: 529 ESGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVIPV 588 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+A+Q+NL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEA Sbjct: 589 DAAVQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 648 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+K+RSFLD Sbjct: 649 KALRKLKHPSRSRKMRSFLD 668 >gi|254452739|ref|ZP_05066176.1| RNA polymerase sigma-70 factor RpoD [Octadecabacter antarcticus 238] gi|198267145|gb|EDY91415.1| RNA polymerase sigma-70 factor RpoD [Octadecabacter antarcticus 238] Length = 637 Score = 678 bits (1749), Expect = 0.0, Method: Compositional matrix adjust. Identities = 366/664 (55%), Positives = 465/664 (70%), Gaps = 36/664 (5%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED 85 S + KKMI AR+RG +T ++LNA LPPD+VSS+Q+ED ++ML+ MGI V + ++ E+ Sbjct: 1 MSQAAVKKMIAEARERGTITYDQLNAVLPPDQVSSDQIEDVMSMLNEMGIQVTEEEESEE 60 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 + S +LA+ A V L + TDDPVRMYLREMGS+ELLSREGEIAIAKR Sbjct: 61 VDDDGTSKELATVAGRRDVILGGAEAEKLDRTDDPVRMYLREMGSVELLSREGEIAIAKR 120 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEG 205 IEAGR M+ LCESPLTFQA+ IWRDEL LLR++IDLE G Sbjct: 121 IEAGRNTMILGLCESPLTFQAITIWRDELLSEDILLRDVIDLETTFG------------- 167 Query: 206 HSYQKREDSSQEKERDDVQETEGD--IESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 D + E G+ + SAA ++ K D + + + D++E+ Sbjct: 168 ---------------DQLAEETGESAVVSAAPSAEKSEEKQDLDADGKPIAKDDDDDEEE 212 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSV------KCKVL 317 + +L+AME QL+P+V+ L+ IA+ + +L +QD+ ++ +E S K + L Sbjct: 213 AANLSLAAMEAQLKPQVLDTLEVIAKGFAKLSDMQDSRMSATLNEDDSFSGKEEKKYQKL 272 Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + ++V LV SL L+ +RID L++QLY I++RIM + +++LA I R F++ ++GR Sbjct: 273 RSEVVALVVSLHLHNNRIDALIDQLYGINRRIMQIDSNMVKLADQSRINRREFVDAYRGR 332 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 ELDP W+ W+ + I ++R E+ + G+ ISEFR IV V+KG Sbjct: 333 ELDPTWLEEMGQKAGRGWQMLIERSTTKIEELRAEMAQVGQYVGVDISEFRRIVQQVQKG 392 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 393 EKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 452 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I REPTPEE+A KL Sbjct: 453 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAAKLQ 512 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDSAIQ NL+ETTTRVL Sbjct: 513 MPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVL 572 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS++LR Sbjct: 573 ASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRRLR 632 Query: 678 SFLD 681 SFLD Sbjct: 633 SFLD 636 >gi|288957899|ref|YP_003448240.1| RNA polymerase primary sigma factor [Azospirillum sp. B510] gi|288910207|dbj|BAI71696.1| RNA polymerase primary sigma factor [Azospirillum sp. B510] Length = 670 Score = 676 bits (1744), Expect = 0.0, Method: Compositional matrix adjust. Identities = 372/671 (55%), Positives = 467/671 (69%), Gaps = 22/671 (3%) Query: 16 EDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 E+S D + D + KKMI ++RGYVT +ELNA LP D SSEQ+EDT+AMLS MGI Sbjct: 16 EESADGPLMDGMGLAVKKMIARGKERGYVTYDELNAALPQDSSSSEQIEDTMAMLSEMGI 75 Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 N+V+ ++ + E E + D +S + D TDDPVRMYLREMGS+ELLS Sbjct: 76 NIVESEEQDSENSGEGASDGEGRSSGNL------DDDDIGRTDDPVRMYLREMGSVELLS 129 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 REGEIAIAKRIEAGR MM+ ++CESPLT +A++ W D L +G LLR+IIDL+A G Sbjct: 130 REGEIAIAKRIEAGREMMIGAICESPLTIRAILEWHDSLMEGKMLLRDIIDLDATYG--- 186 Query: 196 KGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDE 255 G +G + E A + D + PP E Sbjct: 187 -----GGPDGEEMPEGLAEVVEAAGAAGPAGAAPAADAPADEEGDEPR---PPRAEGEGE 238 Query: 256 RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-QKDE----KS 310 + +E ++A +LSAME L+P+V+ + I Y +L L ++ + Q+ E ++ Sbjct: 239 EGEEGEEGENALSLSAMEAALKPQVIETFENIKATYDKLHKLHESRMAAMQRGEDLGKQT 298 Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF 370 K LK ++V+L+ ++ LN RI+ LVEQLY +++++ EG LLR+A +KR+ F Sbjct: 299 DRKYDKLKTEMVELMNTVRLNNQRIEQLVEQLYGLNRKLTGFEGRLLRMATECRVKREDF 358 Query: 371 LERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHI 430 L ++ G ELDP+W+ + W F I K R I +++ E + I+EFR I Sbjct: 359 LNQYFGHELDPNWLERIRGLNPKTWGKFAEKYDGDIRKTREAISNVAEEARLPINEFRRI 418 Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 VS V+KGE EAS AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 419 VSTVQKGEKEASRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 478 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPE Sbjct: 479 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPE 538 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A++L MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV PLD+AIQANLR Sbjct: 539 ELAERLMMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPLDAAIQANLR 598 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHP Sbjct: 599 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHP 658 Query: 671 SRSKKLRSFLD 681 SRS+KLRSFLD Sbjct: 659 SRSRKLRSFLD 669 >gi|294678570|ref|YP_003579185.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003] gi|1173126|sp|P46400|RPOD_RHOCA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|881516|gb|AAA70413.1| RpoD [Rhodobacter capsulatus SB 1003] gi|294477390|gb|ADE86778.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003] Length = 674 Score = 676 bits (1743), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/678 (55%), Positives = 473/678 (69%), Gaps = 33/678 (4%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 +D+ FD S + K+MI A++RGY+TI++LNA +PP+ VS EQ+ED ++MLS MGINV Sbjct: 15 ADEDASFDMSQAAVKRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINV 74 Query: 78 VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 V+ E EE + S S ++ DR TDDPVRMYLREMGS+ELLSRE Sbjct: 75 VE--GEEVEESEGGEVVETGSGSREIAVAGAAGETLDR-TDDPVRMYLREMGSVELLSRE 131 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 GEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA G G Sbjct: 132 GEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDG 191 Query: 198 --GF--FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 G G EG E D++ EG +A + + D+ P +A+ Sbjct: 192 DEGMEGMEGIEGPVV----------EGLDLETAEGAAPAARRPASDE------PEYDADG 235 Query: 254 DE----RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK 309 + ++D+D S +L+AME L+PKV+ L+ IA Y +L +QD ++ +E Sbjct: 236 NPISRIDEEEDDDDSSNMSLAAMEAALKPKVLETLELIARDYAKLAEMQDLRMSATLNED 295 Query: 310 SSVKC------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 + + L+ ++V LV L L+ +RI+ L++QLY I+++IM + +++LA + Sbjct: 296 GTFSVAEEAAYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSIDSGMVKLADAA 355 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 I R F++ ++G ELDP W+ P W D + +R+E+ + G+ Sbjct: 356 RINRREFIDEYRGYELDPTWMDRMSAKPARAWVTLFEKSRDKVEDLRHEMAQVGQYVGVD 415 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 416 ISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 475 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 476 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEI 535 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PLDS Sbjct: 536 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDS 595 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 596 AIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 655 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+KLRSFLD Sbjct: 656 LRKLKHPSRSRKLRSFLD 673 >gi|332185826|ref|ZP_08387573.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. S17] gi|332014184|gb|EGI56242.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. S17] Length = 671 Score = 675 bits (1742), Expect = 0.0, Method: Compositional matrix adjust. Identities = 358/678 (52%), Positives = 481/678 (70%), Gaps = 42/678 (6%) Query: 23 VFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 + D ++ S KK+I A++RGY+T ++LN LP D++SS+Q+ED +A L+ MG+N+V+ ++ Sbjct: 16 LIDLNEASIKKLIARAKKRGYITYDQLNEALPQDQMSSDQLEDIMAALNEMGVNIVENEE 75 Query: 83 LEDEEGSED-------SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 ++ E+ S+D S + K+K++ DR TDDPVRMYLREMG++ELLS Sbjct: 76 QGEDGEGEEEADDAADSVDGDSDSGPQPE--AKKKETVDR-TDDPVRMYLREMGAVELLS 132 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI---- 191 REGEIAIAKRIEAGR M+ LCESP+TF A+I W LN+GT LREI+DL+A + Sbjct: 133 REGEIAIAKRIEAGRDTMILGLCESPITFNAIIDWSTALNEGTMQLREILDLDAMLSKDA 192 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 GPE+ G E E DD E +++ + E+ Sbjct: 193 GPENLG-------------------EDEDDDNGEISAKNAGPQFKEEEEPEEPSVDDEDG 233 Query: 252 ENDERN---LDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-----AVN 303 E ER +++E+D+ +L+ ME+ L+P+ + I +Y++ +Q A+ Sbjct: 234 EGGERRGPRAEDEEEDNTLSLAQMEETLKPQALEKFANITSIYKKFSKIQQQRLESMALG 293 Query: 304 GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 G+ K L+E+L V S+ + ++I+ LV+QLY ++R+ G++LRLA+ + Sbjct: 294 GELSAADERKYHKLREELTAEVESVQFHNAKIEFLVDQLYAFNRRLTALGGQMLRLAERH 353 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + R FL+R+ G ELD +W+ + + +W NF + E ++ +IR+EI IS +TG++ Sbjct: 354 KVNRKDFLDRYLGHELDENWLDTVRGL-DKKWGNFASNEAATVDRIRSEIAEISQQTGMA 412 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ++EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 413 LTEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 472 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ ++ Sbjct: 473 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQ 532 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+ Sbjct: 533 GREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVIPVDA 592 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 593 AIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 652 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKLKHPSRS+K+RSFLD Sbjct: 653 LRKLKHPSRSRKMRSFLD 670 >gi|260425299|ref|ZP_05779279.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45] gi|260423239|gb|EEX16489.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45] Length = 665 Score = 675 bits (1742), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/686 (53%), Positives = 480/686 (69%), Gaps = 38/686 (5%) Query: 9 RDSDSEHEDS-DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTV 67 +D+D DS DD D S + KKMI AR+RGY+T ++LN LPPD+VSS+Q+ED + Sbjct: 4 KDNDDAKPDSQDDGHSLDMSQAAVKKMIAEARERGYITYDQLNQVLPPDQVSSDQIEDVM 63 Query: 68 AMLSNMGINVVDGDDLEDEEG---SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 +MLS MGI V + D+ + + ++ S +L ++ V L ++ TDDPVRMY Sbjct: 64 SMLSEMGIQVTEDDEEGESDDDKDNKGSTELVDASRGRDVALSSGQNEKLDRTDDPVRMY 123 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 LREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IW EL + LLR++ Sbjct: 124 LREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWHQELLEEEILLRDV 183 Query: 185 IDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 IDLE G + D+ + EG + S ++ + Sbjct: 184 IDLETTFG-------------------------NQMDEEGDLEGTVVDTGSGSVSEKPRR 218 Query: 245 DSPPENAEND--ERNLDEDEDDSAH-TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNA 301 D P +A+ + R DED+D+ A+ +L+AME L+P+V+ L+ I+ Y EL +QD Sbjct: 219 DEPELDADGNPIAREDDEDDDEQANMSLAAMETALKPRVLETLERISRDYEELAEMQDAR 278 Query: 302 VNGQKDEKSSVK------CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 ++ +E S + L+ ++V+LV L L+ +RI+ L++QLY I++RIM + Sbjct: 279 ISATLNEDGSFSQSDEALYQKLRSEIVELVNGLHLHNNRIEALIDQLYGINRRIMSIDSS 338 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +++LA I R F++ ++G ELDP+W+ + W+ F+ D + ++R ++ Sbjct: 339 MVKLADQARINRREFVDEYRGNELDPNWMERMNEKSGRGWQMFIERFSDKVEELRADMAQ 398 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 399 VGQYVGLDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 458 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 459 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 518 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDK Sbjct: 519 GRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDK 578 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NA+ PLDSAIQ NL+ETTTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 579 NAILPLDSAIQENLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 638 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 639 IRQIEAKALRKLKHPSRSRKLRSFLD 664 >gi|77463967|ref|YP_353471.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1] gi|126462810|ref|YP_001043924.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC 17029] gi|77388385|gb|ABA79570.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1] gi|126104474|gb|ABN77152.1| RNA polymerase, sigma 70 subunit, RpoD family [Rhodobacter sphaeroides ATCC 17029] Length = 668 Score = 675 bits (1741), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/681 (54%), Positives = 475/681 (69%), Gaps = 32/681 (4%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + ED D D S + K+MI AR+RGY+T ++LN LP D+VSSEQ+ED +AMLS Sbjct: 8 DGKPEDQDAETSLDMSQAAVKRMIAEARERGYITYDQLNTVLPQDQVSSEQIEDVMAMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGINV++ ++ E+ E + + ++ S + +V + ++ DR TDDPVRMYLREMGS+ Sbjct: 68 EMGINVIENEEAEEGEPAGELVEQGSGSREIAV-AGTQGETLDR-TDDPVRMYLREMGSV 125 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 126 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEA-- 183 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPE-- 249 T G S D + D ++E AA + R S PE Sbjct: 184 -----------TFGRSLDGDGDDEIDGPEID------EVEVAAAPAPAPRRSTSSEPELD 226 Query: 250 ---NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 N + DED++ SA +L+AME L+P+V+ L+ IA Y +L +Q+ ++ Sbjct: 227 ADGNPISRAEEEDEDDEASAMSLAAMEAALKPRVLETLELIARDYGKLAEMQNRRMSATL 286 Query: 307 DE------KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 ++ + + L+ ++V LV L L+ +RI+ L++QLY I+++IM +++LA Sbjct: 287 NDHIRFTTEDEAAYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSINSAMVKLA 346 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 + I R F++ +QG ELDP W W+ + D + +R E+ + Sbjct: 347 DAARINRREFIDEYQGYELDPMWAERMAAKSGRGWQTLMEKSRDRVEDLRGEMAQVGQYV 406 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ ISEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 407 GVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 466 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M Sbjct: 467 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQML 526 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ P Sbjct: 527 HEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILP 586 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE Sbjct: 587 LDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIE 646 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKLKHPSRS+KLRSFLD Sbjct: 647 AKALRKLKHPSRSRKLRSFLD 667 >gi|89055941|ref|YP_511392.1| RNA polymerase sigma factor RpoD [Jannaschia sp. CCS1] gi|88865490|gb|ABD56367.1| RNA polymerase, sigma 70 subunit, RpoD [Jannaschia sp. CCS1] Length = 668 Score = 672 bits (1734), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/686 (53%), Positives = 471/686 (68%), Gaps = 34/686 (4%) Query: 9 RDSDSEHEDSDDS-LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTV 67 +D+D +D D++ + D S + KKMI AR RGY+T ++LN LPP++VSSEQ+ED + Sbjct: 3 KDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIEDVM 62 Query: 68 AMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 +MLS MGIN+++ D+ E+ + + + S + DR TDDPVRMYLRE Sbjct: 63 SMLSEMGINIIEDDEAEEGDDKPAGELVTTEGSREVAVAATETEKLDR-TDDPVRMYLRE 121 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL + LLR++IDL Sbjct: 122 MGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLEEDILLRDVIDL 181 Query: 188 EAC----IGPESKGGFFHGTEGHSYQKREDSSQEKERDDV--QETEGDIESAAKVSKDDR 241 + +G E+ G + + + + + QE + D AK +D Sbjct: 182 DTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDEDE 241 Query: 242 SKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNA 301 + + +L+AME L+P+V+ LD+IA Y L +QD+ Sbjct: 242 DE--------------------QANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSR 281 Query: 302 VNGQKDEKSS------VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 ++ +E S + + L+ ++V+LV L L+ +RI+ LV+QLY I++RIM + Sbjct: 282 ISATLNEDDSFSKAEEAEYQHLRSEIVELVNELHLHNNRIEALVDQLYGINRRIMSIDSS 341 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +++LA I R F+E ++ +ELDP W+ W+ + I ++R ++ Sbjct: 342 MVKLADQARINRREFIEEYRNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMAQ 401 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + G+ I EFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 402 VGQYVGLDIPEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 461 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 462 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 521 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+M ++I REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDK Sbjct: 522 GRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDK 581 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NAV PLDSAIQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 582 NAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 641 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 642 IRQIEAKALRKLKHPSRSRKLRSFLD 667 >gi|326387391|ref|ZP_08209000.1| RNA polymerase sigma factor RpoD [Novosphingobium nitrogenifigens DSM 19370] gi|326208047|gb|EGD58855.1| RNA polymerase sigma factor RpoD [Novosphingobium nitrogenifigens DSM 19370] Length = 667 Score = 672 bits (1733), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/676 (53%), Positives = 485/676 (71%), Gaps = 28/676 (4%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 DS D+ + D +D S KK+I A++RG +T +ELN LP D++SSEQ+ED +A +S MG+N Sbjct: 8 DSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAAISEMGVN 67 Query: 77 VVDGDD--LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 +V+ D+ ++ EE + + + + ++KRK++ +R TDDPVRMYLREMG++ELL Sbjct: 68 IVESDEDAVDPEERDVEETEDTDTGMDDRPVVEKRKETIER-TDDPVRMYLREMGAVELL 126 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE 194 SREGEIAIAKRIEAGR M+ LCESP+TF A+I W + LN G LREI+DL+A + E Sbjct: 127 SREGEIAIAKRIEAGRDTMIMGLCESPITFHAIIQWSEALNAGEMQLREILDLDAMLSKE 186 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERD-DVQE-TEG-DIESAAKVSKDDRSKVDSPPENA 251 + E+ S++ E D ++ E T G + + ++ + + Sbjct: 187 PQP--------------ENLSEDGEGDGEISEATAGPTFKEEEDIEEEASEEDEDDELRE 232 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD---NAVNGQKD- 307 R +EDE+D+ +L+ ME L+P+ + EI +R +Q +A+ D Sbjct: 233 RRTPRPAEEDEEDNTLSLAQMEAALKPQALEKFAEITASFRAFERVQAERLDAIGLGIDF 292 Query: 308 --EKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 +K ++ K L+E+L V S+ + ++I+ LV+ LY ++R+ G++LRLA+ + + Sbjct: 293 PADKEALYHK-LREELTAHVESVQFHATKIEYLVDNLYTFNRRLTTLGGQMLRLAERHKV 351 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 R FL+ + GRELD +W+ + + W F A E D++ +IR+EI I+ TG+S+S Sbjct: 352 SRKDFLDGYLGRELDENWLQ-SMSGKDKRWGAFAANEADAVERIRSEISDIASATGMSLS 410 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 411 EFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 470 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ ++ R Sbjct: 471 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGR 530 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 531 EPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAI 590 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q+NL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 591 QSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 650 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+K+RSFLD Sbjct: 651 KLKHPSRSRKMRSFLD 666 >gi|221639823|ref|YP_002526085.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides KD131] gi|332558839|ref|ZP_08413161.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N] gi|221160604|gb|ACM01584.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131] gi|332276551|gb|EGJ21866.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N] Length = 668 Score = 671 bits (1732), Expect = 0.0, Method: Compositional matrix adjust. Identities = 371/676 (54%), Positives = 473/676 (69%), Gaps = 22/676 (3%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + ED D D S + K+MI AR+RGY+T ++LN LP D+VSSEQ+ED +AMLS Sbjct: 8 DGKPEDQDAETSLDMSQAAVKRMIAEARERGYITYDQLNTVLPQDQVSSEQIEDVMAMLS 67 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGINV++ ++ E+ E + + ++ S + +V + ++ DR TDDPVRMYLREMGS+ Sbjct: 68 EMGINVIENEEAEEGEPAGELVEQGSGSREIAV-AGTQGETLDR-TDDPVRMYLREMGSV 125 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 126 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEA-- 183 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 T G S D + D E A + S ++D+ N Sbjct: 184 -----------TFGRSLDGDGDDEIDGPEIDEVEVAAAPAPAPRRSASSEPELDADG-NP 231 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE--- 308 + DED++ SA +L+AME L+P+V+ L+ IA Y +L +Q+ ++ ++ Sbjct: 232 ISRAEEEDEDDEASAMSLAAMEAALKPRVLETLELIARDYGKLAEMQNRRMSATLNDHIR 291 Query: 309 ---KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 + + L+ ++V LV L L+ +RI+ L++QLY I+++IM +++LA + I Sbjct: 292 FTTEDEAAYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSINSAMVKLADAARI 351 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 R F++ +QG ELDP W W+ + D + +R E+ + G+ IS Sbjct: 352 NRREFIDEYQGYELDPMWAERMAAKSGRGWQTLMEKSRDRVEDLRGEMAQVGQYVGVDIS 411 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 412 EFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 471 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I R Sbjct: 472 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGR 531 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PLDSAI Sbjct: 532 EPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAI 591 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 592 QENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 651 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 652 KLKHPSRSRKLRSFLD 667 >gi|329114160|ref|ZP_08242922.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001] gi|326696236|gb|EGE47915.1| RNA polymerase sigma factor RpoD [Acetobacter pomorum DM001] Length = 672 Score = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/688 (52%), Positives = 473/688 (68%), Gaps = 51/688 (7%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +++ E D+ + D + KK+I R+RG +T +ELNA LP D++SSEQ+ED +A+L Sbjct: 17 TNAAQEQDGDTTLLDTRSSAVKKLIAKGRERGCITFDELNAVLPQDKMSSEQIEDIMAVL 76 Query: 71 SNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQK-----------RKDSADRSTDD 119 S MGI VV+ +D ++EE S +++ + +S R TDD Sbjct: 77 SEMGIQVVENEDNDNEEAEPKKAAAESEDADAEEEAETEAEAESPTGNVNAESVGR-TDD 135 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+I W + + + Sbjct: 136 PVRMYLREMGTVELLSREGEIAIAKRIEAGRDEMIGGLCESPLTFRAIISWHEMIRNNEM 195 Query: 180 LLREIIDLEACIGPESKGGFF-HGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSK 238 LLR+I+DLEA +S G G +G + DS E+ + E EGDIES Sbjct: 196 LLRDIVDLEAM---QSGGNPLEEGGDGTFNEAESDSDSEEAEEPETEGEGDIES------ 246 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 + S +LSA+E++L+P+++ DEI +Y LR LQ Sbjct: 247 ------------------------EGSGLSLSALEEKLKPEILAHFDEIEPLYAALRKLQ 282 Query: 299 DN---AVNGQKDEKSSVK--CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 A+ +D + + L+EKLV V + L+ +RI+ LV QL + +++ E Sbjct: 283 VQRIEALTSGEDVDGNFEENYVALREKLVGKVEQVHLHNNRIEDLVAQLKQMFQKLNMLE 342 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI 413 G +LRLA+S + R+ FL +++GRELDP W+ WKNFVA ++++ +R+++ Sbjct: 343 GRMLRLAESCRVSREDFLLKYRGRELDPGWMDMVSALSGRSWKNFVAKHANTVVDLRDQV 402 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 ++ ETG+ I EFR + + V +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDL Sbjct: 403 AQLAQETGLPIGEFRRVYATVARGERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDL 462 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+V Sbjct: 463 IQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLV 522 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 RT+R+M ++I REP PEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIE Sbjct: 523 RTSRQMLHEIGREPAPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIE 582 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 DK A+ PLD+AIQ NLRE TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTR Sbjct: 583 DKTAIIPLDAAIQTNLREATTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTR 642 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 643 ERIRQIEAKALRKLKHPSRSRKLRSFLD 670 >gi|87200249|ref|YP_497506.1| RNA polymerase sigma factor RpoD [Novosphingobium aromaticivorans DSM 12444] gi|87135930|gb|ABD26672.1| RNA polymerase, sigma 70 subunit, RpoD [Novosphingobium aromaticivorans DSM 12444] Length = 667 Score = 668 bits (1724), Expect = 0.0, Method: Compositional matrix adjust. Identities = 363/675 (53%), Positives = 479/675 (70%), Gaps = 26/675 (3%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 DS D+ + D +D S KK+I A++RG +T +ELN LP D++SSEQ+ED +A +S MG+N Sbjct: 8 DSGDAPLIDLNDASIKKLIARAKRRGIITYDELNEALPQDQMSSEQIEDIMAAISEMGVN 67 Query: 77 VVDGDDLE---DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 +V+ D+ +E +D LD A + + + KRK++ +R TDDPVRMYLREMG++EL Sbjct: 68 IVESDEDAVDPEERAQDDELDEAETVEDRPDVI-KRKETVER-TDDPVRMYLREMGAVEL 125 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGP 193 LSREGEIAIAKRIEAGR M+ LCESP+TF A+I W + LN G LREI+DL+A + Sbjct: 126 LSREGEIAIAKRIEAGRDTMIMGLCESPITFHAIIQWSEALNAGEMQLREILDLDAMLSK 185 Query: 194 ESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEN 253 E + + + +E E + + T G + +++ + D E E Sbjct: 186 EPQP-----------ENLSEDGEEAEPEISEATAGPTFKEEEDIEEEETADDEDDELRER 234 Query: 254 DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD---NAVNGQKDEKS 310 R +E+E+D+ +L+ ME QL+P + EI ++R+ +Q NA+ D + Sbjct: 235 RARPAEEEEEDNTLSLAQMEAQLKPAALERFAEITSLFRQFEKIQAERLNALGMGNDFPA 294 Query: 311 S--VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 + + + L+E L V S+ + S+I+ LV+ LY ++R+ G++LRLA+ + + R Sbjct: 295 ARETQYQKLREDLTAQVESVQFHASKIEYLVDNLYAFNRRLTTLGGQMLRLAERHKVPRK 354 Query: 369 VFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 FL+ + GRELD W+ +D W F A E + +IR EI I+ TG+S+ E Sbjct: 355 DFLDMYVGRELDDGWLQGLAGRD---KRWAAFAANEATPVERIRAEISDIASATGMSLGE 411 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 412 FRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 471 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ ++ RE Sbjct: 472 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGRE 531 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQ Sbjct: 532 PTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQ 591 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 ANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RK Sbjct: 592 ANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 651 Query: 667 LKHPSRSKKLRSFLD 681 LKHPSRS+K+RSFLD Sbjct: 652 LKHPSRSRKMRSFLD 666 >gi|94498543|ref|ZP_01305098.1| sigma 70 (RpoD) [Sphingomonas sp. SKA58] gi|94421986|gb|EAT07032.1| sigma 70 (RpoD) [Sphingomonas sp. SKA58] Length = 682 Score = 667 bits (1722), Expect = 0.0, Method: Compositional matrix adjust. Identities = 363/696 (52%), Positives = 477/696 (68%), Gaps = 53/696 (7%) Query: 13 SEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN 72 +E ED D+ + D ++ S KK+I A++RGY+T +ELN LP D++SSEQ+ED +A L+ Sbjct: 12 AEGEDGGDAPLLDLNEASVKKLIARAKKRGYITYDELNDALPQDQMSSEQIEDIMAALNE 71 Query: 73 MGINVVDGDDLEDEEGSEDS------------LDLASSASNSSVFLQKRKDSADRSTDDP 120 MG+N+V E+EE SED D +S + +K+K++ DR TDDP Sbjct: 72 MGVNIV-----ENEEASEDGDEQREREDAEDAEDESSDDDGPKLVTEKKKETVDR-TDDP 125 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESP TF A+I W LN+G Sbjct: 126 VRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIFGLCESPTTFNAIIEWSTALNNGEMQ 185 Query: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI-ESAAKVSKD 239 LREI+DL+A + +D + E + ++ +G+I E A S Sbjct: 186 LREILDLDAMLS-------------------KDPAPESLEEGAEDEDGEISEKTAGPSFK 226 Query: 240 DRSKVDSPPENAENDERNLDEDED---------DSAHTLSAMEDQLRPKVMCALDEIAEV 290 + + + + + DE L E D+ +L+ ME+ L+P + I ++ Sbjct: 227 EEEEPEEESADGDEDEDGLTERRARRNEEEEEEDNTLSLAQMEETLKPMALEKFATITDI 286 Query: 291 YRELRSLQDNAVNGQKD-----EKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 +R Q+ + + +K+ + L+E L V S+ +Q +I+ LV+QLY Sbjct: 287 FRNFSQAQEARMQAMANGDALSQKAEDDYQALRESLTAEVESVQFHQQKIEYLVDQLYAY 346 Query: 346 SKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDS 405 ++R+ G++LRLA+ + + R FL+R+ ELD W+ + +W F A E S Sbjct: 347 NRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWLDKVSGL-DKKWTAFAAAEGRS 405 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 + +IRNEI I+ TG+S+ EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTN Sbjct: 406 VDRIRNEIAEIAQATGMSLGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN 465 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 466 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 525 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+VRT+R+ ++ REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ Sbjct: 526 IETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEED 585 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIEDKNA+ P+D+AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEV Sbjct: 586 SHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+QF VTRERIRQIEAKA+RKLKHPSRS+K+RSFLD Sbjct: 646 GQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFLD 681 >gi|58038783|ref|YP_190747.1| RNA polymerase sigma factor RpoD [Gluconobacter oxydans 621H] gi|58001197|gb|AAW60091.1| RNA polymerase sigma factor RpoD [Gluconobacter oxydans 621H] Length = 652 Score = 667 bits (1720), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/672 (52%), Positives = 458/672 (68%), Gaps = 40/672 (5%) Query: 15 HEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMG 74 E D+ + D + K++I R+RG++T +ELNA LP D++SSEQ+ED +A LS MG Sbjct: 14 QEQEGDTTLLDTQSAAVKRLIAKGRERGHITFDELNAVLPQDQMSSEQIEDVMAALSEMG 73 Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 I V++ +D ++ E + A TDDPVRMYLREMGS+ELL Sbjct: 74 IQVIENEDQDEAEAPAEKEAEGDGEEAEGPQGGNVDAEAASRTDDPVRMYLREMGSVELL 133 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE 194 SREGEIAIAKRIEAGR M+ LCESPLT +A+I W + L DG LLR+I+DLEA G Sbjct: 134 SREGEIAIAKRIEAGRDEMIGGLCESPLTIRAIISWHERLKDGEMLLRDIVDLEASQGGG 193 Query: 195 SKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAEND 254 G EG + +D+++++ + + Sbjct: 194 PDPEAVEGEEGDEASEEDDTAEDENEEGEGD----------------------------- 224 Query: 255 ERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKD--EK 309 ++ S +LSA+E++L+P+++ + I +Y +LR LQ A+ G +D +K Sbjct: 225 ------QQEGSGLSLSALEEKLKPEILARFEAIEPLYHKLRKLQIKRIEALTGGEDHSDK 278 Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDV 369 S + L+ +LV LV + L+ +RI+ LV Q+ +++ + EG ++RLA+S I RD Sbjct: 279 SEQTYEKLRHELVSLVEQVHLHNNRIEELVAQIKMQVQKLNNVEGRMMRLAESCKISRDD 338 Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 FL +++ RELDP W+ P WKN +D + +R EI ++S ETG+ + EFR Sbjct: 339 FLIKYRSRELDPTWLDSISALPGKGWKNLTTKHMDQLRNLRGEIAALSHETGLPVGEFRR 398 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + + + +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 399 VYATISRGERDSTRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 458 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP P Sbjct: 459 YRRGYKFSTYATWWIRQAITRSIADQAKTIRIPVHMIETINKLVRTSRQMLHEIGREPAP 518 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK AV PLD+AIQ NL Sbjct: 519 EELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKTAVIPLDAAIQTNL 578 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 579 REATTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKH 638 Query: 670 PSRSKKLRSFLD 681 PSRS+KLRSFLD Sbjct: 639 PSRSRKLRSFLD 650 >gi|330993917|ref|ZP_08317847.1| RNA polymerase sigma factor rpoD [Gluconacetobacter sp. SXCC-1] gi|329758863|gb|EGG75377.1| RNA polymerase sigma factor rpoD [Gluconacetobacter sp. SXCC-1] Length = 659 Score = 667 bits (1720), Expect = 0.0, Method: Compositional matrix adjust. Identities = 363/694 (52%), Positives = 473/694 (68%), Gaps = 68/694 (9%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ S +D+D +L+ D + KK+I ++RGY+T +ELNA LP D++SSEQ+ED +A Sbjct: 10 DTASGDQDNDTTLL-DTRSGAVKKLIARGKERGYITFDELNAVLPQDQMSSEQIEDVMAA 68 Query: 70 LSNMGINVVDGDDLEDEEGSEDSL----DLASSASNSSVFLQKRKDSADRS-TDDPVRMY 124 LS MG+ VV+ +D +D E + + D A S S D+ TDDPVRMY Sbjct: 69 LSEMGMQVVENEDNDDTEAAATADTKGDDTAEEESESEEPAAGNVDTESLGRTDDPVRMY 128 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 LREMGS+ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+I W + L G LLR+I Sbjct: 129 LREMGSVELLSREGEIAIAKRIEAGRDEMIGGLCESPLTFRAIISWHERLKAGEMLLRDI 188 Query: 185 IDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 +DLEA GG D + EG+ Sbjct: 189 VDLEAM----QSGG---------------------NDPAEAVEGE--------------- 208 Query: 245 DSPPENAENDERNLDEDEDDSAH-------TLSAMEDQLRPKVMCALDEIAEVYRELRSL 297 D+ EN N+ +E E + +LSA+E++L+P+++ E+ +Y L + Sbjct: 209 DAFAENDGNEAEEAEETEGEGEGEGEGAGLSLSALEEKLKPEILEQFKEVEALYEALHRV 268 Query: 298 QDNAVNGQKDEKSSVKCKV----------LKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 Q ++ EK + + L+ +LV V + L+ +RI++LVE L +I + Sbjct: 269 Q-----AERLEKFTAGSDISAEEESRYEQLRLELVGKVQQVHLHNARIEVLVEHLKEIFQ 323 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 R+ EG +LRLA+S + RD FL +++GRELDP W+ A P WKNF+A ++++ Sbjct: 324 RLNGLEGRMLRLAESTRVSRDDFLLKYRGRELDPGWMDMAAALPGKSWKNFIAKHGETVI 383 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 ++RN++ ++ ETG+ + EFR + + V +GE +++ AKKEM+EANLRLVIS+AKKYTNRG Sbjct: 384 RLRNQVADLTQETGLPVGEFRRVYATVSRGERDSARAKKEMIEANLRLVISIAKKYTNRG 443 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 444 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 503 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+VRT+R+M ++I REP PEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SH Sbjct: 504 TINKLVRTSRQMLHEIGREPAPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSH 563 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIEDK AV PLD+AIQ NLRE TTRVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+ Sbjct: 564 LGDFIEDKAAVIPLDAAIQTNLREATTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQ 623 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 624 QFNVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 657 >gi|1519634|gb|AAC44891.1| sigma 70-type sigma factor SigA [Rhodobacter sphaeroides] Length = 666 Score = 666 bits (1718), Expect = 0.0, Method: Compositional matrix adjust. Identities = 368/677 (54%), Positives = 471/677 (69%), Gaps = 26/677 (3%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + ED D D S + K+MI A +RGY+T ++LN LP D+VSSEQ+ED +AMLS Sbjct: 8 DGKPEDQDAETSLDMSQAAVKRMIAEA-ERGYITYDQLNTVLPQDQVSSEQIEDVMAMLS 66 Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 MGINV++ ++ E+ E + + ++ S + +V + ++ DR TDDPVRMYLREMGS+ Sbjct: 67 EMGINVIENEEAEEGEPAGELVEQGSGSREIAV-AGTQGETLDR-TDDPVRMYLREMGSV 124 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 ELLSREGEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA Sbjct: 125 ELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEATF 184 Query: 192 GPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 G +D E D+V+ S + D P + Sbjct: 185 GRSLD------------GDGDDEIDGPEIDEVEVAAARAAPRRSTSSEPELDADGNPISR 232 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDE--- 308 +E D++ SA +L+AME L+P+V+ L+ IA Y +L +Q+ ++ ++ Sbjct: 233 AEEEDE---DDEASAMSLAAMEAALKPRVLETLELIARDYGKLAEMQNRRMSATLNDHIR 289 Query: 309 ---KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 + + L+ ++V LV L L+ +RI+ L++QLY I+++IM +++LA + I Sbjct: 290 FTTEDEAAYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSINSAMVKLADAARI 349 Query: 366 KRDVFLERHQGRELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 R F++ +QG ELDP W A G W+ + D + +R E+ + G+ I Sbjct: 350 NRREFIDEYQGYELDPMWAERMAAKVGRG-WQTLMEKSRDRVEDLRGEMAQVGQYVGVDI 408 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 SEFR IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 409 SEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 468 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I Sbjct: 469 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIG 528 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+KL MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNA+ PLDSA Sbjct: 529 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 588 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 IQ NL+ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER+RQIEAKA+ Sbjct: 589 IQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERLRQIEAKAL 648 Query: 665 RKLKHPSRSKKLRSFLD 681 RKLKHPSRS+KLRSFLD Sbjct: 649 RKLKHPSRSRKLRSFLD 665 >gi|296284010|ref|ZP_06862008.1| RNA polymerase sigma factor RpoD [Citromicrobium bathyomarinum JL354] Length = 667 Score = 665 bits (1716), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/680 (53%), Positives = 483/680 (71%), Gaps = 25/680 (3%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 S+++ ++++D+ + D ++ S KK+I A++RGYVT +ELN LP E+SS+Q+ED A + Sbjct: 3 SEAKTKETEDAPLIDLNEASIKKLISKAKKRGYVTYDELNEALPQGEMSSDQIEDIQAAI 62 Query: 71 SNMGINVVDGDD---LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 S MG+ +V+ DD E +E E + D + S +K + D TDDPVRMYLRE Sbjct: 63 SEMGVQIVESDDEVESEKDEVEEIAPDSGAKKDTKSAAAAPKK-TVDARTDDPVRMYLRE 121 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MG++ELLSREGEIAIAKRIEAGR M+ LCESP+TF A+I W D LN+G LREI+DL Sbjct: 122 MGAVELLSREGEIAIAKRIEAGRDTMIIGLCESPITFHAIIQWSDALNEGEMQLREILDL 181 Query: 188 EACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP 247 +A + E K E+ +++ + +ET G DD + Sbjct: 182 DAMLSKEP-----------PVDKMEEENEDDSGEISEETAGPTIREDDDDDDDETAEGDE 230 Query: 248 PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQ 305 + E+ R+ D++ED++ +L+ ME L+P + I +++++ LQ V+ G+ Sbjct: 231 DGDGESKRRDDDDEEDNT-MSLAQMEAALKPDALERFARITDLFKKFEKLQAERVDVLGR 289 Query: 306 KDEKSSVKCKV---LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS 362 D + K K L+E+L V S+ + ++I+ LV+ LY ++R+ G++LRLA+ Sbjct: 290 GDAFPAAKEKKYEDLREQLTAEVESVQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAER 349 Query: 363 YGIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 + IKR FL+ + G E+D W+ S KD +W F E +SI +IR EI I+ +TG Sbjct: 350 HKIKRIDFLDAYLGNEMDDEWLTSRTKD---KKWAAFAEKEAESIERIRTEISDIASQTG 406 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +++ EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 407 MALEEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 466 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ + Sbjct: 467 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLH 526 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+ Sbjct: 527 EQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPV 586 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+AIQ+NL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEA Sbjct: 587 DAAIQSNLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 646 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+K+RSFLD Sbjct: 647 KALRKLKHPSRSRKMRSFLD 666 >gi|258542087|ref|YP_003187520.1| RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01] gi|256633165|dbj|BAH99140.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01] gi|256636222|dbj|BAI02191.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-03] gi|256639277|dbj|BAI05239.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-07] gi|256642331|dbj|BAI08286.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-22] gi|256645386|dbj|BAI11334.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-26] gi|256648441|dbj|BAI14382.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-32] gi|256651494|dbj|BAI17428.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-01-42C] gi|256654485|dbj|BAI20412.1| DNA-directed RNA polymerase sigma factor RpoD [Acetobacter pasteurianus IFO 3283-12] Length = 672 Score = 661 bits (1706), Expect = 0.0, Method: Compositional matrix adjust. Identities = 366/691 (52%), Positives = 474/691 (68%), Gaps = 57/691 (8%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +++ E D+ + D + KK+I R+RG +T +ELNA LP D++SSEQ+ED +A+L Sbjct: 17 TNAAQEQDGDTTLLDTRSSAVKKLIAKGRERGCITFDELNAVLPQDKMSSEQIEDIMAVL 76 Query: 71 SNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQK-----------RKDSADRSTDD 119 S MGI VV+ +D ++EE S + + +S R TDD Sbjct: 77 SEMGIQVVENEDNDNEEAEPKKAAAESDDAEEEAEAETEAEAESPTGNVNAESVGR-TDD 135 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 PVRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+I W + + + Sbjct: 136 PVRMYLREMGTVELLSREGEIAIAKRIEAGRDEMIGGLCESPLTFRAIISWHEMIRNNEM 195 Query: 180 LLREIIDLEACIGPESKGGFF-HGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSK 238 LLR+I+DLEA +S G G +G + DS E+ + E EGDIES Sbjct: 196 LLRDIVDLEAM---QSGGNPLEEGGDGTFNEAESDSESEEAEEPEAEGEGDIES------ 246 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 + S +LSA+E++L+P+++ DEI +Y ELR LQ Sbjct: 247 ------------------------EGSGLSLSALEEKLKPEILAHFDEIEPLYAELRKLQ 282 Query: 299 DN---AVNGQKD-----EKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 A+ +D E+S V L+EKLV V + L+ +RI+ LV QL + +++ Sbjct: 283 VQRIEALTSGEDVDGNFEESYV---ALREKLVGKVEQVHLHNNRIEDLVAQLKQMFQKLN 339 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 EG +LRLA+S + R+ FL +++GRELDP W+ WKNFVA ++++ +R Sbjct: 340 MLEGRMLRLAESCRVSREDFLLKYRGRELDPGWMDMVSGLSGRSWKNFVAKHANTVVGLR 399 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +++ ++ ETG+ I EFR + + V +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQF Sbjct: 400 DQVAQLAQETGLPIGEFRRVYATVARGERDSARAKKEMIEANLRLVISIAKKYTNRGLQF 459 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 460 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 519 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VRT+R+M ++I REP PEE+A+KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGD Sbjct: 520 KLVRTSRQMLHEIGREPAPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGD 579 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDK A+ PLD+AIQ NLRE TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF Sbjct: 580 FIEDKTAIIPLDAAIQTNLREATTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFN 639 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 640 VTRERIRQIEAKALRKLKHPSRSRKLRSFLD 670 >gi|1237088|emb|CAA92648.1| major sigma factor [Rhodobacter capsulatus] Length = 674 Score = 661 bits (1705), Expect = 0.0, Method: Compositional matrix adjust. Identities = 368/674 (54%), Positives = 462/674 (68%), Gaps = 25/674 (3%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 +D+ FD S + K+MI A++RGY+TI++LNA +PP+ VS EQ+ED ++MLS MGINV Sbjct: 15 ADEDASFDMSQAAVKRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINV 74 Query: 78 VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 V+ E EE + S S ++ DR TDDPVRMYLREMGS+ELLSRE Sbjct: 75 VE--GEEVEESEGGEVVETGSGSREIAVAGAAGETLDR-TDDPVRMYLREMGSVELLSRE 131 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 GEIAIAKRIEAGR M+A LCESPLTFQA+ IWRDEL LLR++IDLEA G G Sbjct: 132 GEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDG 191 Query: 198 GFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDE-- 255 G EG E V E + R D P +A+ + Sbjct: 192 D--EGLEG----------MEGIEGPVVEGLDLEAAEGAAPAARRPASDEPEYDADGNPIS 239 Query: 256 --RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVK 313 ++D+D S +L+AME L+PKV+ L+ IA Y +L +QD ++ +E + Sbjct: 240 RIDEEEDDDDSSNMSLAAMEAALKPKVLETLELIARDYAKLAEMQDLRMSATLNEDGTFT 299 Query: 314 C------KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKR 367 + L+ ++V LV L L+ +RI+ L++QLY I+++IM + +++LA + I R Sbjct: 300 VAEEAAYQKLRSEIVLLVNELHLHNNRIEALIDQLYGINRKIMSIDSGMVKLADAARINR 359 Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F++ ++G ELDP W+ P W + +R+E+ + G+ ISEF Sbjct: 360 REFIDEYRGYELDPTWMDRMSAKPARAWVTLFEKSRHKVEDLRHEMAQVGQYVGVDISEF 419 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R IV+ V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 420 RRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 479 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I REP Sbjct: 480 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREP 539 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+A+KL MP+E VRKV+KI KEPISLETPIG E+ S LGDFIEDKNA+ PLDSAIQ Sbjct: 540 TPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGHEEDSQLGDFIEDKNAILPLDSAIQE 599 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 NL+ETTTRVL SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKL Sbjct: 600 NLKETTTRVLPSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKL 659 Query: 668 KHPSRSKKLRSFLD 681 KHPSRS+KL SFLD Sbjct: 660 KHPSRSRKLPSFLD 673 >gi|307295455|ref|ZP_07575291.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium chlorophenolicum L-1] gi|306878494|gb|EFN09714.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium chlorophenolicum L-1] Length = 681 Score = 660 bits (1702), Expect = 0.0, Method: Compositional matrix adjust. Identities = 363/706 (51%), Positives = 481/706 (68%), Gaps = 53/706 (7%) Query: 3 IGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 + K N E +D+ D+ + D ++ S KK+I A++RGY+T +ELN LP D++SSEQ Sbjct: 1 MASKANGKGAGEDQDTGDAPLLDLNEASIKKLIARAKKRGYITYDELNDALPQDQMSSEQ 60 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSV------------FLQKRK 110 +ED ++ L+ MG+N+V E+EE ED D + + S +K+K Sbjct: 61 IEDIMSALNEMGVNIV-----ENEEAGEDGDDQRDDSDDDSTDDSADDDGSPRPVAEKKK 115 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIW 170 ++ DR TDDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESP TF A+I W Sbjct: 116 ETVDR-TDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMILGLCESPTTFNAIIEW 174 Query: 171 RDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI 230 LN+G LREI+DL+A + +D + E + ++ +G+I Sbjct: 175 STALNNGEMQLREILDLDAMLS-------------------KDPAPENLEEGAEDDDGEI 215 Query: 231 -ESAAKVSKDDRSKVDSPPENAENDERNLDEDED---------DSAHTLSAMEDQLRPKV 280 E A S + + + +A+ DE L E D+ +L+ ME+ L+P Sbjct: 216 SEKTAGPSFKEEEEPEEESADADEDEDGLTERRTRRVEEEEEEDNTLSLAQMEETLKPMA 275 Query: 281 MCALDEIAEVYRELRSLQDN-----AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRI 335 + I E++R + Q++ A+ +K + L+E+L V S+ +Q +I Sbjct: 276 LEKFATITEIFRTFSNAQESRMIAMAIGETLSQKDEDDYQELREQLTAEVESVQFHQQKI 335 Query: 336 DLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEW 395 + LV+QLY ++R+ G++LRLA+ + + R FL+R+ ELD W+ + +W Sbjct: 336 EYLVDQLYAYNRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWLDRISGL-DKKW 394 Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 F A E ++ +IR E+ I+ TG+S+SEFR IV+MV+KGE EA IAKKEMVEANLRL Sbjct: 395 AAFAAAEGRAVERIRTEVSEIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRL 454 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 455 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 514 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+VRT+R+ ++ REPTPEE+A++L+MP+E VRKV+KI KEPIS Sbjct: 515 ARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPIS 574 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETPIGDE+ SHLGDFIEDKNA+ P+D+AIQANL+ET TRVLASLTPREERVLRMRFGIG Sbjct: 575 LETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIG 634 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS K+RSFLD Sbjct: 635 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSHKMRSFLD 680 >gi|294011419|ref|YP_003544879.1| RNA polymerase primary sigma factor [Sphingobium japonicum UT26S] gi|292674749|dbj|BAI96267.1| RNA polymerase primary sigma factor [Sphingobium japonicum UT26S] Length = 681 Score = 658 bits (1698), Expect = 0.0, Method: Compositional matrix adjust. Identities = 359/701 (51%), Positives = 484/701 (69%), Gaps = 43/701 (6%) Query: 3 IGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 + K N E +D+ D+ + D ++ S KK+I A++RGY+T +ELN LP D++SSEQ Sbjct: 1 MASKANGKGAGEDQDTGDAPLLDLNEASVKKLIARAKKRGYITYDELNDALPQDQMSSEQ 60 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSV-------FLQKRKDSADR 115 +ED ++ L+ MG+N+V+ ++ ++ + SA +S+ +K+K++ DR Sbjct: 61 IEDIMSALNEMGVNIVENEEAGEDGDDQRDDGDDDSADDSADDDGSPRPVTEKKKETVDR 120 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 TDDPVRMYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESP TF A+I W LN Sbjct: 121 -TDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMILGLCESPTTFNAIIEWSTALN 179 Query: 176 DGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDI-ESAA 234 +G LREI+DL+A + +D + E + ++ +G+I E A Sbjct: 180 NGEMQLREILDLDAMLS-------------------KDPAPENLEEGAEDDDGEISEKTA 220 Query: 235 KVSKDDRSKVDSPPENAENDERNLDEDED---------DSAHTLSAMEDQLRPKVMCALD 285 S + + + + + DE L E D+ +L+ ME+ L+P + Sbjct: 221 GPSFKEEEEPEEESADTDEDEDGLTERRARRMEEEEEEDNTLSLAQMEETLKPMALEKFA 280 Query: 286 EIAEVYRELRSLQDNAV----NGQK-DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVE 340 I E++R Q++ + NG+ +K+ + L+E+L V S+ +Q +I+ LV+ Sbjct: 281 TITEIFRTFSKAQESRMAAMANGETLSQKAEDDYQELREQLTAEVESVQFHQQKIEYLVD 340 Query: 341 QLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVA 400 QLY ++R+ G++LRLA+ + + R FL+R+ ELD W+ + +W F A Sbjct: 341 QLYAYNRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWLDKVSGL-DKKWAAFAA 399 Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 E ++ +IR E+ I+ TG+S+SEFR IV+MV+KGE EA IAKKEMVEANLRLVIS+A Sbjct: 400 AEGRAVERIRVEVSEIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIA 459 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIR Sbjct: 460 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 519 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPVHM + I+K+VRT+R+ ++ REPTPEE+A++L+MP+E VRKV+KI KEPISLETPI Sbjct: 520 IPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPI 579 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GDE+ SHLGDFIEDKNA+ P+D+AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDH Sbjct: 580 GDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDH 639 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+K+RSFLD Sbjct: 640 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFLD 680 >gi|148259873|ref|YP_001234000.1| RNA polymerase sigma factor RpoD [Acidiphilium cryptum JF-5] gi|326403199|ref|YP_004283280.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301] gi|146401554|gb|ABQ30081.1| RNA polymerase, sigma 70 subunit, RpoD [Acidiphilium cryptum JF-5] gi|325050060|dbj|BAJ80398.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301] Length = 638 Score = 648 bits (1672), Expect = 0.0, Method: Compositional matrix adjust. Identities = 354/667 (53%), Positives = 463/667 (69%), Gaps = 53/667 (7%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D+ D S K++I ++RGY+T +ELNA LP ++ SSEQ+ED ++MLS MGI VV+ Sbjct: 19 DTATLDIQSASVKRLIARGKERGYITFDELNAVLPSEQNSSEQIEDVMSMLSEMGIQVVE 78 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 G++ E+ E + + +A + +S+ TDDPVRMYLREMG++ELLSREGE Sbjct: 79 GEEGEEAETAGRAEKDEEAAEDEEAASGNISESSGSRTDDPVRMYLREMGTVELLSREGE 138 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 IAIAKRIEAGR MM+ LCESPLTF+A+I W + L DG LLR++IDLEA ++GG Sbjct: 139 IAIAKRIEAGRDMMIGGLCESPLTFRAIISWHESLKDGKMLLRDVIDLEA-----TQGG- 192 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 G G + P A +E D Sbjct: 193 --GDGGFN----------------------------------------PSAAVPEEPEED 210 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKD--EKSSVKC 314 E+ + S +LSA+E++L+P+V E+ ++Y + LQ A+N ++ +S Sbjct: 211 EEGESSGLSLSAVEEKLKPEVFETFTEVEKLYEKFMKLQHKRLEALNAGEEMASRSEKTY 270 Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERH 374 + L+++LV V +SL+ +RI+ LV QL ++++R+ EG++LRLA+ I RD FL+ + Sbjct: 271 EKLRDELVAKVEQVSLHNNRIEELVIQLKELNQRLNGLEGQMLRLAEGCKITRDDFLDAY 330 Query: 375 QGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 +GRE+DP W+ P WK FV + ++R +I I+ E + I EFR + S V Sbjct: 331 RGREMDPTWLDDVAKRPGKGWKVFVERYGTQVTELRAQIGRIAAEAQLPIEEFRRVYSTV 390 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 391 SRGERDSTRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 450 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+ Sbjct: 451 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAE 510 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNA+ PLD+A+ ANLRE T Sbjct: 511 KLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPLDAAVHANLREAAT 570 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 RVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+ Sbjct: 571 RVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPSRSR 630 Query: 675 KLRSFLD 681 KLRSFL+ Sbjct: 631 KLRSFLE 637 >gi|119386779|ref|YP_917834.1| RNA polymerase sigma factor RpoD [Paracoccus denitrificans PD1222] gi|119377374|gb|ABL72138.1| RNA polymerase, sigma 70 subunit, RpoD [Paracoccus denitrificans PD1222] Length = 664 Score = 647 bits (1670), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/665 (54%), Positives = 454/665 (68%), Gaps = 27/665 (4%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 D S + K+MI R+RG++T ++LNA LPP++VSS+Q+ED ++MLS M I VV+ D+ Sbjct: 19 LDMSQAAVKRMIAEGRERGFITYDQLNAVLPPEQVSSDQIEDVMSMLSEMDIRVVESDEE 78 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 DE L +S S + DR TDDPVRMYLREMGS+ELLSREGEIAIA Sbjct: 79 ADEAEPGGELATTASTSRELTVATTETEKLDR-TDDPVRMYLREMGSVELLSREGEIAIA 137 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIEAGR M+A LCESPLTF+A+ +WR EL L E I L I E+ G Sbjct: 138 KRIEAGRNTMIAGLCESPLTFKAITMWRQEL------LDEDILLRDVIDLETTFGRAMDE 191 Query: 204 EGHSYQKREDSSQEKERDDVQETEG-DIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G E ++V TE + A + R + + + +ED+ Sbjct: 192 DG-------------EEEEVLPTETRPAANTAGAAGTAREEEEFDADGNPMGREEDEEDD 238 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKC------KV 316 D +L+AME L+PKV+ L+ IA Y EL +QDN ++ +E + +V Sbjct: 239 DGQNLSLAAMEASLKPKVLETLEAIARGYEELSHMQDNRMSATLNEDGTFSAAQESAYQV 298 Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 L+ +V LV L L+ +RI+ LV+Q+Y I++RI+ + +++LA + I R F++ ++G Sbjct: 299 LRSHIVALVNELHLHNNRIEALVDQIYGINRRIVTIDSNVVKLADAARINRREFIDAYRG 358 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 ELDP WV W+ + +R E+ + G+ I EFR IVS V++ Sbjct: 359 SELDPTWVERMMQNKGRGWQALFEKSRPQVENLRAEMAMVGQHVGVDIEEFRRIVSQVQR 418 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE E+ AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 419 GEKESRQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 478 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I REPTPEE+A+KL Sbjct: 479 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKL 538 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP+E VRKV+KI KEPISLETPIGDE+ S LGDFIEDKNAV PLDSAIQ NL+ETTTRV Sbjct: 539 QMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRV 598 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KL Sbjct: 599 LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKL 658 Query: 677 RSFLD 681 RSFLD Sbjct: 659 RSFLD 663 >gi|114797662|ref|YP_761566.1| RNA polymerase sigma factor RpoD [Hyphomonas neptunium ATCC 15444] gi|114737836|gb|ABI75961.1| RNA polymerase sigma factor RpoD [Hyphomonas neptunium ATCC 15444] Length = 666 Score = 646 bits (1666), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/687 (52%), Positives = 475/687 (69%), Gaps = 38/687 (5%) Query: 5 KKRNRDSDSEHED--SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 KK+N D E ED +S + DF+ KK++K A++RG++T +E+N LP ++SS+Q Sbjct: 7 KKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDSDMSSDQ 66 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +ED ++ +S MGI VV+ ++ +E+G + + V +K TDDPVR Sbjct: 67 IEDVMSQISEMGIAVVETEEEAEEQGKA-----LTKIEDKKVVAKKGNARGSDRTDDPVR 121 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MYLREMG++ELLSREGEIAIAKRIEAGR M+ LCESPLTF+A+++WRDE L+ Sbjct: 122 MYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESPLTFEAMMVWRDE------LMN 175 Query: 183 EIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRS 242 E I L I E+ G ++ + E E AA V RS Sbjct: 176 ERILLRDLIDLEATYG----------------AENPPPEPKPVEERPPEPAAPVKGKKRS 219 Query: 243 KVDSPPENAEN---DERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD 299 + AE ++ +E++D A ++SAME +LR V+ LDEIA+ + R LQD Sbjct: 220 AEEVDEVEAERMRQQQQEEEEEDDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQD 279 Query: 300 NA----VNGQK-DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 + G+ K+ + L ++V + ++ +N +RI+ LVEQLY I+K++M EG Sbjct: 280 RLLVRRIEGKDLTPKAQGEYDDLSLQIVDNLKTIHINNARIEALVEQLYAINKKLMGLEG 339 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 +L+RLA ++G+ R FL + G EL+P W ++ +WK V + + + +R+EI Sbjct: 340 KLMRLADAHGVPRKEFLHNYIGSELEPDWAERVREIS-AKWKRLVDGKGEEVQVVRDEIS 398 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 I+ E GI I +FR IV V+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLI Sbjct: 399 EIAQEIGIPIDDFRRIVQTVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 458 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K++R Sbjct: 459 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIIR 518 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 T R+M ++I REPTPEE+A+KL +P+E +RKVLKI KEPISLETPIGD++ S+LGDFIED Sbjct: 519 TQRQMLHEIGREPTPEELAEKLGLPLEKIRKVLKIAKEPISLETPIGDDEDSNLGDFIED 578 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 K A+ P+D+AIQ+NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRE Sbjct: 579 KMALLPVDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE 638 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 639 RIRQIEAKALRKLKHPSRSRKLRSFLD 665 >gi|85373960|ref|YP_458022.1| RNA polymerase sigma factor RpoD [Erythrobacter litoralis HTCC2594] gi|84787043|gb|ABC63225.1| RNA polymerase sigma-70 factor [Erythrobacter litoralis HTCC2594] Length = 675 Score = 631 bits (1628), Expect = e-178, Method: Compositional matrix adjust. Identities = 348/680 (51%), Positives = 468/680 (68%), Gaps = 32/680 (4%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV 77 ++D+ + D ++ S KKMI A+++GYVT +ELN LP E+S +Q+ED LS MG+ + Sbjct: 11 AEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQTSLSEMGVQI 70 Query: 78 VDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 V+ D+ + EE + + + K+ + DR TDDPVRMYLREM Sbjct: 71 VESDEEAEAEQEQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDR-TDDPVRMYLREM 129 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 G++ELLSREGEIAIAKRIEAGR M+ LC+SP+TF A+I W + LN LREI+DL+ Sbjct: 130 GAVELLSREGEIAIAKRIEAGRDTMIIGLCQSPITFHAIIQWSEALNAEEMQLREILDLD 189 Query: 189 ACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPP 248 A + E +K E+ +++ + ++ E E + D + Sbjct: 190 AMLSKEPPA-----------EKLEEGAEDDDDGEISE-ENAGPTIVDDDDDTDDEDSDDE 237 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ----DNAVNG 304 + E ++ D++++D+ +L+ ME L+P + I ++++ LQ D G Sbjct: 238 DGEEGSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARG 297 Query: 305 QKDEKSS-VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 + K+ + + L E+L V S+ + ++I+ LV+ LY ++R+ G++LRLA+ + Sbjct: 298 EVLPKAKENRYEKLGEELTAEVESMQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERH 357 Query: 364 GIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 IKR FL+ + G ELD ++ KD +W F E D+I +IR EI I+ +TG Sbjct: 358 KIKRADFLQAYIGNELDEDFLKDRVKKD---KKWAAFADKEADAIDRIRTEIADIASQTG 414 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +++ EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 415 MALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 474 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+ + Sbjct: 475 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLH 534 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+ Sbjct: 535 EQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPV 594 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEA Sbjct: 595 DAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 654 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+K+RSFLD Sbjct: 655 KALRKLKHPSRSRKMRSFLD 674 >gi|85708548|ref|ZP_01039614.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] gi|85690082|gb|EAQ30085.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] Length = 674 Score = 625 bits (1613), Expect = e-177, Method: Compositional matrix adjust. Identities = 353/686 (51%), Positives = 470/686 (68%), Gaps = 30/686 (4%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 S ++ D DD+ + D ++ S KK++ A+++GY+T +ELNA LP E+S +Q+ED L Sbjct: 3 STAKAADKDDAPLIDLNEASVKKLMTKAKKKGYITYDELNAALPSGEMSPDQIEDIQTAL 62 Query: 71 SNMGINVVDGDDLEDEEGSEDSLDLASSASN---------SSVFLQKRKDSADRSTDDPV 121 S MG+ +V+ D+ + E +++ S ++ +K TDDPV Sbjct: 63 SEMGVQIVENDEEAEAEAEQEAEVEEMSVEGEAEKKKDTKAAAKPAAKKTGTGERTDDPV 122 Query: 122 RMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLL 181 RMYLREMG++ELLSREGEIAIAKRIEAGR MM+ LCESP+TF A+I W + LN L Sbjct: 123 RMYLREMGAVELLSREGEIAIAKRIEAGRDMMIMGLCESPITFHAIIQWSEALNSEDMQL 182 Query: 182 REIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEG-DIESAAKVSKDD 240 REI+DL+A + E K E+ +++ + + +ET G I + D+ Sbjct: 183 REILDLDAMLSKEPPP-----------DKMEEENEDDDGEISEETAGPTIRDDDEDDSDE 231 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 + E A + DE+E+D+ +L+ ME L+P + I ++++ LQ Sbjct: 232 SEDGEDGEEGASKKD---DEEEEDNTLSLAQMEAALKPDAIERFARITKLFKTFEKLQAE 288 Query: 301 -----AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 A + + K + L E+L V S+ + ++I+ LV+ LY ++R+ G+ Sbjct: 289 RVETLAAGNEFPKAKENKYEKLSEELTAEVESVQFHATKIEFLVDNLYAFNRRLTALGGQ 348 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 +LRLA+ + IKR FL+ + G ELD W++ A + +W F E +I +IR EI Sbjct: 349 MLRLAERHKIKRIDFLKSYVGNELDDSWIA-ANAKKDKKWAAFAEKEEAAIERIRTEITD 407 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I+ +TG+++ EFR IV+MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 408 IAAQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 467 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT Sbjct: 468 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 527 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R+ ++ REPTPEE+A +L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDK Sbjct: 528 SRQFLHEEGREPTPEEMAARLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDK 587 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NAV P+D+AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRER Sbjct: 588 NAVIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 647 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKLKHPSRS+K+RSFLD Sbjct: 648 IRQIEAKALRKLKHPSRSRKMRSFLD 673 >gi|329890710|ref|ZP_08269053.1| RNA polymerase sigma factor rpoD [Brevundimonas diminuta ATCC 11568] gi|328846011|gb|EGF95575.1| RNA polymerase sigma factor rpoD [Brevundimonas diminuta ATCC 11568] Length = 640 Score = 605 bits (1559), Expect = e-170, Method: Compositional matrix adjust. Identities = 350/667 (52%), Positives = 453/667 (67%), Gaps = 39/667 (5%) Query: 16 EDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 E + D + D +D KK I+ A+ RGYVT+EELN LP +EV+ +Q+ED +AMLS MG+ Sbjct: 11 ETNADGPLLDLTDAGVKKFIRQAKTRGYVTMEELNKVLPSEEVTPDQIEDILAMLSEMGV 70 Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 NVV+ ++ E D ++A+ +SV K + DR TDDPVRMYLREMG++ELLS Sbjct: 71 NVVEAEEDAAEATGTD----VAAAAETSVAEAPAKAAYDR-TDDPVRMYLREMGTVELLS 125 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 REGEIAIAKRIEAGR M++ LCES LTF+A+++WR+EL + LLRE+IDL+A G + Sbjct: 126 REGEIAIAKRIEAGRDAMISGLCESALTFEAIMVWREELANNRILLREVIDLDATYGILN 185 Query: 196 KGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDE 255 H + E +E DD +G S + + + R V + D Sbjct: 186 PSSLPHNQPAPAQPTGEPDGDGEEDDDEDFDDGGAMSISALEAELRDGVMEVLDAIAVDF 245 Query: 256 RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCK 315 + +D +E +L+ +V+ A D+ + Y L + + + K ++ + + Sbjct: 246 GEFRKLQD------KLVEARLKGEVLTAKDQ--KTYEALTASISDRLKTMK--LNNARIE 295 Query: 316 VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD-VFLERH 374 L E+L + L + R+ L + Y IS+ E L+ +G + D + ER Sbjct: 296 ALVEQLYAINKRLIGQEGRLLRLADG-YGISR------PEFLK--AYFGSEMDPTWAERI 346 Query: 375 QGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 +E+ W F E E A ++D+ IR +I +++ E G+ I ++R IV MV Sbjct: 347 --KEMGVRWTK----FSENE-----AAQIDT---IRTQIAAVATEAGVPIDDYRRIVQMV 392 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 393 QKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 452 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I RE TPEE+A+ Sbjct: 453 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTQRQMLHEIGREATPEELAE 512 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 +LAMP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+AIQ+NLRETTT Sbjct: 513 RLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTT 572 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+ Sbjct: 573 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSR 632 Query: 675 KLRSFLD 681 KLRSFLD Sbjct: 633 KLRSFLD 639 >gi|262276866|ref|ZP_06054659.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114] gi|262223969|gb|EEY74428.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114] Length = 613 Score = 561 bits (1445), Expect = e-157, Method: Compositional matrix adjust. Identities = 314/663 (47%), Positives = 438/663 (66%), Gaps = 67/663 (10%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 S++++++ RG++T EEL L + E ++ + + + I +V Sbjct: 8 SFERLVEKGLNRGFITYEELQKSLGKRNSNVESLDTALVHIFDQAITLV----------- 56 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ D S K+ + +RS DDP+RMYLREMG +ELLSREGE AIAKRIE+G Sbjct: 57 QNKSDFKVKKQESET--AKQTKTVERS-DDPIRMYLREMGGVELLSREGETAIAKRIESG 113 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQ 209 R +M++SL ESP+T + + W ++L + L+R+IIDL+ F Sbjct: 114 RYVMISSLSESPITAKKIFDWEEKLINNEMLVRDIIDLDT--------NFI--------- 156 Query: 210 KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA-ENDERNLDEDEDDSAHT 268 DD + + E + K +K+ +D+ E++ E+DE N+ + Sbjct: 157 -----------DDEKLAKSIKEKSKKEAKEKNPNIDTESEDSNEDDEFNI---------S 196 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRS---------LQDNAVNGQKDEKSSVKCKVLKE 319 L+++E +L+PK++ A I + Y++L S L++ A++ K + K + E Sbjct: 197 LASLEIELKPKILEAFSRITKNYKKLISYQRDKLECVLKNQALSDSKKKSYEKVKKEIME 256 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGREL 379 +L+K L LNQ + LV Y +K+I+ +GEL+R A +GI RD F++ + G EL Sbjct: 257 ELLK----LQLNQVTQEDLVALNYAENKKILSYDGELMRAANKHGISRDDFIKFYVGNEL 312 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 +P++ + + E W F E +++++ +S G+SIS+FR +V+ ++KGE Sbjct: 313 NPNFEKFLSE--EKSWLAFFTKEKKLFANLKDKLIELSDNIGMSISDFRILVNKIKKGER 370 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ IAKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 371 ESRIAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 430 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++ REPTPEE++KKLAMP Sbjct: 431 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTQRQMMSEFGREPTPEELSKKLAMP 490 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +E VRKVLKI KEP+SLETP+GDE+ S LGDFIED NA+ P+D+A+Q L+ TTT+VLAS Sbjct: 491 LEKVRKVLKIAKEPVSLETPVGDEEDSTLGDFIEDSNALIPVDAAVQTALKNTTTKVLAS 550 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS++L+SF Sbjct: 551 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRQLKSF 610 Query: 680 LDG 682 LD Sbjct: 611 LDN 613 >gi|330813718|ref|YP_004357957.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter sp. IMCC9063] gi|327486813|gb|AEA81218.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter sp. IMCC9063] Length = 621 Score = 560 bits (1442), Expect = e-157, Method: Compositional matrix adjust. Identities = 319/660 (48%), Positives = 442/660 (66%), Gaps = 53/660 (8%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 S++++++ RG++T EEL L + E +E +V + + I V ++ Sbjct: 8 SFERLMEKGLSRGFITYEELQKSLGKRNANVESLEKSVLHIFDQAICFVK------KKSD 61 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 L S S K+ + DRS DDP+RMYLREMG +ELLSREGEIAIAKRIE+G Sbjct: 62 FKVKKLESETS-------KQPKNQDRS-DDPIRMYLREMGGVELLSREGEIAIAKRIESG 113 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQ 209 + +M++SL ESP+T + + W + L + L+R+IIDL+ + K + + Sbjct: 114 KYVMVSSLSESPVTAKKIFEWEERLINNEMLVRDIIDLDTNFLDDDKLKKSIKEKKEKEE 173 Query: 210 KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTL 269 K + +++ ++ T DI VD D+D+ +L Sbjct: 174 KLKKKESKEKGEETNTTTADI-------------VD---------------DDDEFNISL 205 Query: 270 SAMEDQLRPKVMCALDEIAEVYRELRSLQDNA----VNGQK--DEKSSVKCKVLKEKLVK 323 +++E +L+PK++ + I++ YR+L + Q+ + ++ QK D K K+ KE + + Sbjct: 206 ASLEIELKPKILKTFENISKNYRKLIAYQEESLQCILSSQKFSDSKKKNYEKIKKEIMEE 265 Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHW 383 ++G L NQ + LV Y+ +K+ ++ +G+L+R A YGI RD F++ + G EL+P++ Sbjct: 266 MLG-LQFNQVTQEDLVALNYNENKKAINLDGDLMRAALKYGISRDDFIKFYVGNELNPNF 324 Query: 384 VSYAKDFPEGEWKNFVACEVDSILKI-RNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 S+ + W F E + KI R ++ +S GISIS+F+ +V+ ++KGE E+ Sbjct: 325 ESFLSG--DKNWSKFFKNE-QKLFKISREKLTDLSKNIGISISDFKILVNKIKKGERESR 381 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 382 IAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 441 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++ REPTPEE++KKLAMP+E Sbjct: 442 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMMSEYGREPTPEELSKKLAMPLEK 501 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPISLETP+GDED S LGDFIED NA+ P+D+AIQ L+ +TT+VLASLTP Sbjct: 502 VRKVLKIAKEPISLETPVGDEDDSSLGDFIEDTNALIPVDAAIQTGLKNSTTKVLASLTP 561 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS++L+SFLD Sbjct: 562 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRQLKSFLDN 621 >gi|254455607|ref|ZP_05069036.1| RNA polymerase sigma factor [Candidatus Pelagibacter sp. HTCC7211] gi|207082609|gb|EDZ60035.1| RNA polymerase sigma factor [Candidatus Pelagibacter sp. HTCC7211] Length = 608 Score = 555 bits (1429), Expect = e-155, Method: Compositional matrix adjust. Identities = 308/662 (46%), Positives = 427/662 (64%), Gaps = 72/662 (10%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 S+ +++ RG++T EELN L +S E L+ I+++D Sbjct: 8 SFARLMGRGTHRGFITYEELNKSLGKRNLSDEN-------LAQAFIHILD---------- 50 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRS-----TDDPVRMYLREMGSIELLSREGEIAIAK 144 +++ L S+ V +K S + +DDP+RMYLREMG +ELLSREGEIAIAK Sbjct: 51 -ENITLVEKKSDFKVLRKKEGSSKEEGKTMEKSDDPIRMYLREMGGVELLSREGEIAIAK 109 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIEAG+ +M+ +L +SP+T Q W D+L L+REIID++ Sbjct: 110 RIEAGKDVMLIALSQSPMTAQQFFEWNDQLQKDEILVREIIDIDT--------------- 154 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 +Y + E + ++ + ETE DE + + DEDD Sbjct: 155 --NYMEDETTGPSAKQKNAGETE-------------------------KDEGSGEGDEDD 187 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ----DNAVNGQKDEKSSVK-CKVLKE 319 TL+AME +++PKV+ + + + Y +L Q D +N Q + K + + + Sbjct: 188 FNPTLAAMETEIKPKVLKTVSTLTKEYNKLIKYQKEKLDCILNSQNFSPAKEKGYQKIVD 247 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGREL 379 +++ + SL L+ S ++ LV++ Y +K+I+ EG LLRLA + I R+ F++ + G E+ Sbjct: 248 DILENIKSLQLSPSVLEELVQKHYVENKKIISLEGNLLRLAMDHKIPRNEFIKFYIGNEI 307 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 +P+ + WK F + + IR + IS + GIS+++F+ +VS V+KGE Sbjct: 308 NPNLKKFLD--TNSIWKQFFSKNKEEFKNIRERLIEISHKLGISVTDFKKLVSRVQKGEK 365 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 366 ESRIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 425 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R + ++ RE TPEE+A+KL MP Sbjct: 426 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTQRLILSEFGREATPEELAQKLRMP 485 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 ++ VRKVLKI+KEP+SLE P+GDE+ S LGDFIED A++PL+ AI++NL E TT++L++ Sbjct: 486 LDKVRKVLKISKEPVSLEKPVGDEEDSSLGDFIEDTKALAPLEQAIKSNLGEATTKILST 545 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPREERVLRMRFG+GMNTDHTLEEVG QF VTRERIRQIEAKA+RKLKHPSRSK+L+SF Sbjct: 546 LTPREERVLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKALRKLKHPSRSKQLKSF 605 Query: 680 LD 681 L+ Sbjct: 606 LE 607 >gi|91762832|ref|ZP_01264797.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] gi|91718634|gb|EAS85284.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] Length = 607 Score = 553 bits (1424), Expect = e-155, Method: Compositional matrix adjust. Identities = 307/665 (46%), Positives = 431/665 (64%), Gaps = 79/665 (11%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 S+ +++ RG++T +ELN L +S E +E ++++D Sbjct: 8 SFARLMGRGTHRGFITFDELNKSLGKRNLSDENLEQAF-------MHILD---------- 50 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRS-----TDDPVRMYLREMGSIELLSREGEIAIAK 144 +S+ L S+ V +K S + +DDP+RMYLREMG +ELLSREGEIAIAK Sbjct: 51 -ESVALVEKKSDFKVLRKKENSSKEEGKTIEKSDDPIRMYLREMGGVELLSREGEIAIAK 109 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIEAG+ +M+ +L +SP+T Q + W ++L L+REIID++ Sbjct: 110 RIEAGKDVMLIALAQSPITAQQFVEWDEKLQSDEILVREIIDIDT--------------- 154 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 +Y + E++ ++ + ET+ +N+E N D+DE + Sbjct: 155 --NYMEDENTGPSAKQRNSGETD------------------------KNEENNGDDDEFN 188 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK---- 320 TL+AME +++PKV+ ++ + + Y +L Q ++ + +V KEK Sbjct: 189 P--TLAAMETEIKPKVLKTVNTLTKEYAKLIKYQKEKLDCILN---AVSFSAAKEKGHDK 243 Query: 321 ----LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 +++ + SL L+ S ++ LV++ Y +K+I+ EG LLRLA I R+ F++ + G Sbjct: 244 IVSDILENIKSLQLSPSVLEELVQKHYVENKKIVSLEGNLLRLAMDQKIPRNEFIKFYIG 303 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E++P+ + P WK F + D IR + IS + GIS+++++ IVS V+K Sbjct: 304 NEINPNLKKFLDTNP--MWKQFFSKNKDEFKNIRERLIEISHKLGISVTDYKKIVSRVQK 361 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE E+ IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 362 GEKESRIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 421 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT R + ++ RE TPEE+A+KL Sbjct: 422 STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTQRLILSEFGREATPEELAQKL 481 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP++ VRKVLKI+KEP+SLE P+GDE+ S LGDFIED A++PL+ AI++NL E TT++ Sbjct: 482 RMPLDKVRKVLKISKEPVSLEKPVGDEEDSSLGDFIEDTKALAPLEQAIKSNLSEATTKI 541 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L++LTPREERVLRMRFG+GMNTDHTLEEVG QF VTRERIRQIEAKA+RKLKHPSRSK+L Sbjct: 542 LSTLTPREERVLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKALRKLKHPSRSKQL 601 Query: 677 RSFLD 681 +SFL+ Sbjct: 602 KSFLE 606 >gi|71082746|ref|YP_265465.1| RNA polymerase sigma factor RpoD [Candidatus Pelagibacter ubique HTCC1062] gi|71061859|gb|AAZ20862.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1062] Length = 595 Score = 551 bits (1419), Expect = e-154, Method: Compositional matrix adjust. Identities = 306/655 (46%), Positives = 426/655 (65%), Gaps = 79/655 (12%) Query: 40 QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSA 99 RG++T +ELN L +S E +E ++++D +S+ L Sbjct: 6 HRGFITFDELNKSLGKRNLSDENLEQAF-------MHILD-----------ESVALVEKK 47 Query: 100 SNSSVFLQKRKDSADRS-----TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMM 154 S+ V +K S + +DDP+RMYLREMG +ELLSREGEIAIAKRIEAG+ +M+ Sbjct: 48 SDFKVLRKKENSSKEEGKTIEKSDDPIRMYLREMGGVELLSREGEIAIAKRIEAGKDVML 107 Query: 155 ASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDS 214 +L +SP+T Q + W ++L L+REIID++ +Y + E++ Sbjct: 108 IALAQSPITAQQFVEWDEKLQSDEILVREIIDIDT-----------------NYMEDENT 150 Query: 215 SQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMED 274 ++ + ET+ +N+E N D+DE + TL+AME Sbjct: 151 GPSAKQRNSGETD------------------------KNEENNGDDDEFNP--TLAAMET 184 Query: 275 QLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK--------LVKLVG 326 +++PKV+ ++ + + Y +L Q ++ + +V KEK +++ + Sbjct: 185 EIKPKVLKTVNTLTKEYAKLIKYQKEKLDCILN---AVSFSAAKEKGHDKIVSDILENIK 241 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSY 386 SL L+ S ++ LV++ Y +K+I+ EG LLRLA I R+ F++ + G E++P+ + Sbjct: 242 SLQLSPSVLEELVQKHYVENKKIVSLEGNLLRLAMDQKIPRNEFIKFYIGNEINPNLKKF 301 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 P WK F + D IR + IS + GIS+++++ IVS V+KGE E+ IAKK Sbjct: 302 LDTNP--MWKQFFSKNKDEFKNIRERLIEISHKLGISVTDYKKIVSRVQKGEKESRIAKK 359 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 360 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 419 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+VRT R + ++ RE TPEE+A+KL MP++ VRKV Sbjct: 420 AITRSIADQARTIRIPVHMIETINKIVRTQRLILSEFGREATPEELAQKLRMPLDKVRKV 479 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI+KEP+SLE P+GDE+ S LGDFIED A++PL+ AI++NL E TT++L++LTPREER Sbjct: 480 LKISKEPVSLEKPVGDEEDSSLGDFIEDTKALAPLEQAIKSNLSEATTKILSTLTPREER 539 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFG+GMNTDHTLEEVG QF VTRERIRQIEAKA+RKLKHPSRSK+L+SFL+ Sbjct: 540 VLRMRFGVGMNTDHTLEEVGLQFSVTRERIRQIEAKALRKLKHPSRSKQLKSFLE 594 >gi|254419911|ref|ZP_05033635.1| Sigma-70 region 3 family [Brevundimonas sp. BAL3] gi|196186088|gb|EDX81064.1| Sigma-70 region 3 family [Brevundimonas sp. BAL3] Length = 648 Score = 538 bits (1386), Expect = e-150, Method: Compositional matrix adjust. Identities = 275/420 (65%), Positives = 329/420 (78%), Gaps = 8/420 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ-KDEKSSVKCKVLKEKLVKLVG 326 ++SA+E +LR VM L+ IA + E R LQD V + K E S K + L K + Sbjct: 230 SVSALEAELRDGVMEVLNLIAADFSEFRGLQDKLVQTRLKGEVLSAKDSKAYQTLTKSIS 289 Query: 327 ----SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 ++ LN +RI+ LVEQLY I+KR++ EG LLRLA SYGI R FL+ + G ELDP Sbjct: 290 DRLKTMKLNNNRIEALVEQLYAINKRLIGLEGRLLRLADSYGISRPEFLKAYFGAELDPT 349 Query: 383 WVSYAKDFPEG-EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W K+ +G W F E I IR ++ ++++E G+ I ++R IV V+KGE EA Sbjct: 350 WTERIKE--QGVRWTKFSDNEASQIATIRADVAAVALEAGLPIDDYRRIVQTVQKGEREA 407 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 408 RQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 467 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E Sbjct: 468 WWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLE 527 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV P+D+AIQ+NLRETTTRVLASLT Sbjct: 528 KVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLT 587 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 588 PREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 647 >gi|91204871|ref|YP_537226.1| RNA polymerase sigma factor RpoD [Rickettsia bellii RML369-C] gi|122426123|sp|Q1RKH7|RPOD_RICBR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|91068415|gb|ABE04137.1| RNA polymerase sigma factor [Rickettsia bellii RML369-C] Length = 641 Score = 531 bits (1368), Expect = e-148, Method: Compositional matrix adjust. Identities = 293/656 (44%), Positives = 419/656 (63%), Gaps = 67/656 (10%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--------DDLEDEEGSEDSL 93 G VT ++N LP D S E+++ + S ++++D DD+E EEG + S Sbjct: 24 GSVTYNDINRALP-DGTSVEEIDKVMFRFSEAEVDILDTNEDDAIKIDDMEMEEGFKIST 82 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 ++ + + +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR + Sbjct: 83 NIDHEPEDETEEENIG------TTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTL 136 Query: 154 MASLCESPLTFQALIIWR-DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 +A+LC SP+ W D +N+ LLR++IDLE+ H Sbjct: 137 IAALCRSPIAMDKFRKWYADLVNENNMLLRDLIDLES--------NMMHD---------- 178 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAM 272 D+ E+E D S + E +E++ D D +++ ++S + Sbjct: 179 --------DETSESEDDHNS-----------------DHEEEEQDHDHDHEENILSMSKV 213 Query: 273 EDQLRPKVMCALDEIAEVYREL-----RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 E Q+ P ++ + +IA + EL +S + +A G K ++S K E L+ V Sbjct: 214 ETQILPNIIERMKKIAFICEELLIETKKSFEKSA--GPKILQNSKKYNDNLELLISEVSE 271 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYA 387 + N R + ++ ++Y I++ +++ E L+LA+ YGI R FL+ + G ++ W Sbjct: 272 IHFNSKRTEEILSEMYRINRDLINKETAFLKLAEKYGITRQNFLDEYIGAVINAAWKEKM 331 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + WK + E D I ++ E+ +I + TG+ +++F+ +V+ ++K E + AKK+ Sbjct: 332 LKNKKAGWKELLTKESDYIDQMIAELSAIEINTGLLVNDFKKLVNAIQKSERQTLQAKKD 391 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+EANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 392 MIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 451 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPTP EIA +L+MP++ VRKV+ Sbjct: 452 ITRAIADQARTIRIPVHMIETINKIIRTSRQMLNELGYEPTPAEIAARLSMPIDKVRKVM 511 Query: 568 KITKEPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 KI KEPISLE P+GD +D S+LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREER Sbjct: 512 KIAKEPISLENPVGDGDDNSYLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREER 571 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 572 VLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 627 >gi|296116667|ref|ZP_06835277.1| RNA polymerase sigma factor RpoD [Gluconacetobacter hansenii ATCC 23769] gi|295976879|gb|EFG83647.1| RNA polymerase sigma factor RpoD [Gluconacetobacter hansenii ATCC 23769] Length = 659 Score = 530 bits (1364), Expect = e-148, Method: Compositional matrix adjust. Identities = 255/419 (60%), Positives = 330/419 (78%), Gaps = 5/419 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV-----NGQKDEKSSVKCKVLKEKLV 322 +LSA+E++L+P+++ +E+ +Y L LQ + G+ ++ + L+ +LV Sbjct: 239 SLSALEEKLKPEILEQFEEVEALYARLHELQATRLEKLTSGGEISAEAEAAYEQLRCELV 298 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 V + L+ +RI++LVE L I +R+ EG +LRLA+S + R+ FL +++GRELDP Sbjct: 299 GKVQQVHLHNTRIEVLVEHLKAIFQRLNGLEGRMLRLAESTKVSREDFLLKYRGRELDPG 358 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 WV P WKNFVA +++++++R ++ ++ ETG+ + EFR + + V +GE +++ Sbjct: 359 WVDVVSALPGKAWKNFVAKHMETVIRLRGQVAELTQETGLPVGEFRRVYATVSRGERDSA 418 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 419 RAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 478 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP PEE+A+KL MP+E Sbjct: 479 WIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPAPEELAEKLGMPLEK 538 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK AV PLD+AIQ NLRE TTRVL+SLTP Sbjct: 539 VRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKTAVIPLDAAIQTNLREATTRVLSSLTP 598 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 599 REERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 657 >gi|157965030|ref|YP_001499854.1| RNA polymerase sigma factor RpoD [Rickettsia massiliae MTU5] gi|157844806|gb|ABV85307.1| RNA polymerase sigma factor [Rickettsia massiliae MTU5] Length = 633 Score = 529 bits (1363), Expect = e-148, Method: Compositional matrix adjust. Identities = 289/654 (44%), Positives = 417/654 (63%), Gaps = 76/654 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGDDLEDEE-----GSEDSLDLAS 97 VT +++N LP ++ S Q+E+ + S+ GI++++ + ED+E G ++ L++ Sbjct: 27 VTYDDINNALPLNKNPSIRQLEEAILKFSDAGIDILESN--EDDEIKLDIGMDEEFKLST 84 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + N + + +TDDPVR+YL++MG ++LL+RE E+ IAKRIE G M ASL Sbjct: 85 NVDNEP---EDEVEENIGATDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGHKTMTASL 141 Query: 158 CESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQE 217 C SP+ + I+W ++L + LLR++IDLEA H D + E Sbjct: 142 CRSPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPE 182 Query: 218 KERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLR 277 + + ETEG E+ +D+ ++S +E Q+ Sbjct: 183 NDEEHSSETEG-------------------------------EEHEDNHLSISRVETQIL 211 Query: 278 PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK--------EKLVKLVGSLS 329 P ++ + +I+ + EL + +K + S + KVL+ E L+ V + Sbjct: 212 PNIIERMKKISFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNLELLINEVSEIH 265 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD 389 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 266 FNSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 +G WK + E D I ++ E+ I +TG+ +++F+ +V+ ++K E + AKK+M+ Sbjct: 326 NKKGAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 385 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 386 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 445 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R+IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI Sbjct: 446 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 505 Query: 570 TKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVL Sbjct: 506 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 565 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RMRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 566 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 619 >gi|157826344|ref|YP_001494064.1| RNA polymerase sigma factor RpoD [Rickettsia akari str. Hartford] gi|157800302|gb|ABV75556.1| RNA polymerase sigma factor RpoD [Rickettsia akari str. Hartford] Length = 635 Score = 528 bits (1361), Expect = e-148, Method: Compositional matrix adjust. Identities = 289/653 (44%), Positives = 418/653 (64%), Gaps = 72/653 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP +E S Q+E+ + S+ G+++++ DD++ + G ++ L+++ Sbjct: 27 VTYDDINKALPLNENPSIRQLEEAILKFSDAGVDILESNEDDDIKLDIGMDEEFKLSTNI 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASLC Sbjct: 87 DNEPEDEAEEENIG--TTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGRKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA I H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEANI--------LH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 + ETEG E+ DD+ ++S +E Q+ P Sbjct: 186 EEHSSETEG-------------------------------EEHDDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSLSL 330 ++ + +I+ + EL + +K + S + KVL+ E L+ V + Sbjct: 215 IIERMKKISFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNNLELLLHEVSEIHF 268 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 NSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKN 328 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + WK + E D I ++ E+ I TG+ +++F+ +V+ ++K E + AKK+M+E Sbjct: 329 KKVAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMIE 388 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 389 ANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 448 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI Sbjct: 449 AIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIA 508 Query: 571 KEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPISLE P+GD+ D LGDFIEDKNA++P+D+AIQ+NLRE TTRVLA+LTPREERVLR Sbjct: 509 KEPISLENPVGDDSDGGQLGDFIEDKNAIAPIDAAIQSNLREVTTRVLATLTPREERVLR 568 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 MRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 MRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 621 >gi|209965297|ref|YP_002298212.1| RNA polymerase sigma factor RpoD [Rhodospirillum centenum SW] gi|209958763|gb|ACI99399.1| DNA-directed RNA polymerase, sigma subunit RpoD [Rhodospirillum centenum SW] Length = 648 Score = 528 bits (1360), Expect = e-147, Method: Compositional matrix adjust. Identities = 268/419 (63%), Positives = 328/419 (78%), Gaps = 6/419 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV----NGQKDEKSS-VKCKVLKEKLV 322 +LSAME +L+PKV+ I E Y +L +Q+ + G++ K S K LK +L Sbjct: 230 SLSAMEAELKPKVIETFARIEETYEKLHKVQEQRLAVLQRGEELPKGSDKKYDKLKAELT 289 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 LV S+ LN +RI+ LVEQLY ++++++ EG+LLRLA IKR+ FL + G ELDP+ Sbjct: 290 DLVNSVRLNNARIEQLVEQLYGLNRKLLGYEGKLLRLATDCKIKREDFLHHYYGSELDPN 349 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W+ + + W F + ++R I ++ + + I EFR IVS V+KGE EAS Sbjct: 350 WLERCRGLSKS-WGRFADKSSVEVGRVREAISEVADQVRLPIGEFRRIVSTVQKGEKEAS 408 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 409 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 468 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A++L MP+E Sbjct: 469 WIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAERLMMPLEK 528 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV PLD+AIQANLRETTTR+LA+LTP Sbjct: 529 VRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPLDAAIQANLRETTTRILATLTP 588 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 589 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 647 >gi|157804249|ref|YP_001492798.1| RNA polymerase sigma factor RpoD [Rickettsia canadensis str. McKiel] gi|157785512|gb|ABV74013.1| RNA polymerase sigma factor RpoD [Rickettsia canadensis str. McKiel] Length = 635 Score = 526 bits (1355), Expect = e-147, Method: Compositional matrix adjust. Identities = 290/655 (44%), Positives = 414/655 (63%), Gaps = 76/655 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGDDLEDEE-----GSEDSLDLAS 97 VT +++N LP ++ S Q+E+ + S+ GI++++ + ED+E G ++ L+ Sbjct: 27 VTYDDINKALPLNKNPSIRQLEEAILKFSDAGIDILESN--EDDEIKLDIGMDEEFKLSI 84 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + N + K+ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASL Sbjct: 85 NVDNEPDDEVEEKNIG--TTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASL 142 Query: 158 CESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQE 217 C SP+ + I+W ++L + LLR++IDLEA H D + E Sbjct: 143 CRSPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETSE 183 Query: 218 KERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLR 277 + + + EG E+ +D ++S +E Q+ Sbjct: 184 NDEEHSSDNEG-------------------------------EEHEDHHLSMSRVETQIL 212 Query: 278 PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSL 328 P V+ + +IA + EL + +K + S + KVL+ E L+ V + Sbjct: 213 PNVIERMKKIAFICEEL------LIEAKKCYEKSFEPKVLQNSRKYNNNLELLINEVSEI 266 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAK 388 N + D ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 267 HFNSKKTDEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKML 326 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + WK + E D I ++ E+ I TG+ +++F+ +V+ ++K E + AKK+M Sbjct: 327 KNKKIAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDM 386 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +EANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 387 IEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 446 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+K Sbjct: 447 TRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMK 506 Query: 569 ITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 I KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERV Sbjct: 507 IAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERV 566 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 567 LRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 621 >gi|67459749|ref|YP_247373.1| RNA polymerase sigma factor RpoD [Rickettsia felis URRWXCal2] gi|75535861|sp|Q4UJT1|RPOD_RICFE RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|67005282|gb|AAY62208.1| RNA polymerase sigma factor [Rickettsia felis URRWXCal2] Length = 635 Score = 525 bits (1353), Expect = e-147, Method: Compositional matrix adjust. Identities = 286/653 (43%), Positives = 418/653 (64%), Gaps = 72/653 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINKALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASLC+ Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCK 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 + ETEG E+ +D+ ++S +E Q+ P Sbjct: 186 EEHSSETEG-------------------------------EEHEDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSLSL 330 ++ + +I+ + EL + +K + S + KVL+ E L+ V + Sbjct: 215 IIERMKKISFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNNLELLINEVSEIHF 268 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 NSKRTEEILGKMYGINRDLINKEIAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKN 328 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + WK + E D I ++ E+ I TG+ +++F+ +V+ ++K E + AKK+M+E Sbjct: 329 KKVAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMIE 388 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 389 ANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 448 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI Sbjct: 449 AIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIA 508 Query: 571 KEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLR Sbjct: 509 KEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLR 568 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 MRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 MRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 621 >gi|34581080|ref|ZP_00142560.1| RNA polymerase sigma factor [Rickettsia sibirica 246] gi|229587226|ref|YP_002845727.1| RNA polymerase sigma factor RpoD [Rickettsia africae ESF-5] gi|28262465|gb|EAA25969.1| RNA polymerase sigma factor [Rickettsia sibirica 246] gi|228022276|gb|ACP53984.1| RNA polymerase sigma factor [Rickettsia africae ESF-5] Length = 634 Score = 525 bits (1353), Expect = e-147, Method: Compositional matrix adjust. Identities = 287/652 (44%), Positives = 418/652 (64%), Gaps = 71/652 (10%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE G M ASLC Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 ++ ETEG E+ +D+ ++S +E Q+ P Sbjct: 186 EENSSETEG-------------------------------EEHEDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK--------EKLVKLVGSLSLN 331 V+ + +IA + EL + +K + S + KVL+ E L+ V + N Sbjct: 215 VIERMKKIAFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNLELLINEVSEIHFN 268 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP 391 R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 SKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKNK 328 Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 + WK + E D I ++ E+ I +TG+ +++F+ +V+ ++K E + AKK+M+EA Sbjct: 329 KVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEA 388 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+ Sbjct: 389 NLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRA 448 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI K Sbjct: 449 IADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIAK 508 Query: 572 EPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 EPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLRM Sbjct: 509 EPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLRM 568 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 RFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 620 >gi|15893252|ref|NP_360966.1| RNA polymerase sigma factor RpoD [Rickettsia conorii str. Malish 7] gi|47606046|sp|Q92FZ8|RPOD_RICCN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|15620471|gb|AAL03867.1| RNA polymerase sigma factor [Rickettsia conorii str. Malish 7] Length = 634 Score = 525 bits (1353), Expect = e-147, Method: Compositional matrix adjust. Identities = 286/652 (43%), Positives = 419/652 (64%), Gaps = 71/652 (10%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE G M+ASLC Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 ++ ETEG E+ +D+ ++S +E Q+ P Sbjct: 186 EENSSETEG-------------------------------EEHEDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK--------EKLVKLVGSLSLN 331 ++ + +IA + EL + +K + S + KVL+ E L+ V + N Sbjct: 215 IIERMKKIAFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNLELLINEVSEIHFN 268 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP 391 R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 SKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKNK 328 Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 + WK + E D I ++ E+ I +TG+ +++F+ +V+ ++K E + AKK+M+EA Sbjct: 329 KVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEA 388 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+ Sbjct: 389 NLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRA 448 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI K Sbjct: 449 IADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIAK 508 Query: 572 EPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 EPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLRM Sbjct: 509 EPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLRM 568 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 RFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 620 >gi|157829159|ref|YP_001495401.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. 'Sheila Smith'] gi|165933888|ref|YP_001650677.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. Iowa] gi|157801640|gb|ABV76893.1| RNA polymerase sigma factor RpoD [Rickettsia rickettsii str. 'Sheila Smith'] gi|165908975|gb|ABY73271.1| RNA polymerase sigma factor [Rickettsia rickettsii str. Iowa] Length = 634 Score = 523 bits (1348), Expect = e-146, Method: Compositional matrix adjust. Identities = 286/652 (43%), Positives = 417/652 (63%), Gaps = 71/652 (10%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE G M ASLC Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 + ETEG E+ +D+ ++S +E Q+ P Sbjct: 186 EEHSSETEG-------------------------------EEHEDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK--------EKLVKLVGSLSLN 331 ++ + +IA + EL + +K + S + KVL+ E L+ V + N Sbjct: 215 IIERMKKIAFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNLELLINEVSEIHFN 268 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP 391 R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 SKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKNK 328 Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 + WK + E D I ++ E+ I +TG+ +++F+ +V+ ++K E + AKK+M+EA Sbjct: 329 KVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEA 388 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+ Sbjct: 389 NLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRA 448 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI K Sbjct: 449 IADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIAK 508 Query: 572 EPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 EPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLRM Sbjct: 509 EPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLRM 568 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 RFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 620 >gi|15604688|ref|NP_221206.1| RNA polymerase sigma factor RpoD [Rickettsia prowazekii str. Madrid E] gi|464670|sp|P33451|RPOD_RICPR RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|434681|gb|AAB81404.1| major sigma factor of RNA polymerase [Rickettsia prowazekii] gi|3861383|emb|CAA15282.1| RNA POLYMERASE SIGMA FACTOR RPOD (rpoD) [Rickettsia prowazekii] gi|292572521|gb|ADE30436.1| RNA polymerase sigma factor [Rickettsia prowazekii Rp22] Length = 635 Score = 523 bits (1348), Expect = e-146, Method: Compositional matrix adjust. Identities = 287/653 (43%), Positives = 419/653 (64%), Gaps = 72/653 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINKALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N S + ++ STDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASLC Sbjct: 87 DNESEDEVEEENIG--STDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH------------------ 178 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 D+V E + + S +V E+ +D+ ++S +E Q+ Sbjct: 179 -DEVHENDEEHNSETEV-----------------------EEHEDNHLSMSRVETQILHN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSLSL 330 ++ + +I+ + EL + +K + S + KVL+ E L+ V + Sbjct: 215 IIDRMKKISFICEEL------LIEAKKCYEESFEPKVLQNSKKYNNNLELLINEVSEIHF 268 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 NSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKN 328 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + WK + E D I ++ NE+ I TG+ +++F+ +V+ ++K E + AKK+M+E Sbjct: 329 KKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMIE 388 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 389 ANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 448 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI Sbjct: 449 AIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIA 508 Query: 571 KEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLR Sbjct: 509 KEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLR 568 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 MRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF +G Sbjct: 569 MRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRNG 621 >gi|117924113|ref|YP_864730.1| RpoD family RNA polymerase sigma factor [Magnetococcus sp. MC-1] gi|117607869|gb|ABK43324.1| RNA polymerase, sigma 70 subunit, RpoD [Magnetococcus sp. MC-1] Length = 683 Score = 523 bits (1347), Expect = e-146, Method: Compositional matrix adjust. Identities = 310/706 (43%), Positives = 420/706 (59%), Gaps = 66/706 (9%) Query: 17 DSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 D ++ D + KK+I ++RG++T +E+N LP D S+E MED V +L NMGI+ Sbjct: 2 DGKSNMAEDTKREDMKKLIARGKERGFLTYDEVNDVLPNDMTSAEDMEDVVGLLDNMGID 61 Query: 77 VVDGDDLEDEEGSE------------DSLD------------LASSASNSSVFLQKRKDS 112 ++D E EEG+ DSLD S S R D Sbjct: 62 LIDD---EREEGARPKSRPAAGIGNLDSLDDDVDEEILGISDFDSEDDESDDEDGLRSDG 118 Query: 113 ADR-----STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 A TDDPVRMYLREMGS+ELL+REGEIAIAKRIE G ++A++C++P TF + Sbjct: 119 AIEDIDLGKTDDPVRMYLREMGSVELLTREGEIAIAKRIEEGCNEVIATICDAPSTFNEV 178 Query: 168 IIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETE 227 ++ + L G LRE++D+ P+ +G + + + E D + Sbjct: 179 MMLAERLRAGEISLREVLDIST---PQDEGSEDEDLNNDDDEVEASTESDDEDVDEDDI- 234 Query: 228 GDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEI 287 + KV R+ V PP +E + D+ +L + DEI Sbjct: 235 --VNGPVKV----RNPVPEPPPVKTEEEIAAQREADNEQFR------ELYEATLAIFDEI 282 Query: 288 AEVYRELRSLQDNAVNGQKDEKSSVKCKVL-------KEKLVKLVGSLSLNQSRIDLLVE 340 L L+D + +++ CK L K ++V++V + + + D LVE Sbjct: 283 TRENEVLVELRDPLNDALQNDPEGETCKRLLAEYQAHKARIVEIVAGIKFSPKQRDRLVE 342 Query: 341 QLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF-- 398 ++ + E +++ + +K+ F+E+ G E D W+ WK Sbjct: 343 RIKSYVAAVRAQEQKIITIVTQCNVKKPEFIEQFTGNESDTTWIQNFAKTRSAPWKRLYE 402 Query: 399 ---VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 + CE + I+SI E G ++++ + + GE A+ AKKEMVEANLRL Sbjct: 403 QSELICEAQLV------IRSIEEEAGQTVADLKKCNKKLMDGERRANQAKKEMVEANLRL 456 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+W GYKFSTYA WW++QAITRSIADQ Sbjct: 457 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEWRRGYKFSTYATWWIRQAITRSIADQ 516 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+VRT+R+M ++ REPTPEEIA++++M +E VRKVLKI KEPIS Sbjct: 517 ARTIRIPVHMIETINKLVRTSRQMVQEMGREPTPEEIAERMSMSLEKVRKVLKIAKEPIS 576 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETP+GDE+ SHLGDFIEDK+ +SP + AI +NLR+TT RVL +LT REE VLRMRFGIG Sbjct: 577 LETPVGDEEDSHLGDFIEDKSMLSPSEHAIMSNLRDTTGRVLQTLTSREEHVLRMRFGIG 636 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 + TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+KLRSFL+ Sbjct: 637 LPTDHTLEEVGKQFNVTRERIRQIEAKALRKLRHPTRSRKLRSFLE 682 >gi|51474026|ref|YP_067783.1| RNA polymerase sigma factor RpoD [Rickettsia typhi str. Wilmington] gi|81389911|sp|Q68VQ5|RPOD_RICTY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|51460338|gb|AAU04301.1| RNA polymerase sigma factor RpoD [Rickettsia typhi str. Wilmington] Length = 635 Score = 522 bits (1345), Expect = e-146, Method: Compositional matrix adjust. Identities = 287/653 (43%), Positives = 418/653 (64%), Gaps = 72/653 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINKALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGIDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N S + ++ STDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASLC Sbjct: 87 DNESEDEVEEENIG--STDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H Sbjct: 145 SPVAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH------------------ 178 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 D+V E + + S +V E+ +D+ ++S +E Q+ Sbjct: 179 -DEVHENDEEHNSETEV-----------------------EEHEDNHLSMSRVETQILHN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSLSL 330 ++ + +I+ + EL + +K + S KVL+ E L+ V + Sbjct: 215 IIDRMKKISFICEEL------LIEAKKCYEESFDPKVLQNSRKYNNNLELLIHEVSEIHF 268 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 NSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKN 328 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + WK + E D I ++ NE+ I TG+ +++F+ +V+ ++K E + AKK+M+E Sbjct: 329 KKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMIE 388 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 389 ANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 448 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI Sbjct: 449 AIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIA 508 Query: 571 KEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVLR Sbjct: 509 KEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVLR 568 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 MRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF +G Sbjct: 569 MRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRNG 621 >gi|238651104|ref|YP_002916962.1| RNA polymerase sigma factor RpoD [Rickettsia peacockii str. Rustic] gi|238625202|gb|ACR47908.1| RNA polymerase sigma factor RpoD [Rickettsia peacockii str. Rustic] Length = 634 Score = 520 bits (1339), Expect = e-145, Method: Compositional matrix adjust. Identities = 284/652 (43%), Positives = 415/652 (63%), Gaps = 71/652 (10%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N P ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+++ Sbjct: 27 VTYDDINNAFPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSTNV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE G M ASLC Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+ + I+W ++L + LLR++IDLEA H D + E + Sbjct: 145 SPIAMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH-----------DETPEND 185 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 + ETEG E+ +D+ ++S +E Q+ P Sbjct: 186 EEHSSETEG-------------------------------EEHEDNHLSMSRVETQILPN 214 Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK--------EKLVKLVGSLSLN 331 ++ + +IA + EL + +K + S + KVL+ E L+ V + N Sbjct: 215 IIERMKKIAFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNLELLINEVSEIHFN 268 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP 391 R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 269 SKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLKNK 328 Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 + WK + E D I ++ E+ I +TG+ +++F+ +V+ ++K E + AKK+M+EA Sbjct: 329 KVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEA 388 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+ Sbjct: 389 NLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRA 448 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPT EIA +L+MP++ VRKV+KI K Sbjct: 449 IADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIAK 508 Query: 572 EPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 EPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE T RVLA+LTPREERVLRM Sbjct: 509 EPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTIRVLATLTPREERVLRM 568 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 569 RFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 620 >gi|163796954|ref|ZP_02190910.1| RNA polymerase sigma factor rpoD [alpha proteobacterium BAL199] gi|159177701|gb|EDP62252.1| RNA polymerase sigma factor rpoD [alpha proteobacterium BAL199] Length = 639 Score = 520 bits (1338), Expect = e-145, Method: Compositional matrix adjust. Identities = 261/419 (62%), Positives = 325/419 (77%), Gaps = 6/419 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQ----DNAVNGQKDEKSS-VKCKVLKEKLV 322 +LSAME QL P+V+ D+IA+ Y ++ +Q D G++ +++ K + LK +L+ Sbjct: 221 SLSAMEQQLLPQVLETFDKIADTYGKMVRMQKRRFDKLKGGEELARTTERKYEKLKGELI 280 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 + + S+ L+ +RI+ LVEQLY +++R+ + L + A G+ R F+E H G EL+P Sbjct: 281 EGMESVRLHNARIEALVEQLYTLNRRLSQVDIRLWKQADRVGVSRKSFMEEHFGNELEPD 340 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W+ + W+ F + + + R + IS + G++I EFR IV V+KGE EA Sbjct: 341 WLERVATV-DARWRKFAETAAEEVSEAREHLAMISADAGLTIGEFRRIVQTVQKGEREAG 399 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 400 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KL MP+E Sbjct: 460 WIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAEKLVMPLEK 519 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV PLD+AI ANLRETTTRVLASLTP Sbjct: 520 VRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVQPLDAAIHANLRETTTRVLASLTP 579 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 580 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 638 Score = 179 bits (454), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 94/175 (53%), Positives = 125/175 (71%), Gaps = 8/175 (4%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D + + K +IK ++RG++T +E+NA LP +E+SSEQ+ED ++ L+ MG+NVV+ Sbjct: 24 DGPLMDNINQAVKNLIKKGKERGFLTYDEVNAALPQEEMSSEQIEDIMSALNEMGVNVVE 83 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 +D D+ ++ + A A N S D R TDDPVRMYLREMGS+ELLSREGE Sbjct: 84 NEDDGDQSAEKEDTE-AKLAGNVS------DDDVGR-TDDPVRMYLREMGSVELLSREGE 135 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE 194 IAIAKRIEAGR MM+ +CESPLT +AL+ WRD+L +GT LLR+IIDLEA G E Sbjct: 136 IAIAKRIEAGREMMIGGICESPLTLRALVNWRDQLKEGTVLLRDIIDLEATYGAE 190 >gi|114328948|ref|YP_746105.1| RNA polymerase sigma factor RpoD [Granulibacter bethesdensis CGDNIH1] gi|114317122|gb|ABI63182.1| RNA polymerase sigma factor rpoD [Granulibacter bethesdensis CGDNIH1] Length = 654 Score = 519 bits (1337), Expect = e-145, Method: Compositional matrix adjust. Identities = 256/427 (59%), Positives = 330/427 (77%), Gaps = 5/427 (1%) Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ----DNAVNGQKDEKSSVKC- 314 +D D +LSA+E++L+P+ + +EI +Y++L +Q D+ +G++ S K Sbjct: 227 DDADGIGMSLSALEEKLKPETLQRFEEIEAIYKKLSKMQSKRLDSFTSGEEVTARSEKTY 286 Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERH 374 + ++++LV V + L+ R++ LV QL +++R+ EG+LLRLA+S + RD FLE+H Sbjct: 287 EKMRDELVAKVSEVRLHNGRVEELVLQLKQLNQRLTGLEGQLLRLAESCKVPRDSFLEQH 346 Query: 375 QGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 + EL+P+W+ P WKNF A + +IR I ++ + G+ I EF + V Sbjct: 347 RNHELEPNWLERVSTLPGKAWKNFSARYPQEVGQIRGRIGEVAADAGLPIPEFLRVYKTV 406 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +GE +++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 407 NRGERDSARAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 466 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP PEE+A+ Sbjct: 467 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPQPEELAE 526 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 KL MP+E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK A+ PLD+AIQANLRE TT Sbjct: 527 KLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKAAIIPLDAAIQANLREATT 586 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 RVL+SLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+ Sbjct: 587 RVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPSRSR 646 Query: 675 KLRSFLD 681 KLRSFLD Sbjct: 647 KLRSFLD 653 >gi|239948365|ref|ZP_04700118.1| RNA polymerase sigma factor, sigma-70 family [Rickettsia endosymbiont of Ixodes scapularis] gi|239922641|gb|EER22665.1| RNA polymerase sigma factor, sigma-70 family [Rickettsia endosymbiont of Ixodes scapularis] Length = 635 Score = 517 bits (1332), Expect = e-144, Method: Compositional matrix adjust. Identities = 284/654 (43%), Positives = 411/654 (62%), Gaps = 74/654 (11%) Query: 44 VTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDG---DDLEDEEGSEDSLDLASSA 99 VT +++N LP ++ S Q+E+ + S+ G+++++ D+++ + G ++ L+ + Sbjct: 27 VTYDDINKALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFKLSINV 86 Query: 100 SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCE 159 N + ++ +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR M ASLC Sbjct: 87 DNEPEDEVEEENIG--TTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCR 144 Query: 160 SPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKE 219 SP+T + I+W ++L + LLR++IDLEA H Sbjct: 145 SPITMRCFIVWYEDLVNEKMLLRDLIDLEA--------NMLH------------------ 178 Query: 220 RDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH-TLSAMEDQLRP 278 D PEN E N + +E + H ++ +E Q+ P Sbjct: 179 -------------------------DETPENDEEHSSNTEGEEHEDNHLSMYRVETQILP 213 Query: 279 KVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK---------EKLVKLVGSLS 329 ++ + +I+ + EL + +K + S + KVL+ E L+ V + Sbjct: 214 NIIERMKKISFICEEL------LIEAKKCYEKSFEPKVLQNSKKYNNNLELLINEVSEIH 267 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD 389 N R + ++ ++Y I++ +++ E L+LA+ YG+ R FL+ + G ++ W Sbjct: 268 FNSKRTEEILGKMYGINRDLINKETTFLKLAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + WK + E D I ++ E+ I TG+ +++F+ +V+ ++K E + AKK+M+ Sbjct: 328 NKKVAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R+IADQ+ TIRIPVHM + I+K++R +R+M N++ EPT EIA +L+MP++ V KV+KI Sbjct: 448 RAIADQARTIRIPVHMIETINKILRISRQMLNELGYEPTATEIANRLSMPLDKVCKVMKI 507 Query: 570 TKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 KEPISLE P+GD+ D LGDFIEDKNAV+P+D+AIQ+NLRE TTRVLA+LTPREERVL Sbjct: 508 AKEPISLENPVGDDIDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RMRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKKL SF G Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSG 621 >gi|296532787|ref|ZP_06895466.1| RNA polymerase sigma factor RpoD [Roseomonas cervicalis ATCC 49957] gi|296266895|gb|EFH12841.1| RNA polymerase sigma factor RpoD [Roseomonas cervicalis ATCC 49957] Length = 639 Score = 508 bits (1309), Expect = e-142, Method: Compositional matrix adjust. Identities = 251/422 (59%), Positives = 325/422 (77%), Gaps = 11/422 (2%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG--------QKDEKSSVKCKVLKE 319 +LSA+E++L+P+ + + I E+Y +L+ L + + EK+ K ++ Sbjct: 220 SLSALEEKLKPEALATFEAIEELYGKLQKLSLKRMEAYTAGEEFASRTEKTYEKQRL--- 276 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGREL 379 +LV LV + L+ +RI+ LV+QL +++RI EG++LRLA+ +KR+ FL+ +G E+ Sbjct: 277 ELVALVEKVQLHNNRIEELVDQLKGLNRRITSLEGQVLRLAEGSRVKREDFLQYWRGAEI 336 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 DP W P+ WKNF+ + +IR ++ + + TG+ + EF+ + + V +GE Sbjct: 337 DPAWFERISALPQKSWKNFIERSRQDVEQIRTQLSNTAALTGLPVDEFKRVYATVSRGER 396 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 397 DMTQAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REP PEE+A+KL MP Sbjct: 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPQPEELAEKLGMP 516 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDK A+ PLD+AIQ+NLRE TTRVLAS Sbjct: 517 LEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKAAIIPLDAAIQSNLREATTRVLAS 576 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSF Sbjct: 577 LTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHPSRSRKLRSF 636 Query: 680 LD 681 LD Sbjct: 637 LD 638 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 90/180 (50%), Positives = 120/180 (66%), Gaps = 2/180 (1%) Query: 10 DSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAM 69 D+ +++ + + D + KK+I ++RGYVT +ELN LP +EVSSE +EDT+AM Sbjct: 10 DTVENRDEAVEGALLDILSAAVKKLIARGKERGYVTYDELNQALPSEEVSSELIEDTMAM 69 Query: 70 LSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLRE 127 LS +GINVV+ ++ E+ EG+ A A + TDDPVRMYLRE Sbjct: 70 LSELGINVVEAEETEEAEGAAKPAAKAEGAEEDEEEEGGGNVDEESLGRTDDPVRMYLRE 129 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ELLSREGEIAIAKRIEAGR MM+ LCESPLTFQA++ W + + +G LLR++IDL Sbjct: 130 MGSVELLSREGEIAIAKRIEAGRDMMIGGLCESPLTFQAILTWHNAVKEGRMLLRDVIDL 189 >gi|11993459|gb|AAG42748.1|AF299295_2 RNA polymerase sigma factor [Zymomonas mobilis] Length = 763 Score = 500 bits (1287), Expect = e-139, Method: Compositional matrix adjust. Identities = 299/676 (44%), Positives = 420/676 (62%), Gaps = 28/676 (4%) Query: 16 EDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDE--VSSEQMEDTVAMLSNM 73 +++ D+ + D ++ S +K I ++ YVT ++LN LP D+ +++ + ++ Sbjct: 11 KNAGDAPLIDLNETSIRKFITQPKKTEYVTYDQLNEALPQDQDVFGTDRKYNVCPFVNGH 70 Query: 74 GI--NVVDGDD-LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 N G D ++EE + L + S +RK V + + + S Sbjct: 71 QYRKNEDSGQDGQQEEENAAKKLQGQRWHFSGSGHYDQRKKHPTEQMIRCVCISAKWVRS 130 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 SREGEIAIAKRIEAGR M+ LCESP+TF +I W + LN+GT LREIIDL+A Sbjct: 131 -SFWSREGEIAIAKRIEAGRDTMILGLCESPITFDNIIEWSNALNEGTLQLREIIDLDAM 189 Query: 191 IGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPEN 250 + T+G S + E+ + + + + G DD EN Sbjct: 190 L-----------TQGPSPDQFEEDGDDNDNEISERNAGPTFKEDDDEDDDSEGELD--EN 236 Query: 251 AENDER-NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-----AVNG 304 + +R N+DE ED++ +L+ ME+QL+P + +IA++YR+ LQ+ N Sbjct: 237 GQRIQRENMDE-EDENTLSLAQMEEQLKPASLEKFAKIADLYRQFSVLQNARMRALGANE 295 Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 + E + L+E+L V S+ + +RI+ LVEQLY+ + R+ G++LRLA+ Y Sbjct: 296 EFPEDQENAYQQLREELTAEVESVKFHNARIEFLVEQLYNYNSRLRTLNGQMLRLAERYK 355 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 + RD FL + G E++ WV + + NF E +SI +IR+E+ I+ TG+++ Sbjct: 356 VPRDSFLNAYLGNEMEEGWVERVFKNRQ-KMGNFTTSEAESIERIRSEVAEIAQVTGMTV 414 Query: 425 SEFRHIVSMVRKGECEASIA-KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 E R IV+MV+KG + + K E ++ + + K L L + GLMK Sbjct: 415 KELRRIVTMVQKGRKRSPHSLKPEWLKPICVWLSLLPKNIPIAVCSSLXLFRXAISGLMK 474 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R++ ++I Sbjct: 475 AVGKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEI 534 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+A++L+MP+E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+ Sbjct: 535 GREPTPEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDA 594 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 AIQANL+ET TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 595 AIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKA 654 Query: 664 IRKLKHPSRSKKLRSF 679 +RKLKHPSRS+K+RSF Sbjct: 655 LRKLKHPSRSRKMRSF 670 >gi|149184445|ref|ZP_01862763.1| RNA polymerase sigma factor RpoD [Erythrobacter sp. SD-21] gi|148831765|gb|EDL50198.1| RNA polymerase sigma factor RpoD [Erythrobacter sp. SD-21] Length = 668 Score = 499 bits (1286), Expect = e-139, Method: Compositional matrix adjust. Identities = 255/421 (60%), Positives = 320/421 (76%), Gaps = 10/421 (2%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSSVKCK---VLKEKLV 322 +L+ ME L+P + I +++ + LQ V G+ + K K L ++L Sbjct: 250 SLAQMEAALKPDAIERFARIKDLFGKFEKLQKERVEVLGRGEAFPPAKEKKYEALSDQLT 309 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 V S+ + ++I+ LV+ LY ++R+ G++LRLA+ + +KR FL+ + G ELD Sbjct: 310 AEVESVQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKVKRIDFLDAYIGNELDDS 369 Query: 383 WVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 W+ KD +W F E D+I +IR EI I+ TG+++ EFR IV+MV+KGE E Sbjct: 370 WMDDRVKKD---KKWAAFAEKEADAIDRIRTEISDIASATGMALPEFRRIVNMVQKGERE 426 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 427 ARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 486 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+VR +R+ + REPTPEE+A+KL+MP+ Sbjct: 487 TWWIRQAITRSIADQARTIRIPVHMIETINKLVRCSRQFLHDQGREPTPEEMAEKLSMPL 546 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E VRKV+KI KEPISLETPIGDE+ SHLGDFIEDKNA+ P+D+AIQANL+ET TRVLASL Sbjct: 547 EKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASL 606 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+K+RSFL Sbjct: 607 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 666 Query: 681 D 681 D Sbjct: 667 D 667 >gi|73666941|ref|YP_302957.1| RNA polymerase sigma factor rpoD [Ehrlichia canis str. Jake] gi|72394082|gb|AAZ68359.1| RNA polymerase, sigma 70 subunit, RpoD [Ehrlichia canis str. Jake] Length = 622 Score = 499 bits (1285), Expect = e-139, Method: Compositional matrix adjust. Identities = 288/663 (43%), Positives = 423/663 (63%), Gaps = 66/663 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-- 89 K ++ ++G+VT ++N +S++ +++T++ML + GINV++ D EDE S Sbjct: 12 KTLVSKGLKQGFVTFNDINDVFSDYVLSADNIDETISMLQDSGINVLEQSD-EDEANSIV 70 Query: 90 --------EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 D D++ S F Q TDDP+RMYL EM S+ELLSREGEI Sbjct: 71 EENRIKEDLDEDDVSDGGIKSWDFGQ---------TDDPIRMYLCEMSSVELLSREGEIE 121 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAK+I++ + M+ SL ESP+ + + WRD+L + +LR++IDL+A E F Sbjct: 122 IAKKIKSEKVNMLRSLVESPVVLRTFMSWRDDLVNEQIMLRDLIDLDANYRYEFPEKFAD 181 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 E S + ++D + E++ D + +S+DD DE N+ + Sbjct: 182 ADEA--------SVLDYDKDLIDESDEDTD----ISEDD-------------DEENVSIN 216 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEI---AEVYRELRSLQDNAVNGQKDEKSSVKCKVLK 318 ++ ME+ L PKV+ LD + AE EL+ +N Q EK + L Sbjct: 217 -----ASILEMENALLPKVVSILDSVIASAEKILELKKQYQGKIN-QDIEK---QYNDLH 267 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRE 378 + + +++ + L+ S + + +Q+Y +SK I E +++ LA+SYGI+R FL+ + Sbjct: 268 DSIWEMIYQIKLSNSAVLSITQQIYSLSKSIAAEEAKIISLAESYGIQRKDFLDAYNTNS 327 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + K +W N +A E +I+ + ++IK +S E +++EF+ +V+ ++K E Sbjct: 328 V------LQKKGTSPQWNNLLANEESNIVSMYSKIKLLSGEN--NLTEFKALVTKIQKHE 379 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 A+ AK+EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFST Sbjct: 380 RAANQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFST 439 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WWV+QAITR+IADQ+ TIRIPVHM + ++K+ RT R+M +++ REPT EE++ KL + Sbjct: 440 YATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEMGREPTLEELSAKLNI 499 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V+ +RKV+KI K+P+SLE+PIGD+D+S GD IEDK AV P D+A+ A+LRE TT+VL+ Sbjct: 500 NVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPEDAAVLADLREITTKVLS 559 Query: 619 SLTPREERVLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LTP+EER+LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSR++KLR Sbjct: 560 TLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLR 619 Query: 678 SFL 680 F Sbjct: 620 GFF 622 >gi|68171251|ref|ZP_00544654.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Ehrlichia chaffeensis str. Sapulpa] gi|88657966|ref|YP_507558.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str. Arkansas] gi|67999333|gb|EAM85979.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Ehrlichia chaffeensis str. Sapulpa] gi|88599423|gb|ABD44892.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str. Arkansas] Length = 622 Score = 498 bits (1281), Expect = e-138, Method: Compositional matrix adjust. Identities = 290/664 (43%), Positives = 428/664 (64%), Gaps = 68/664 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-- 89 + ++ ++G+VT ++N +SS+ +++T++ML + GINV++ D EDE S Sbjct: 12 RTLVSKGLKQGFVTFNDINDVFSDYVLSSDNIDETISMLQDSGINVLEQSD-EDEANSII 70 Query: 90 -----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +D +D S++S+ K D TDDP+RMYL EM S+ELLSREGEI IAK Sbjct: 71 EENRIKDEMD-EDDVSDTSI---KSWDFG--QTDDPIRMYLCEMSSVELLSREGEIEIAK 124 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 +I++ + M+ SL ESP+ + + WRD+L + +LR++IDL+A Sbjct: 125 KIKSEKVNMLRSLVESPIVLRTFMSWRDDLVNEQIMLRDLIDLDA--------------- 169 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 + Y+ E S + DD A V D+ +D P E+ + + EDED+ Sbjct: 170 NYRYEFPEKFS---DTDD-----------ASVLGYDKDLMDEPDEDPD-----IPEDEDE 210 Query: 265 SAHTLSA----MEDQLRPKVMCALDEI---AEVYRELRSLQDNAVNGQKDEKSSVKCKVL 317 +++A ME+ L PKV+ LD + AE EL+ +N Q EK + L Sbjct: 211 ENISINASILEMENALLPKVVSILDSVIASAEKILELKKQYQGKIN-QDIEK---QYNDL 266 Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + + +++ + L+ S + + +Q+Y +SK I E +++ LA+SYGI+R FL+ + Sbjct: 267 HDSIWEMIYQIKLSNSAVLSITQQIYSLSKSIAAEEAKIISLAESYGIQRKDFLDAYNTN 326 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + K +W N + E +I+ + ++IK +S E +++EF+ +V+ ++K Sbjct: 327 SV------LQKKGTSPQWDNMLLNEESNIVSMYSKIKLLSGEN--NLTEFKALVTKIQKH 378 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A+ AK+EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFS Sbjct: 379 ERAANQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFS 438 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WWV+QAITR+IADQ+ TIRIPVHM + ++K+ RT R+M +++ REPT EE++ +L Sbjct: 439 TYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEMGREPTLEELSARLN 498 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V+ +RKV+KI K+P+SLE+PIGD+D+S GD IEDK AV P D+A+ A+LRE TT+VL Sbjct: 499 INVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPEDAAVLADLREITTKVL 558 Query: 618 ASLTPREERVLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++LTP+EER+LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSR++KL Sbjct: 559 STLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKL 618 Query: 677 RSFL 680 R F Sbjct: 619 RGFF 622 >gi|294085800|ref|YP_003552560.1| sigma-70 factor RpoD [Candidatus Puniceispirillum marinum IMCC1322] gi|292665375|gb|ADE40476.1| Sigma 70 (RpoD) [Candidatus Puniceispirillum marinum IMCC1322] Length = 674 Score = 496 bits (1278), Expect = e-138, Method: Compositional matrix adjust. Identities = 256/419 (61%), Positives = 316/419 (75%), Gaps = 7/419 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-AVNGQKDE----KSSVKCKVLKEKLV 322 +L+AMED +R VM DEIA V++ QD V K E KS V LK KL Sbjct: 257 SLAAMEDAVRDDVMAMFDEIATVFKAFTKSQDRRLVRMSKGEALVPKSEVAHLELKIKLC 316 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + N RI+ L EQL+ +++ + EG L+RLA GI R LE RE+ Sbjct: 317 ELMEGVIFNTGRIEALSEQLFTLNRHVTGIEGRLMRLAIDSGIPRAQVLEAWSWREVIEG 376 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W DF W+ + I +++++I+ + + ++I EFR ++ +++G+ EA+ Sbjct: 377 W--PGSDFSTKAWQKLDKNHSEEITELQDKIRLVVDDVSLAIPEFREVIQTIQRGQREAA 434 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 435 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 494 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KL+MP++ Sbjct: 495 WIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQMLHEIGREPTPEELAEKLSMPIDK 554 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKNAV PLD+AI ANLRETTTRVLASLT Sbjct: 555 VRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVQPLDAAIHANLRETTTRVLASLTA 614 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFL+ Sbjct: 615 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLE 673 >gi|56416704|ref|YP_153778.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries] gi|56387936|gb|AAV86523.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries] Length = 632 Score = 493 bits (1269), Expect = e-137, Method: Compositional matrix adjust. Identities = 289/655 (44%), Positives = 408/655 (62%), Gaps = 67/655 (10%) Query: 39 RQRGYVTIEELNAFLPPDEV-SSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 +Q G +T ++++ L D+V SSE +++T+++L + GI V+ E+ E+ D Sbjct: 32 KQGGVITFDDISDALSDDDVVSSESIDETISLLQDSGIGVL-------EQSDEEEADAVV 84 Query: 98 SASNSSVFLQKRKDSADRS---------TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S N++ KD D + TDDP+RMYL EM S+ELLSREGEI IAKRI++ Sbjct: 85 SEENAA------KDEEDEAGMRSLDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKS 138 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + M+ SL E+PL + + WRD+L + +LR++IDL+A +GG Sbjct: 139 EKINMLRSLIEAPLVLRTFMSWRDDLVNQQVMLRDLIDLDA----NYRGGAPRQEFEEGG 194 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 + E E DV GD +DE DE ED SA Sbjct: 195 EYGEQEMAEPGDSDVG---GD---------------------GADDE---DEGEDSSAGN 227 Query: 269 LSA--MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 S ME L PKV+ LD E ++ ++ + K +K + L E + +LV Sbjct: 228 ASILEMESALLPKVISILDATIESAEKILEMKKQKRDSGKYDKKAYNA--LHENIWELVS 285 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSY 386 + L+ + + +Q+Y++SK I E L+ L +SYG+ R FLE + + + Sbjct: 286 QMKLSDPAVLSVTQQIYNLSKAIAAEEAALMSLVESYGVDRKSFLEAYNNNTV------F 339 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 + EWKN + E ++ I+N+++ +S E S F+ +V+ ++K E A+ AK+ Sbjct: 340 EQANASPEWKNLLEKEKKTLTDIQNKVRLLSGED--SPGNFKALVAKIQKHERTANKAKQ 397 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFSTYA WWV+Q Sbjct: 398 EMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQ 457 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITR+IADQ+ TIRIPVHM + ++K+ RT R+M ++I REPT EE++ +L M VE +RKV Sbjct: 458 AITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEIGREPTLEELSTRLGMNVEKIRKV 517 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI K+P+SLE+PIGD+D+S GD IEDK AV P ++A+ A+LRE TT+VL++LTP+EER Sbjct: 518 MKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITTKVLSTLTPKEER 577 Query: 627 VLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSR++KLR F Sbjct: 578 ILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF 632 >gi|222475070|ref|YP_002563485.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Florida] gi|255003048|ref|ZP_05278012.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Puerto Rico] gi|255004170|ref|ZP_05278971.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Virginia] gi|222419206|gb|ACM49229.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Florida] Length = 646 Score = 492 bits (1266), Expect = e-137, Method: Compositional matrix adjust. Identities = 289/655 (44%), Positives = 408/655 (62%), Gaps = 67/655 (10%) Query: 39 RQRGYVTIEELNAFLPPDEV-SSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 +Q G +T ++++ L D+V SSE +++T+++L + GI V+ E+ E+ D Sbjct: 46 KQGGVITFDDISDALSDDDVVSSESIDETISLLQDSGIGVL-------EQSDEEEADAVV 98 Query: 98 SASNSSVFLQKRKDSADRS---------TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S N++ KD D + TDDP+RMYL EM S+ELLSREGEI IAKRI++ Sbjct: 99 SEENAA------KDEEDEAGMRSLDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKS 152 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + M+ SL E+PL + + WRD+L + +LR++IDL+A +GG Sbjct: 153 EKINMLRSLIEAPLVLRTFMSWRDDLVNQQVMLRDLIDLDA----NYRGGAPRQEFEEGG 208 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 + E E DV GD +DE DE ED SA Sbjct: 209 EYGEQEMAEPGDSDVG---GD---------------------GADDE---DEGEDSSAGN 241 Query: 269 LSA--MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 S ME L PKV+ LD E ++ ++ + K +K + L E + +LV Sbjct: 242 ASILEMESALLPKVISILDATIESAEKILEMKKQKRDSGKYDKKAYNA--LHENIWELVS 299 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSY 386 + L+ + + +Q+Y++SK I E L+ L +SYG+ R FLE + + + Sbjct: 300 QMKLSDPAVLSVTQQIYNLSKAIAAEEAALMSLVESYGVDRKSFLEAYNNNTV------F 353 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 + EWKN + E ++ I+N+++ +S E S F+ +V+ ++K E A+ AK+ Sbjct: 354 EQANASPEWKNLLEKEKKTLTDIQNKVRLLSGED--SPGNFKALVAKIQKHERTANKAKQ 411 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFSTYA WWV+Q Sbjct: 412 EMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQ 471 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITR+IADQ+ TIRIPVHM + ++K+ RT R+M ++I REPT EE++ +L M VE +RKV Sbjct: 472 AITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEIGREPTLEELSTRLGMNVEKIRKV 531 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI K+P+SLE+PIGD+D+S GD IEDK AV P ++A+ A+LRE TT+VL++LTP+EER Sbjct: 532 MKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITTKVLSTLTPKEER 591 Query: 627 VLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSR++KLR F Sbjct: 592 ILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF 646 >gi|23013315|ref|ZP_00053224.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 333 Score = 488 bits (1256), Expect = e-135, Method: Compositional matrix adjust. Identities = 241/333 (72%), Positives = 280/333 (84%), Gaps = 1/333 (0%) Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 +M EG LLRLA+S +KR FL+ + G ELDP+W+ + +WK+F A Sbjct: 1 MMMQEGRLLRLAESCRVKRQDFLDAYYGSELDPNWLEQVAQRSK-QWKDFAARHGKDAAD 59 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IR I IS E G+ ISE+R IV V++GE E+S AKKEM+EANLRLVIS+AKKYTNRGL Sbjct: 60 IRATIAEISGEAGLPISEYRRIVQTVQRGERESSRAKKEMIEANLRLVISIAKKYTNRGL 119 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 120 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 179 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R+M ++I REPTPEE+A+KL+MP+E VRKVLKI KEPISLETPIGDE+ SHL Sbjct: 180 INKLVRTSRQMLHEIGREPTPEELAEKLSMPLEKVRKVLKIAKEPISLETPIGDEEDSHL 239 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDKNAV PLD+AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+Q Sbjct: 240 GDFIEDKNAVLPLDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ 299 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 300 FSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 332 >gi|88607510|ref|YP_505167.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ] gi|88598573|gb|ABD44043.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ] Length = 627 Score = 487 bits (1253), Expect = e-135, Method: Compositional matrix adjust. Identities = 286/659 (43%), Positives = 421/659 (63%), Gaps = 58/659 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEV-SSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 + K +Q G VT ++LN L DEV +S+ +++T++ML + GI+V++ D Sbjct: 15 ITKGIKQGGIVTFDDLNDALSDDEVVTSDSIDETISMLQDSGISVLE---------QSDV 65 Query: 93 LDLASSASNSSVFLQKRKDSADRS-----TDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D + + SV + +++ RS TDDP+RMYL EM S+ELLSREGEI IAKRI+ Sbjct: 66 DDTDDTVTGESVVKDEEDEASIRSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIK 125 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA---CIGPESKGGFFHGTE 204 + + M+ + E+PL + + WRD+L + LLR++IDL+A C P+ GF G + Sbjct: 126 SEKVNMLRCMVEAPLVLRTFMSWRDDLVNQQVLLRDLIDLDANYRCGFPQP--GFGEG-D 182 Query: 205 GHSYQKREDSSQEKERDDV--QETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 G Y R DV +GD++ + + + +S NA Sbjct: 183 GEEYGV--------GRGDVVLPPDDGDVDPESSLDDEADEDDESSLGNA----------- 223 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 ++ ME L PKV+ LD E ++ ++ +G + ++++ L + + Sbjct: 224 -----SILEMESALLPKVISILDSTIEAAEKILEMKKKKRDGGEYDENAYN--ELHDSIW 276 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 ++V + L+ S + + +Q+Y +SK I E L+ LA+SYG+ R FL+ + + Sbjct: 277 EMVSQMKLSDSAVASVTQQIYALSKSIAAEESSLISLAESYGVDRKSFLDAYNNNTI--- 333 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 AK EW+N + E D++L+++N +K +S E F+ +V+ ++K E A+ Sbjct: 334 -AEQAK--TSFEWQNLLDKEGDTLLEMQNRVKLLSGED--CPGSFKALVAKIQKHERTAN 388 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFSTYA W Sbjct: 389 RAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATW 448 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 WV+QAITR+IADQ+ TIRIPVHM + ++K+ RT R+M ++I REPT EE++ +L + VE Sbjct: 449 WVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEIGREPTLEELSARLNINVEK 508 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKV+KI K+P+SLE+PIGD+D+S GD IEDK AV P ++A+ A+LRE TT+VL++LTP Sbjct: 509 IRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITTKVLSTLTP 568 Query: 623 REERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +EER+LRMRFGIG + DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR++KLR F Sbjct: 569 KEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF 627 >gi|269958878|ref|YP_003328667.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel] gi|269848709|gb|ACZ49353.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel] Length = 649 Score = 483 bits (1242), Expect = e-134, Method: Compositional matrix adjust. Identities = 285/656 (43%), Positives = 411/656 (62%), Gaps = 69/656 (10%) Query: 39 RQRGYVTIEELNAFLPPDEV-SSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 +Q G +T ++++ L D+V SSE +++T+++L + GI V+ E+ E+ D A Sbjct: 49 KQGGVITFDDISDALSDDDVVSSESIDETISLLQDSGIGVL-------EQSDEEEADAAV 101 Query: 98 SASNSSVFLQKRKDSADRS---------TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S N++ KD D S TDDP+RMYL EM S+ELLSREGEI IAKRI++ Sbjct: 102 SEENAA------KDEEDESGMRSLDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKRIKS 155 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + M+ SL E+P+ + + WRD+L + +LR++IDL+A +GG Sbjct: 156 EKVNMLRSLIEAPMVLRTFMSWRDDLVNQQVMLRDLIDLDA----NYRGGAPQQEFEEGE 211 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 + E + E DV D + + + + + Sbjct: 212 EYGEREMADPEDSDVGHEGSDDDDEGEDASVGNA-------------------------S 246 Query: 269 LSAMEDQLRPKVMCALD---EIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 + ME L PKV+ LD E AE E++ + ++ G+ DEK+ + L E + +LV Sbjct: 247 ILEMESALLPKVISILDATIESAEKILEMKKRKRDS--GKCDEKAYNE---LHENIWELV 301 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 + L+ + + +Q+Y++SK I E L+ L +SYG+ R FLE + + Sbjct: 302 SQMKLSDPAVLSVTQQIYNLSKAIAAEEVALMSLVESYGVDRKSFLEAYNNNTV------ 355 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 + + EWKN + E ++ I+N+++ +S E S F+ +V+ ++K E A+ AK Sbjct: 356 FEQADASPEWKNLLEKEKKTLTDIQNKVRLLSGED--SPGSFKALVAKIQKHERTANKAK 413 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +EM++ANLRLV+S+AKKY+NRGLQFLDL+QEGNIGLMKA +KFD+ GYKFSTYA WWV+ Sbjct: 414 QEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVR 473 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITR+IADQ+ TIRIPVHM + ++K+ RT R+M ++I REPT EE++ +L M VE +RK Sbjct: 474 QAITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEIGREPTLEELSARLGMNVEKIRK 533 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 V+KI K+P+SLE+PIGD+D+S GD IEDK AV P ++A+ A+LRE TT+VL++LTP+EE Sbjct: 534 VMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENAAVLADLREITTKVLSTLTPKEE 593 Query: 626 RVLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 R+LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSR++KLR F Sbjct: 594 RILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF 649 >gi|88810991|ref|ZP_01126247.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] gi|88791530|gb|EAR22641.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] Length = 609 Score = 479 bits (1232), Expect = e-133, Method: Compositional matrix adjust. Identities = 284/661 (42%), Positives = 397/661 (60%), Gaps = 75/661 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I +++GY+T E+N LP D V EQ+ED + M+++MGI+V + D Sbjct: 11 RELIARGKEQGYLTYAEVNDHLPDDIVDPEQIEDIIGMINDMGISV------HETAPDSD 64 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTD-------DPVRMYLREMGSIELLSREGEIAIAK 144 +L L+ +A + + +A S D DPVRMY+REMG++ELL+REGEI +AK Sbjct: 65 TLLLSDAAVATDEDEAEEAAAALASVDAEFGRTTDPVRMYMREMGTVELLTREGEIELAK 124 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIE G ++ +L P + + L + G L+EI+ F G E Sbjct: 125 RIEEGLDQVLRALSAYPESARTLCSLHRHVEAGRLRLQEIL------------AGFRGLE 172 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 D++ ++ + + DD ED+ Sbjct: 173 ----------------DELDGGADAVDVSVGIDGDD---------------------EDE 195 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKS-SVKCKVLKEKLVK 323 + + +A + P ++ +++ +R L + + ++ S S +C+ L+E++ Sbjct: 196 ESASNAAADSGPNP------EQAVQLFNRIRELHEALLIALQERGSGSEQCRELREEMGN 249 Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPH 382 L S+ L ID + E L +RI E E+ R+ + G+ R F+ GRE DP Sbjct: 250 LFLSMKLAPKVIDGMAENLRKAVERIRRAEREVTRICVKQAGMPRKEFITLFPGRETDPS 309 Query: 383 WVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 WV D P + VA +L+ + + +I TG+++SE + I + GE + Sbjct: 310 WVDELIRADKP---YSEAVAERRQMLLEAQVGLAAIQEATGLAVSEVKEINRRMSIGEAK 366 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 367 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 426 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ RT+R+M ++ REP P+E+A+++ MP Sbjct: 427 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRTSRQMLQEMGREPQPDELAERMEMPE 486 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED +SP+DSA + L+E+ VLA L Sbjct: 487 DKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDAAVMSPVDSATREGLKESVREVLAGL 546 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFL Sbjct: 547 TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSESLRSFL 606 Query: 681 D 681 D Sbjct: 607 D 607 >gi|254362696|ref|ZP_04978782.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica PHL213] gi|153094317|gb|EDN75178.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica PHL213] Length = 623 Score = 476 bits (1225), Expect = e-132, Method: Compositional matrix adjust. Identities = 291/654 (44%), Positives = 400/654 (61%), Gaps = 57/654 (8%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGSE 90 I R++GY+T+ E++ LP + V +EQ+ED + M+++MGI V+ D DDL E Sbjct: 19 ISQGREQGYLTLSEVHDHLPEELVDAEQIEDIIQMINDMGIQVLEAAPDADDLLLAENIA 78 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D D+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 79 DE-DVVEEATK---VLSTVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEGI 133 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + ++ E P L+ ++ G L +++ A + P Sbjct: 134 NEVQCAIAEYPEALSGLLACYAQVETGEMRLSDLVT--AFVDP----------------- 174 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 + +E +D++ G+ D D P + EN EDE+ + + S Sbjct: 175 --NILEEAPLEDIEAALGE----------DEESSDVPDVDDEN------EDENGDSSSDS 216 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLS 329 + + + P++ E + LRS + + QK ++S K K E L + Sbjct: 217 SDDSSIDPELA------REKFEALRSQHEKVLLVIQKHGRTSKKSKEQIEILSHIFREFR 270 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY-GIKRDVFLERHQGRELDPHWVSYAK 388 L + DLLV + + K++ E ++ R A Y G+K+ FL+ QG EL W+ A Sbjct: 271 LVPKQFDLLVASMQKLMKQVRTEERQIQRYAVEYAGMKKADFLKAFQGHELSEAWIEKAI 330 Query: 389 DFPEGEWKNFVACEVDSI-LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + + A VD+I + I N ++++ +G++I++ R I + GE +A AKKE Sbjct: 331 NAKKNAAPKL-ANYVDNIRVNIAN-LQNLEQTSGLTIAQIREIGGRISNGELKARRAKKE 388 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 389 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 448 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVL Sbjct: 449 ITRSIADQARTIRIPVHMIETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVL 508 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD+D SHLGDFI+D++ PLDSA +LR T VL LTPRE +V Sbjct: 509 KIAKEPISMETPIGDDDDSHLGDFIQDESLELPLDSATAESLRMATNEVLEGLTPREAKV 568 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 569 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 622 >gi|332288976|ref|YP_004419828.1| RNA polymerase sigma factor RpoD [Gallibacterium anatis UMN179] gi|330431872|gb|AEC16931.1| RNA polymerase sigma factor RpoD [Gallibacterium anatis UMN179] Length = 624 Score = 473 bits (1218), Expect = e-131, Method: Compositional matrix adjust. Identities = 292/662 (44%), Positives = 400/662 (60%), Gaps = 60/662 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---- 83 K++I +++GY+T E+N LP D V ++Q+ED + M+++MGI V+ D DDL Sbjct: 10 KQLIAQGKEQGYLTYAEVNDSLPEDLVDADQIEDIIQMINDMGIQVLESAPDADDLMLNE 69 Query: 84 --EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DE+ E++ + SS +S T DPVRMY+REMGS+ELL+REGEI Sbjct: 70 NVTDEDAVEEATQVLSSV-----------ESEIGRTTDPVRMYMREMGSVELLTREGEID 118 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAKRIE G + ++ E P L+ D + G L ++I + P + Sbjct: 119 IAKRIEEGINEVQCAVAEYPQALDHLLAQYDLVEKGEVRLSDLIT--GFVDPNAVD---- 172 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 TE +S +DS + ++ D++ + D + S + + +A+ND N D Sbjct: 173 -TEDYSKFMSDDSGEGEDDDNISSDDLDESDDDEDSDSESNN------SADNDSDN-SID 224 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 + + SA+++Q K + A+D+ G K K + L Sbjct: 225 PEMAREKFSALKEQ-HHKTVAAIDKYG--------------RGNKKAKDQINA------L 263 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELD 380 ++ L + D+LV + D+ KRI E ++ RLA Y + + F + G E + Sbjct: 264 SEIFQQFRLVPKQFDILVLSMRDMMKRIRTQERQIQRLAVEYAKMPKGTFQKAFIGHETN 323 Query: 381 PHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W+ A G+ W + D I + +K I E+G++I++ R I + +GE Sbjct: 324 DAWIEKA--LAAGKNWSEKLKDYEDGIRQAIALLKVIEQESGLTITQIRQIGEKISQGEL 381 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 382 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 441 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE +PEE+A+++ MP Sbjct: 442 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREASPEELAERMGMP 501 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 502 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDNTLELPLDSATAQSLKVATHEVLEG 561 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 562 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 621 Query: 680 LD 681 LD Sbjct: 622 LD 623 >gi|322513554|ref|ZP_08066654.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinobacillus ureae ATCC 25976] gi|322120625|gb|EFX92519.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinobacillus ureae ATCC 25976] Length = 618 Score = 473 bits (1218), Expect = e-131, Method: Compositional matrix adjust. Identities = 286/656 (43%), Positives = 402/656 (61%), Gaps = 62/656 (9%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLD 94 I R++GY+TI E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 15 IAQGREQGYLTISEVHDHLPEELVDAEQIEDIIQMINDMGIKVLETAPDTDE------LM 68 Query: 95 LASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 LA + ++ V + K +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 69 LAENIADEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQ 209 + ++ E P LI + ++ +GT L +++ A + P Sbjct: 129 INEVQCAVAEYPEALTELIGFYAQVEEGTMRLSDLVT--AFVDP---------------- 170 Query: 210 KREDSSQEKERDDVQET--EGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 ++ +E +D++ + D E+ A V + + + +D Sbjct: 171 ---NAQEEATVEDLEAVLDDEDAEAVADVDDESEEEGSDSSADTGDD------------- 214 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 ++++ +L + AL E E ++LQ +G+ +KS + + L + + Sbjct: 215 --NSIDPELAREKFYALREQHE-----KALQAIQKHGRGHKKSREQIQALSD----IFRE 263 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L + DLLVE + + K++ E ++ R A Y +K+ FL+ QG E W+ Sbjct: 264 FRLVPKQFDLLVESMQKMMKQVRAEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWIEK 323 Query: 387 AKDFPEGEWKNFVACEVDSI-LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 A + +G A VD I + I N ++ + TG+++++ R I + GE +A AK Sbjct: 324 AINAKKGAAPKL-ANYVDQIRVNIAN-LQRMEQSTGLTVAQIREIGGRIANGELKARRAK 381 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 382 KEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 441 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RK Sbjct: 442 QAITRSIADQARTIRIPVHMIETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRK 501 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD+D SHLGDFI+D++ PLDSA +LR T VL LTPREE Sbjct: 502 VLKIAKEPISMETPIGDDDDSHLGDFIQDESLELPLDSATAESLRIATNEVLEGLTPREE 561 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 562 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 617 >gi|167855425|ref|ZP_02478190.1| RNA polymerase sigma factor 70 [Haemophilus parasuis 29755] gi|219871370|ref|YP_002475745.1| RNA polymerase sigma factor RpoD [Haemophilus parasuis SH0165] gi|167853419|gb|EDS24668.1| RNA polymerase sigma factor 70 [Haemophilus parasuis 29755] gi|219691574|gb|ACL32797.1| RNA polymerase sigma factor RpoD [Haemophilus parasuis SH0165] Length = 621 Score = 472 bits (1215), Expect = e-131, Method: Compositional matrix adjust. Identities = 290/661 (43%), Positives = 402/661 (60%), Gaps = 70/661 (10%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL------ 83 +I R++GY+TI E++ LP + V ++Q+ED + M+++MGI V+ D DDL Sbjct: 17 LIAQGREQGYLTISEVHDHLPEELVDADQIEDIIQMINDMGIKVLETAPDADDLMLAGNI 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 DE+ E++ + S+ +S T DPVRMY+REMG++ELL+REGEI IA Sbjct: 77 ADEDVVEEATKVLSTV-----------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIA 125 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIE G + + E P LI D++ +GT L +++ A + P + Sbjct: 126 KRIEEGINEVQCVIAEYPEALSELIARYDQVEEGTVRLSDLVT--AFVDPNA-------- 175 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 V+ T D A + + V + +E+ E + D +D Sbjct: 176 -------------------VESTPVDDLDADLDEESESDTVADIDDESEDGESSGDGGDD 216 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVK 323 +S ++ +L + L E + ++LQ +G+ ++S + + L + Sbjct: 217 NS------IDPELAREKFTLLKE-----QHQKALQAIQKHGRTSKRSRDQIQALSD---- 261 Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY-GIKRDVFLERHQGRELDPH 382 + L + DLLVE + + K++ E ++ R A Y G+K+ F++ QG EL Sbjct: 262 IFREFRLVPKQFDLLVETMQKMMKQVRAEERQIQRYAVEYAGMKKTDFIKVFQGNELSEA 321 Query: 383 WVSYAKDFPEGEWKNFVACEVDSI-LKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W+ A + +G A VD+I + I N ++ + TG++I++ R I + GE +A Sbjct: 322 WIDKAINAKKGGVPKL-ANYVDNIRVNIAN-LQKLEETTGLTITQIREIGGRIADGELKA 379 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 380 RKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 439 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ ++ RE TPEE+A+K+ MP + Sbjct: 440 WWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQCLQEMGREATPEELAEKMGMPED 499 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASL 620 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED + PLDSA +LR T VL L Sbjct: 500 KIRKVLKIAKEPISMETPVGDDDDSHLGDFIEDSSLELPLDSATAESLRIATNAVLEEGL 559 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL Sbjct: 560 TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFL 619 Query: 681 D 681 D Sbjct: 620 D 620 >gi|258545971|ref|ZP_05706205.1| DNA-directed RNA polymerase, sigmasubunit [Cardiobacterium hominis ATCC 15826] gi|258518776|gb|EEV87635.1| DNA-directed RNA polymerase, sigmasubunit [Cardiobacterium hominis ATCC 15826] Length = 617 Score = 470 bits (1209), Expect = e-130, Method: Compositional matrix adjust. Identities = 288/676 (42%), Positives = 419/676 (61%), Gaps = 66/676 (9%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 SD E E + +D D+ K+++ R++G++T EE++ LP + ++ ++ +A++ Sbjct: 2 SDFEQEPEE----YDVQDEV-KELLARGREQGFLTYEEIHEALPEHALEGDKYDEMIALI 56 Query: 71 SNMGINVVDGDDLEDEEG----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 MGI+VV+ E+G ++D ++ S+A+ + + + T DPVRMY+R Sbjct: 57 VEMGIDVVES---AQEDGGVIATDDEEEVPSAAALNEAEIGR--------TTDPVRMYMR 105 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMG+++LL+REGEIAIAKRIEAG + +L E P AL+ ++ G L ++++ Sbjct: 106 EMGAVDLLTREGEIAIAKRIEAGLNTVQQTLAEFPFAVSALLEEFAKIEAGEGRLSDLVN 165 Query: 187 LEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDS 246 G+ G Y +E+ + + DD +++E I SA +DD S + Sbjct: 166 -----------GY-----GDPYANKEEETLLESSDD-EDSETLI-SAGDDDEDDDSA--A 205 Query: 247 PPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK 306 P E A N++ L E ++ H L+A + K+M AL+ + +++ +K Sbjct: 206 PLEEAPNNQDALLEAKE-KLHELAA----IHKKLMTALN------------KGKSLDDKK 248 Query: 307 DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGI 365 ++K L ++ + + + S Q IDL+ QL ++ I E L+RL + G+ Sbjct: 249 NQK-------LHGEIKEYIAAFSFPQKTIDLMEAQLNVAAEEIRDIERRLMRLVIERAGM 301 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 R +F++ G E +P W+ + ++ + + I + + I +SI Sbjct: 302 PRKLFIQEFPGNETNPDWI-VGQSKQRRKYAEKLKGMITEIQVEQEKYLEIEKRYHMSIL 360 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + I + G+ +A AK+EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 361 QLKEIQKRLSMGKNQAKRAKEEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 420 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R + K R Sbjct: 421 DKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRTLVQKNGR 480 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+ + MP E +RKVLKI KEPIS+ETPIGD++ SHLGDFIED N +SPL++A Sbjct: 481 EPTPEELAEAMDMPEEKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSNVMSPLEAAT 540 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L E T VLASLTPREERVLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 541 TRGLSEATNEVLASLTPREERVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALR 600 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HP+RS+ L+SFL+ Sbjct: 601 KLRHPNRSELLKSFLN 616 >gi|33151868|ref|NP_873221.1| RNA polymerase sigma factor RpoD [Haemophilus ducreyi 35000HP] gi|33148089|gb|AAP95610.1| RNA polymerase sigma factor [Haemophilus ducreyi 35000HP] Length = 613 Score = 469 bits (1207), Expect = e-130, Method: Compositional matrix adjust. Identities = 291/658 (44%), Positives = 398/658 (60%), Gaps = 65/658 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I R++GY+TI E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 10 LIAQGREQGYLTISEVHDHLPEELVDAEQIEDIIQMINDMGIKVLETAPDTDE------L 63 Query: 94 DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 LA + ++ V + K +S T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 64 MLAENIADEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEE 123 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G + ++ E P LI + ++ +GT L +++ A + P + Sbjct: 124 GINEVQCAVAEYPEALTELIGFYAQVEEGTMRLSDLVT--AFVDPNIQA----------- 170 Query: 209 QKREDSSQEKERDDVQETEGDI-ESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +DV E + D+ E A+ V D + + + D N D++ D Sbjct: 171 -----------EEDVVELDSDLDEEASDVVADVDDENEDEESDGSAD--NTDDNSIDP-- 215 Query: 268 TLSAMEDQLRPKVMCALDEIA-EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLV 325 E+A E + LR + A+ QK +S K K + L + Sbjct: 216 ------------------ELAREKFYALREQHEKALQAIQKHGRSHKKSKQHIQALSDIF 257 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWV 384 L + DLLVE + + K++ E ++ R A Y +K+ FL+ QG E W+ Sbjct: 258 REFRLVPKQFDLLVESMQRMMKQVRAEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWI 317 Query: 385 SYAKDFPEGEWKNFVACEVDSI-LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 A + +G A V+ I + I N ++ + +T +++++ R I + GE +A Sbjct: 318 DKAINARKGAAPKL-ANYVEQIRINISN-LQRMEQDTDLTVAQIREIGGRIASGELKARR 375 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 376 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 435 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ ++ RE TPEE+A+++ MP + + Sbjct: 436 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQCLQEMGREATPEELAERMGMPEDKI 495 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKVLKI KEPIS+ETPIGD+D SHLGDFI+D+N PLDSA +LR T VL LTPR Sbjct: 496 RKVLKIAKEPISMETPIGDDD-SHLGDFIQDENLELPLDSATAESLRLATNEVLEGLTPR 554 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 555 EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 612 >gi|297180868|gb|ADI17073.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured alpha proteobacterium HF0010_30A23] Length = 668 Score = 468 bits (1204), Expect = e-129, Method: Compositional matrix adjust. Identities = 244/419 (58%), Positives = 310/419 (73%), Gaps = 6/419 (1%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQ-DNAVNGQKDEKSSVKCKVLKEK----LV 322 +LSAME LR VM ALD IA Y L +Q D Q E + E+ ++ Sbjct: 250 SLSAMEGILREDVMEALDVIAGAYGGLHKVQKDRMTLLQTGEDVPEDIEAAYEEGRDTVI 309 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 + + + LN + ID LV+Q+ I+K I+ +E +L++L+ I RD F++ + E+DP Sbjct: 310 RAMKLIRLNNNLIDQLVDQMKSINKAIIGHEIKLMKLSDRCKIPRDEFIDEYFENEIDPS 369 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W+ + + WK +IR +I I + + +SEF+ IV V+KGE +++ Sbjct: 370 WLERMAE-ADASWKMLYERYGSMAKEIREDIADIIHQVDLPVSEFKRIVEKVQKGERDSN 428 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 429 RAKAEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 488 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+VRT R+M ++I RE TPEE+A +L MP+E Sbjct: 489 WIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREATPEELAARLGMPLEK 548 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKV+KI KEPISLETPIGDE+ SHLGDFI+D+NA+ P+++AI NLRE+TTRVL+SLTP Sbjct: 549 VRKVMKIAKEPISLETPIGDEEDSHLGDFIKDENAIIPVEAAINNNLRESTTRVLSSLTP 608 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 609 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 667 >gi|270158971|ref|ZP_06187627.1| RNA polymerase sigma factor RpoD [Legionella longbeachae D-4968] gi|289166186|ref|YP_003456324.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella longbeachae NSW150] gi|269987310|gb|EEZ93565.1| RNA polymerase sigma factor RpoD [Legionella longbeachae D-4968] gi|288859359|emb|CBJ13295.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella longbeachae NSW150] Length = 622 Score = 468 bits (1203), Expect = e-129, Method: Compositional matrix adjust. Identities = 286/661 (43%), Positives = 391/661 (59%), Gaps = 67/661 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + +DE + Sbjct: 15 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPGDDELALLLN 73 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 74 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ + N L EII D+E I P S G Sbjct: 133 VLKSLAHYPETVQLVLDDYERFNAQEIRLNEIISGFADVEDEIAPASSIGSML------- 185 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAH 267 D Q++E + + E D + + + D D P PE A+ Sbjct: 186 ----DEDQQQEEEILLSDEEDEDGEGGMVEVD----DGPNPEQAK--------------- 222 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 D LR A+ + E +G+ K++ +++ E +KL Sbjct: 223 ---IYFDDLRETYEAAIVALKE-------------HGRTHAKTTKALEIMSESFLKL--- 263 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVS- 385 L ++D L + I +E ++RL + I R +F++ G+E D W++ Sbjct: 264 -KLTSRQVDRLTRHFRQLRNHIREHERGIMRLCIEKARIPRKLFIDTFPGQETDLEWLNT 322 Query: 386 ----YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 Y+K N + + IL+I++ + + +E G+SISE + I + GE +A Sbjct: 323 IIAKYSKKLD----MNRIQENTEEILRIQSRLVAFELEYGLSISEIKEINRKMSIGEAKA 378 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 379 RRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 438 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 439 WWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSED 498 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LT Sbjct: 499 KIRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLT 558 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+ Sbjct: 559 PREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLE 618 Query: 682 G 682 G Sbjct: 619 G 619 >gi|71899844|ref|ZP_00681993.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|71730361|gb|EAO32443.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] Length = 623 Score = 468 bits (1203), Expect = e-129, Method: Compositional matrix adjust. Identities = 282/655 (43%), Positives = 397/655 (60%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V +Q+ED + M++ MGI V D + L E Sbjct: 18 KQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLNE 77 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 78 GNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 137 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + + A+L PL+ + L+ + +G L E++ GF Sbjct: 138 EGLSEVQAALGAFPLSTELLLSEYELHKEGKRRLTEVV-----------VGF-------- 178 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +D+ E + + SA V+ + +VD E D+ ++ DED Sbjct: 179 -------------NDLIEEDNSVTSAVDVTDESIVEVD------EEDDDSVGNDED---- 215 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + M +V ++ ++ Y + + L A +G + K+ +K + E + + + Sbjct: 216 --APMIGPDPAEVASRIESLSTEYAKFKKLY--AKHG-PEHKAVIKVR---EDVAAIFVT 267 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L+ DLLV+QL + + +E ++L LA + + R F+ + + + WV Sbjct: 268 FKLSLPLTDLLVQQLQNTVNSVKDHERKVLHLATNVAKMPRKDFIRSWENNQTNLEWVED 327 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + +W + + D I + + +++++ + I M+ GE +AS AKK Sbjct: 328 AIKRKQ-KWSSALRDIKDQITAEQQASIDLEKANSLTLADIKEINRMMVYGEAKASKAKK 386 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA KF+ G+KFSTYA WW++Q Sbjct: 387 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFKFSTYATWWIRQ 446 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV Sbjct: 447 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKV 506 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE + Sbjct: 507 MKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAK 566 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 567 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 621 >gi|254447663|ref|ZP_05061129.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium HTCC5015] gi|198263006|gb|EDY87285.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium HTCC5015] Length = 602 Score = 468 bits (1203), Expect = e-129, Method: Compositional matrix adjust. Identities = 284/666 (42%), Positives = 397/666 (59%), Gaps = 102/666 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------------ 79 K +I +++GY+T E+N LP + V EQ+ED + M+++MGI V++ Sbjct: 22 KLLIAKGKEQGYLTFAEVNDHLPNEIVDPEQVEDIIQMINDMGIKVLESAPDAEELLMME 81 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 GD DE+ E +A+ A+N S F + T DPVRMY+REMG++ELL+REGE Sbjct: 82 GDTSNDEDADEA---VANLANNDSDFGR---------TTDPVRMYMREMGTVELLTREGE 129 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 I IAKRIE G ++ +L P AL E DG II+ E I + GGF Sbjct: 130 IEIAKRIEDGLRQVVTALSTYPHAVNALF----ETYDG------IIEREGRI-TDLIGGF 178 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 + + D+VQ P +N++ + Sbjct: 179 I----------------DPDDDEVQN----------------------PNAPKNEDEEAE 200 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKE 319 ED ++ +Q+R + A + +Y Q++ K+S E Sbjct: 201 EDTGPDLEEVAKHINQMRKQYEKATKKKDGIY-------------QREAKAS-------E 240 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL +L L L+ + I+ ++ + D+ R+ E +++ + G+ R F++ E Sbjct: 241 KLSELFMQLKLDNNFINREIQLVRDVVGRVRQLERDVMTICVHRCGMPRKTFIDSFPENE 300 Query: 379 LDPHWV---SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 +P+WV S +K F E +A + + +++ + I E+G+SIS+ + I + Sbjct: 301 TNPNWVKDHSKSKKFGEK-----IAAHANDLNELQQHLIRIEQESGLSISDLKEINRKMS 355 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 G+ +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 356 IGQAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 415 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE TPEE+A++ Sbjct: 416 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREATPEELAER 475 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + VRKVLKI KEPIS+ETP+GD++ S LGDF++D NA SP+++A+ L E+T Sbjct: 476 MEMPEDKVRKVLKIAKEPISMETPVGDDEDSSLGDFLQDVNAESPIEAAVGEGLSESTRD 535 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +LA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS Sbjct: 536 ILAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDS 595 Query: 676 LRSFLD 681 LRSFLD Sbjct: 596 LRSFLD 601 >gi|71274854|ref|ZP_00651142.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Dixon] gi|71902125|ref|ZP_00684157.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|170729898|ref|YP_001775331.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa M12] gi|71164586|gb|EAO14300.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Dixon] gi|71728114|gb|EAO30313.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Xylella fastidiosa Ann-1] gi|167964691|gb|ACA11701.1| RNA polymerase sigma-70 factor [Xylella fastidiosa M12] Length = 623 Score = 466 bits (1200), Expect = e-129, Method: Compositional matrix adjust. Identities = 281/655 (42%), Positives = 398/655 (60%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V +Q+ED + M++ MGI V D + L E Sbjct: 18 KQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLNE 77 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 78 GNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 137 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + + A+L PL+ + L+ + +G L E++ GF Sbjct: 138 EGLSEVQAALGAFPLSTELLLSEYELHKEGKRRLTEVV-----------VGF-------- 178 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +D+ E + + S+ V+ + +VD E D+ ++ DED Sbjct: 179 -------------NDLIEDDNSVTSSVDVTDESIVEVD------EEDDDSVGNDED---- 215 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + M +V ++ ++ Y + + L A +G + K+ +K + E + + + Sbjct: 216 --APMIGPDPAEVASRIESLSTEYAKFKKLY--AKHG-PEHKAVIKVR---EDMAAIFVT 267 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L+ DLLV+QL ++ + +E ++L LA + + R F+ + + + WV Sbjct: 268 FKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRSWENNQTNLEWVED 327 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + +W + + D I + + +++++ + I M+ GE +AS AKK Sbjct: 328 AIKRKQ-KWSSALRDIKDQITAEQQSSIDLEKVNSLTLADIKEINRMMVYGEAKASKAKK 386 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA KF+ G+KFSTYA WW++Q Sbjct: 387 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFKFSTYATWWIRQ 446 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV Sbjct: 447 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKV 506 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE + Sbjct: 507 MKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAK 566 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 567 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 621 >gi|32130003|sp|Q87DT7|RPOD_XYLFT RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|307579626|gb|ADN63595.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa subsp. fastidiosa GB514] Length = 618 Score = 466 bits (1200), Expect = e-129, Method: Compositional matrix adjust. Identities = 281/655 (42%), Positives = 398/655 (60%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V +Q+ED + M++ MGI V D + L E Sbjct: 13 KQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLNE 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + + A+L PL+ + L+ + +G L E++ GF Sbjct: 133 EGLSEVQAALGAFPLSTELLLSEYELHKEGKRRLTEVV-----------VGF-------- 173 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +D+ E + + S+ V+ + +VD E D+ ++ DED Sbjct: 174 -------------NDLIEEDNSVTSSVDVTDESIVEVD------EEDDDSVGNDED---- 210 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + M +V ++ ++ Y + + L A +G + K+ +K + E + + + Sbjct: 211 --APMIGPDPAEVASRIESLSTEYAKFKKLY--AKHG-PEHKAVIKVR---EDVAAIFVT 262 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L+ DLLV+QL ++ + +E ++L LA + + R F+ + + + WV Sbjct: 263 FKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRSWENNQTNLEWVED 322 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + +W + + D I + + +++++ + I M+ GE +AS AKK Sbjct: 323 AIKRKQ-KWSSALRDIKDQITAEQQASIDLEKVNSLTLADIKEINRMMVYGEAKASKAKK 381 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA KF+ G+KFSTYA WW++Q Sbjct: 382 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFKFSTYATWWIRQ 441 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV Sbjct: 442 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKV 501 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE + Sbjct: 502 MKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAK 561 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 562 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 616 >gi|15837951|ref|NP_298639.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa 9a5c] gi|20140311|sp|Q9PDM9|RPOD_XYLFA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|9106350|gb|AAF84159.1|AE003967_3 RNA polymerase sigma-70 factor [Xylella fastidiosa 9a5c] Length = 618 Score = 466 bits (1199), Expect = e-129, Method: Compositional matrix adjust. Identities = 282/655 (43%), Positives = 399/655 (60%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V +Q+ED + M++ MGI V D + L E Sbjct: 13 KQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLNE 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + + A+L PL+ + L+ + +G L E++ GF Sbjct: 133 EGLSEVQAALGVFPLSTELLLSEYELHKEGKRRLTEVV-----------VGF-------- 173 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +D+ E + + S+ V+ + +VD E D+ ++ DED A Sbjct: 174 -------------NDLIEEDNSVTSSVDVTDESIVEVD------EEDDDSVGNDED--AP 212 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 T+ +V ++ ++ Y + + L A +G + K+ +K + E + + + Sbjct: 213 TIGPDP----AEVASRIESLSTEYAKFKKLY--AKHG-PEHKAVIKVR---EDVAAIFVT 262 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L+ DLLV+QL ++ + +E ++L LA + + R F+ + + + WV Sbjct: 263 FKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRSWENNQTNLEWVED 322 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + +W + + D I + + +++++ + I M+ GE +AS AKK Sbjct: 323 AIKRKQ-KWSSALRDIKDQITAEQQASIDLEKANSLTLADIKEINRMMVYGEAKASKAKK 381 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA KF+ G+KFSTYA WW++Q Sbjct: 382 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFKFSTYATWWIRQ 441 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV Sbjct: 442 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKV 501 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE + Sbjct: 502 MKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAK 561 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 562 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 616 >gi|28198503|ref|NP_778817.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa Temecula1] gi|182681181|ref|YP_001829341.1| RNA polymerase sigma factor RpoD [Xylella fastidiosa M23] gi|28056587|gb|AAO28466.1| RNA polymerase sigma-70 factor [Xylella fastidiosa Temecula1] gi|182631291|gb|ACB92067.1| RNA polymerase, sigma 70 subunit, RpoD [Xylella fastidiosa M23] Length = 623 Score = 466 bits (1199), Expect = e-129, Method: Compositional matrix adjust. Identities = 281/655 (42%), Positives = 398/655 (60%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V +Q+ED + M++ MGI V D + L E Sbjct: 18 KQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLNE 77 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 78 GNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 137 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + + A+L PL+ + L+ + +G L E++ GF Sbjct: 138 EGLSEVQAALGAFPLSTELLLSEYELHKEGKRRLTEVV-----------VGF-------- 178 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +D+ E + + S+ V+ + +VD E D+ ++ DED Sbjct: 179 -------------NDLIEEDNSVTSSVDVTDESIVEVD------EEDDDSVGNDED---- 215 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + M +V ++ ++ Y + + L A +G + K+ +K + E + + + Sbjct: 216 --APMIGPDPAEVASRIESLSTEYAKFKKLY--AKHG-PEHKAVIKVR---EDVAAIFVT 267 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L+ DLLV+QL ++ + +E ++L LA + + R F+ + + + WV Sbjct: 268 FKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRSWENNQTNLEWVED 327 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + +W + + D I + + +++++ + I M+ GE +AS AKK Sbjct: 328 AIKRKQ-KWSSALRDIKDQITAEQQASIDLEKVNSLTLADIKEINRMMVYGEAKASKAKK 386 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA KF+ G+KFSTYA WW++Q Sbjct: 387 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGFKFSTYATWWIRQ 446 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV Sbjct: 447 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKV 506 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE + Sbjct: 507 MKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAK 566 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 567 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 621 >gi|238897855|ref|YP_002923534.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229465612|gb|ACQ67386.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 610 Score = 464 bits (1195), Expect = e-128, Method: Compositional matrix adjust. Identities = 291/658 (44%), Positives = 387/658 (58%), Gaps = 66/658 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLIARGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEQAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + ++ D A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTGETHDDAVEAATQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + S+ E P L+ D + G L ++I+ + P + G H Sbjct: 127 EGIHQVQCSVAEYPEAITYLLEQYDRVELGALRLSDLIN--GFVDPNIQENVLPGA-IHV 183 Query: 208 YQKREDSSQEKERD-DVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSA 266 + D+ + E D D E E D + +D PE A+ Sbjct: 184 GSELSDAEIDDEEDSDTSEVEDD------------NSID--PELAQQ------------- 216 Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 E+ Y R+ A+ + + ++LK L ++ Sbjct: 217 ----------------KFSELRAQYESTRT----AIKQKGRHHLTTATEILK--LAEIFK 254 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV- 384 SL + D LV + + R+ E +L+L + + + F+E E + W+ Sbjct: 255 QFSLVPKQFDYLVSSMRSMMDRVRVQERLILKLCVEQCKMPKKNFIELFLNNETNNSWLK 314 Query: 385 -SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 + A P E N V +V S ++ +++ I ETG+SI + + I + GE +A Sbjct: 315 TALAMKKPWVEKLNDVLEDVQSNVQ---KLRQIEEETGLSIEQVKDINRRMAIGEAKARR 371 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 372 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 431 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP E + Sbjct: 432 IRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPAPEELAERMLMPEEKI 491 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VLA LT R Sbjct: 492 RKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRLATNDVLAGLTAR 551 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 552 EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLKSFLD 609 >gi|23008120|ref|ZP_00049697.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 307 Score = 464 bits (1195), Expect = e-128, Method: Compositional matrix adjust. Identities = 222/301 (73%), Positives = 260/301 (86%) Query: 381 PHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 P+W++ WKNFV + +R +I +++ ETG+ I E+R IV+MV+KGE E Sbjct: 6 PNWMTRVATLGGKGWKNFVERGGRQVADLREQILTLASETGLQIGEYRKIVAMVQKGERE 65 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 66 ARQAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 125 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+ Sbjct: 126 TWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPL 185 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E VRKVLKI KEPISLETPIGDE+ SHLGDFIEDKN V P+D+AIQ+NLRETTTRVLASL Sbjct: 186 EKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNVVLPIDAAIQSNLRETTTRVLASL 245 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFL Sbjct: 246 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 305 Query: 681 D 681 D Sbjct: 306 D 306 >gi|300112780|ref|YP_003759355.1| RNA polymerase sigma 70 subunit RpoD [Nitrosococcus watsonii C-113] gi|299538717|gb|ADJ27034.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus watsonii C-113] Length = 602 Score = 462 bits (1188), Expect = e-127, Method: Compositional matrix adjust. Identities = 278/651 (42%), Positives = 385/651 (59%), Gaps = 68/651 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I + RGY++ E+N LP + + EQ+ED + M ++MGI+V + D D Sbjct: 14 KLLIARGKDRGYLSYSEVNDHLPEEVIDPEQIEDIITMFNDMGISVHEDMAEADALAIMD 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + A+ + D T DPVRMY+REMGS+ELL+REGEI+IAKRIE G Sbjct: 74 TAVADDEAAEEAAAALVSVDGEFARTSDPVRMYMREMGSVELLTREGEISIAKRIEEGMR 133 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 + +L P + L+ +++ G L ++I GF Sbjct: 134 QVYTALSRFPGSVAELLRQYEKVEVGEIRLVDVI-----------SGF------------ 170 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 QE E D++E+ + E + + E N +E+ D+ Sbjct: 171 ----QESEEADLKESAAEEEVSV------------------SSEGNAEEENDNG------ 202 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 LD + E + +LR L + + + + L E ++L L+ Sbjct: 203 ----------LDLDRVQEYFAQLRKLYERC-QAADHKGNDGALEELSEYFLQLKLMPRLS 251 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 Q L+E L + I E ++++A S + R FL Q +E + +WV Sbjct: 252 QR----LIENLRRVVAEIRVLERSIMKIAVNSAQMPRKDFLSSFQKQETNLNWVE-KHIR 306 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + + + + + D+I K + ++ ++ G+SI++ + I + GE A AKKEMVE Sbjct: 307 AKKHYSSVLRKQGDAIQKAQEKLIALEQRAGMSITQIKEINRSLSIGEARARRAKKEMVE 366 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 367 ANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 426 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 SIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTP+E+A+++ MP + VRKVLKI Sbjct: 427 SIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPTPDELAERVEMPKDKVRKVLKIA 486 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 +EPIS+ETPIGD++ SHLGDF+ED +SP DSAI + LRETT +LA LTPRE +VLRM Sbjct: 487 REPISMETPIGDDEDSHLGDFVEDAAVISPPDSAIFSGLRETTQLILAGLTPREAKVLRM 546 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 547 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 597 >gi|213018850|ref|ZP_03334658.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|212995801|gb|EEB56441.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 632 Score = 462 bits (1188), Expect = e-127, Method: Compositional matrix adjust. Identities = 278/665 (41%), Positives = 410/665 (61%), Gaps = 68/665 (10%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED-- 91 + K R+ G++T +++N L + S++ ++DT+A+L + GIN+++ + E+E S + Sbjct: 18 VTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGINILESSEDEEEAPSNNDG 77 Query: 92 -SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 LD ++ N++ L + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 78 NKLDDDETSLNTTTTLVQ--------NDDPVRIYLQDMSSVKLLSRADEIKIAKKIESEK 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 M+ ++ E+ + F+ + WRD+L+ GT LLREII+L+A + F+ + Sbjct: 130 HNMLRAIIETSVAFKIIKTWRDDLSGGTFLLREIINLDAIYNSD-----FNMVD------ 178 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 +E E +DV++ D E NDE+ +E ED S+ L+ Sbjct: 179 ----KEESEAEDVRDCVNDEEKG-------------------NDEKG-NESEDISSANLN 214 Query: 271 A----MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 ME L PKV+ ALDEI + E L+ N+ KD S + + L ++ + Sbjct: 215 ISVLEMESDLLPKVITALDEIIALTNEALVLKKNS----KD--FSNELENLYNQIWSVAL 268 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKR--------DVFLERHQGRE 378 + + + I + ++LY+I++ I E L+ A+ Y I R DV LE H+ E Sbjct: 269 QIQFSDAAITRITQKLYEINRLITFEEANLITEARKYDIDRESFYNVYDDVLLE-HEFSE 327 Query: 379 LDPHWVSYAKDFPEGEWKN-FVACEVDSILKIRNEIKSI-SVETGISISEFRHIVSMVRK 436 + ++ + GE KN F+ DS I + + +I S G + EF+ ++ ++K Sbjct: 328 ISFLKINENQSLFTGELKNKFLRFINDSYEYIASALSNIKSYVQGDRVQEFKKVIKRIQK 387 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E E S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKF Sbjct: 388 HEQEVSQAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKF 447 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STY WWVKQ+ITR+I +QS +RIPVHM + I K+ + R+M++++ REPT EE++ +L Sbjct: 448 STYGTWWVKQSITRAIPEQSKVVRIPVHMVEIISKINKALRKMTHEMGREPTLEELSIEL 507 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 AMP+E +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI A+LR TT V Sbjct: 508 AMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAILADLRGITTNV 567 Query: 617 LASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 LA+LTP+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR+KK Sbjct: 568 LATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRAKK 627 Query: 676 LRSFL 680 LR F Sbjct: 628 LRGFF 632 >gi|190571452|ref|YP_001975810.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|190357724|emb|CAQ55173.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Culex quinquefasciatus Pel] Length = 633 Score = 462 bits (1188), Expect = e-127, Method: Compositional matrix adjust. Identities = 278/663 (41%), Positives = 409/663 (61%), Gaps = 68/663 (10%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED---S 92 K R+ G++T +++N L + S++ ++DT+A+L + GIN+++ + E+E S + Sbjct: 21 KSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGINILESSEDEEEAPSNNDGNK 80 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 LD ++ N++ L + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 81 LDDDETSLNTTTTLVQ--------NDDPVRIYLQDMSSVKLLSRADEIKIAKKIESEKHN 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 M+ ++ E+ + F+ + WRD+L+ GT LLREII+L+A + F+ + Sbjct: 133 MLRAIIETSVAFKIIKTWRDDLSGGTFLLREIINLDAIYNSD-----FNMVD-------- 179 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA- 271 +E E +DV++ D E NDE+ +E ED S+ L+ Sbjct: 180 --KEESEAEDVRDCVNDEEKG-------------------NDEKG-NESEDISSANLNIS 217 Query: 272 ---MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 ME L PKV+ ALDEI + E L+ N+ KD S + + L ++ + + Sbjct: 218 VLEMESDLLPKVITALDEIIALTNEALVLKKNS----KD--FSNELENLYNQIWSVALQI 271 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKR--------DVFLERHQGRELD 380 + + I + ++LY+I++ I E L+ A+ Y I R DV LE H+ E+ Sbjct: 272 QFSDAAITRITQKLYEINRLITFEEANLITEARKYDIDRESFYNVYDDVLLE-HEFSEIS 330 Query: 381 PHWVSYAKDFPEGEWKN-FVACEVDSILKIRNEIKSI-SVETGISISEFRHIVSMVRKGE 438 ++ + GE KN F+ DS I + + +I S G + EF+ ++ ++K E Sbjct: 331 FLKINENQSLFTGELKNKFLRFINDSYEYIASALSNIKSYVQGDRVQEFKKVIKRIQKHE 390 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKFST Sbjct: 391 QEVSQAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFST 450 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 Y WWVKQ+ITR+I +QS +RIPVHM + I K+ + R+M++++ REPT EE++ +LAM Sbjct: 451 YGTWWVKQSITRAIPEQSKVVRIPVHMVEIISKINKALRKMTHEMGREPTLEELSIELAM 510 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI A+LR TT VLA Sbjct: 511 PLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAILADLRGITTNVLA 570 Query: 619 SLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LTP+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR+KKLR Sbjct: 571 TLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRAKKLR 630 Query: 678 SFL 680 F Sbjct: 631 GFF 633 >gi|256823391|ref|YP_003147354.1| RNA polymerase sigma-70 subunit RpoD [Kangiella koreensis DSM 16069] gi|256796930|gb|ACV27586.1| RNA polymerase, sigma 70 subunit, RpoD [Kangiella koreensis DSM 16069] Length = 616 Score = 461 bits (1187), Expect = e-127, Method: Compositional matrix adjust. Identities = 286/667 (42%), Positives = 397/667 (59%), Gaps = 63/667 (9%) Query: 26 FSDDSWKKMIKL----ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV--- 78 S++S + +KL +++GY+T E+N LPPD V EQ+ED + M+++MGI V Sbjct: 1 MSENSQQSQLKLLIARGKEQGYLTYAEVNDHLPPDIVDPEQIEDIIRMINDMGIQVYETT 60 Query: 79 -DGDDL--EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 D D+L DE +++ ++A+ +SV DS T DPVRMY+REMGS+ELL+ Sbjct: 61 PDADELLMNDESVTDEEAAEEAAAALASV------DSEFGRTTDPVRMYMREMGSVELLT 114 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 REGEI IAKRIE G ++ ++ P T + L+ + L EI+ Sbjct: 115 REGEIDIAKRIEEGIRQVLGAIANYPDTIRILLEEFALYQEEQVRLTEIVT--------- 165 Query: 196 KGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDE 255 GF G E Q+ +++Q I ++A D D ++ E E Sbjct: 166 --GFSDGEEAEFVQEESEAAQ-------------IAASASEELDSDDDADDDDDDEEETE 210 Query: 256 RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCK 315 + D +++A + ++ Q K + A+D+ + KS++K Sbjct: 211 VDTGPDPEEAAARFAELKKQY-DKTVKAVDKYGRTH-----------------KSTIKQL 252 Query: 316 VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERH 374 E + +L L L D LV L I E ++ L+ + + R F+ Sbjct: 253 ---EAMKELFMQLRLAPRMFDFLVTNLRQKMDGIREQERYIMMLSVNGARMPRKTFISTF 309 Query: 375 QGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 G E DP W+ + ++ +A + ILK + +++ I +S+ E + + Sbjct: 310 SGSETDPSWIEQHVT-KKSKYSEPLAEHAEEILKAQRKLQIIEESCSLSVMEIKEANREM 368 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 369 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+ Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPQPEELAE 488 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D+A +L+E T Sbjct: 489 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIDSPVDAATGESLKEVTD 548 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 549 EILAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 608 Query: 675 KLRSFLD 681 KLR++LD Sbjct: 609 KLRTYLD 615 >gi|30248253|ref|NP_840323.1| RNA polymerase sigma factor RpoD [Nitrosomonas europaea ATCC 19718] gi|30180138|emb|CAD84140.1| DNA-dependent RNA polymerase sigma subunits (sigma70/32) [Nitrosomonas europaea ATCC 19718] Length = 751 Score = 461 bits (1186), Expect = e-127, Method: Compositional matrix adjust. Identities = 286/698 (40%), Positives = 407/698 (58%), Gaps = 84/698 (12%) Query: 6 KRNRDSDSEHEDSD--DSLVFDFSDDS-------WKKMIKLARQRGYVTIEELNAFLPPD 56 KRN+ + SE + +D +S V SD+ KK+I ++RGY+T E+N LP D Sbjct: 112 KRNKSTLSEKQITDLSESAVSVSSDNDIELRRMRLKKLIMQGKERGYLTYSEINDHLPDD 171 Query: 57 EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRK-----D 111 + ++Q+E ++M+++MGI+V D+ D E S D A++ ++ V + D Sbjct: 172 MLDADQIESIISMINDMGISV--HDEAPDAEALLMS-DAATAVTDEDVVEEAEAALSSVD 228 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 S T DPVRMY+REMGS+ELL+RE EI IAKRIE G M+ ++ P + ++ Sbjct: 229 SEFGRTTDPVRMYMREMGSVELLTRESEIEIAKRIEDGLRHMIQAISACPTIIENILELA 288 Query: 172 DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++ +G E++D GF DD E G Sbjct: 289 ADVENGRLRADELVD-----------GFLD-------------------DDTDEIMG--- 315 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDED----DSAHTLSAMEDQLRPKVMCALDEI 287 E E +LD+D D + +A D L+ K E+ Sbjct: 316 -------------------KEMSEESLDQDFDSEDGEDEQVAAASADMLKMKA-----EV 351 Query: 288 AEVYRELRSLQDNA--VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +R D + +KD + K K L+EK+ + ++ + ++ L + DI Sbjct: 352 LERFAVIRQTYDGMKKIINKKDGRQDKKYKQLQEKISTELMAMRFSAKMVEKLCDTQRDI 411 Query: 346 SKRIMHNEGELLRLAQS-YGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEV 403 I + E ++ L + G+ R+ F++ G E D W+S + G+ + + Sbjct: 412 VNDIRNCERKIAELCVTRAGMPRNYFIKAFPGNETDIDWIS--SEVESGQPYSQSLEHFR 469 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 ++++ + ++ + + GI I E + I + GE +A AK+EM EANLRLVIS+AKKY Sbjct: 470 PAVMEQQQKMLELQKQAGIPIKELKEINRRMTTGEAKARRAKREMTEANLRLVISIAKKY 529 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 530 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 589 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+ R +R++ + +EP P +A+K+ MP E +RK+LKI+KEPIS+ETPIGD+ Sbjct: 590 HMIETINKMNRISRQILQETGQEPEPAVLAEKMEMPEEKIRKILKISKEPISMETPIGDD 649 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIED + + P D+A+ A LR T VL SLTPRE +VLRMRFGI MNTDHTLE Sbjct: 650 EDSHLGDFIEDASTMEPADAAVYAGLRTVTKDVLDSLTPREAKVLRMRFGIEMNTDHTLE 709 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVG+QF VTRERIRQIEAKA+RKL+HP+RS +LRSFLD Sbjct: 710 EVGRQFDVTRERIRQIEAKALRKLRHPARSDRLRSFLD 747 >gi|52425815|ref|YP_088952.1| RNA polymerase sigma factor RpoD [Mannheimia succiniciproducens MBEL55E] gi|52307867|gb|AAU38367.1| RpoD protein [Mannheimia succiniciproducens MBEL55E] Length = 628 Score = 460 bits (1183), Expect = e-127, Method: Compositional matrix adjust. Identities = 284/666 (42%), Positives = 404/666 (60%), Gaps = 72/666 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---- 83 K +I +++GY+T E+N LP + V ++Q+ED + M+++MGI V+ D DDL Sbjct: 18 KLLIAQGKEQGYLTYAEVNDHLPEELVDTDQIEDIIQMINDMGIQVLESAPDADDLMLSE 77 Query: 84 --EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DE+ E++ + SS ++ T DPVRMY+REMGS+ELL+REGEI Sbjct: 78 TIADEDAVEEATQVLSSV-----------EAELGRTTDPVRMYMREMGSVELLTREGEID 126 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAKRIE G + +++ E P L+ +++ +G+ L ++I GF Sbjct: 127 IAKRIEDGINEVQSAVAEYPEALDYLLKQYEQVEEGSVRLADLI-----------TGFVD 175 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 + + E S E+ DD +GDI + A +++ + D + ++ + ++D + Sbjct: 176 LNAEEASE--EISDLEEVLDD---EDGDIPADALNDEEEDEESDEGDTSTDDSDNSIDPE 230 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 + SA++DQ C +++L+ G+ D K + +VL + Sbjct: 231 V--AREKFSALKDQ------C-----------VKTLEFIEKYGRTDNKVKEQIQVLSD-- 269 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELD 380 + L + D LV + + K++ E ++ RLA Y + +D F + G E Sbjct: 270 --IFTQFRLVPRQFDTLVLSMRSMMKQVRAEERQIQRLAVDYAKVPKDDFQKAFIGNETS 327 Query: 381 PHW----VSYAKDFPEGEWKNFVACEVD-SILKIRNEIKSISVETGISISEFRHIVSMVR 435 W + K + E + A E+ SI++ ++ + +T +++ + R I + Sbjct: 328 EQWLESLLQSKKTYVEKLQQR--APEISKSIVR----LQQVETDTKLTVQQIRDIGERIA 381 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 382 QGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 441 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE +PEE+A++ Sbjct: 442 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREASPEELAER 501 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T Sbjct: 502 MGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHE 561 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 562 VLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSET 621 Query: 676 LRSFLD 681 LRSFLD Sbjct: 622 LRSFLD 627 >gi|114778492|ref|ZP_01453336.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114551217|gb|EAU53776.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 660 Score = 460 bits (1183), Expect = e-127, Method: Compositional matrix adjust. Identities = 272/665 (40%), Positives = 402/665 (60%), Gaps = 56/665 (8%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL--------EDEEGS 89 +Q G++T ++LN LP VS++++E + + + MG+ VVD + +D Sbjct: 21 GKQAGFITYDDLNKHLPGGLVSADRVEQLINVFTEMGVEVVDPERAPTGAYAMRKDRLRK 80 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 EDS A ++ +V DDPVRMYLREMG++ELL+REGEI IA+RIE G Sbjct: 81 EDSALRADTSQLGTVI----------RIDDPVRMYLREMGTVELLTREGEIEIARRIEEG 130 Query: 150 RAMMMASLCESPLTFQALIIW-------RDE---LNDGTTLLREIIDLEACIGPESKGGF 199 R + ++C P TF+ +++ RDE L + + R+IID++ + Sbjct: 131 RMQVHEAICLCPSTFREIMLLGERIIQIRDEAMELGEEPSF-RDIIDVDEKV-------- 181 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 + Y+ R S+E + D+ ETE ++ ++++ +++ +P Sbjct: 182 VNSAAIKEYENRMSRSEEDD-DEPVETEPKLD-GEQLTEAIKARTATP------------ 227 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCK-VLK 318 D T+ E+QL + + E +++ + ++ D+ ++ + VL Sbjct: 228 -DGTPMQETVITKEEQLE-EALFHFGEAKKLHDDFIEVKKKLAKRPNDKALLLRSREVLD 285 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRE 378 L++LV S+ + ++D LV++ + +++ E + A + R +FLE E Sbjct: 286 AMLLELV-SIPFSPRQLDQLVQRFKNAVEKVRRFERSIRDYALEARMPRKLFLETFPVDE 344 Query: 379 LDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W+ K + W + I + + ++ + ET + + E + + + G Sbjct: 345 TNERWIDELMKQNKDAAWVTAIEEVTGKIKENQRRLRRVEQETEMGVVELKDVARKLTMG 404 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + AK+EM+EANLRLVIS+AKKYTNRGL FLDLIQEGNIGLMKA EKF+W GYKFS Sbjct: 405 EAKMRQAKREMIEANLRLVISIAKKYTNRGLGFLDLIQEGNIGLMKAVEKFEWRRGYKFS 464 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K++R +R+++ +I REPTPEE+A+ L Sbjct: 465 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMMRVSRQIAQEIGREPTPEELAEHLE 524 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +PVE V ++L++ KEP+SLETPIGD++ S LGDF+ED NA +PLDS I A L E T VL Sbjct: 525 LPVEKVLQILEVAKEPVSLETPIGDDEDSQLGDFVEDDNAENPLDSTIGAALAEATLEVL 584 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT RE++VLRMRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KL+ Sbjct: 585 ENLTDREQKVLRMRFGIGMNTDHTLEEVGKQFGVTRERIRQIEAKALRKLRHPSRSQKLK 644 Query: 678 SFLDG 682 +F D Sbjct: 645 TFADA 649 >gi|296107953|ref|YP_003619654.1| RNA polymerase primary sigma factor [Legionella pneumophila 2300/99 Alcoy] gi|295649855|gb|ADG25702.1| RNA polymerase primary sigma factor [Legionella pneumophila 2300/99 Alcoy] Length = 621 Score = 460 bits (1183), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 15 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 73 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 74 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 133 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 190 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 191 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKVYFDELRE----- 229 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 230 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 262 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 263 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLSWLETI 322 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 323 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 378 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 379 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 438 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 439 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 498 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 499 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 558 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 559 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 618 >gi|54298252|ref|YP_124621.1| RNA polymerase sigma factor rpoD (sigma-70) [Legionella pneumophila str. Paris] gi|53752037|emb|CAH13463.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella pneumophila str. Paris] Length = 621 Score = 460 bits (1183), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 387/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 15 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 73 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 74 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 133 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 190 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 191 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKIYFDELRE----- 229 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 230 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 262 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 263 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLSWLETI 322 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 323 ISKHAKKLD----LDRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 378 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 379 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 438 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 439 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 498 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 499 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 558 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 559 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 618 >gi|148359903|ref|YP_001251110.1| RNA polymerase sigma 70 factor RpoD [Legionella pneumophila str. Corby] gi|148281676|gb|ABQ55764.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila str. Corby] Length = 619 Score = 459 bits (1182), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 13 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 71 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 130 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 131 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 188 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 189 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKVYFDELRE----- 227 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 228 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 260 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 261 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLSWLETI 320 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 321 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 376 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 377 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 436 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 437 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 496 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 497 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 556 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 557 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 616 >gi|54295203|ref|YP_127618.1| RNA polymerase sigma factor rpoD (sigma-70) [Legionella pneumophila str. Lens] gi|53755035|emb|CAH16523.1| RNA polymerase sigma factor rpoD (Sigma-70) [Legionella pneumophila str. Lens] Length = 621 Score = 459 bits (1181), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 15 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 73 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 74 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 133 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 190 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 191 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKIYFDELRE----- 229 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 230 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 262 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 263 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLGWLETI 322 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 323 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 378 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 379 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 438 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 439 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 498 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 499 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 558 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 559 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 618 >gi|52842571|ref|YP_096370.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52629682|gb|AAU28423.1| RNA polymerase sigma 70 factor (RpoD) [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 623 Score = 459 bits (1180), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 17 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 75 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 76 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 134 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 135 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 192 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 193 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKIYFDELRE----- 231 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 232 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 264 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 265 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLGWLETI 324 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 325 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 380 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 381 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 440 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 441 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 500 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 501 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 560 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 561 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 620 >gi|307611207|emb|CBX00855.1| RNA polymerase sigma factor rpoD [Legionella pneumophila 130b] Length = 619 Score = 459 bits (1180), Expect = e-127, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 66/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 13 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 71 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 130 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 131 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 188 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 189 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKIYFDELRE----- 227 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 228 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 260 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 261 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLGWLETI 320 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + GE +A Sbjct: 321 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGEAKAR 376 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 377 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 436 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 437 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 496 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 497 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 556 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 557 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 616 >gi|152995072|ref|YP_001339907.1| RNA polymerase sigma-70 subunit RpoD [Marinomonas sp. MWYL1] gi|150835996|gb|ABR69972.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas sp. MWYL1] Length = 612 Score = 457 bits (1177), Expect = e-126, Method: Compositional matrix adjust. Identities = 292/670 (43%), Positives = 399/670 (59%), Gaps = 74/670 (11%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DG 80 D K++I +++GY+T E+N LP D EQ+E+ +AM+++MGI V D Sbjct: 3 DTQQSRLKELISKGKEQGYLTYAEVNDHLPDDLSDPEQVEEIIAMINDMGITVSEVAPDK 62 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 D L EEG D+ D A++ ++ D T DPVRMY+REMG++ELL+R GEI Sbjct: 63 DSLLMEEG--DATDEAAAEEAAAALAAVEGDIT--RTTDPVRMYMREMGTVELLTRAGEI 118 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 AIAKRIE G +MA++ P L+ ++ + L +I GF Sbjct: 119 AIAKRIEEGTREVMAAISYFPGAVDVLLDAYAKVQEEEGRLSDIF-----------SGFI 167 Query: 201 HGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDE 260 G +E +DV E I+ S +D D+ E +N Sbjct: 168 DG-----------DGEEPVFEDVATEEPIIDEDTVDSDEDDDDSDTAEEETDN-----GP 211 Query: 261 DEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK 320 D +++A + + ++ L E+ E R+ QD AV +++E S + Sbjct: 212 DPEETALRFNDI-----TRIYTELKELLET----RNRQDPAVQSKQEELS------ISFA 256 Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 +KLV L D LV+++ +++ E ++++ + G+ R FL+R E Sbjct: 257 PIKLVPKL------FDDLVDRVRSRMEKVREQERLIMQVCVRKSGMPRTEFLKRFPSNET 310 Query: 380 DPHWVS--------YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 + W+ YA E E + ++ + +++++S ETG++I+E + I Sbjct: 311 NSDWLKEQIASGADYAATLEENEAE---------FMRSQRKLRAVSKETGLTIAELKEIN 361 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 362 RRISIGETRARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 421 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE TPEE Sbjct: 422 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREATPEE 481 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED A SP+D A LRE Sbjct: 482 LAARMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDDGAESPIDIATIEGLRE 541 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +TT VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPS Sbjct: 542 STTMVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 601 Query: 672 RSKKLRSFLD 681 RS+ LRSFLD Sbjct: 602 RSEHLRSFLD 611 >gi|288941560|ref|YP_003443800.1| RNA polymerase sigma-70 subunit RpoD [Allochromatium vinosum DSM 180] gi|288896932|gb|ADC62768.1| RNA polymerase, sigma 70 subunit, RpoD [Allochromatium vinosum DSM 180] Length = 623 Score = 457 bits (1175), Expect = e-126, Method: Compositional matrix adjust. Identities = 291/663 (43%), Positives = 397/663 (59%), Gaps = 69/663 (10%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI-------NVVDGDDLEDE 86 +I +++GY+T E+N LPP V ++Q+ED V M+++MGI +VVD L D Sbjct: 13 LIAKGKEQGYLTYTEVNDHLPPGIVETDQIEDIVRMINDMGIMVQETAPDVVD-HTLSDS 71 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 S+D A++A+ +SV DS T DPVRMY+REMG++ELL+REGE+ IAKRI Sbjct: 72 AVSDDEAAEAAAAALASV------DSEFGRTTDPVRMYMREMGTVELLTREGELQIAKRI 125 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF-HGTEG 205 E G ++ +L P + + LI D ++ L ++I GF TE Sbjct: 126 EDGLNQVLNALSVYPRSIEKLIEIFDRVDREEARLTDVI-----------SGFNDEATET 174 Query: 206 HSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRS----KVDSPPENAENDERNLDED 261 + + + D +T+ D+E+A S DD +VD+ P D Sbjct: 175 DETLATDVQAASETDADADKTDLDVEAADLDSDDDDDSATVEVDTGP------------D 222 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 +D+A + + ++ + + AL+E G+ DE+S + + E Sbjct: 223 PEDAARRANLLRERYQ-TLKAALEEY----------------GRDDERSREAMQAVSEVF 265 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELD 380 ++ L L E L +RI E ++ L + G+ R F+E E + Sbjct: 266 LQ----FKLVSPVFQELAEILRATIERIRAQERAIMSLCVEQAGMGRKEFIETFPSNETN 321 Query: 381 PHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 P W+ A+ P +A ++ + + +++ I E ++I E + + + GE Sbjct: 322 PEWLDGLIARGRPFSVRLQELAPDIQ---RAQRKLQDIERENILTIGEIKEVNRKMSIGE 378 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 379 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE TPEE+A ++ M Sbjct: 439 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMIQEMGREATPEELAARMDM 498 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED +SPLDSA LRE T +LA Sbjct: 499 PEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSGVISPLDSATAEGLREATQNMLA 558 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SLT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS KLRS Sbjct: 559 SLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDKLRS 618 Query: 679 FLD 681 FLD Sbjct: 619 FLD 621 >gi|54307643|ref|YP_128663.1| RNA polymerase sigma factor RpoD [Photobacterium profundum SS9] gi|46912066|emb|CAG18861.1| putative DNA-directed RNA polymerase, sigmasubunit [Photobacterium profundum SS9] Length = 612 Score = 457 bits (1175), Expect = e-126, Method: Compositional matrix adjust. Identities = 285/661 (43%), Positives = 391/661 (59%), Gaps = 70/661 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDD-LEDE 86 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+ + E Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADEIMMTE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + ++D A++ + SSV +S T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 DNTDDDAIEAAAQALSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G + S+ E P L+ D++ L +II GF E Sbjct: 124 EDGINQVQCSVAEYPSAISYLLEQFDKVEADELRLTDII-----------SGFIDPNEEQ 172 Query: 207 SYQKREDS-SQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDS 265 + E D+ + + ++E+ +++ + +D PE A L + Sbjct: 173 TAAPTATHIGSELSETDLADEDKNLETDDDDEEEEDTGID--PELAREKFLELRHSYEKM 230 Query: 266 AHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 A ++ + A+ E++E++++ R ++ ++ KLV Sbjct: 231 ALAINT-HGRHNATTEVAVGELSEIFKQFR--------------------LIPKQFDKLV 269 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV 384 SL D ++ NE ++R+ + + + F++ G E P W+ Sbjct: 270 RSLR--------------DSMDKVRTNERLIMRMCIDNSKMPKKTFIKFFAGNESSPDWI 315 Query: 385 SYA----KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 A K + E KN+ S LK+R + ETG+SI + I + GE + Sbjct: 316 DEALNSGKPYAE-RLKNYEEDLRRSSLKLR----ILEKETGLSIERIKDISRRMSIGEAK 370 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 371 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 431 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPIPEELAERMQMPE 490 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+D+A NLR T VLA L Sbjct: 491 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLQLPMDAATATNLRAATNDVLAGL 550 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFL Sbjct: 551 TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFL 610 Query: 681 D 681 D Sbjct: 611 D 611 >gi|269103529|ref|ZP_06156226.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp. damselae CIP 102761] gi|268163427|gb|EEZ41923.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp. damselae CIP 102761] Length = 619 Score = 456 bits (1174), Expect = e-126, Method: Compositional matrix adjust. Identities = 286/656 (43%), Positives = 393/656 (59%), Gaps = 53/656 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLE-DE 86 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+L E Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADELMMTE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + +++ A++ + SSV +S T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 DNADEDAIEAAAQALSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G + S+ E P L+ D++ L +II + P + T H Sbjct: 124 EDGINQVQCSVAEYPKAISQLLDMFDKVEADELRLTDIIS--GFVDPNEEET-AAPTATH 180 Query: 207 SYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSA 266 + +S E E D+ E E + E D + +D PE A L + + A Sbjct: 181 IGSELSESDLEDEDRDLDEDEDEDEDGDSSDDSDDNNID--PEVAREKFTELRQSYEKMA 238 Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 + + P A+DE++E++++ R ++ ++ KL+G Sbjct: 239 LAIDT-HGRNHPTAELAVDELSEIFKQFR--------------------LVPKQFDKLIG 277 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS 385 SL D R+ NE ++R+ + + + F+ G E W+ Sbjct: 278 SLR--------------DSMDRVRTNERLIMRMCVDNSKMPKKTFINLFAGNEASSEWID 323 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 A + + + E + + + +++ + ETG+SI + I + GE +A AK Sbjct: 324 EALNSGKPYAERLKTYE-EELRRCSTKLRLLEEETGLSIERIKDISRRMSIGEAKARRAK 382 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 383 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 442 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RK Sbjct: 443 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRK 502 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED P+D+A Q NLR T VLA LTPRE Sbjct: 503 VLKIAKEPISMETPIGDDEDSHLGDFIEDTTLQLPMDAATQTNLRAATNEVLAGLTPREA 562 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFLD Sbjct: 563 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFLD 618 >gi|90411915|ref|ZP_01219923.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] gi|90327173|gb|EAS43545.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] Length = 612 Score = 456 bits (1173), Expect = e-126, Method: Compositional matrix adjust. Identities = 282/661 (42%), Positives = 390/661 (59%), Gaps = 70/661 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDD--LED 85 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+ + + Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADEIMMTE 69 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 + ED+++ A+ A +S +S T DPVRMY+REMG++ELL+REGEI IAKR Sbjct: 70 DNTDEDAIEAAAQALSSV-------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKR 122 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEG 205 IE G + S+ E P L+ D++ L +II GF E Sbjct: 123 IEDGINQVQCSVAEYPSAISYLLEQFDKVEADELRLTDII-----------SGFIDPNEE 171 Query: 206 HSYQKREDS-SQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 + E D+ + + ++E+ +++ + +D PE A L + Sbjct: 172 QTAAPTATHIGSELSETDLADEDKNLETDEDDEEEEDTGID--PELAREKFLELRHSYEK 229 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKL 324 A ++ + A+ E++E++++ R ++ ++ KL Sbjct: 230 MALAINT-HGRHNATTEVAVGELSEIFKQFR--------------------LIPKQFDKL 268 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHW 383 V SL D ++ NE ++R+ + + + F++ G E P W Sbjct: 269 VRSLR--------------DSMDKVRTNERLIMRMCVDNSKMPKKTFIKFFAGNESSPDW 314 Query: 384 VSYAKDFPEGEWKNFVACEVD---SILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 + A + + + E D S LK+R + ETG+SI + I + GE + Sbjct: 315 IDEALNSGKPYAERLKIYEEDLRRSSLKLR----ILEKETGLSIERIKDISRRMSIGEAK 370 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 371 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 431 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPIPEELAERMQMPE 490 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+D+A NLR T VLA L Sbjct: 491 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLQLPMDAATATNLRAATNDVLAGL 550 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFL Sbjct: 551 TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFL 610 Query: 681 D 681 D Sbjct: 611 D 611 >gi|319760203|ref|YP_004124141.1| RNA polymerase sigma factor [Candidatus Blochmannia vafer str. BVAF] gi|318038917|gb|ADV33467.1| RNA polymerase sigma factor [Candidatus Blochmannia vafer str. BVAF] Length = 620 Score = 456 bits (1172), Expect = e-126, Method: Compositional matrix adjust. Identities = 276/658 (41%), Positives = 389/658 (59%), Gaps = 57/658 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N L D + S+Q+ + + M+++MGI V++ DE Sbjct: 10 KLLVTRGKEQGYLTFSEVNDHLSEDIIDSDQLHNIIQMMNDMGIQVMEEAPDSDEFLLTK 69 Query: 92 SLDLASS-----ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + D + A+ ++V D T DPVRMY++EMG++ELL+REGEI IAKRI Sbjct: 70 NCDTVVNNDEEDATEAAVQALSNTDPDLGRTTDPVRMYMKEMGAVELLTREGEIDIAKRI 129 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G + S+ E P L+ + G T L ++I GF Sbjct: 130 EDGINQVQCSVAEYPEAITYLLEQYQRVETGETRLSDLI-----------TGFV------ 172 Query: 207 SYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSA 266 D+ ++E+ +++ + + S +DE N + ++DD++ Sbjct: 173 ---------------DLDNFNQNVETIPNITQQNIHHLSSNILTVTDDEENTENEDDDNS 217 Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 ++ +L K AL + E R Q NG+ +KSS ++LK L ++ Sbjct: 218 -----IDPELARKKFIALRKQYETTR-----QTIKYNGRNHDKSS--SEILK--LSEIFK 263 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS 385 L + D LV + + RI +E +++L + + F++ G E + W+ Sbjct: 264 QFRLVPKQFDYLVNNMRSMMDRIRFHERLIMKLCVDISKMPKKKFIDLFSGNETNKAWLI 323 Query: 386 YAKDFPEGEWKNF--VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 A G K V EV + ++ I ETG++I + ++I + GE +A Sbjct: 324 QALSMNAGWAKKLDTVNAEVQQNIW---QLYQIEKETGLTIEQVKNINRRMSIGEAKARR 380 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 381 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EPTPEE++K++ + + + Sbjct: 441 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGCEPTPEELSKRMLISEDKI 500 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKVLKI KEP+S+ETPIGD++ SHLGDFIED N PLDSA NL+ T VL+ LTPR Sbjct: 501 RKVLKIAKEPVSMETPIGDDEDSHLGDFIEDTNLDLPLDSATSDNLKAATNDVLSGLTPR 560 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 561 EAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRSEILRSFLD 618 >gi|254281823|ref|ZP_04956791.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma proteobacterium NOR51-B] gi|219678026|gb|EED34375.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma proteobacterium NOR51-B] Length = 603 Score = 455 bits (1171), Expect = e-125, Method: Compositional matrix adjust. Identities = 287/657 (43%), Positives = 387/657 (58%), Gaps = 73/657 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D+L E Sbjct: 12 KALIAKGKEQGYLTYSEVNDHLPQDISEPDQVEDIIQMINDMGIQVFEQAPDADELILTE 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G D +A+ ++ L ++ A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 72 G--DRSADEIAAAEAAAALAAVENEAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 128 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G +MA++ P + L +E + T R++ D+ +G + H Sbjct: 129 EGIRELMAAMAHYPGVARRLT---EEYDLVTKEERKLADI--LVG-------YLDPADHV 176 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 +E + Q +AAK DD D+ P+ E +R Sbjct: 177 PSAQEIAEQT--------------AAAKNKTDDDEAPDTGPDPIEAKKR----------- 211 Query: 268 TLSAMEDQLR--PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 +A++ Q KV+ A + + S K +KL +L Sbjct: 212 -FTALKRQCTRTEKVLAA-----------------------ESRQSKKAIAEMDKLGELF 247 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV 384 L D LVE + + E E++R+ + + R F++ QG E D WV Sbjct: 248 KFFKLTPRVFDPLVEAPRTALQIVREQEREIMRIVVRECRMDRKDFIKSFQGSESDSRWV 307 Query: 385 SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 S + E ++ D I +++ I ++ E G++++E + I + GE A A Sbjct: 308 SRV--MRKKELGARISLHKDEIQRLQRRIGAVEDEIGLTVAEIKEINRRMSMGEARARRA 365 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 KKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 366 KKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 425 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + VR Sbjct: 426 RQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKVR 485 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPIS+ETPIGD++ S LGDFIED SP+DSA + L E TT VLA LT RE Sbjct: 486 KVLKIAKEPISMETPIGDDEDSSLGDFIEDVTIASPVDSATEEGLTEATTDVLAGLTARE 545 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS LRSFLD Sbjct: 546 AKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFLD 602 >gi|225630998|ref|YP_002727789.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia sp. wRi] gi|225592979|gb|ACN95998.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia sp. wRi] Length = 650 Score = 454 bits (1169), Expect = e-125, Method: Compositional matrix adjust. Identities = 271/660 (41%), Positives = 409/660 (61%), Gaps = 44/660 (6%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 K ++ G++T +++N L + SS+ ++D +++L + GINV+ E SED D+ Sbjct: 20 KSIKKGGFITFDDINDKLSDENFSSDFIDDAISLLQDSGINVL--------ESSEDEEDI 71 Query: 96 ASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 S++ +S + + + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 72 PSNSDDSKLDDDDTSPNVTATLVQNDDPVRIYLQDMSSVKLLSRADEIEIAKKIESEKHN 131 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 M+ ++ E+ +T + + +WRD+L++G LLREIIDL+A + ++ + K E Sbjct: 132 MLRAIIETSVTLKVIKVWRDDLSNGALLLREIIDLDAI----------YNSDFNVVPKEE 181 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAM 272 E+ +DV+++E E A S D++ DS + E D N D + ++ M Sbjct: 182 SEESEESAEDVEDSEDVSEDAEYCSDDEK---DSKKSDDEKDGNNEDISSVNLNVSILEM 238 Query: 273 EDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 E L PKV+ ALDEI + E L+ N+ N S + + L ++ + + L+ Sbjct: 239 ESDLLPKVIVALDEIITLTNEALILRKNSKNF------SNELENLYNQIWSIALQIKLSD 292 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF-------LERHQGRELDPHWVS 385 + + + ++LY I++ I E L+ A+ Y I R+ F L +H+ +++ ++ Sbjct: 293 AAVARITQELYKINRSITLEEANLIAEARKYDIDRESFYKVYDDVLLKHELKKISLLKIN 352 Query: 386 YAKDFPEGEWKN----FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 + GE KN F+ + I N IK E ++ EF+ ++ ++K E E Sbjct: 353 ENQSSFTGELKNKFLRFIDDNSEHIASTLNGIKQHIQED--NVQEFKELIKRIQKHEREV 410 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKFSTY Sbjct: 411 SEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGT 470 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WWV+Q+ITR+I +QS +RIPVHM + I K+ R R+M++++ REPT EE++ +L MP+E Sbjct: 471 WWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMGREPTLEELSVELTMPLE 530 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI A+LR TT VLA+LT Sbjct: 531 RIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPEDAAILADLRGITTNVLATLT 590 Query: 622 PREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 P+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR++KLR F Sbjct: 591 PKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRARKLRGFF 650 >gi|254497834|ref|ZP_05110600.1| RNA polymerase sigma 70 factor (RpoD) [Legionella drancourtii LLAP12] gi|254352912|gb|EET11681.1| RNA polymerase sigma 70 factor (RpoD) [Legionella drancourtii LLAP12] Length = 628 Score = 454 bits (1169), Expect = e-125, Method: Compositional matrix adjust. Identities = 279/656 (42%), Positives = 386/656 (58%), Gaps = 58/656 (8%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + +DE + Sbjct: 22 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPGDDELALLLN 80 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 81 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 139 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 ++ SL P T Q + L+D + + I L I GF Sbjct: 140 VLKSLAHYPETVQLV------LDDYERFIAQEIRLNEII-----SGF------------A 176 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAM 272 DS +E +I S S+ D + + E+ + + + D+ + A Sbjct: 177 DSDEE------MAPAANIGSMLDESQQDELILANDDEDEDGEGGIAEVDDGPNPEQAKAY 230 Query: 273 EDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 D+LR A+ + E +G+ K++ + + + +K L L Sbjct: 231 FDELRECFNAAMVVLKE-------------HGRTHAKTNKSLEAMSDSFLK----LKLTS 273 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVS-----Y 386 ++D L + I E ++RL + I R +F++ G+E D W++ + Sbjct: 274 RQVDRLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLEWLNNIIAKH 333 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 AK + + IL+I++ + S VE G++I E + I + GE +A AKK Sbjct: 334 AKKLDMSRISEY----TEEILRIQSRLVSFEVEYGLTIGEIKDINRKMSIGEAKARRAKK 389 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 390 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 449 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + +RKV Sbjct: 450 AITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDKIRKV 509 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTPRE + Sbjct: 510 LKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTPREAK 569 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 570 VLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 625 >gi|1575485|gb|AAB09543.1| LprpoD [Legionella pneumophila] Length = 620 Score = 454 bits (1167), Expect = e-125, Method: Compositional matrix adjust. Identities = 285/660 (43%), Positives = 386/660 (58%), Gaps = 67/660 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+I L +++GY+T ++N LP + V +E + ++ML M I V + EDE + Sbjct: 15 KVISLGKEQGYLTYSQINDLLP-NIVDTEHFDVIISMLEGMNIKVFELPPSEDELALLLN 73 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + +++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 74 TEEVPDIEEAAMVLASVDKETGRTTD-PVRMYMREMGTVELLTREGEIRIAKRIEEGIYQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFFHGTEGHSY 208 ++ SL P T Q ++ D L EII D++ I P + G E Sbjct: 133 VLKSLAHYPETVQLVLEDYDRFLAEEIRLNEIISGFADVDEEIAPATNIGSMLDEEQQ-- 190 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 +E D++ + + S VD P N E + DE + Sbjct: 191 ---------------EEILLDVDEEDEDGEGGISDVDDGP-NPEQAKIYFDELRE----- 229 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 A E K M AL E +G+ ++K+ + E +KL Sbjct: 230 --AFE-----KAMKALKE----------------HGRTNKKTVELLDSMSESFLKL---- 262 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--- 384 L ++D L + I E ++RL + I R +F++ G+E D W+ Sbjct: 263 KLTSRQVDKLTRHFRQLRNHIREFERSIMRLCIEKARIPRKLFIDTFPGQETDLGWLETI 322 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 +AK + + IL++++++ S +E G++ISE + I + G+ EA Sbjct: 323 ISKHAKKLD----LQRIEENREEILRLQSKLASFEIEYGLTISEIKDINRKMSIGD-EAR 377 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 378 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 437 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE TPEE+A+K+ + + Sbjct: 438 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGREATPEELAEKMELSEDK 497 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETP+GD+D SHLGDFIED N SP+D A LRE T +L +LTP Sbjct: 498 IRKVLKIAKEPISMETPVGDDDDSHLGDFIEDNNIESPIDMATAEGLREATLEILETLTP 557 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFL+G Sbjct: 558 REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLEG 617 >gi|225677095|ref|ZP_03788097.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont of Muscidifurax uniraptor] gi|225590854|gb|EEH12079.1| RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont of Muscidifurax uniraptor] Length = 669 Score = 453 bits (1165), Expect = e-125, Method: Compositional matrix adjust. Identities = 272/675 (40%), Positives = 417/675 (61%), Gaps = 56/675 (8%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 K ++ G++T +++N L + SS+ ++D +++L + GINV++ +EDEE D+ Sbjct: 21 KSIKKGGFITFDDINDKLSDENFSSDFIDDAISLLQDSGINVLES--IEDEE------DI 72 Query: 96 ASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 S++ +S + + + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 73 PSNSDDSKLDDDDTSPNVTATLVQNDDPVRIYLQDMSSVKLLSRADEIEIAKKIESEKHN 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 M+ ++ E+ +T + + +WRD+L++G LLREIIDL+A + ++ + K E Sbjct: 133 MLRAIIETSVTLKVIKVWRDDLSNGALLLREIIDLDAI----------YNSDFNVVPKEE 182 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRS------KVDSPPENAENDERNLDEDEDDSA 266 E+ +DV+++E E A S D++ + DS + E D + D+++D + Sbjct: 183 SEESEESAEDVEDSEDVSEDAEYCSDDEKDSKKSDDEKDSKKSDDEKDSKKSDDEKDGNN 242 Query: 267 HTLSA---------MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVL 317 +S+ ME L PKV+ ALDEI + E L+ N+ N S + + L Sbjct: 243 EDISSVNLNVSILEMESDLLPKVIVALDEIITLTNEALILRKNSKNF------SNELENL 296 Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF------- 370 ++ + + L+ + + + ++LY I++ I E L+ A+ Y I R+ F Sbjct: 297 YNQIWSIALQIKLSDAAVARITQELYKINRSITLEEANLIAEARKYDIDRESFYKVYDDV 356 Query: 371 LERHQGRELDPHWVSYAKDFPEGEWKN----FVACEVDSILKIRNEIKSISVETGISISE 426 L +H+ +++ ++ + GE KN F+ + I N IK E ++ E Sbjct: 357 LLKHELKKISLLKINENQSSFTGELKNKFLRFIDDNSEHIASTLNGIKQHIQED--NVQE 414 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F+ ++ ++K E E S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA + Sbjct: 415 FKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVD 474 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD+ GYKFSTY WWV+Q+ITR+I +QS +RIPVHM + I K+ R R+M++++ RE Sbjct: 475 KFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMGRE 534 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L MP+E +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI Sbjct: 535 PTLEELSVELTMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPEDAAIL 594 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIR 665 A+LR TT VLA+LTP+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+R Sbjct: 595 ADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALR 654 Query: 666 KLKHPSRSKKLRSFL 680 KLKHPSR++KLR F Sbjct: 655 KLKHPSRARKLRGFF 669 >gi|209696105|ref|YP_002264035.1| RNA polymerase sigma factor RpoD [Aliivibrio salmonicida LFI1238] gi|208010058|emb|CAQ80381.1| RNA polymerase sigma factor RpoD (sigma-70) [Aliivibrio salmonicida LFI1238] Length = 610 Score = 453 bits (1165), Expect = e-125, Method: Compositional matrix adjust. Identities = 286/661 (43%), Positives = 383/661 (57%), Gaps = 72/661 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV D DD+ Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMS--L 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +D++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 68 NDDDAVTDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + S+ E P L+ D++ L +II + P G Sbjct: 127 EGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRLTDIIS--GFVDPNDDGS--------- 175 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSK-VDSPPENAENDERNLDEDEDDSA 266 ++ + +E D+ K +KDD + V PE A L S Sbjct: 176 ------AAPTATHIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRT----SY 225 Query: 267 HTLS-AMEDQLR--PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVK 323 H + A E+ R K A+ E+ +V+RE + Sbjct: 226 HNMQLAFEEHGRDNGKAREAIGELTDVFREFK---------------------------- 257 Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPH 382 L + D LV ++ R+ E ++R+ YG + + F+ G E Sbjct: 258 ------LIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFIALFSGNEASDE 311 Query: 383 WVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 W + A D P E ++ +K +I SI ETG+ + + I + GE + Sbjct: 312 WFNEILASDKPYVERLKRYEEDIRRSIK---KINSIVKETGLPVVNIKDISRRMSIGEAK 368 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 369 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 428 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 429 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPE 488 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+DSA +L+ T VLA L Sbjct: 489 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGL 548 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL Sbjct: 549 TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 608 Query: 681 D 681 D Sbjct: 609 D 609 >gi|42521092|ref|NP_967007.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila melanogaster] gi|42410833|gb|AAS14941.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila melanogaster] Length = 642 Score = 452 bits (1163), Expect = e-125, Method: Compositional matrix adjust. Identities = 270/660 (40%), Positives = 408/660 (61%), Gaps = 53/660 (8%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 K ++ G++T +++N L + SS+ ++D +++L + GINV+ E SED D+ Sbjct: 21 KSIKKGGFITFDDINDKLSDENFSSDFIDDAISLLQDSGINVL--------ESSEDEEDI 72 Query: 96 ASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 S++ +S + + + DDPVR+YL++M S++LLSR EI IAK+IE+G+ Sbjct: 73 PSNSDDSKLDDDDTSPNVTATLVQNDDPVRIYLQDMSSVKLLSRADEIEIAKKIESGKHN 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 M+ ++ E+ +T + + +WRD+L++G LLREIIDL+A + ++ + K E Sbjct: 133 MLRAIIETSVTLKVIKVWRDDLSNGALLLREIIDLDA----------MYNSDFNVVPKEE 182 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAM 272 E+ +DV+++E D+ A+ DD E D N D + ++ M Sbjct: 183 SEESEESAEDVEDSE-DVSEDAEYCSDD-----------EKDGNNEDISSVNLNVSILEM 230 Query: 273 EDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 E L PKV+ ALDEI + E L+ N+ N S + + L ++ + + L+ Sbjct: 231 ESDLLPKVIVALDEIITLTNEALILRKNSKNF------SNELENLYNQIWSIALQIKLSD 284 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF-------LERHQGRELDPHWVS 385 + + + ++LY I++ I E L+ A+ Y I R+ F L +H+ +++ ++ Sbjct: 285 AAVARITQELYKINRSITLEEANLIAEARKYDIDRESFYKVYDDVLLKHELKKISLLKIN 344 Query: 386 YAKDFPEGEWKN----FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 + GE KN F+ + + I N IK E ++ EF+ ++ ++K E E Sbjct: 345 ENQSSFTGELKNKFLRFIDDKSEHIASTLNGIKQHIQED--NVQEFKELIKRIQKHEREV 402 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKFSTY Sbjct: 403 SEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGT 462 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WWV+Q+ITR+I +QS +RIPVHM + I K+ R R+M++++ REPT EE++ +L MP+E Sbjct: 463 WWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHEMGREPTLEELSVELTMPLE 522 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI A+LR TT VLA+LT Sbjct: 523 RIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPEDAAILADLRGITTNVLATLT 582 Query: 622 PREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 P+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR++KLR F Sbjct: 583 PKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRARKLRGFF 642 >gi|120553592|ref|YP_957943.1| RpoD family RNA polymerase sigma factor [Marinobacter aquaeolei VT8] gi|120323441|gb|ABM17756.1| RNA polymerase, sigma 70 subunit, RpoD [Marinobacter aquaeolei VT8] Length = 618 Score = 452 bits (1162), Expect = e-124, Method: Compositional matrix adjust. Identities = 284/657 (43%), Positives = 386/657 (58%), Gaps = 61/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D L E Sbjct: 11 KDLIARGKEQGYLTYAEVNDHLPEDIADPDQVEDIIRMINDMGIQVCEETPDADTLLMTE 70 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS ++A+ ++ L + A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 71 G--DSTADEAAAAEAAAALAAVETDAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G +MA++ P T +I D + + + +I+ GF + Sbjct: 128 EGIRDVMAAVAHFPGTAGTVIQAYDRIIENEGRISDIVT-----------GFLDPDDAEP 176 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 + ED+S E D +T D + S+DD P E E L +++ D+A Sbjct: 177 FMG-EDTSTEDTSADDSDTSSDDDDDDTSSEDDNDNGPDPEETRLRFE--LLKEKLDAAE 233 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 A + K AL+E+ +V+ Sbjct: 234 KALAKHGRGHKKTQEALNELGQVF----------------------------------AP 259 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS- 385 L D LV + + + NE ++++ + + R F++ G E D W Sbjct: 260 FKLANKAFDELVNVVRSTNDLVRENERAIMQICVRDCKMPRKDFIKWFPGNETDLEWAGE 319 Query: 386 -YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 A P + + VD I++++ I+++ E + +++ + I V GE +A A Sbjct: 320 IAATKKP---YAAAIGERVDEIVRLQKRIQNVQTEVDLDVADIKEINRRVSIGEAKARRA 376 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 KKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 377 KKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 436 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +R Sbjct: 437 RQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMDMPEDKIR 496 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPIS+ETPIGD++ SHLGDFIED A+SP+DSA LRE T VLA LT RE Sbjct: 497 KVLKIAKEPISMETPIGDDEDSHLGDFIEDIQALSPVDSATAEGLREATRSVLAGLTARE 556 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LR F+D Sbjct: 557 SKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDHLRGFID 613 >gi|296932701|gb|ADH93504.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. In5] Length = 616 Score = 451 bits (1160), Expect = e-124, Method: Compositional matrix adjust. Identities = 277/651 (42%), Positives = 395/651 (60%), Gaps = 48/651 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++GY+T E+N LP D EQ+ED + M+++MGINV + +D D Sbjct: 12 KELITLGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFEVAPDKDSLMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTTEGGRLSDVL-----------SGYIDPDDGIAPPAA 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 E + V+ + + A+ S DD + +S P D +A A Sbjct: 180 EVPPPVDPK-AVKADDDTDDEEAEASTDDEEEAESGP------------DPVIAAQRFGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ + + K+++ VL L +L + L Sbjct: 227 VSDQM------------EITR--KALKKHG----RGNKAAIAELVL---LAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 + + LVE++ R+ E +++L + + R FL + G E+D W S Sbjct: 266 PKQFEGLVERVRSALDRLRQQERAIMQLCVRDARMPRADFLRQFPGNEVDESW-SDGLAR 324 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 +G++ + I++ + ++ ++ ETG++I+E + I + GE +A AKKEMVE Sbjct: 325 GKGKYAEAIGRLQPDIIRCQQKLIALQTETGLTIAEIKDINRRMSIGEAKARRAKKEMVE 384 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 385 ANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 444 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 SIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 445 SIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIA 504 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLRM Sbjct: 505 KEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLRM 564 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 565 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|3646419|emb|CAA07705.1| sigma-70 factor [Pseudomonas tolaasii] Length = 616 Score = 451 bits (1160), Expect = e-124, Method: Compositional matrix adjust. Identities = 283/653 (43%), Positives = 397/653 (60%), Gaps = 52/653 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++GY+T E+N LP D EQ+ED + M+++MGINV + +D D Sbjct: 12 KELIVLGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFEAAPDKDSLMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L K R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVKTDIGRTTD-PVRMYMREMGTVELLTREGEIGIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIID-LEACIGPESKGGFFHGTEGHSYQK 210 +M ++ P T ++ E N TT + D L I P+ Sbjct: 131 EVMGAIAHFPGTVDRIL---SEYNRVTTEGGRLSDVLSGYIDPDDGIAPPAAEVPPPVDA 187 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 + + + DD E+ G DD +V+S P D +A Sbjct: 188 KAAKADDDSEDDDAESSG----------DDEDEVESGP------------DPIIAAQRFG 225 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 A+ DQ+ E+ R ++L+ +G+ ++++ + L E L + L Sbjct: 226 AVSDQM------------EITR--KALKK---HGRTNKQAIAELIALAE----LFMPIKL 264 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAK 388 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 265 VPKQFEGLVERVRSALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAK 324 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + ++ + I++ + ++ ++ ETG++I+E + I + GE +A AKKEM Sbjct: 325 G--KAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIGEAKARRAKKEM 382 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 383 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 442 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLK Sbjct: 443 TRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLK 502 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VL Sbjct: 503 IAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVL 562 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 563 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|27904560|ref|NP_777686.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|31340403|sp|Q89B10|RPOD_BUCBP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|27903957|gb|AAO26791.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 609 Score = 450 bits (1158), Expect = e-124, Method: Compositional matrix adjust. Identities = 275/663 (41%), Positives = 393/663 (59%), Gaps = 77/663 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---- 83 K ++ +++GY+T E+N L + ++S+Q+ED + M+++MGI VV D DDL Sbjct: 10 KLLVTYGKEQGYLTYSEINDHLSDNIINSDQIEDIIQMINDMGIQVVEKAPDSDDLILHE 69 Query: 84 --EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 + E ED ++ A++ S+V +S T DPVRMY+REMG++ELL+REGEI Sbjct: 70 IKRNNETDEDIVE-ATAQVLSTV------ESELGRTTDPVRMYMREMGTVELLTREGEID 122 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAKRIE G + S+ E P L+ + + G L E+I + P ++ H Sbjct: 123 IAKRIEDGINQVQCSVAEYPEAITHLLEQYNRVELGELRLSELI--HGFVDPNAEA--VH 178 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 + + +S + D+ +E + DD VD PE A L Sbjct: 179 TSITNHINT--NSEEHHHNDNTEE-----------NNDDDHLVD--PELAREKFIALKNQ 223 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 + + + +++ + ++ ++E++++ R Sbjct: 224 YHITNYAIKT-KNRNHQDTLIEINNLSEIFKQFR-------------------------- 256 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELD 380 L + D LV + + ++I E + +L YG I + L ++ + Sbjct: 257 --------LVPKQFDHLVINMRKMMQKIRIQERNIAKLCIEYGNIPKKALLNFFSLQKTN 308 Query: 381 PHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W ++ P + N + ++ ILK +++ + ETG++I + ++I + GE Sbjct: 309 QIWSKIVQNIKKPWIDKFNTIKPDIQMILK---KLQKVEEETGLTIHQVKNINKRISLGE 365 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 366 AKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 425 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ +I REPTPEE+++++ + Sbjct: 426 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQEIGREPTPEELSERMLI 485 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIG++D SHLGDF+ED N PLDSA A+LR T VL+ Sbjct: 486 PEDKIRKVLKIAKEPISMETPIGEDDDSHLGDFLEDTNIELPLDSATSASLRSATKNVLS 545 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 546 GLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILRS 605 Query: 679 FLD 681 FLD Sbjct: 606 FLD 608 >gi|114330327|ref|YP_746549.1| RNA polymerase sigma factor RpoD [Nitrosomonas eutropha C91] gi|114307341|gb|ABI58584.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas eutropha C91] Length = 749 Score = 449 bits (1156), Expect = e-124, Method: Compositional matrix adjust. Identities = 274/662 (41%), Positives = 395/662 (59%), Gaps = 72/662 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK+I ++RGY+T E+N LP D + ++Q+E ++M+++MGI+V D+ D E Sbjct: 144 KKLIMQGKERGYLTYSEINDHLPDDMLDADQIESIISMINDMGISV--HDEAPDAEALLM 201 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 S D A++ ++ V + DS T DPVRMY+REMGS+ LL+RE EI IAKRI Sbjct: 202 S-DTATAVADEDVAEETEAALSSVDSEFGRTTDPVRMYMREMGSVGLLTRESEIEIAKRI 260 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G M+ ++ P + ++ ++ G E++D GF Sbjct: 261 EDGLRHMIQAISACPTIIENILGLAADVESGQLRADELVD-----------GFLD----- 304 Query: 207 SYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSA 266 DD +E G PE E+ +++ D DE + Sbjct: 305 --------------DDTEEIIGK----------------GMPE--ESLDQDFDSDETEEE 332 Query: 267 HTLSAMEDQLRPK--VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKL 324 SA D L+ K V+ I + Y +++ + D G++D+K K L+EK+ Sbjct: 333 QIASANADMLKMKNEVLERFAMIRQTYDDMKKIIDKKGGGRQDKK----YKQLQEKISAE 388 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHN----EGELLRLAQSYG-IKRDVFLERHQGREL 379 + ++ + +VE+L D + I+++ E ++ L + R+ F++ G E Sbjct: 389 LMAMRFSAK----MVERLCDTQRAIVNDIRSCERKIAELCVVRAKMPRNHFIKAFPGNET 444 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W++ D + + + ++++ + ++ ++ + GI I E + I + GE Sbjct: 445 NIDWINSEVDANQ-PYSQSLEHYRPAVMEQQQKMLTLQEQAGIPIKELKEINRRMTTGEA 503 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 504 KARSAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 563 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + +EP P +A+K+ M Sbjct: 564 ATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPEPAVLAEKMEMT 623 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E +RK+LKI+KEPIS+ETPIGD++ SHLGDFIED + + P D+AI A LR T VL S Sbjct: 624 EEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDVSTMEPADAAIYAGLRTVTKDVLDS 683 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+RKL+HP+RS +LRSF Sbjct: 684 LTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPARSDRLRSF 743 Query: 680 LD 681 LD Sbjct: 744 LD 745 >gi|149910043|ref|ZP_01898691.1| RNA polymerase sigma factor [Moritella sp. PE36] gi|149806911|gb|EDM66872.1| RNA polymerase sigma factor [Moritella sp. PE36] Length = 609 Score = 449 bits (1155), Expect = e-124, Method: Compositional matrix adjust. Identities = 281/656 (42%), Positives = 387/656 (58%), Gaps = 62/656 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 9 KLLVAKGKEQGYLTYAEVNDHLPQDIVDSDQVEDIIQMINDMGIQVLETAPDADDLLMAE 68 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ A+ ++ +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 69 NTTAPDDDAAEAAAAALASVESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 128 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + ++ E P +L+ D+ + L +II I P + T S Sbjct: 129 YAVQTAVAEYPEAINSLLAEYDKFLAEESRLSDIIT--GFIDPNADDVAPTATHIGSEVT 186 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 ++ + + DD +E EG+ K P E AE E L Sbjct: 187 KKQNESDSTDDDEEEEEGN-------------KGPDPEEAAE----KFAELRKHHTALLK 229 Query: 271 AMEDQL--RPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKLV 325 ++D PK ++ ++EV+R R + D VN +D V+ ++E+LV Sbjct: 230 GIKDHGLDHPKTRLHVEMLSEVFRTFRLIPKQFDRIVNSMRDMMDHVR---VQERLV--- 283 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 I + VEQ + + F+E G E D W Sbjct: 284 ---------IKMCVEQC---------------------KMPKAAFVEAFAGNETDFTWFE 313 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 A+ + D + + N++K + TG++IS+ ++I + GE +A AK Sbjct: 314 KAQQSAAPYAPALQRIDFD-VRRCINKLKLVENTTGLTISQIKNINRRMSIGEAKARRAK 372 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 373 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 432 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE TPEE+A+++ MP + +RK Sbjct: 433 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREATPEELAERMMMPEDRIRK 492 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED P+D+A + +L+ T VLA LT RE Sbjct: 493 VLKIAKEPISMETPIGDDEDSHLGDFIEDTTLSLPVDAATKDSLKGATDDVLAGLTAREA 552 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 553 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 608 >gi|119473196|ref|ZP_01614893.1| RNA polymerase sigma factor rpoD (Sigma-70) [Alteromonadales bacterium TW-7] gi|119444560|gb|EAW25875.1| RNA polymerase sigma factor rpoD (Sigma-70) [Alteromonadales bacterium TW-7] Length = 614 Score = 449 bits (1154), Expect = e-124, Method: Compositional matrix adjust. Identities = 279/655 (42%), Positives = 381/655 (58%), Gaps = 55/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I+ +++GY+T E+N LP D + S+Q+ED ++M+++MGI V + DE ++ Sbjct: 10 KLLIQKGKEQGYLTFAEVNDHLPQDIIDSDQVEDIISMINDMGIKVSENAPDADELMMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TTTDEDAAEAAAAALATVEKEIGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 + S+ E P L+ D+ L +II GF E + Sbjct: 129 QVQISVAEYPEAITYLLEQWDKFEAEEMRLSDII-----------VGFIDPNEDEAPISA 177 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + E + + + D + + ++ PE A NL + + + T A Sbjct: 178 TNIGSELSEKQLDDDDEDDDKSDDDEDEEEVDTGPDPEEARIHFENLRDLYNKARDTFEA 237 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 + + P A+ EI E++R + + D VN ++ V+ Sbjct: 238 -KGRSHPDSQAAIFEIGELFRTFKLIPKQFDRMVNNMREMMDRVRV-------------- 282 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAK 388 Q R L+++Q I+K + + F++ E DP WV Sbjct: 283 ---QER--LIMKQAVQIAK-----------------LPKKAFVKHFANNETDPSWVDL-- 318 Query: 389 DFPEGEWKNFVACEVDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + E + EV I++ N++ I TG+SI + I + GE +A AKKE Sbjct: 319 EISNNEKYSAKLEEVKPEIIRCINKLSIIEQTTGLSIERIKDINRRMSIGEAKARRAKKE 378 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 379 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 438 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVL Sbjct: 439 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPEDKIRKVL 498 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED SP+DSA +LR T VLA LT RE +V Sbjct: 499 KIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPIDSATMESLRGATNDVLAGLTAREAKV 558 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 559 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDLLKSFLDA 613 >gi|163751572|ref|ZP_02158794.1| RNA polymerase sigma-70 factor [Shewanella benthica KT99] gi|161328580|gb|EDP99733.1| RNA polymerase sigma-70 factor [Shewanella benthica KT99] Length = 609 Score = 448 bits (1153), Expect = e-123, Method: Compositional matrix adjust. Identities = 290/661 (43%), Positives = 392/661 (59%), Gaps = 73/661 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V ++Q+ED V M+++MGI V + D ++ SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEIMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P A++ D L +II I P + T S Sbjct: 128 NTVQASVAEYPQAIAAILDQFDRYEAEEVRLSDIIS--GFIDPNADDIAPTATHVGS--- 182 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTL 269 D+ ++E D +++ ++ P PE ++ L E ++ TL Sbjct: 183 -----------DLSQSELDKDNSKDDEDEEEEGPKGPDPEESKERFTQLREVHEN---TL 228 Query: 270 SAMEDQLR--PKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKL 324 + D+ R P+ AL EI E+++E R + D V G + V+ ++E+L+ Sbjct: 229 RIIADKGRGHPEATVALFEIGELFKEFRLMPKQFDRLVKGMRATMDKVR---VQERLI-- 283 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV 384 + L VEQ + + F++ + E W Sbjct: 284 ----------MKLCVEQA---------------------KMPKKNFVKCYTADESSIAWF 312 Query: 385 SYAKDFPEGEWKNFVA----CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 D K +VA E D + + R ++ I ETG++I+ + I + GE + Sbjct: 313 ----DAELASKKPYVAGLQMVETD-VRRCRFKLDIIEKETGLAIASIKDINRRMSIGEAK 367 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 368 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 427 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP Sbjct: 428 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMMMPE 487 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA L Sbjct: 488 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLRNATHEVLAGL 547 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFL Sbjct: 548 TAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFL 607 Query: 681 D 681 D Sbjct: 608 D 608 >gi|58584650|ref|YP_198223.1| DNA-directed RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont strain TRS of Brugia malayi] gi|58418966|gb|AAW70981.1| DNA-directed RNA polymerase sigma 70 subunit, RpoD [Wolbachia endosymbiont strain TRS of Brugia malayi] Length = 649 Score = 448 bits (1152), Expect = e-123, Method: Compositional matrix adjust. Identities = 265/666 (39%), Positives = 414/666 (62%), Gaps = 57/666 (8%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-----E 90 K ++ G++T +++N L + +SS+ ++DT+++L + GIN+++ EDEE + + Sbjct: 20 KSIKKGGFITFDDINDKLSDENLSSDFIDDTISLLQDSGINILESS--EDEEEAPSNSDD 77 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 LD + SN++ L + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 78 SKLDDDDALSNTTTTLVQ--------NDDPVRVYLQDMSSVKLLSRTDEIEIAKKIESEK 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 M+ ++ E+ +T + + WRD+L+ G+ LLREIIDL+A Y Sbjct: 130 HNMLRAIIETSVTLKMIKAWRDDLSSGSLLLREIIDLDAI-----------------YNS 172 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDR----SKVDSPPENAENDERNLDEDEDDSA 266 ++ ++E ++ E + D E+ ++ +KDD ++DS N E + N D + + Sbjct: 173 DFNAIPKEESEESIEDDKDSENVSEGTKDDEYCEDDEIDSKKGNDEKENSNEDINSANLN 232 Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 ++ ME+ L PKV+ ALDEI +L D A+ +KD ++ + L +++ +V Sbjct: 233 VSILEMENDLLPKVIVALDEII-------TLADEALTLRKDPSGGLRYQNLYDQIWSIVL 285 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE-------RHQGREL 379 + L+ + + + ++LY+I++ IM E L+ A+ Y I R+ FL+ R++ E+ Sbjct: 286 QIKLSDTAVAKITQKLYNINRSIMLEEANLISEAKKYNIDRESFLKVYADVLLRYKLEEI 345 Query: 380 DPHWVSYAKDFPEGEWKN----FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 S + GE KN F+ + I N IK E ++ EF+ ++ + Sbjct: 346 SSLKSSENQFCFTGELKNKFVKFIDDNFEHIADTLNNIKQHIQED--NVQEFKELIKRTQ 403 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 K E E S AK+ M++ANLRLV+S+AKKY+NRGL LDLIQEGNIGLMKA +KFD+ GYK Sbjct: 404 KHEREVSEAKQGMIKANLRLVVSIAKKYSNRGLALLDLIQEGNIGLMKAVDKFDYKRGYK 463 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTY WWV+Q+ITR+I +QS +RIPVHM + I K+ R R++++++ REPT EE++ + Sbjct: 464 FSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKLTHEMGREPTLEELSME 523 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 L MP+E +RKV+KI ++P+SL+ P G +D+S GD IEDK P D+AI +LR TT Sbjct: 524 LGMPLERIRKVMKIARDPVSLDAPTGKDDSSTFGDCIEDKRVSKPEDAAILTDLRCITTN 583 Query: 616 VLASLTPREERVLRMRFGIGMNT-DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +LA+LTP+EER++RMRFG+G + +HTLEE+G F VTRERIRQ+E+KA+RKLKHP R++ Sbjct: 584 LLATLTPKEERIIRMRFGLGKDCKEHTLEEIGCIFKVTRERIRQVESKALRKLKHPCRAR 643 Query: 675 KLRSFL 680 KLR F Sbjct: 644 KLRGFF 649 >gi|82703177|ref|YP_412743.1| RNA polymerase sigma factor RpoD [Nitrosospira multiformis ATCC 25196] gi|82411242|gb|ABB75351.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosospira multiformis ATCC 25196] Length = 707 Score = 447 bits (1151), Expect = e-123, Method: Compositional matrix adjust. Identities = 278/665 (41%), Positives = 400/665 (60%), Gaps = 80/665 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +I ++RGY+T E+N LP D + +EQ+E+ ++M++++GI+V D D E SE Sbjct: 105 KNLIVQGKERGYLTYAEINDHLPDDMLDAEQIENIISMINDVGISVYDEAPDAETLLMSE 164 Query: 91 DSLDLA-------SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + +A + A+ S+V DS T DPVRMY+REMGS+ELL+RE EI IA Sbjct: 165 TAPTVADEDVVEEAEAALSTV------DSEFGRTTDPVRMYMREMGSVELLTRESEIEIA 218 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIE G M+ ++ P T ++ + D ++ + E++D G T Sbjct: 219 KRIEDGLKHMIQAISACPTTIAGILEFADRVSKDEMRVDELVD----------GLLDPST 268 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 E ++ D S E+E + E E D+ + A NA NL + ++ Sbjct: 269 EEIISEEISDESLEQELNSDAEDE-DVTAVA---------------NA-----NLLKLKN 307 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL-V 322 D+ + V A DE+ +V + + + KD + + +++ + Sbjct: 308 DALERFAV--------VQKAYDEMQKVLEK----KGSGNKAYKDIQEQISSELMAIRFSA 355 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 K+V L Q LV+++ ++IM EL G+ R+ F++ G E + + Sbjct: 356 KMVERLCDTQR---ALVDEMRGYERKIM----ELC--VSKVGMSRNHFIKTFPGNESNLN 406 Query: 383 WV----SYAKDFPEG--EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 WV + K + ++ + + ++L ++ ++ GI + E + I + Sbjct: 407 WVDEEIALGKPYSAALERYRPEIVEQQQNLLALQKQV-------GIPLKELKEINRRMST 459 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 460 GEAKARRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 519 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + +EP P +A+K+ Sbjct: 520 STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPEPAVLAQKM 579 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP E +RK+LKI+KEPIS+ETPIGD++ SHLGDFIED ++P D+A+ A+LR+ T + Sbjct: 580 EMPEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDSATMAPADAAVYASLRDVTKDI 639 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++L Sbjct: 640 LDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSERL 699 Query: 677 RSFLD 681 RSFLD Sbjct: 700 RSFLD 704 >gi|33593188|ref|NP_880832.1| RNA polymerase sigma factor RpoD [Bordetella pertussis Tohama I] gi|33563563|emb|CAE42462.1| RNA polymerase sigma factor 70 [Bordetella pertussis Tohama I] gi|332382599|gb|AEE67446.1| RNA polymerase sigma factor RpoD [Bordetella pertussis CS] Length = 760 Score = 447 bits (1151), Expect = e-123, Method: Compositional matrix adjust. Identities = 266/678 (39%), Positives = 388/678 (57%), Gaps = 108/678 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------------ 79 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D Sbjct: 163 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 222 Query: 80 -------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 DD+EDE + A+ ++V DS T DPVRMY+REMGS+E Sbjct: 223 NAPVASNDDDVEDE----------AEAALTTV------DSDFGRTTDPVRMYMREMGSVE 266 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIG 192 LL+REGEI IAKRIE G M+ ++ P T ++ + +G + E++D + Sbjct: 267 LLTREGEIEIAKRIEDGLKHMVMAISACPTTINEILAHITRVREGQAQIDEVVD--GLVD 324 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE 252 PE +G Y + A V+ D+ Sbjct: 325 PE---------DGEEY-----------------------AGAGVTADE------------ 340 Query: 253 NDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 DE +D A +S+ + + LR K + DE+++ + ++R Q G K + Sbjct: 341 ------DEGDDGPAGGMSSKQLEDLRVKALAKFDEVSKQFEKMR--QSYEKEGYKSDAYL 392 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 +++ +L+ + + + + D L VE++ + + ++H G+ R Sbjct: 393 KAQDIIQTELMGIRFTAKMVEKLADTLRAQVEEVRQLERAVLHT------CVDRAGMPRS 446 Query: 369 VFLERHQGRELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 FL+ G E + WV + A + E + ++ ++ +++ ++ + + + Sbjct: 447 HFLKAFPGNETNLQWVLDEVAAAHAYSE-----TLERQIPAVQELQQKLIDLQTRVVLPL 501 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 502 KDLKDVNKRMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 561 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 562 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETG 621 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP P +A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED ++P D+A Sbjct: 622 AEPDPATLAQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTATLAPSDAA 681 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + ++R+ VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+ Sbjct: 682 LHGSMRDVVKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKAL 741 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HPSR+ KL+SFL+G Sbjct: 742 RKLRHPSRADKLKSFLEG 759 >gi|114564160|ref|YP_751674.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella frigidimarina NCIMB 400] gi|114335453|gb|ABI72835.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella frigidimarina NCIMB 400] Length = 614 Score = 447 bits (1150), Expect = e-123, Method: Compositional matrix adjust. Identities = 281/654 (42%), Positives = 388/654 (59%), Gaps = 57/654 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + +S+ E P ++ D+ L +II GF + + Sbjct: 131 NTVQSSVSEYPQAIAMILEQFDKYEAEELRLSDII-----------SGFINPDD------ 173 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 DDV T ++ S SK+D D ++ E +E N D +++ + Sbjct: 174 ----------DDVAPTATNVGSELADSKNDDDDDDDDDDDEEEEEGNKGPDPEEAKEKFT 223 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 QLR +L IAE R D ++ + +L K L Sbjct: 224 ----QLREAYEKSLGIIAEKGR--------------DHPEAIGSLFVIGELFK---EFRL 262 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKD 389 + D LV+ + ++ R+ E +++L + + + F++ G E + W + K+ Sbjct: 263 VPKQFDRLVKSMRNMMDRVRIQERLVIKLCVEHAKMPKKNFIKAFTGNETNLDWFNKEKE 322 Query: 390 F--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 P E + D + + ++ +I VET ++I+ + I + GE +A AKKE Sbjct: 323 STKPYAEGLRLIT---DDVTRCVTKLGAIEVETDLTIAGIKDINRRMSIGEAKARRAKKE 379 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 380 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 439 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVL Sbjct: 440 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVL 499 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +V Sbjct: 500 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAGLTAREAKV 559 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 560 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 613 >gi|33597397|ref|NP_885040.1| RNA polymerase sigma factor RpoD [Bordetella parapertussis 12822] gi|33573824|emb|CAE38132.1| RNA polymerase sigma factor 70 [Bordetella parapertussis] Length = 760 Score = 447 bits (1150), Expect = e-123, Method: Compositional matrix adjust. Identities = 266/678 (39%), Positives = 388/678 (57%), Gaps = 108/678 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------------ 79 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D Sbjct: 163 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 222 Query: 80 -------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 DD+EDE + A+ ++V DS T DPVRMY+REMGS+E Sbjct: 223 NAPVASNDDDVEDE----------AEAALTTV------DSDFGRTTDPVRMYMREMGSVE 266 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIG 192 LL+REGEI IAKRIE G M+ ++ P T ++ + +G + E++D + Sbjct: 267 LLTREGEIEIAKRIEDGLKHMVMAISACPTTINEILAHITRVREGQAQIDEVVD--GLVD 324 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE 252 PE +G Y + A V+ D+ Sbjct: 325 PE---------DGEEY-----------------------AGAGVTADE------------ 340 Query: 253 NDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 DE +D A +S+ + + LR K + DE+++ + ++R Q G K + Sbjct: 341 ------DEADDGPAGGMSSKQLEDLRVKALAKFDEVSKQFEKMR--QSYEKEGYKSDAYL 392 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 +++ +L+ + + + + D L VE++ + + ++H G+ R Sbjct: 393 KAQDIIQTELMGIRFTAKMVEKLADTLRAQVEEVRQLERAVLHT------CVDRAGMPRS 446 Query: 369 VFLERHQGRELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 FL+ G E + WV + A + E + ++ ++ +++ ++ + + + Sbjct: 447 HFLKAFPGNETNLQWVLDEVAAAHAYSE-----TLERQIPAVQELQQKLIDLQTRVVLPL 501 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 502 KDLKDVNKRMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 561 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 562 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETG 621 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP P +A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED ++P D+A Sbjct: 622 AEPDPATLAQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTATLAPSDAA 681 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + ++R+ VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+ Sbjct: 682 LHGSMRDVVKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKAL 741 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HPSR+ KL+SFL+G Sbjct: 742 RKLRHPSRADKLKSFLEG 759 >gi|163856346|ref|YP_001630644.1| RNA polymerase sigma factor RpoD [Bordetella petrii DSM 12804] gi|163260074|emb|CAP42375.1| RNA polymerase sigma-70 factor [Bordetella petrii] Length = 806 Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust. Identities = 266/666 (39%), Positives = 390/666 (58%), Gaps = 84/666 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI+V D D E SE Sbjct: 209 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGISVYDQAPDAETLLMSE 268 Query: 91 --------DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 D ++ + A+ ++V DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 269 NAPVASNDDDVEDEAEAALTTV------DSDFGRTTDPVRMYMREMGSVELLTREGEIEI 322 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P T ++ + +G + E++D + PE Sbjct: 323 AKRIEDGLKHMVMAISACPTTINEILAHITRVREGQAQIDEVVD--GLVDPE-------- 372 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G Y + A V+ D+ DE++ Sbjct: 373 -DGEEY-----------------------AGAGVAADE------------------DEND 390 Query: 263 DDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 D A +S+ + + LR K + DE+ + + ++R Q +G K E + + +L Sbjct: 391 DGPAGGMSSKQLEDLRVKALAKFDEVTKQFEKMR--QSYERDGYKSEAYIKAQEAILNEL 448 Query: 322 VKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRE 378 + + + + + D L VE++ + + ++H G+ R F++ G E Sbjct: 449 MGIRFTAKMVEKLADTLRSQVEEVRQLERAVLHT------CVDRAGMPRSHFIKVFPGNE 502 Query: 379 LDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 + WV A P + + ++ ++ +++ ++ + + + + + + + Sbjct: 503 TNLDWVLQEVAAGHP---YAETLERQIPAVQELQQKLIDLQTRVVLPLKDLKDVNKRMAT 559 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 560 GEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 619 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+K+ Sbjct: 620 STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAQKM 679 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED + ++P D+A+ ++R+ V Sbjct: 680 DMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTSTLAPSDAALHGSMRDVVKEV 739 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+ KL Sbjct: 740 LDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRADKL 799 Query: 677 RSFLDG 682 +SFL+G Sbjct: 800 KSFLEG 805 >gi|187478819|ref|YP_786843.1| RNA polymerase sigma factor RpoD [Bordetella avium 197N] gi|115423405|emb|CAJ49939.1| RNA polymerase sigma factor 70 [Bordetella avium 197N] Length = 726 Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust. Identities = 267/670 (39%), Positives = 389/670 (58%), Gaps = 92/670 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI+V D D E SE Sbjct: 129 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGISVYDQAPDAETLLMSE 188 Query: 91 --------DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 D ++ + A+ ++V DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 189 NAPVASNDDDVEDEAEAALTTV------DSDFGRTTDPVRMYMREMGSVELLTREGEIEI 242 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P T ++ + +G + E++D + PE Sbjct: 243 AKRIEDGLKHMVMAISACPTTINEILAHATRVREGQNQIDEVVD--GLVDPE-------- 292 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G Y + A VS D+ +E + Sbjct: 293 -DGEEY-----------------------AGAGVSADE------------------EEGD 310 Query: 263 DDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRS-------LQDNAVNGQKDEKSSVKC 314 D A +S+ + + LR K + DE++ + ++R+ D ++ Q+ ++ + Sbjct: 311 DGPAGGMSSKQLEDLRVKALAKFDEVSRQFDKMRNSYEKDGYRSDIYISAQETIQNELMG 370 Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERH 374 K+V+ + NQ VE++ + + ++H G+ R FL+ Sbjct: 371 IRFTAKMVEKLADTLRNQ------VEEVRQLERAVLHT------CVDRAGMPRSHFLKVF 418 Query: 375 QGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 G E + WV A P E + ++ ++ +++ ++ + + + + + + Sbjct: 419 PGNETNLQWVVEEVAAGHPYAET---LERQIPAVQELQQKLIDLQTRVVLPLKDLKDVNK 475 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 476 RMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 535 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P + Sbjct: 536 GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATL 595 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED + ++P D+A+ ++R+ Sbjct: 596 AQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTSTLAPSDAALHGSMRDV 655 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR Sbjct: 656 VKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 715 Query: 673 SKKLRSFLDG 682 + KL+SFL+G Sbjct: 716 ADKLKSFLEG 725 >gi|1905967|gb|AAC45085.1| RNA polymerase sigma 80 subunit [Bordetella pertussis 18323] Length = 733 Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust. Identities = 266/678 (39%), Positives = 388/678 (57%), Gaps = 108/678 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------------ 79 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D Sbjct: 136 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 195 Query: 80 -------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 DD+EDE + A+ ++V DS T DPVRMY+REMGS+E Sbjct: 196 NAPVASNDDDVEDE----------AEAALTTV------DSDFGRTTDPVRMYMREMGSVE 239 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIG 192 LL+REGEI IAKRIE G M+ ++ P T ++ + +G + E++D + Sbjct: 240 LLTREGEIEIAKRIEDGLKHMVMAISACPTTINEILAHITRVREGQAQIDEVVD--GLVD 297 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE 252 PE +G Y + A V+ D+ Sbjct: 298 PE---------DGEEY-----------------------AGAGVTADE------------ 313 Query: 253 NDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 DE +D A +S+ + + LR K + DE+++ + ++R Q G K + Sbjct: 314 ------DEGDDGPAGGMSSKQLEDLRVKALAKFDEVSKQFEKMR--QSYEKEGYKSDAYL 365 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 +++ +L+ + + + + D L VE++ + + ++H G+ R Sbjct: 366 KAQDIIQTELMGIRFTAKMVEKLADTLRAQVEEVRQLERAVLHT------CVDRAGMPRS 419 Query: 369 VFLERHQGRELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 FL+ G E + WV + A + E + ++ ++ +++ ++ + + + Sbjct: 420 HFLKAFPGNETNLQWVLDEVAAAHAYSE-----TLERQIPAVQELQQKLIDLQTRVVLPL 474 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 475 KDLKDVNKRMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 534 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 535 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETG 594 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP P +A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED ++P D+A Sbjct: 595 AEPDPATLAQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTATLAPSDAA 654 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + ++R+ VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+ Sbjct: 655 LHGSMRDVVKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKAL 714 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HPSR+ KL+SFL+G Sbjct: 715 RKLRHPSRADKLKSFLEG 732 >gi|33519536|ref|NP_878368.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia floridanus] gi|33517199|emb|CAD83581.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia floridanus] Length = 617 Score = 446 bits (1148), Expect = e-123, Method: Compositional matrix adjust. Identities = 275/655 (41%), Positives = 376/655 (57%), Gaps = 54/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ + + M+++MGI V+ D DD E Sbjct: 10 KLLVTRGKEQGYLTFSEVNDHLPEDIIDSDQLNNIIQMMNDMGIQVMEEAPDSDDFLLTE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S + A+ ++V D+ T DPVRMY++EMG++ELL+REGEI IAKRIE Sbjct: 70 NCGTSNNDEEDATEAAVQALSHVDTDLGRTTDPVRMYMKEMGAVELLTREGEIDIAKRIE 129 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + S+ E P L+ + G L +++ GF H Sbjct: 130 DGIHQVQCSVAEYPEAITYLLEQYKRVKTGEVRLSDLV-----------TGFVELNLEH- 177 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 D+ K D T I S + DD EN END+ N + D + + Sbjct: 178 -----DTLSTKTIHDGYITPEIINSPIII--DDE-------ENTENDDDN-NVDPELARK 222 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + ++ Q + NG+ +S ++ KL ++ Sbjct: 223 KFTDLQKQYEKTRITI-----------------KYNGRDHHQSLLEIL----KLSEVFKQ 261 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSY 386 L + D LV + + RI E +++L + + F+ G E W++ Sbjct: 262 FRLVPKQFDYLVNNMRSMMDRIRLQERLIMKLCVDVSQMPKKKFINLFSGNETSKDWLNK 321 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A W + I + ++ I ETG++I + ++I + GE +A AKK Sbjct: 322 ALSL-NTSWSQKLHNVDSKIQQSLYQLHQIEKETGLTIEQIKNINKRMAIGEAKAKRAKK 380 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 381 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 440 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EPTPEE+A+++ M + +RKV Sbjct: 441 AITRSIADQARTIRIPVHMIETINKLNRVSRQILQETGCEPTPEELAERMFMSEDKIRKV 500 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEP+S+ETPIGD++ SHLGDFIED N PLDSA NLR T VL+ LTPRE + Sbjct: 501 LKIAKEPVSMETPIGDDEDSHLGDFIEDTNLDLPLDSATSDNLRAATNDVLSGLTPREAK 560 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 561 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615 >gi|33602137|ref|NP_889697.1| RNA polymerase sigma factor RpoD [Bordetella bronchiseptica RB50] gi|33576575|emb|CAE33653.1| RNA polymerase sigma factor 70 [Bordetella bronchiseptica RB50] Length = 722 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 266/678 (39%), Positives = 388/678 (57%), Gaps = 108/678 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------------ 79 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D Sbjct: 125 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 184 Query: 80 -------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 DD+EDE + A+ ++V DS T DPVRMY+REMGS+E Sbjct: 185 NAPVASNDDDVEDE----------AEAALTTV------DSDFGRTTDPVRMYMREMGSVE 228 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIG 192 LL+REGEI IAKRIE G M+ ++ P T ++ + +G + E++D + Sbjct: 229 LLTREGEIEIAKRIEDGLKHMVMAISACPTTINEILAHITRVREGQAQIDEVVD--GLVD 286 Query: 193 PESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAE 252 PE +G Y + A V+ D+ Sbjct: 287 PE---------DGEEY-----------------------AGAGVTADE------------ 302 Query: 253 NDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSS 311 DE +D A +S+ + + LR K + DE+++ + ++R Q G K + Sbjct: 303 ------DEADDGPAGGMSSKQLEDLRVKALAKFDEVSKQFEKMR--QSYEKEGYKSDAYL 354 Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRD 368 +++ +L+ + + + + D L VE++ + + ++H G+ R Sbjct: 355 KAQDIIQTELMGIRFTAKMVEKLADTLRAQVEEVRQLERAVLHT------CVDRAGMPRS 408 Query: 369 VFLERHQGRELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 FL+ G E + WV + A + E + ++ ++ +++ ++ + + + Sbjct: 409 HFLKAFPGNETNLQWVLDEVAAAHAYSE-----TLERQIPAVQELQQKLIDLQTRVVLPL 463 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 464 KDLKDVNKRMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 523 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 524 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETG 583 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP P +A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED ++P D+A Sbjct: 584 AEPDPATLAQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTATLAPSDAA 643 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + ++R+ VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+ Sbjct: 644 LHGSMRDVVKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKAL 703 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HPSR+ KL+SFL+G Sbjct: 704 RKLRHPSRADKLKSFLEG 721 >gi|120599857|ref|YP_964431.1| RpoD family RNA polymerase sigma factor [Shewanella sp. W3-18-1] gi|146292207|ref|YP_001182631.1| RpoD family RNA polymerase sigma factor [Shewanella putrefaciens CN-32] gi|120559950|gb|ABM25877.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. W3-18-1] gi|145563897|gb|ABP74832.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella putrefaciens CN-32] Length = 616 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 277/654 (42%), Positives = 385/654 (58%), Gaps = 55/654 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + +S+ E P ++ D+ L +II GF + E Sbjct: 131 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII-----------SGFVNPDEEDVAPT 179 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 E +D+ + + + E ++D + PE A L +++ + Sbjct: 180 ATHIGSELSDEDLDDEDDEDEDDEDADEEDDANKGPDPEEARERFSQLRAAYENALKIIE 239 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 A + + P+ + AL EI E+++E R L Sbjct: 240 A-KGREHPESVKALFEIGEIFKEFR----------------------------------L 264 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSY--A 387 + D LV+ + + R+ E ++L + + + F++ G E + W A Sbjct: 265 VPKQFDRLVKSMRSMMDRVRVQERLAMKLCVEQAKMPKKNFVKFFTGNETNLDWFHAEKA 324 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + P E V + +L+ R+++ ++ ETG++IS + I + GE +A AKKE Sbjct: 325 SNKPYAEGLRMVE---EDVLRCRSKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKKE 381 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 382 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 441 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVL Sbjct: 442 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVL 501 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +V Sbjct: 502 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKV 561 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 562 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615 >gi|162452723|ref|YP_001615090.1| RNA polymerase sigma factor RpoD [Sorangium cellulosum 'So ce 56'] gi|161163305|emb|CAN94610.1| RNA polymerase sigma factor RpoD [Sorangium cellulosum 'So ce 56'] Length = 639 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 273/665 (41%), Positives = 385/665 (57%), Gaps = 100/665 (15%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD------- 82 + +K+++ + +G++T +E+N LP D V+ +Q++D V L + I +VDG Sbjct: 61 TLEKLVETGKSKGFLTYDEVNDALPAD-VAPDQLDDVVGALGDEDIEIVDGATQVKIAPK 119 Query: 83 -LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 + DEE E L + V D +S +DPVRMYLR+MGS+ LL+REGE+ Sbjct: 120 RIADEEAGEKKLVVTPDREEEDV------DYYSKS-NDPVRMYLRKMGSVSLLTREGEVE 172 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 IAKRIE G + A++ +SP+ +REIIDL Sbjct: 173 IAKRIEIGEQKVNAAILDSPIA-----------------VREIIDL-------------- 201 Query: 202 GTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 G +K + +V ++AEND++ DE+ Sbjct: 202 ---GEKLRKH-----------------------------KIRVKELIKDAENDDQEFDEE 229 Query: 262 EDDSAHTLSAMEDQLRPKVMCA--LDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKE 319 E D + ++ R A L+E EV E+R Q + V+ Sbjct: 230 EADR-RIIRLIDKVKRVDKKKAELLEERKEVKTEVRRKQID-----------VEVTQATA 277 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF---LERHQG 376 +LV + + LN+ ID +V++L + ++ E L + G+ + L + +G Sbjct: 278 ELVTTLEEMRLNKRTIDKIVQKLKSLISKVEKAEAGATELERRTGLSKGELKRELIKVKG 337 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 ++ + E +F + +I + +K + E I ++ R +R+ Sbjct: 338 NRALEGRLAKKLNVQREELNDFES----TIKNAQKGLKKVEEELNIDVAAIRDTYENIRE 393 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE A AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 394 GERMAERAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKF 453 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + + REPTPEEIA+K+ Sbjct: 454 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEYGREPTPEEIAEKM 513 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK+ +SP ++ I NL E T +V Sbjct: 514 ELPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSVISPAEAVINMNLAEQTRKV 573 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L Sbjct: 574 LKTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKQL 633 Query: 677 RSFLD 681 +SF+D Sbjct: 634 KSFID 638 >gi|319425507|gb|ADV53581.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella putrefaciens 200] Length = 613 Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 277/654 (42%), Positives = 385/654 (58%), Gaps = 55/654 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + +S+ E P ++ D+ L +II GF + E Sbjct: 128 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII-----------SGFVNPDEEDVAPT 176 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 E +D+ + + + E ++D + PE A L +++ + Sbjct: 177 ATHIGSELSDEDLDDEDDEDEDDEDADEEDDANKGPDPEEARERFSQLRAAYENALKIIE 236 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 A + + P+ + AL EI E+++E R L Sbjct: 237 A-KGREHPESVKALFEIGEIFKEFR----------------------------------L 261 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSY--A 387 + D LV+ + + R+ E ++L + + + F++ G E + W A Sbjct: 262 VPKQFDRLVKSMRSMMDRVRVQERLAMKLCVEQAKMPKKNFVKFFTGNETNLDWFHAEKA 321 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + P E V + +L+ R+++ ++ ETG++IS + I + GE +A AKKE Sbjct: 322 SNKPYAEGLRMVE---EDVLRCRSKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKKE 378 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 379 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 438 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVL Sbjct: 439 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVL 498 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +V Sbjct: 499 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKV 558 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 559 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 612 >gi|331017645|gb|EGH97701.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 616 Score = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 280/652 (42%), Positives = 392/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L ++ L I P+ G E Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDV--LSGYIDPDD--GIAPPAEVPPPVDP 186 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + E DD +E+ S D+ +V+S P+ +R A Sbjct: 187 KAVKAEGADDDEEESAD--------SSDEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAELV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGHEVDESWTDGLAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 +G++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 TKEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 TKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|71736970|ref|YP_272918.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. phaseolicola 1448A] gi|71557523|gb|AAZ36734.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. phaseolicola 1448A] Length = 616 Score = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 279/652 (42%), Positives = 395/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T + L++ T + E L + G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHI------LSEYTCVTSEGGRLSDVLS-----GYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + T+ D E +A S DD +V+S P+ +R A Sbjct: 180 VPPPVDPKAVKAEGTDDDEEESADAS-DDEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|257483092|ref|ZP_05637133.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289627702|ref|ZP_06460656.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289649021|ref|ZP_06480364.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. 2250] gi|298485287|ref|ZP_07003379.1| RNA polymerase sigma factor RpoD [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298160137|gb|EFI01166.1| RNA polymerase sigma factor RpoD [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320325995|gb|EFW82053.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. B076] gi|320332070|gb|EFW88006.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. race 4] gi|330868477|gb|EGH03186.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330881700|gb|EGH15849.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea str. race 4] gi|330891182|gb|EGH23843.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. mori str. 301020] gi|330985810|gb|EGH83913.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. lachrymans str. M301315] gi|331011674|gb|EGH91730.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 616 Score = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 276/652 (42%), Positives = 393/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVL-----------SGYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + T+ D E +A S DD +V+S P+ +R A Sbjct: 180 VPPPVDPKAVKAEGTDDDEEESADAS-DDEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|149927883|ref|ZP_01916133.1| RNA polymerase sigma factor RpoD [Limnobacter sp. MED105] gi|149823322|gb|EDM82555.1| RNA polymerase sigma factor RpoD [Limnobacter sp. MED105] Length = 878 Score = 445 bits (1144), Expect = e-122, Method: Compositional matrix adjust. Identities = 280/702 (39%), Positives = 411/702 (58%), Gaps = 74/702 (10%) Query: 1 MTIGKKRNRDS--------DSEHEDSDDSLV--FDFSDDSWKKMIKLARQRGYVTIEELN 50 + I KR R S +S + S ++ V + + K +IK+ ++RGY+T E+N Sbjct: 230 LVIMPKRGRGSKAKDKALINSAYLSSANATVEELELRRNQLKTLIKMGKERGYLTFAEIN 289 Query: 51 AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRK 110 LP D E +E V+ +MGI V + + D+ + +SA ++ + Sbjct: 290 DHLPDDVTDGEVIEAMVSTFHDMGITVYEQAPDAEALLMNDNAPVGTSAEDAEEEAEAAL 349 Query: 111 DSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 + D T DPVRMY+REMG++ELL+REGEI IAKRIEAG M+ ++ P + + Sbjct: 350 SNVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEAGLKDMVQAISACPAIVEDV 409 Query: 168 IIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETE 227 + + +G + + E++D G D TE Sbjct: 410 VGLGQRIAEGLSTVDEVVD-----------GII---------------------DDSITE 437 Query: 228 GDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAME----DQLRPKVMCA 283 +E+AA PE +D+ N DE+E + T S M ++L+ + Sbjct: 438 EMVEAAA-------------PEETNDDDDNEDEEEGNDGGTTSGMSARQLEELKKNSLAV 484 Query: 284 LDEIAEVYRELRSLQ-DNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 EI + + +L+ ++ D N +K+ + + E+ +K+ + + +L EQ+ Sbjct: 485 FAEIEKQFAKLKKVRADGGYNTPAYKKAK---EAIAEQFMKIRFTAKQVERLCSILREQV 541 Query: 343 YDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVA 400 + K E E+ +A G+ R+ FL++ +G E++ WV +++ W A Sbjct: 542 DSVRK----IEREIYDIAVNRVGVPREQFLDKFRGHEVEAAWVDTFSAS--NAAWAETWA 595 Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 V +I +++ ++ +I + +++ R I + GE A +AK+EM+EANLRLVIS+A Sbjct: 596 RNVPAINELQQKLVAIQDTVSLPLNDLRAINKQMVSGENRARLAKREMIEANLRLVISIA 655 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKYTNRGLQFLDLIQEGN+GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIR Sbjct: 656 KKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 715 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPVHM + I+K+ R +R++ + EP P +A+++ MP E +RK+LKI KEPIS+ETPI Sbjct: 716 IPVHMIETINKMNRISRQILQETGIEPDPATLAERMEMPEEKIRKILKIAKEPISMETPI 775 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GD+D SHLGDFIED + ++P D+A ++LR T VL SLTPRE +VLRMRFGI M+TDH Sbjct: 776 GDDDDSHLGDFIEDNHTLAPQDAAQYSSLRFVTKDVLDSLTPREAKVLRMRFGIEMSTDH 835 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 836 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 877 >gi|91788957|ref|YP_549909.1| sigma 70 (RpoD) [Polaromonas sp. JS666] gi|91698182|gb|ABE45011.1| RNA polymerase, sigma 70 subunit, RpoD [Polaromonas sp. JS666] Length = 784 Score = 445 bits (1144), Expect = e-122, Method: Compositional matrix adjust. Identities = 271/664 (40%), Positives = 385/664 (57%), Gaps = 79/664 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E++ LP V +E +E V ML++MG+ V E + D Sbjct: 184 KTLIKLGKTRGYLTHGEISDHLPDKLVDAETLEVVVNMLNDMGVAVY--------EQAPD 235 Query: 92 SLDLASSASNSSVFLQKRK-----------DSADRSTDDPVRMYLREMGSIELLSREGEI 140 + L + + +V ++ DS T DPVRMY+REMG++ELL+REGEI Sbjct: 236 AETLLLNNTGPTVATEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEI 295 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 IAKRIE G MM ++ ESP T ++ +E+ +G ++ ++D GF Sbjct: 296 EIAKRIEGGLMKMMEAISESPATIAEIMRLGEEIREGKIVISTVVD-----------GFS 344 Query: 201 HGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDE 260 + E Y ED + E DD G Sbjct: 345 NPNEADDYVAEEDFDEFDEEDDDDGKGG-------------------------------- 372 Query: 261 DEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKC-KVLKE 319 + L+ ++L+ + + D+IA ++ ++ D G + VK K L + Sbjct: 373 -----SKALTKKLEELKKEALSRFDKIASLFEKVHKTYDKEGYGTP---TYVKAQKALSD 424 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L+ + + + D+L Q+ D+ K+ E EL R+ + G+ ++ F++ Sbjct: 425 ELMTVRFTAKTIEKLCDMLRGQVLDVRKK----ERELRRIIVEKCGMPQETFIKDFPPNL 480 Query: 379 LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 L+ WV K G+ W +A + I +++ ++ + + + + + I + +G Sbjct: 481 LNLKWVE--KQVASGKPWSTVMARNIPPIQELQTKLAELQARVVVPLGQLKDINKRMNEG 538 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 539 ESNSRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 598 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ Sbjct: 599 TYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRLSRQHLQEFGFEPDASILAAKME 658 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P + +RK++KI KEPIS+ETPIGD+D SHLGDFIED +PL++A+QA LR+ +L Sbjct: 659 IPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSANTAPLEAAMQAGLRDVVKDIL 718 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLR Sbjct: 719 DSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLR 778 Query: 678 SFLD 681 SF+D Sbjct: 779 SFID 782 >gi|293604556|ref|ZP_06686961.1| DNA-directed RNA polymerase sigma subunit RpoD [Achromobacter piechaudii ATCC 43553] gi|292817137|gb|EFF76213.1| DNA-directed RNA polymerase sigma subunit RpoD [Achromobacter piechaudii ATCC 43553] Length = 770 Score = 444 bits (1143), Expect = e-122, Method: Compositional matrix adjust. Identities = 266/670 (39%), Positives = 386/670 (57%), Gaps = 92/670 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D D E SE Sbjct: 173 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 232 Query: 91 --------DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 D ++ + A+ ++V DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 233 NAPVASNDDDVEDEAEAALTTV------DSDFGRTTDPVRMYMREMGSVELLTREGEIEI 286 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P T ++ + +G + E++D + PE Sbjct: 287 AKRIEDGLKHMVMAISACPTTINEILAHILRVREGQAQIDEVVD--GLVDPE-------- 336 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G Y + A V+ D+ DE + Sbjct: 337 -DGEEY-----------------------AGAGVTADE------------------DESD 354 Query: 263 DDSAHTLSAME-DQLRPKVMCALDEIAEVYRELR-------SLQDNAVNGQKDEKSSVKC 314 D A +S+ + + LR K + DE+ + + ++R D V Q+ ++ + Sbjct: 355 DGPAGGMSSKQLEDLRVKALAKFDEVGKQFDKMRLSYEKDGYKSDIYVRAQESIQNELMG 414 Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERH 374 K+V+ + NQ VE++ + + ++H G+ R F++ Sbjct: 415 IRFTAKMVEKLADTLRNQ------VEEVRQLERAVLHT------CVDRAGMPRTHFIKVF 462 Query: 375 QGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 G E + WV A P + + ++ ++ +++ ++ + + + + + + Sbjct: 463 PGNETNLQWVVDEVAAGHP---YAETLERQIPAVQELQQKLIDLQTRVVLPLKDLKDVNK 519 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 520 RMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 579 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P + Sbjct: 580 GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATL 639 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED + ++P D+A+ ++R+ Sbjct: 640 AQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTSTLAPSDAALHGSMRDV 699 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR Sbjct: 700 VKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 759 Query: 673 SKKLRSFLDG 682 + KL+SFL+G Sbjct: 760 ADKLKSFLEG 769 >gi|317403353|gb|EFV83866.1| RNA polymerase sigma-70 factor [Achromobacter xylosoxidans C54] Length = 813 Score = 444 bits (1143), Expect = e-122, Method: Compositional matrix adjust. Identities = 269/670 (40%), Positives = 384/670 (57%), Gaps = 90/670 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D D E SE Sbjct: 214 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 273 Query: 91 DSLDLASSASNSSVFLQKRK--------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 + A ASN + + DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 274 N----APVASNDDDDDVEDEAEAALTTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEI 329 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P T ++ + +G + E++D + PE Sbjct: 330 AKRIEDGLKHMVMAISACPTTINEILAHVLRVREGQAQIDEVVD--GLVDPE-------- 379 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G Y + A VS D+ DE + Sbjct: 380 -DGEEY-----------------------AGAGVSADE------------------DESD 397 Query: 263 DDSAHTLSAME-DQLRPKVMCALDEIAEVYRELR-------SLQDNAVNGQKDEKSSVKC 314 D A +S+ + + LR K + DE+ + + ++R D V Q+ ++ + Sbjct: 398 DGPAGGMSSKQLEDLRVKALAKFDEVGKQFDKMRLSYEKDGYKSDIYVRAQESIQNELMG 457 Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERH 374 K+V+ + NQ VE++ + + ++H G+ R F++ Sbjct: 458 IRFTAKMVEKLADTLRNQ------VEEVRQLERAVLHT------CVDRAGMPRTHFIKVF 505 Query: 375 QGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 G E + WV A P E + ++ ++ +++ ++ + + + + + + Sbjct: 506 PGNETNLQWVVDEVAAGHPYAET---LERQIPAVQELQQKLIDLQTRVVLPLKDLKDVNK 562 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 563 RMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 622 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P + Sbjct: 623 GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATL 682 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+K+ MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED + ++P D+A+ ++R+ Sbjct: 683 AQKMDMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTSTLAPSDAALHGSMRDV 742 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR Sbjct: 743 VKEVLDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 802 Query: 673 SKKLRSFLDG 682 + KL+SFL+G Sbjct: 803 ADKLKSFLEG 812 >gi|77359315|ref|YP_338890.1| RNA polymerase sigma factor [Pseudoalteromonas haloplanktis TAC125] gi|76874226|emb|CAI85447.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas haloplanktis TAC125] Length = 615 Score = 444 bits (1142), Expect = e-122, Method: Compositional matrix adjust. Identities = 279/656 (42%), Positives = 384/656 (58%), Gaps = 56/656 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++GY+T E+N LP D + S+Q+ED ++M+++MGI V + DE ++ Sbjct: 10 KLLILKGKEQGYLTFAEVNDHLPQDIIDSDQVEDIISMINDMGIKVSENAPDADELMMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TTTDEDAAEAAAAALATVEKEIGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 + S+ E P L+ D+ L +II GF E + Sbjct: 129 QVQISVAEYPEAITYLLEQWDKFEAEEMRLSDII-----------VGFIDPNEDTAPISA 177 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLS 270 + E + + + D + + + +D+ P PE A NL + + + T Sbjct: 178 TNIGSELSAKQLNDDDKDDDDSDEDDEDEEEVDTGPDPEEARVHFENLRDLYNKARETFE 237 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 A + + P + A+ EI E+++ + + D VN ++ V+ Sbjct: 238 A-KGRSHPDSLAAIFEIGELFKTFKLIPKQFDRMVNNMREMMDRVRV------------- 283 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYA 387 Q R L+++Q I+K + + F++ E D WV Sbjct: 284 ----QER--LIMKQAVQIAK-----------------LPKKTFVKHFANNETDATWVDL- 319 Query: 388 KDFPEGEWKNFVACEVDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 + E + EV I++ N+++ I TG++I + I + GE +A AKK Sbjct: 320 -EIAANEKYSAKLEEVKPEIIRSLNKLRVIESSTGLNIERIKDINRRMSIGEAKARRAKK 378 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 379 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 438 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + VRKV Sbjct: 439 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPEDKVRKV 498 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETPIGD++ SHLGDFIED SP+DSA +LR T VLA LT RE + Sbjct: 499 LKIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPIDSATMESLRGATNDVLAGLTAREAK 558 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 559 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDLLKSFLDA 614 >gi|237803341|ref|ZP_04590926.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae str. 1_6] gi|331025322|gb|EGI05378.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae str. 1_6] Length = 615 Score = 444 bits (1142), Expect = e-122, Method: Compositional matrix adjust. Identities = 279/653 (42%), Positives = 392/653 (60%), Gaps = 53/653 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L ++ L I P+ K Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDV--LSGYIDPDDGIAPPAEVPPPVDPK- 187 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + E DD +E D + D+ +V+S P+ +R A Sbjct: 188 ---AAKAEGDDEEEESAD-------ASDEEDEVESGPDPVIAQQR------------FGA 225 Query: 272 MEDQLRPKVMCALDEIAEVYRE-LRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 + DQ+ E+ R+ L+ L +D+K ++ V L +L + L Sbjct: 226 VSDQM------------EITRKALKKLG-------RDDKHAIAEMV---ALAELFMPIKL 263 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAK 388 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 264 VPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAK 323 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + ++ +A I + + ++ ++ ETG+ I+E + I + GE +A AKKEM Sbjct: 324 G--KSKYAEAIARLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEM 381 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 382 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 441 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLK Sbjct: 442 TRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLK 501 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VL Sbjct: 502 IAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVL 561 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 562 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 614 >gi|332284638|ref|YP_004416549.1| RNA polymerase sigma factor RpoD [Pusillimonas sp. T7-7] gi|330428591|gb|AEC19925.1| RNA polymerase sigma factor RpoD [Pusillimonas sp. T7-7] Length = 749 Score = 444 bits (1141), Expect = e-122, Method: Compositional matrix adjust. Identities = 267/660 (40%), Positives = 381/660 (57%), Gaps = 73/660 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V +E ++ ++ S+MGI+V D D D Sbjct: 153 KVLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGISVYDQAPDADALLMSD 212 Query: 92 SLDLASS---ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + +ASS + + DS T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 213 NAPVASSDDDVEDEAEAALTTVDSDFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 272 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G M+ ++ P T ++ + + DG + E++D G Sbjct: 273 GLKHMVMAIAACPTTVNEILQYIQRVRDGAAQIDEVVD-----------GLI-------- 313 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 + EG+ + A VS D+ DE+ED A Sbjct: 314 ----------------DQEGEEYAGAGVSVDN------------------DENEDGPAGG 339 Query: 269 LSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 +S+ + + LR K + + I+ + ++R+ + Q E + + +L E L+ + + Sbjct: 340 MSSKQLEHLRTKSLKKFENISVWFSKMRTAFERD-GYQAQEYAEAQEAILNE-LMGVRFT 397 Query: 328 LSLNQSRIDLLVEQLYDISK---RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV 384 + + D L EQ+ + K ++H G+ R F++ G E + +WV Sbjct: 398 AKMVEKLADTLREQVAQVRKLERTVLHT------CVDRAGMPRAYFIKVFPGNETNLNWV 451 Query: 385 --SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 A P + + + ++ +I+ ++ + + + + + + + GE +A Sbjct: 452 LEEVAAGHP---YSETLERHIPAVQEIQQKLIDLQTSVVLPLKDLKDVNKRMATGEAKAR 508 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 509 KAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 568 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R R++ + EP P +A+K+ MP + Sbjct: 569 WIRQAITRSIADQARTIRIPVHMIETINKMNRINRQILQETGAEPDPATLAQKMDMPEDK 628 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRK+LKI KEPIS+ETPIGD+D SHLGDFIED +SP + A+ ++R+ VL SLTP Sbjct: 629 VRKILKIAKEPISMETPIGDDDDSHLGDFIEDTGTLSPSEWALHGSMRDVVKEVLDSLTP 688 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+ KL+SFL+G Sbjct: 689 REAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRADKLKSFLEG 748 >gi|311105374|ref|YP_003978227.1| RNA polymerase sigma factor RpoD [Achromobacter xylosoxidans A8] gi|310760063|gb|ADP15512.1| RNA polymerase sigma factor RpoD [Achromobacter xylosoxidans A8] Length = 750 Score = 444 bits (1141), Expect = e-122, Method: Compositional matrix adjust. Identities = 263/666 (39%), Positives = 389/666 (58%), Gaps = 84/666 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++IKL + RGY+T E+N LP D V +E ++ ++ S+MGI V D D E SE Sbjct: 153 KQLIKLGKDRGYLTYGEINDHLPDDLVDAEAIDGIISTFSDMGIAVYDQAPDAETLLMSE 212 Query: 91 --------DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 D ++ + A+ ++V DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 213 NAPVASNDDDVEDEAEAALTTV------DSDFGRTTDPVRMYMREMGSVELLTREGEIEI 266 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P T ++ + +G + E++D + PE Sbjct: 267 AKRIEDGLKHMVMAISACPTTINEILAHILRVREGQAQIDEVVD--GLVDPE-------- 316 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 +G Y + A V+ ++ DE + Sbjct: 317 -DGEEY-----------------------AGAGVTAEE------------------DEGD 334 Query: 263 DDSAHTLSAME-DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 D A +S+ + + LR K + DE+ + + ++R + +G K + + ++ +L Sbjct: 335 DGPAGGMSSKQLEDLRVKALAKFDEVGKQFEKMRHSYEK--DGYKSDVYVRAQESIQNEL 392 Query: 322 VKLVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRE 378 + + + + + D L VE++ + + ++H G+ R F++ G E Sbjct: 393 MGIRFTAKMVEKLADTLRQQVEEVRQLERAVLHT------CVDRAGMPRTHFIKVFPGNE 446 Query: 379 LDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 + WV A P + + ++ ++ +++ ++ + + + + + + + Sbjct: 447 TNMQWVVDEVAAGHP---YAETLERQIPAVQELQQKLIDLQTRVVLPLKDLKDVNKRMAT 503 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 504 GEAKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 563 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+K+ Sbjct: 564 STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAQKM 623 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED + ++P D+A+ ++R+ V Sbjct: 624 DMPEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTSTLAPSDAALHGSMRDVVKEV 683 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L SLTPRE +VLRMRFGI M+TD TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+ KL Sbjct: 684 LDSLTPREAKVLRMRFGIEMSTDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRADKL 743 Query: 677 RSFLDG 682 +SFL+G Sbjct: 744 KSFLEG 749 >gi|28867765|ref|NP_790384.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213967690|ref|ZP_03395837.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1] gi|301382750|ref|ZP_07231168.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato Max13] gi|302064027|ref|ZP_07255568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato K40] gi|302130708|ref|ZP_07256698.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato NCPPB 1108] gi|28851000|gb|AAO54079.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213927466|gb|EEB61014.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1] gi|330878419|gb|EGH12568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 616 Score = 444 bits (1141), Expect = e-122, Method: Compositional matrix adjust. Identities = 279/652 (42%), Positives = 391/652 (59%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L ++ L I P+ G E Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDV--LSGYIDPDD--GIAPPAEVPPPVDP 186 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + E DD +E+ S D+ +V+S P+ +R A Sbjct: 187 KAVKAEGADDDEEESAD--------SSDEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAELV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGHEVDESWTDGLAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 +G++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|332531768|ref|ZP_08407653.1| RNA polymerase sigma factor RpoD [Pseudoalteromonas haloplanktis ANT/505] gi|332038744|gb|EGI75186.1| RNA polymerase sigma factor RpoD [Pseudoalteromonas haloplanktis ANT/505] Length = 616 Score = 443 bits (1140), Expect = e-122, Method: Compositional matrix adjust. Identities = 280/655 (42%), Positives = 380/655 (58%), Gaps = 53/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I+ +++GY+T E+N LP D + S+Q+ED ++M+++MGI V + DE ++ Sbjct: 10 KLLIQKGKEQGYLTFAEVNDHLPQDIIDSDQVEDIISMINDMGIKVSENAPDADELMMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TTTDEDAAEAAAAALATVEKEIGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE-GHSYQK 210 + S+ E P L+ D+ L +II I P T G Sbjct: 129 QVQISVAEYPEAITYLLEQWDKFEAEEMRLSDII--VGFIDPNEDTAPISATNIGSELSA 186 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 ++ +K+ D +++ + E D PE A NL + + + T Sbjct: 187 KQLEDDDKDDKDDADSDDEDEEEIDTGPD--------PEEARIHFENLRDLYNKARDTFE 238 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 A + + P+ A+ EI E++R + + D VN ++ V+ Sbjct: 239 A-KGRSHPESQAAIFEIGELFRTFKLIPKQFDRMVNNMREMMDRVRV------------- 284 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYA 387 Q R L+++Q I+K + + F++ E D WV Sbjct: 285 ----QER--LIMKQAVQIAK-----------------LPKKTFVKHFANNETDASWVDLE 321 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 E + + I I N++ I TG+SI + I + GE +A AKKE Sbjct: 322 ISGNEKYSAKLEEVKPEIIRSI-NKLSVIEQTTGLSIERIKDINRRMSIGEAKARRAKKE 380 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 381 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 440 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVL Sbjct: 441 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPEDKIRKVL 500 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED SP+DSA +LR T VLA LT RE +V Sbjct: 501 KIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPIDSATMESLRGATNDVLAGLTAREAKV 560 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 561 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDLLKSFLDA 615 >gi|127511929|ref|YP_001093126.1| RpoD family RNA polymerase sigma factor [Shewanella loihica PV-4] gi|126637224|gb|ABO22867.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella loihica PV-4] Length = 616 Score = 443 bits (1140), Expect = e-122, Method: Compositional matrix adjust. Identities = 274/654 (41%), Positives = 381/654 (58%), Gaps = 55/654 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D ++ SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D ++ ++ + T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DSTDEDAAEEAAAALATVEAELG--RTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P ++ D L +II GF Sbjct: 131 NTVQASVAEYPQAIAMILEQYDRYEAEEVRLSDII-----------SGFVDPNAEDMAPT 179 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 E DD+ + + + + ++ S PE A L E + + + Sbjct: 180 ATHIGSELSDDDLDDEDDEGDDEDDDGDEEDSPKGPDPEEARERFTQLREAHEKALKVIE 239 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 ++ + P+ AL +I E+++E R L Sbjct: 240 -LKGREHPEATAALFDIGEIFKEFR----------------------------------L 264 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS--YA 387 + D LV+ + ++ ++ E +++L + + + F++ + E W + A Sbjct: 265 VPKQFDRLVKNMREMMDKVRIQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNEEIA 324 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 P E VA +V + R ++ +I ETG++I+ + I + GE +A AKKE Sbjct: 325 AKKPYAEGLEMVAEDVQ---RCRAKLDAIENETGLAIAAIKDINRRMSIGEAKARRAKKE 381 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 382 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 441 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVL Sbjct: 442 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMPEDKIRKVL 501 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +V Sbjct: 502 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREAKV 561 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 562 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615 >gi|330963831|gb|EGH64091.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. actinidiae str. M302091] Length = 616 Score = 443 bits (1140), Expect = e-122, Method: Compositional matrix adjust. Identities = 279/652 (42%), Positives = 391/652 (59%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L ++ L I P+ G E Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDV--LSGYIDPDD--GIAPPAEVPPPVDP 186 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + E DD +E+ S D+ +V+S P+ +R A Sbjct: 187 KAVKAEGADDDEEESAD--------SSDEEDEVESGPDPIIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAELV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGHEVDESWTDGLAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 +G++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|294139649|ref|YP_003555627.1| RNA polymerase sigma-70 factor [Shewanella violacea DSS12] gi|7388082|sp|O24744|RPOD_SHEVD RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1912047|dbj|BAA19475.1| RNA polymerase sigma factor [Shewanella violacea] gi|293326118|dbj|BAJ00849.1| RNA polymerase sigma-70 factor [Shewanella violacea DSS12] Length = 614 Score = 443 bits (1139), Expect = e-122, Method: Compositional matrix adjust. Identities = 283/655 (43%), Positives = 390/655 (59%), Gaps = 56/655 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V ++Q+ED V M+++MGI V + D ++ +E Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEIMMTE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P +++ D L +II I P + T S Sbjct: 128 YTVQASVAEYPPAIASILDQFDRYEAEEVRLSDIIS--GFIDPNAADIAPTATHIGS--- 182 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 D SQ + D + + + + + + P+ E+ ER + + +TL Sbjct: 183 --DLSQSERDKDDSKDDSKDDDEDEEEEGPKG-----PDPEESKER-FTQLREVHENTLK 234 Query: 271 AMEDQLR--PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 + D+ R P+ AL EI E+++E R + K+ ++++ ++E+L+ Sbjct: 235 IIADKGRGHPEATVALFEIGELFKEFRLMPKQFDRLVKNMRATMDKVRVQERLI------ 288 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHW--VSY 386 + L VEQ + + F++ + E W Sbjct: 289 ------MKLCVEQA---------------------KMPKKNFVKGYTADESSIAWFDTEL 321 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A P E + +V + R ++ I ETG++I+ + I + GE +A AKK Sbjct: 322 ASKKPYAEGLKMIEPDVR---RCRFKLDIIEKETGLAIASIKDINRRMSIGEAKARRAKK 378 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 379 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 438 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKV Sbjct: 439 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKV 498 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA LT RE + Sbjct: 499 LKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLRNATHEVLAGLTAREAK 558 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 559 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 613 >gi|71282406|ref|YP_270983.1| RNA polymerase sigma-70 factor [Colwellia psychrerythraea 34H] gi|71148146|gb|AAZ28619.1| RNA polymerase sigma-70 factor [Colwellia psychrerythraea 34H] Length = 616 Score = 443 bits (1139), Expect = e-122, Method: Compositional matrix adjust. Identities = 270/660 (40%), Positives = 379/660 (57%), Gaps = 63/660 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++GY+T ++N LP D + S+Q+ED V+M+++MGI V + +D Sbjct: 10 KDLITKGKEQGYLTFAQVNDHLPQDIIDSDQVEDIVSMINDMGIQVFEN------APDQD 63 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +L +A + ++ + +S T DPVRMY+REMG++ELL+R+GEI IAKRI Sbjct: 64 TLMMAEANTDEDAAEAAAQALATVESEIGRTTDPVRMYMREMGTVELLTRKGEIVIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G + S+ E P L+ D L +II GF Sbjct: 124 EEGIKEVQRSVSEYPPAINYLLDMWDNFEAEEVRLTDIII-----------GFLDPDAED 172 Query: 207 SYQKREDS--SQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 + E ++D+ + + + +D+ + P ++ L + + Sbjct: 173 DDVAAAATHVGSELSKEDLANEDSEKKEGDAEEEDEEEEDTGPDPELAREKFTLLREAHE 232 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKL 324 +A + + + A+D +AEV++E R L Sbjct: 233 NATKVVKKKGRGHKDAQEAIDAVAEVFKEFR----------------------------L 264 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV 384 + L D LV+ + + R+ E +++ S G+ + F++ G E W Sbjct: 265 IPKL------FDKLVKNMRGMMDRLRVQERLIMKHCVSAGMPKTTFIKIFPGNETSKEWF 318 Query: 385 SY--AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 A P + +V+ + N+I+ ET ++I + I + GE +A Sbjct: 319 EAEKAAGNPYSTKLGDIEHDVERCIYKLNQIEE---ETHLNIHGIKDINRRMSIGEAKAR 375 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 376 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 435 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP + Sbjct: 436 WIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPTPEELAERMVMPEDK 495 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RKVLKI KEPIS+ETPIGD++ SHLGDFIED + P+DSA NL+ T VLA LT Sbjct: 496 IRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGSGELPVDSATSENLKGATHEVLAGLTA 555 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++L+SFLDG Sbjct: 556 REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLKSFLDG 615 >gi|330898880|gb|EGH30299.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. japonica str. M301072PT] gi|330980978|gb|EGH79081.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 616 Score = 442 bits (1138), Expect = e-122, Method: Compositional matrix adjust. Identities = 274/652 (42%), Positives = 392/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVL-----------SGYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + + D E +A S D+ +V+S P+ +R A Sbjct: 180 VPPPVDPKAAKAEGADDDEEESADAS-DEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|117921525|ref|YP_870717.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. ANA-3] gi|117613857|gb|ABK49311.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. ANA-3] Length = 619 Score = 442 bits (1137), Expect = e-122, Method: Compositional matrix adjust. Identities = 281/652 (43%), Positives = 393/652 (60%), Gaps = 48/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + +S+ E P ++ D+ L +II + P+ + T S Sbjct: 131 NTVQSSVAEYPQAIAMILEQYDQYEADELRLSDIIS--GFVNPDEEDLGPTATHIGSELS 188 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 ED E + +D ++ +GD E +K PE A L +++ + Sbjct: 189 EEDLDDEDDDEDDEDEDGDGEGDDDGNK------GPDPEEARERFSQLRTAYENALKIID 242 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 A + + P+ + AL EI E+++E R ++ ++ +LV S+ Sbjct: 243 A-KGREHPESIQALFEIGEIFKEFR--------------------LVPKQFDRLVKSM-- 279 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKD 389 +S +D R+ E L++L + + + F++ G E + W K+ Sbjct: 280 -RSMMD-----------RVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLDWFDAEKN 327 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + + E D + + R+++ +I ETG+ I+ + I + GE +A AKKEMV Sbjct: 328 STKPYAEGLRMVEED-VQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMV 386 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 387 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 446 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLKI Sbjct: 447 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLKI 506 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +VLR Sbjct: 507 AKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKVLR 566 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 567 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 618 >gi|66047868|ref|YP_237709.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae B728a] gi|63258575|gb|AAY39671.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70, non-essential region:Sigma-70 region 1.2 [Pseudomonas syringae pv. syringae B728a] Length = 616 Score = 442 bits (1136), Expect = e-121, Method: Compositional matrix adjust. Identities = 274/652 (42%), Positives = 392/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVL-----------SGYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + + D E +A S D+ +V+S P+ +R A Sbjct: 180 VPPPVDPKAVKAEGADDDEEESADAS-DEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|167622943|ref|YP_001673237.1| RNA polymerase sigma 70 subunit RpoD [Shewanella halifaxensis HAW-EB4] gi|167352965|gb|ABZ75578.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella halifaxensis HAW-EB4] Length = 615 Score = 442 bits (1136), Expect = e-121, Method: Compositional matrix adjust. Identities = 283/656 (43%), Positives = 387/656 (58%), Gaps = 60/656 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D ++ SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P ++ D L +II + P ++ T H Sbjct: 131 NTVQASVAEYPQAIAMILEQFDRYEAEEVRLSDIIS--GFVDPNAED--VAPTATHVGSD 186 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 D + E DD + + D E D PE A+ L +++ L Sbjct: 187 LSDDDLDDEDDDDDDDDDDEEEEGPKGPD--------PEEAKEKFTTLRVAHENA---LR 235 Query: 271 AMEDQLR--PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 + D+ R P+ AL EI E+++E R Sbjct: 236 IIADKGRGHPESTVALFEIGEIFKEFR--------------------------------- 262 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS-- 385 L + D LV+ + + ++ E +++L + + + F++ + E W + Sbjct: 263 -LMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNEE 321 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 A P E V+ +V + R ++ +I ETG++I + I + GE +A AK Sbjct: 322 LASGKPYAEGLKVVSFDVQ---RCRAKLDAIETETGLAIGAIKDINRRMSIGEAKARRAK 378 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 379 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 438 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RK Sbjct: 439 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMPEDKIRK 498 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE Sbjct: 499 VLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREA 558 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 559 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 614 >gi|254704732|ref|ZP_05166560.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] Length = 257 Score = 442 bits (1136), Expect = e-121, Method: Compositional matrix adjust. Identities = 210/256 (82%), Positives = 239/256 (93%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR IV+ V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 1 EFRRIVNQVQKGEREATIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 60 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I R Sbjct: 61 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGR 120 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AI Sbjct: 121 EPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAI 180 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 QANLR+TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+R Sbjct: 181 QANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 240 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHPSRS+KLRSFLD Sbjct: 241 KLKHPSRSRKLRSFLD 256 >gi|257454210|ref|ZP_05619480.1| RNA polymerase sigma factor RpoD [Enhydrobacter aerosaccus SK60] gi|257448383|gb|EEV23356.1| RNA polymerase sigma factor RpoD [Enhydrobacter aerosaccus SK60] Length = 634 Score = 442 bits (1136), Expect = e-121, Method: Compositional matrix adjust. Identities = 277/657 (42%), Positives = 396/657 (60%), Gaps = 43/657 (6%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSEDS 92 +I+L +++GY+T E+N LP S+Q++D + ML+++GI + + D +D S+D+ Sbjct: 12 LIQLGKEQGYLTYAEINDQLPESVTESDQIDDIIQMLTDVGIKIFETAPDEDDIMLSDDA 71 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 D + ++ L + R+TD PVRMY+REMG+++LL+REGEIAIAKRIE G Sbjct: 72 DDDEIAVDEAAAVLASVESEPGRTTD-PVRMYMREMGTVDLLTREGEIAIAKRIEDGIRD 130 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEAC-IGPESKGGFFHGTEGHS 207 + ++ P T LI + +G + +II D EA + P + Sbjct: 131 VQHAMTFWPGTVAMLINEYRQTFEGEKKISDIITGFLDPEAADVIPLADDEEVEIALPII 190 Query: 208 YQKREDSSQEKERDDVQETEGDIESA-AKVSKDDRSKVDSPPENAENDERNLDEDEDDSA 266 K +D + E E DD E +IE A +VS+D A+ +E A Sbjct: 191 KPKVKDDTAEDELDDEAENADEIEEADGEVSED-----------ADTEE----------A 229 Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 L E +LR +E+ +++ +++ L D S V K +L Sbjct: 230 SGLDPEEVRLR------FEELEQLFTKVKDLL-----ATHDRDSEV-VKTAMNELANCFM 277 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS 385 LN D +++ + ++ + + NE +++L G + +D F + E + W+ Sbjct: 278 LFKLNSRVSDNIMDMMREVYEDVRKNERHIMKLVIRRGKMPKDEFRKTFPHNETNLDWLP 337 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 + + + + + +D +L+ + I+ G+SI + + + + GE +A AK Sbjct: 338 -NRIAGKPAFADTLERVLDEVLQYQGRIQQHEQNLGMSIDQMKVVARNMSVGEAKARRAK 396 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 397 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 456 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRK Sbjct: 457 QAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRK 516 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED + SP+D A L+E T VLA+LT RE Sbjct: 517 VLKIAKEPISMETPIGDDEDSHLGDFIEDSSISSPVDEATAQGLKEATREVLANLTEREA 576 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +VL+MRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 577 KVLKMRFGIDMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 633 >gi|330826139|ref|YP_004389442.1| RNA polymerase sigma-710 subunit RpoD [Alicycliphilus denitrificans K601] gi|329311511|gb|AEB85926.1| RNA polymerase, sigma 70 subunit, RpoD [Alicycliphilus denitrificans K601] Length = 802 Score = 441 bits (1135), Expect = e-121, Method: Compositional matrix adjust. Identities = 268/659 (40%), Positives = 379/659 (57%), Gaps = 69/659 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 KK+I L + RGY+T E++ LP V +E ME VAML +MG+ V D + L Sbjct: 202 KKLITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVAMLGDMGVAVYEQTPDAETLFQNN 261 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 262 VAPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 320 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 321 GGLMDMMEAISASPATIAEILNMGEEIREGKVVISTVVD-----------GFSNPEEADD 369 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 Y ED + E DD G + Sbjct: 370 YVAEEDFDEYDEEDDDDGKGG-------------------------------------SK 392 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKE---KLVKL 324 ++ + ++L+ + + DE+ ++ ++ + D G S KV E KL+ + Sbjct: 393 AMTRLLEKLKTEALDRFDELRSLFEKMHKIYDKEGYG-----SPAYMKVQHEISAKLMTI 447 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHW 383 + + D++ Q+ D+ K+ E EL R + G+ ++ F++ L+ W Sbjct: 448 RFTAKTIEKLCDMVRAQVDDVRKK----ERELRRIIVDKCGMPQETFIKEFPPNLLNLQW 503 Query: 384 VSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 V K G+ W + + I +++ + + + ++E + I + +GE + Sbjct: 504 VE--KQAAAGKPWSAVMQRNIPPIQELQQHLIDLQSRVVVPLAELKAINKRMNQGEANSR 561 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 562 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 621 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + Sbjct: 622 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDK 681 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RK++KI KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTP Sbjct: 682 IRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSNNTAPIDAAMQAGLRDVVKDILDGLTP 741 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 742 REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 800 >gi|323144090|ref|ZP_08078731.1| RNA polymerase sigma factor RpoD [Succinatimonas hippei YIT 12066] gi|322416132|gb|EFY06825.1| RNA polymerase sigma factor RpoD [Succinatimonas hippei YIT 12066] Length = 648 Score = 441 bits (1134), Expect = e-121, Method: Compositional matrix adjust. Identities = 279/675 (41%), Positives = 396/675 (58%), Gaps = 60/675 (8%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL--- 83 +K++I +++GY+TIEE+N +PPD +S +Q+ + +MGINV D DD+ Sbjct: 10 FKQLIARGKEQGYLTIEEINDLIPPDIISGDQLSVFIQTFIDMGINVCETPPDPDDILLS 69 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + + +E+ ++ ++ +S+V + + T DPVRMY+REMG++ LL+R+ EI I+ Sbjct: 70 DSSQAAEEDVETVANQLDSTVDIGR--------TTDPVRMYMREMGNVSLLTRKDEIEIS 121 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIE G + + E PL + L DE + P+S+ Sbjct: 122 KRIERGTNDVQMCIVEYPLAMEELFRRYDE----------------ALAPDSEIRLGDIV 165 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIES------AAKVSKDDRSKVDSPPENAENDERN 257 G S +E+ + + DD ETE DIE +A+V DD + EN ++ Sbjct: 166 VGFSEPSKEEINIDI--DDSVETEEDIEKLIDEEESAEVQLDDVKE-----ENTGKAKKG 218 Query: 258 LDEDEDDSAHTLSAMEDQLRPKVMCALDE--IAEVYRELRSLQDNAVNGQKDEKSSVKCK 315 +D + ++ + D + + + ELR +Q V +K S K Sbjct: 219 KKSKVEDDPDSDEDEDEDSASQADSGPDPELVKQKFTELR-IQYEKVVAAHAKKGSAAVK 277 Query: 316 VLKEKLVKL---VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY-GIKRDVFL 371 K++L KL + L +D L+ +++D+ R+ + + + +A + G+K D Sbjct: 278 KYKQELQKLSEMFSTFRLVPQVLDSLLRKMHDMMDRVKNQDHRIREVAVNICGMKLDELK 337 Query: 372 ERHQG--RELDPHWVSYAKDFPEGEWKNFVACEVDS---ILKIRNEIKSISVETGISISE 426 + E D W A + +VA D I + N +K + E+GISI+ Sbjct: 338 AFYTDSEHESDMSWFDKAL----KSKRPYVARLKDYRPVIEECVNALKEVETESGISIAR 393 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R + V G+ A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 394 LRDLSRRVMMGDAMAKKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 453 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE Sbjct: 454 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEKGRE 513 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+A+K+ +P + +RKV+KI KEPISLETP+GD+D SHLGDFIED + V P ++A Sbjct: 514 PTPEELAEKMGLPEDKIRKVMKIAKEPISLETPVGDDDDSHLGDFIEDSSIVVPAEAATS 573 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +L+ VL + PRE +VLRMRFGIGM +DHTLEEVG+QF VTRERIRQIEAKA+RK Sbjct: 574 ESLKNAINNVLDEMPPREAQVLRMRFGIGMPSDHTLEEVGRQFGVTRERIRQIEAKALRK 633 Query: 667 LKHPSRSKKLRSFLD 681 L+HP RS LR FLD Sbjct: 634 LRHPCRSAGLRGFLD 648 >gi|148284623|ref|YP_001248713.1| RNA polymerase sigma factor [Orientia tsutsugamushi str. Boryong] gi|146740062|emb|CAM80186.1| RNA polymerase sigma factor [Orientia tsutsugamushi str. Boryong] Length = 614 Score = 441 bits (1134), Expect = e-121, Method: Compositional matrix adjust. Identities = 248/594 (41%), Positives = 365/594 (61%), Gaps = 61/594 (10%) Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 E+ + LAS+A+ ++ D STD VR YL++M + LLSREGEI +AK++E G Sbjct: 66 EEEVALASNATEGE--FEEDLDDNIYSTD-IVRAYLKDMSNTTLLSREGEIELAKQMEEG 122 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQ 209 + ++ +C P + LI W ++L L+R +I+LE+ I Y Sbjct: 123 KKTVIHFICHLPYVMKLLIQWYEDLVHSRILVRNLIELESNI----------------YD 166 Query: 210 KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTL 269 + ED +Q+ +++GD E ++ + P L Sbjct: 167 QPEDDNQQD-----YDSDGDCE-----------ELQNEP--------------------L 190 Query: 270 SAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKS---SVKCKVLKEKLVKLVG 326 + +E ++ PK++ + ++++ +L + + K S S K L ++L+ V Sbjct: 191 TKVESEILPKILDKMQVVSDLATQLFEVAAHDFKLHKSSCSYQESKKFTELSKELIAAVS 250 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSY 386 ++ N+ I ++ +LY ++K I+ E LL+ A+ Y I R FL ++ +W+ Sbjct: 251 NIHFNKQSIKNILNKLYSVNKDIISKEINLLKAAEKYKISRHDFLFQYNS---GSNWLQK 307 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 K + EW F++ E D I + I + + F+ I+ ++ GE + +AKK Sbjct: 308 VKLLHQDEWNKFLSKEKDLIKSTIDCFGEIEQAMLLPLKRFKEIIQAIQNGERKVRVAKK 367 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +MVE+N RLV+ VAK Y NRGL FLDLIQEGNIGLMKA +K+++ LGYKFST A WWV+Q Sbjct: 368 KMVESNTRLVVHVAKPYVNRGLPFLDLIQEGNIGLMKAVDKYNYLLGYKFSTCATWWVRQ 427 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I+R++ADQ+ TIRIPVHM D I K+VR +++M N++ EPT EIA+KL+MP++ V+KV Sbjct: 428 SISRAVADQARTIRIPVHMADTISKIVRVSKQMHNELGYEPTASEIAEKLSMPIDKVKKV 487 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 ++I KEP+SLE PIG+ED S L DFIEDKNAV P++ AI+ +LRETTTR L++LT REER Sbjct: 488 MRIAKEPVSLENPIGEEDGSCLSDFIEDKNAVLPIEEAIKFSLRETTTRALSTLTAREER 547 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 VLR+RFGIG+ TD+TLEEVG +F VTRER+RQIEAKA+RKLKHP RSKKL+SFL Sbjct: 548 VLRLRFGIGLPTDYTLEEVGGEFKVTRERVRQIEAKALRKLKHPVRSKKLKSFL 601 >gi|160900477|ref|YP_001566059.1| RNA polymerase sigma 70 subunit RpoD [Delftia acidovorans SPH-1] gi|160366061|gb|ABX37674.1| RNA polymerase, sigma 70 subunit, RpoD [Delftia acidovorans SPH-1] Length = 808 Score = 441 bits (1134), Expect = e-121, Method: Compositional matrix adjust. Identities = 271/657 (41%), Positives = 378/657 (57%), Gaps = 65/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP V +E +E ++ML++MG+ V D + L Sbjct: 208 KALIKLGKTRGYLTHSEINDHLPDKLVDAETLEVVISMLNDMGVAVYEQTPDAETLLLNN 267 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 268 TGQSATTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 326 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ I+D GF + E Sbjct: 327 GGLMDMMEAISASPATIAEILAMSEEIREGKVVISTIVD-----------GFVNANENDD 375 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 Y ED + E DD G S A K L+E ++++ Sbjct: 376 YVAEEDFDEYDEEDDDDGKGG---SKALTKK-------------------LEELKNEALR 413 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 AM + D++ +VY + + QK L E+L+ + + Sbjct: 414 RFDAMREN--------FDKMHKVYDKEGYGTPTYIKVQK---------ALTEELMTIRFT 456 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWV-- 384 + DL+ Q+ D+ K+ E EL + + G+ ++ F+ + L+ WV Sbjct: 457 AKTIEKLCDLVRAQVDDVRKK----ERELRKIIVDKCGMPQETFIAQFPPNLLNLQWVVQ 512 Query: 385 SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 A P W N + + + +++ + + + + E + I + GE + A Sbjct: 513 QVAAGKP---WSNVLERNIPPVQELQQNLIDLQSRVVVPLDELKRINKRMNDGERASRDA 569 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 KKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 570 KKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 629 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +R Sbjct: 630 RQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIR 689 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K++KI KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTPRE Sbjct: 690 KIMKIAKEPISMETPIGDDDDSHLGDFIEDTNNTAPVDAAMQAGLRDVVKDILDGLTPRE 749 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 750 AKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 806 >gi|189183187|ref|YP_001936972.1| RNA polymerase sigma factor RpoD [Orientia tsutsugamushi str. Ikeda] gi|189179958|dbj|BAG39738.1| RNA polymerase sigma factor RpoD [Orientia tsutsugamushi str. Ikeda] Length = 615 Score = 441 bits (1133), Expect = e-121, Method: Compositional matrix adjust. Identities = 238/567 (41%), Positives = 352/567 (62%), Gaps = 58/567 (10%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 + D VR YL++M + LLSREGEI +AK++E G+ ++ +C P + LI W ++L Sbjct: 91 STDIVRAYLKDMSNTTLLSREGEIELAKQMEEGKKTVIHFICHLPYVMKLLIQWYEDLVH 150 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 L+R +I+LE+ I Y + ED +Q +++GD E Sbjct: 151 SRILVRNLIELESNI----------------YDQPEDDNQHD-----YDSDGDCE----- 184 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 ++ + P L+ +E ++ PK++ + ++++ +L Sbjct: 185 ------ELQNEP--------------------LTKVESEILPKILDKMQVVSDLATQLFE 218 Query: 297 LQDNAVNGQK---DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 + + K + + S K L ++L+ V ++ N+ I ++ +LY ++K I+ E Sbjct: 219 VAAHDFKLHKSSCNYQESKKFTELSKELIAAVSNIHFNKQSIKNILNKLYSVNKDIISKE 278 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI 413 LL+ A+ Y I R FL ++ +W+ K + EW F++ E D I + Sbjct: 279 INLLKAAEKYKISRHDFLFQYNS---GSNWLQKVKLLHQDEWNKFLSKEKDLIKSTIDYF 335 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 I + + F+ I+ ++ GE + +AKK+MVE+N RLV+ VAK Y NRGL FLDL Sbjct: 336 SEIEQAMLLPLKRFKEIIQAIQNGERKVRVAKKKMVESNTRLVVHVAKPYVNRGLPFLDL 395 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGNIGLMKA +K+++ LGYKFST A WWV+Q+I+R++ADQ+ TIRIPVHM D I K+V Sbjct: 396 IQEGNIGLMKAVDKYNYLLGYKFSTCATWWVRQSISRAVADQARTIRIPVHMADTISKIV 455 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 R +++M N++ EPT EIA+KL+MP++ V+KV++I KEP+SLE PIG+ED S L DFIE Sbjct: 456 RVSKQMHNELGYEPTASEIAEKLSMPIDKVKKVMRIAKEPVSLENPIGEEDGSCLSDFIE 515 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 DKNA+ P++ AI+ +LRETTTR L++LT REERVLR+RFGIG+ TD+TLEEVG +F VTR Sbjct: 516 DKNAILPIEEAIKFSLRETTTRALSTLTAREERVLRLRFGIGLPTDYTLEEVGGEFKVTR 575 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ER+RQIEAKA+RKLKHP RSKKL+SFL Sbjct: 576 ERVRQIEAKALRKLKHPVRSKKLKSFL 602 >gi|212633971|ref|YP_002310496.1| RNA polymerase sigma factor [Shewanella piezotolerans WP3] gi|212555455|gb|ACJ27909.1| RNA polymerase sigma factor [Shewanella piezotolerans WP3] Length = 612 Score = 440 bits (1132), Expect = e-121, Method: Compositional matrix adjust. Identities = 283/656 (43%), Positives = 385/656 (58%), Gaps = 63/656 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D ++ SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE-GHSYQ 209 + AS+ E P ++ D L +II I P ++ T G Sbjct: 131 NTVQASVAEYPQAIAMILEQFDRFEAEEVRLSDIIS--GFIDPNAEDVAPTATHVGSELS 188 Query: 210 KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHT 268 E ++ + DD E EG P PE A+ L + + Sbjct: 189 DEELDDEDDDEDDEDEEEGP---------------KGPDPEEAKEKFTTLRVAHERALEI 233 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 +S ++ + P+ AL EI E+++E R Sbjct: 234 IS-IKGRGHPESTVALFEIGEIFKEFR--------------------------------- 259 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS-- 385 L + D LV+ + + ++ E +++L + + + F++ + E W + Sbjct: 260 -LMPKQFDRLVKSMRAMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNEE 318 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 A P E V +V + R ++ +I ETG++I + I + GE +A AK Sbjct: 319 LASGKPYAEGLKMVDYDVQ---RCRAKLDAIETETGLAIGAIKDINRRMSIGEAKARRAK 375 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 376 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 435 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RK Sbjct: 436 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMPEDKIRK 495 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA LT RE Sbjct: 496 VLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLRNATHEVLAGLTAREA 555 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 556 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 611 >gi|332528540|ref|ZP_08404528.1| RNA polymerase, sigma 70 subunit, rpod [Hylemonella gracilis ATCC 19624] gi|332042051|gb|EGI78389.1| RNA polymerase, sigma 70 subunit, rpod [Hylemonella gracilis ATCC 19624] Length = 784 Score = 440 bits (1132), Expect = e-121, Method: Compositional matrix adjust. Identities = 271/671 (40%), Positives = 380/671 (56%), Gaps = 83/671 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E++ LP +E +E VAMLS+MG+ V + + + Sbjct: 174 KLLIKLGKTRGYLTHGEISDHLPDKLADAETLEVVVAMLSDMGVTVFE------QTPDAE 227 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L + ++A ++ + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 228 TLLINNTAPTAASEEEAEEEAEAAVSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 287 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G MM ++ SP T AL+ +E+ +G ++ ++D GF + Sbjct: 288 AKRIEGGLMDMMEAISASPTTIAALLAMAEEIREGKVVISTVVD-----------GFVNA 336 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E Y ED + E DD G Sbjct: 337 EESDDYVAEEDFDEYDEADDDDGKGG---------------------------------- 362 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKC-KVLKEKL 321 + L+ ++L+ + + D I ++ ++ D G + VK K L ++L Sbjct: 363 ---SKALTKKLEELKNQALERFDRIRSMFEKVHKAYDKEGYGTP---AYVKAQKALSDEL 416 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE-- 378 + + + + DL+ Q+ D+ H E EL R+ G +D F+ GR+ Sbjct: 417 MTIRFTAKTIEKLCDLVRGQVADVR----HKERELRRIIVDRCGYPQDQFVLEFGGRDKN 472 Query: 379 --------LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHI 430 LD WV + + W ++ V I I+ ++ + + + + + I Sbjct: 473 GNPSKSHLLDLKWVEKQANAGK-PWSGIISRNVPPIQDIQQKLIDLQARVVVPLEQLKDI 531 Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + +GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 532 NKRMNQGEAASRAAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 591 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP Sbjct: 592 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDAS 651 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +A+K+ +P + +RK++KI KEPIS+ETPIGD+D SHLGDFIED +P+++A+QA LR Sbjct: 652 LLAQKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTANTAPVEAAMQAGLR 711 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L LTPRE +VLRMRFGI M +DHTLEEVGKQF VTRERIRQIEAKA+RKLKHP Sbjct: 712 EVVKEILDGLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLKHP 771 Query: 671 SRSKKLRSFLD 681 SRS KLRSF D Sbjct: 772 SRSDKLRSFTD 782 >gi|319762043|ref|YP_004125980.1| RNA polymerase sigma factor rpod [Alicycliphilus denitrificans BC] gi|317116604|gb|ADU99092.1| RNA polymerase sigma factor RpoD [Alicycliphilus denitrificans BC] Length = 802 Score = 440 bits (1132), Expect = e-121, Method: Compositional matrix adjust. Identities = 268/659 (40%), Positives = 378/659 (57%), Gaps = 69/659 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 KK+I L + RGY+T E++ LP V +E ME VAML +MG+ V D + L Sbjct: 202 KKLITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVAMLGDMGVAVYEQTPDAETLFQNN 261 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 262 VAPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 320 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 321 GGLMDMMEAISASPATIAEILNMGEEIREGKVVISTVVD-----------GFSNPEEADD 369 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 Y ED + E DD G + Sbjct: 370 YVAEEDFDEYDEEDDDDGKGG-------------------------------------SK 392 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKE---KLVKL 324 ++ + ++L+ + + DE+ ++ ++ + D G S KV E KL+ + Sbjct: 393 AMTRLLEKLKTEALDRFDELRSLFEKMHKIYDKEGYG-----SPAYMKVQHEISAKLMTI 447 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHW 383 + + D++ Q+ D+ K+ E EL R + G+ ++ F + L+ W Sbjct: 448 RFTAKTIEKLCDMVRAQVDDVRKK----ERELRRIIVDKCGMPQETFSKEFPSNLLNLQW 503 Query: 384 VSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 V K G+ W + + I +++ + + + ++E + I + +GE + Sbjct: 504 VE--KQAAAGKPWSAVMQRNIPPIQELQQHLIDLQSRVVVPLAELKAINKRMNQGEANSR 561 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 562 DAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 621 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + Sbjct: 622 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDK 681 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +RK++KI KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTP Sbjct: 682 IRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSNNTAPIDAAMQAGLRDVVKDILDGLTP 741 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 742 REAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 800 >gi|330970856|gb|EGH70922.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aceris str. M302273PT] Length = 616 Score = 440 bits (1132), Expect = e-121, Method: Compositional matrix adjust. Identities = 273/652 (41%), Positives = 392/652 (60%), Gaps = 50/652 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVL-----------SGYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + + D E +A S D+ +V+S P+ +R A Sbjct: 180 VPPPVDPKAVKAEGADDDEEESADAS-DEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 384 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 443 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI Sbjct: 444 RSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKI 503 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLR Sbjct: 504 AKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLR 563 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNT+HTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 564 MRFGIDMNTNHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 615 >gi|157374211|ref|YP_001472811.1| RpoD family RNA polymerase sigma factor [Shewanella sediminis HAW-EB3] gi|157316585|gb|ABV35683.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sediminis HAW-EB3] Length = 612 Score = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 278/666 (41%), Positives = 383/666 (57%), Gaps = 83/666 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V ++Q+ED V M+++MGI V + D ++ SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEIMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D ++ ++ + T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DSTDEDAAEEAAAALATVEAELG--RTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P ++ D L +II GF Sbjct: 131 NTVQASVAEYPQAISMILEQFDRYEAEEVRLSDII-----------SGFV---------- 169 Query: 211 REDSSQEKERDDVQETEGDI--------ESAAKVSKDDRSKVDSP----PENAENDERNL 258 + DDV T + +DD + + P PE A+ L Sbjct: 170 ------DPNADDVAPTATHVGSELSDEELDDEDDEEDDDEEEEGPKGPDPEEAKERFTQL 223 Query: 259 DEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK 318 E +++ + A++ + P+ AL EI E+++E R Sbjct: 224 REVHENTLKVI-ALKGRGHPESTLALFEIGELFKEFR----------------------- 259 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 L + D LV+ + + ++ E +++L + + + F++ + Sbjct: 260 -----------LMPKQFDRLVKNMRAMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSN 308 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W + A P E V +V + R ++ +I ETG++I+ + I + Sbjct: 309 ESSIEWFNEELASKKPYVEGLEMVDPDVR---RCRAKLDAIEKETGLAIASIKDINRRMS 365 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 366 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 425 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A++ Sbjct: 426 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAER 485 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T Sbjct: 486 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHE 545 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 546 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEI 605 Query: 676 LRSFLD 681 L+SFLD Sbjct: 606 LKSFLD 611 >gi|170725515|ref|YP_001759541.1| RNA polymerase sigma 70 subunit RpoD [Shewanella woodyi ATCC 51908] gi|169810862|gb|ACA85446.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella woodyi ATCC 51908] Length = 611 Score = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 282/656 (42%), Positives = 391/656 (59%), Gaps = 61/656 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V ++Q+ED V M+++MGI V + D ++ SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEMMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + AS+ E P ++ D L +II + P ++ T H + Sbjct: 128 NTVQASVAEYPQAIAMILEQYDRYEAEEIRLSDIIS--GFVDPNAED--VAPTATHVGSE 183 Query: 211 REDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS 270 D + E D+ E + D E K PE A+ L E +++ ++ Sbjct: 184 LSDEDLDDEDDEDSEDDEDEEEGPK---------GPDPEEAKERFTQLREAHENTLRVIN 234 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSL 330 ++ + P+ AL EI E+++E R L Sbjct: 235 -LKGRGHPESTLALFEIGEIFKEFR----------------------------------L 259 Query: 331 NQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHW----VS 385 + D LV+ + + R+ E +++L + + + F++ + E W ++ Sbjct: 260 MPKQFDRLVKSMRAMMDRVRVQERLIMKLCVEQAKMPKKNFVKGYTSDESSIAWFDEELA 319 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 K + EG E D + + R ++ +I ETG++I+ + I + GE +A AK Sbjct: 320 SKKPYVEG----LEMVEPD-VRRCRAKLDAIEKETGLAIAAIKDINRRMSIGEAKARRAK 374 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 375 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 434 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RK Sbjct: 435 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMPEDKIRK 494 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE Sbjct: 495 VLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREA 554 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 555 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 610 >gi|149923522|ref|ZP_01911923.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149815591|gb|EDM75122.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 589 Score = 439 bits (1130), Expect = e-121, Method: Compositional matrix adjust. Identities = 261/654 (39%), Positives = 385/654 (58%), Gaps = 87/654 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 ++ +++G++T+ EL LPPD + ++++ +ML + G+ V Sbjct: 17 IVAFGKKKGHMTVAELRELLPPDVIDHGKLDEWKSMLESEGVKV---------------- 60 Query: 94 DLASSASNSS---VFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 LA S S +K KD +D S T+DPVRMYLR+MGS+ LL+REGE+ IAKRIE G Sbjct: 61 -LAKSLEKSPKRKARTRKAKDESDTSRTNDPVRMYLRKMGSVSLLTREGEVEIAKRIEQG 119 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSY 208 + + SP+ + D++ +++++ + GP+ K ++ Sbjct: 120 ELQVFEIVLASPVAVPYVQDMFDKIKRSQLRIKDVVTIATPNDGPQPK------SKAPVN 173 Query: 209 QKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHT 268 Q + +K+ + V+ DIE ++ +P + A+ + +++ DD Sbjct: 174 QDAAFENMQKQLEKVRRHHKDIEKLLA------AQAATPDKPAKERGKTVEQQVDDHQ-- 225 Query: 269 LSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 + +D I E+Y L V+G DE +S+ E++ + L Sbjct: 226 ------------IAIVDAIREMY-----LSRRPVDGMVDELNSIV-----ERVQRATQDL 263 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAK 388 + + R + + +L + + + +E E +L + G+ + Sbjct: 264 TTCERRAGMELSELRGLFRDVRLSEEEEFKLCRRLGL--------------------HPS 303 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + E E + +A + I+ + ETG+ + + + + K +A AK E+ Sbjct: 304 ELHEIEARMKLATK---------RIRQVEQETGMDAPDLIELHTRLMKARRQADRAKAEL 354 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 355 VEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWIRQAI 414 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ +P++ VRKVLK Sbjct: 415 TRAIADQARTIRIPVHMIETINKLIRTSRSLVQELGREPTPEEIAEKMELPLDKVRKVLK 474 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPISLETPIG+E+ SHLGDFIEDKNAVSP + I NL + T RVLA+LTPREE+VL Sbjct: 475 IAKEPISLETPIGEEEDSHLGDFIEDKNAVSPAEVVININLADQTRRVLATLTPREEKVL 534 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L++F++ Sbjct: 535 RMRFGIGETSDHTLEEVGQDFSVTRERIRQIEAKALRKLRHPSRSKRLKAFVES 588 >gi|295698766|ref|YP_003603421.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] gi|291157279|gb|ADD79724.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] Length = 629 Score = 438 bits (1126), Expect = e-120, Method: Compositional matrix adjust. Identities = 278/664 (41%), Positives = 392/664 (59%), Gaps = 60/664 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP D V S+Q+ED + + +MGI V + E ED Sbjct: 10 KVLVNKGKEKGYLTYSEVNDNLPEDIVDSDQIEDIIQTIIDMGIRVTE------EVPDED 63 Query: 92 SLDLASSASNS--------SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L L S++ + L + R+TD P+RMY+REMG+IELL+REGEI IA Sbjct: 64 ELILTDPTSSTDEETVEAATQVLSSVEQEIGRTTD-PIRMYMREMGTIELLTREGEIDIA 122 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIE G + S+ E P + ++ G L +II G S+ F Sbjct: 123 KRIEDGINQIQRSISEYPKSISYILKQYFLFESGEMKLSDII-----TGLSSEDTF---- 173 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 S + + + + + + +I S KD +S N E++ ++D Sbjct: 174 --SSSKNVDKNFSSMKLNRINSVLDEILSNNYEKKDISKSQNSTRTNVEDEWNHID---- 227 Query: 264 DSAHTLSAMEDQLRPKVM-CALDEIAEVYREL-RSLQDNAVNGQKDEKSSVKCKVLKEKL 321 PK+ E+ Y ++ SL++N + KSS +++ L Sbjct: 228 --------------PKIARKKFLELQNQYEKVTHSLKENGI------KSSQSILDIQD-L 266 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLE--RHQGRE 378 ++ L ++D L+ + ++I E ++ ++ + Y I + FL +E Sbjct: 267 CEIFKQFRLVPKQLDFLISDIRKTIEKIKIQEKLIINISFKEYKIPKKYFLNLFSENPKE 326 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 D + + + + + K F ++DS I++ NE+ I +TGISIS+ + I + G Sbjct: 327 YDLKELIVSNRYNKKDEKKF---KLDSTIVQALNELNEIEKDTGISISKIKEIGRKISIG 383 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 384 ETIARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 443 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ +R++ + REP+PEE+++++ Sbjct: 444 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNHISRQILQETGREPSPEELSERML 503 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E +RKVLKI +EPIS+ETPIGD++ SHLGDFIED PL+SA +LR T VL Sbjct: 504 IPEEKIRKVLKIAREPISMETPIGDDEDSHLGDFIEDTTLELPLESATSESLRSATNEVL 563 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + LT RE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 564 SGLTTREAKVLRMRFGIDMHTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSELLR 623 Query: 678 SFLD 681 SFLD Sbjct: 624 SFLD 627 >gi|319792617|ref|YP_004154257.1| RNA polymerase, sigma 70 subunit, rpod [Variovorax paradoxus EPS] gi|315595080|gb|ADU36146.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus EPS] Length = 778 Score = 437 bits (1125), Expect = e-120, Method: Compositional matrix adjust. Identities = 271/672 (40%), Positives = 384/672 (57%), Gaps = 85/672 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L + RGY+T E++ LP V +E ME V ML++MG+ V + + + Sbjct: 168 KTLITLGKTRGYLTHGEISDHLPDKLVDAETMEVVVTMLNDMGVAVYE------QTPDAE 221 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L ++A ++ + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 222 TLLLNNTAPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 281 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G MM ++ SP T ++ +E+ +G ++ I+D GF + Sbjct: 282 AKRIEGGLMAMMEAISASPATIAEILRLANEIREGKVVISTIVD-----------GFSNP 330 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E Y ED + E DD G Sbjct: 331 NEADDYVAEEDFDEFDEEDDDDGKGG---------------------------------- 356 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCK-VLKEKL 321 + L+ ++L+ + D IA ++ ++ + D G + VK + L E+L Sbjct: 357 ---SKALTKKLEELKRDALERFDRIAGMFEKVHKIYDKEGYGTP---AYVKAQEALSEEL 410 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE-- 378 + + + + DL+ Q+ D+ K+ E EL R+ G +D F+ G + Sbjct: 411 MTIRFTAKTIEKLCDLVRTQVDDVRKK----ERELRRIIVDKCGFPQDEFIRDFSGYDKN 466 Query: 379 --------LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 L+ WV K G+ W +A + + +++ + I + +++ + Sbjct: 467 GNRIASNLLNLKWVE--KQAAAGKPWSAVLARNIPPVQELQQRLADIQSRVVVPLTQLKD 524 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + +GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 525 INKRMNEGESSSRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 584 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP Sbjct: 585 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDA 644 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +A K+ +P + +RK++KI KEPIS+ETPIGD+D SHLGDFIED + +P+++A+QA L Sbjct: 645 GILAAKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSSNTAPIEAAMQAGL 704 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ +L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKH Sbjct: 705 RDVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKH 764 Query: 670 PSRSKKLRSFLD 681 PSRS KLRSF+D Sbjct: 765 PSRSDKLRSFID 776 >gi|88858406|ref|ZP_01133048.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas tunicata D2] gi|88820023|gb|EAR29836.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pseudoalteromonas tunicata D2] Length = 615 Score = 437 bits (1125), Expect = e-120, Method: Compositional matrix adjust. Identities = 273/654 (41%), Positives = 380/654 (58%), Gaps = 54/654 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I+ +++GY+T E+N LP D + S+Q+ED ++M+++MGI V + DE ++ Sbjct: 10 KLLIQKGKEQGYLTFAEVNDHLPQDIIDSDQVEDIISMINDMGIQVCESAPDADELMMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TTTDEDAAEAAAAALATVDKEIGRTTD-PVRMYMREMGTVELLTREGEIQIAKRIEEGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 + S+ E P L+ D+ L +II GFF E Sbjct: 129 QVQISVAEYPEAITYLLEQWDKYEAEEIRLSDII-----------SGFFDSDEEQFPIAA 177 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLS 270 + + +++ + D++ ++ P PE A + L D + A + Sbjct: 178 THIGSDLNDEQLKDEDVDLDDDDDDDSNEEEVDLGPDPELARENFEKL-RDLYNKARLIF 236 Query: 271 AMEDQLRPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 + + P A+ EI E++R + + D VN +D V+ Sbjct: 237 EEKGRSHPDAKEAITEIGELFRTFKLMPKQFDRMVNNMRDMMDRVRV------------- 283 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYA 387 Q R L+++Q I+K + + F++ E + W+ Sbjct: 284 ----QER--LIMKQACQIAK-----------------LPKKTFIKHFANNESNGEWLDIE 320 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + E C + I + N+++++ TG+S+ + I + GE +A AKKE Sbjct: 321 INAGEKYSDKLAECRPE-IERSLNKLRNMEQTTGLSVERIKDINRRMSIGEAKARRAKKE 379 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 380 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 439 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVL Sbjct: 440 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPEDKIRKVL 499 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED SP+DSA +L+ T VLA LT RE +V Sbjct: 500 KIAKEPISMETPIGDDEDSHLGDFIEDSTIESPIDSATMESLKGATHEVLAGLTAREAKV 559 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 560 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDLLKSFLD 613 >gi|315127802|ref|YP_004069805.1| RNA polymerase sigma factor [Pseudoalteromonas sp. SM9913] gi|315016316|gb|ADT69654.1| RNA polymerase sigma factor [Pseudoalteromonas sp. SM9913] Length = 614 Score = 437 bits (1125), Expect = e-120, Method: Compositional matrix adjust. Identities = 279/659 (42%), Positives = 382/659 (57%), Gaps = 63/659 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I+ +++GY+T E+N LP D + S+Q+ED ++M+++MGI V + DE ++ Sbjct: 10 KLLIQKGKEQGYLTFAEVNDHLPQDIIDSDQVEDIISMINDMGIKVSENAPDADELMMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TTTDEDAAEAAAAALATVEKEIGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF--HGTEGHSYQ 209 + S+ E P L+ D+ L +II GFF E Sbjct: 129 QVQISVAEYPEAITYLLEQWDKFEAEEMRLSDII-----------SGFFDPDAEEAPPIA 177 Query: 210 KREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP--PENAENDERNLDEDEDDSAH 267 S+ E+ + + + +D +VD+ PE A NL + + Sbjct: 178 ATNIGSELSEK----QLDDSDDDDDDSDDEDEEEVDTGPDPEEARVHFENLRDLYTKARE 233 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQ---DNAVNGQKDEKSSVKCKVLKEKLVKL 324 T + + P+ A+ EI E++R + + D VN ++ V+ Sbjct: 234 TFDN-KGRSHPESQAAILEIGELFRTFKLVPKQFDRMVNNMREMMDRVRV---------- 282 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV 384 Q R L+++ +SK + + F++ E D W+ Sbjct: 283 -------QER--LIMKHAVQVSK-----------------LPKKTFVKHFANNETDTAWL 316 Query: 385 SYAKDFPEGEWKNFVACEVDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 + E + EV IL+ +++ S+ TG+SI + I + GE +A Sbjct: 317 DI--EIAANEKHSAKLEEVKPEILRCISKLTSMEESTGLSIERIKDINRRMSIGEAKARR 374 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + + Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAERMMMPEDKI 494 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+DSA +LR T VLA LT R Sbjct: 495 RKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPIDSATMESLRGATNDVLAGLTAR 554 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFLD Sbjct: 555 EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDLLKSFLDA 613 >gi|160872802|ref|ZP_02062934.1| RNA polymerase sigma factor RpoD (Sigma-70) [Rickettsiella grylli] gi|159121601|gb|EDP46939.1| RNA polymerase sigma factor RpoD (Sigma-70) [Rickettsiella grylli] Length = 642 Score = 437 bits (1125), Expect = e-120, Method: Compositional matrix adjust. Identities = 279/682 (40%), Positives = 398/682 (58%), Gaps = 68/682 (9%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSE-----QMEDTVAMLSNMGINVV 78 F+ +++I +++G+VT E+N L D +S Q+++ + ML+++GI V Sbjct: 3 FEQQQSRLRELITHGKKQGFVTYAEINDHLLEDIISEAEQEQLQLDEIILMLNDIGIPVY 62 Query: 79 D-GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 + D+E S + S+ +V + + T DPVRMY+REMG++ELL+RE Sbjct: 63 EVPPDMETLLSSSIVNNAEEENSSENVTILGNITTELGRTTDPVRMYMREMGTVELLTRE 122 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALI--IWRDE-----LNDGTTLLREIIDLEAC 190 GEI +AKRIE G ++A+L + P+ ++ R E LND ++ +DLE Sbjct: 123 GEIKLAKRIEDGLQAILAALAQYPVNISHILNEYTRYEQQEIRLND---IISGFLDLEEL 179 Query: 191 IGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDR--SKVDSPP 248 P + T + +R + S ++ D + D +S + DD ++D P Sbjct: 180 SIPLELPSGKNITSTETPDERFNRSDKRTDDKDNDEGDDAKSKISATDDDEGFGELDGGP 239 Query: 249 ENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQK-- 306 + + AHT A EL++ + + QK Sbjct: 240 -------------DPELAHTRFA---------------------ELKAHYEAYIAAQKKW 265 Query: 307 --DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K ++K VL L L ++D L + + ++I E ++RL + Sbjct: 266 GRHDKKTIKQAVL---LADAFTKFKLIPRQLDKLTRNMRGLLEKIRLQERIIMRLCVNEA 322 Query: 365 -IKRDVFLERHQGRELDPHWVS---YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 + R +F+ E + +++ +AK K +A I +N++ + Sbjct: 323 KMPRLLFINTFPKNETNENFLKKHIHAKKSYSSRLKELLA----PITAAQNKLHELEKTI 378 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G++I+E + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 379 GMTITEIKEINRQMSAGETKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 438 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 439 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQIL 498 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVS 599 +EP+PE+++KK+ +P + +RK+LKI KEPIS+ETPIGDED SHLGDFIED A+S Sbjct: 499 QATGKEPSPEDLSKKMGLPEDKIRKILKIAKEPISMETPIGDEDGDSHLGDFIEDAAALS 558 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P+D+A LRET RVLASLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQI Sbjct: 559 PIDAATIEGLRETAQRVLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI 618 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKL+HP+RS+ LRSFLD Sbjct: 619 EAKALRKLRHPTRSEPLRSFLD 640 >gi|304415465|ref|ZP_07396113.1| RNA polymerase sigma 70 (sigma D) subunit [Candidatus Regiella insecticola LSR1] gi|304282694|gb|EFL91209.1| RNA polymerase sigma 70 (sigma D) subunit [Candidatus Regiella insecticola LSR1] Length = 612 Score = 437 bits (1125), Expect = e-120, Method: Compositional matrix adjust. Identities = 280/658 (42%), Positives = 382/658 (58%), Gaps = 64/658 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYSEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAVEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G + S+ E P L+ D + L ++I GF Sbjct: 127 EGINQVQCSVAEYPEAITYLLEQYDRVEAEEVRLSDLI-----------TGFV------- 168 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 D + ++ +D+ + +++S ++ +DS + A++D+ N ++S Sbjct: 169 -----DLNAKENEEDITLSASATHIGSELSTEEL--IDSDGDTADSDDEN-----NNSID 216 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVG 326 L A E + ELR +N +KD ++ + K L + Sbjct: 217 PLLAREK----------------FSELREQYENTKKAIKKDGRNRLNAKNEILALSNIFK 260 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV- 384 L + D LV + + K+I E +++L + + + +FL E D W Sbjct: 261 LFRLVPKQFDYLVNNMRLMMKQIRAQERIIIKLCVEQCKMPKKIFLTLFTRHETDDKWFE 320 Query: 385 -SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 + + + P E VA +V R ++ I +TG+++ + + I + GE +A Sbjct: 321 EALSANKPWSEKLKEVAEDVGCC---RKKLIQIEEKTGLTVEQIKDINRRMSIGEAKARR 377 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 378 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 437 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R AR+M +E MP + + Sbjct: 438 IRQAITRSIADQARTIRIPVHMIETINKLNRVARQML----QEXXXXXXXXXXXMPEDKI 493 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKVLKI KEPIS+ETPIGD++ SHLGDFIED PL SA +LR T VLA LTPR Sbjct: 494 RKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLGSATSESLRSATHEVLAGLTPR 553 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 554 EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 611 >gi|218674803|ref|ZP_03524472.1| RNA polymerase sigma factor RpoD [Rhizobium etli GR56] Length = 254 Score = 437 bits (1124), Expect = e-120, Method: Compositional matrix adjust. Identities = 209/252 (82%), Positives = 235/252 (93%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 IV MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 2 IVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 61 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTP Sbjct: 62 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTP 121 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANL Sbjct: 122 EELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANL 181 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 182 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKH 241 Query: 670 PSRSKKLRSFLD 681 PSRS+KLRSFLD Sbjct: 242 PSRSRKLRSFLD 253 >gi|319944403|ref|ZP_08018677.1| DNA-directed RNA polymerase sigma subunit RpoD [Lautropia mirabilis ATCC 51599] gi|319742364|gb|EFV94777.1| DNA-directed RNA polymerase sigma subunit RpoD [Lautropia mirabilis ATCC 51599] Length = 785 Score = 437 bits (1124), Expect = e-120, Method: Compositional matrix adjust. Identities = 262/664 (39%), Positives = 385/664 (57%), Gaps = 80/664 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---- 83 +++IKL ++RG++T E+N LP E ++ + S+MGI+V D D L Sbjct: 188 RQLIKLGKERGFLTYAEINDHLPEGLTEVEAIDQMIGTFSDMGISVYEQAPDTDSLLLND 247 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 S+D + + A+ SSV DS T DPVRMY+REMGS+ELL+REGEI IA Sbjct: 248 RTVTSSDDDTEEEAEAALSSV------DSEFGRTTDPVRMYMREMGSVELLTREGEIVIA 301 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 K+IE G MM ++ P T ++ D++ + EI+D + P++ Sbjct: 302 KKIEEGLKDMMHAISACPTTIAEVLEQADKVRAAQLRVDEIVD--GLLDPDA-------- 351 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 DD + + G P ++ D D+DE Sbjct: 352 -----------------DDEEMSFG-------------------PARSDGD----DDDEA 371 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVK 323 A +A ++L+ + + D I + ++R Q +G K + ++ +L+ Sbjct: 372 SVAAMNNAKLEELKEEALSRFDSIGAAFEQMR--QALETDGYKSPAYLAAQESVQRQLMS 429 Query: 324 LVGSLSLNQSRIDLL---VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELD 380 + + + + D+L V+++ + + I+ G+ R+ F++ G E + Sbjct: 430 IRFTAKVVEKLCDMLRAQVDEVRTVERTILDI------CVNRVGMSREHFIKSFPGNETN 483 Query: 381 PHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 WV A + P + + +A + I ++ ++ + V + + + + I + GE Sbjct: 484 LAWVENELAGNPP---YADVLARSIPDIQDLQQKLIDLQVRVVLPLPDLKEINKRMAMGE 540 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGN+GLMKA +KF++ G+KFST Sbjct: 541 MKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEFRRGFKFST 600 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+K+ M Sbjct: 601 YATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGVEPDPATLAEKMDM 660 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RK+LKI KEPIS+ETPIGD+D SHLGDFIED ++P D+A+ ++RE VL Sbjct: 661 PEDKIRKILKIAKEPISMETPIGDDDDSHLGDFIEDTTTLAPSDAALHDSMREVVKEVLD 720 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SLTPRE +VLRMRFG+ M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+ KL+S Sbjct: 721 SLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRADKLKS 780 Query: 679 FLDG 682 FL+G Sbjct: 781 FLEG 784 >gi|92113104|ref|YP_573032.1| sigma 70 (RpoD) [Chromohalobacter salexigens DSM 3043] gi|91796194|gb|ABE58333.1| RNA polymerase, sigma 70 subunit, RpoD [Chromohalobacter salexigens DSM 3043] Length = 614 Score = 437 bits (1123), Expect = e-120, Method: Compositional matrix adjust. Identities = 282/668 (42%), Positives = 377/668 (56%), Gaps = 83/668 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++G++T E+N LP D +Q+ED +AM+++MGI+VV+ ED D Sbjct: 11 KELIAQGKEQGFLTYAEVNDHLPEDIADPDQVEDIIAMINDMGISVVEEAPDEDTLMMSD 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S+A + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 71 QSADESAAEEAVAALAAVESDVGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGTR 129 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M+SL P +++ D D R I P+ G G + + Sbjct: 130 EVMSSLAYLPGAVDSILSAYDATQDEEAPGRLSDLFSGFIDPD------EGIPGVAEAEV 183 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA--------ENDERNLDEDED 263 + E D GD+ ++++ + PE A E +ER E+ Sbjct: 184 PEPEPEPSAAD-----GDVSEDDDEAEEEETGGGPDPEEARARFEQIREQNERAKAAIEE 238 Query: 264 DSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVK 323 + A +Q R +AE++ + K++ + + Sbjct: 239 HGLGSKEASAEQAR---------LAELFSPI--------------------KLVPKHFER 269 Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHW 383 LVG + ++ VEQ+ K IM + + R F+ G E D W Sbjct: 270 LVGQVRIS-------VEQIRGQEKAIMQI------FVKQAKVPRKTFIGSFPGAESDLEW 316 Query: 384 VSYAKDFPEGEWKNFVACEV---DSILKIRNEI----KSISVETGISISEFRHIVSMVRK 436 + F+A D + R +I + I E + + HI + R+ Sbjct: 317 LD-----------RFMAKHTKFADRLEPFRADIQRAQRKIGFEEEMVLLPVSHIKEVNRR 365 Query: 437 ---GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G Sbjct: 366 LSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 425 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ Sbjct: 426 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPTPEELG 485 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L MP + VRKVLKI KEPIS+ETPIGD+D SHLGDFIED + P+DSA L E T Sbjct: 486 ERLEMPEDKVRKVLKIAKEPISMETPIGDDDDSHLGDFIEDGTMLLPIDSATGEGLIEAT 545 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS Sbjct: 546 RNVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 605 Query: 674 KKLRSFLD 681 + LR+FLD Sbjct: 606 EPLRTFLD 613 >gi|296112900|ref|YP_003626838.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4] gi|295920594|gb|ADG60945.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4] gi|326561129|gb|EGE11494.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 7169] gi|326564438|gb|EGE14665.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 103P14B1] gi|326564864|gb|EGE15069.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 46P47B1] gi|326567590|gb|EGE17705.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC1] gi|326569439|gb|EGE19499.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC8] gi|326571363|gb|EGE21378.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC7] gi|326575352|gb|EGE25280.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis CO72] gi|326576561|gb|EGE26468.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 101P30B1] gi|326577423|gb|EGE27307.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis O35E] Length = 626 Score = 435 bits (1119), Expect = e-119, Method: Compositional matrix adjust. Identities = 272/665 (40%), Positives = 385/665 (57%), Gaps = 60/665 (9%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-----D 79 D S +I+L +++GY+T E+N LP S+Q+ED + ML+++GI V D Sbjct: 12 DTSSSQLGALIRLGKEQGYLTYAEVNDQLPESVTESDQIEDIIQMLTDVGIQVFEVAPDD 71 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 D L + GS+D + + ++ L + R+TD PVRMY+REMG+++LL+REGE Sbjct: 72 DDILLSDTGSDDDI----ATDEAAAVLASVETEPGRTTD-PVRMYMREMGTVDLLTREGE 126 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 I IAKRIE G + + P T + ++ ++ G + +I+ GF Sbjct: 127 IGIAKRIEEGTREVQYIMAYWPGTVKFVLDEYQQVLLGEKKISDIV-----------SGF 175 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 +G +G E E E D+ S KDD AE D Sbjct: 176 LNGDDGDFILNEE------------EIELDLGSPKTTDKDD----------AEED----- 208 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-QKDEKSSVKCKVLK 318 E D + L P +E+ + E++ L D A K + S KV Sbjct: 209 -GESDGTELDDTDDSSLDP------EEVRVRFEEIQRLYDVAQEALAKHGRGSEAVKVAY 261 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 ++L + LN D ++ + ++ + + NE +++L +G + D F + Sbjct: 262 DELANHFMLIKLNNRLSDQVMSLMREVYEDVRSNERRIMKLVIRHGKMPMDEFKKTFPSN 321 Query: 378 ELDPHWVSY-AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E + W+S+ K P + +A ++ ++ ++ + + I + + + + Sbjct: 322 ETNLEWLSHRIKGGPA--FAETLAKIEPEVVALQQKLLAHEQALQMDIRDMKAVARQMAI 379 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKK+MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 380 GEAKARRAKKDMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 439 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L Sbjct: 440 STYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERL 499 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+++A LRE T V Sbjct: 500 DMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTISSPIENATAEGLREATREV 559 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LT RE +VL+MRFGI M +DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 560 LDNLTEREAKVLKMRFGIDMPSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHL 619 Query: 677 RSFLD 681 RSFL+ Sbjct: 620 RSFLE 624 >gi|262378901|ref|ZP_06072058.1| RNA polymerase sigma factor sigma-70 [Acinetobacter radioresistens SH164] gi|262300186|gb|EEY88098.1| RNA polymerase sigma factor sigma-70 [Acinetobacter radioresistens SH164] Length = 629 Score = 435 bits (1118), Expect = e-119, Method: Compositional matrix adjust. Identities = 276/653 (42%), Positives = 381/653 (58%), Gaps = 44/653 (6%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I +++GY+T E+N LP SEQ+ED + ML ++GI V + D+ ED+ Sbjct: 14 LISRGKEQGYLTYAEVNDHLPDSITESEQIEDIIQMLQDVGIPVHERAPESDDAMFEDNA 73 Query: 94 DLASSASNSSVFLQKRK-DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + A + ++ T DPVRMY+REMG++ELL+REGEI+IAKRIE G Sbjct: 74 EAADEVAEEEAAAVLASVENEPGRTTDPVRMYMREMGTVELLTREGEISIAKRIEEGIRD 133 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 ++ S+ P + ++ + +G L +I L + PES E ++ E Sbjct: 134 VLHSIAYWPNAVEVVLKEYKDYQEGERRLADI--LSGYLDPESDEEIPEVIEDAVLEEDE 191 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSA 271 D + K +V+ + + E S DD P PE A+ Sbjct: 192 DETASKSTKEVKLDDDEEEEEESESDDDSEADSGPDPEIAK------------------- 232 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 E+ V++E +S+ +K + S + K E L + Sbjct: 233 ----------VRFTELETVWQETKSVI------EKHGRDSAEAKAALEALASVFMMFKFT 276 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWV--SYAK 388 D++ E + ++I +E E++R A G + R F G+E +P W+ AK Sbjct: 277 PRLFDIISEMIRGTHEQIRTSEREIMRYAVRRGRMDRTQFRTSFPGQESNPGWLDEQMAK 336 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 P+ K + +L + +I I E G+++ + + I + GE +A AKKEM Sbjct: 337 ASPD--IKGHLEKVRPDVLAFQQKIADIEKELGLNVIDIKDISKRMAIGEAKARRAKKEM 394 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 395 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 454 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLK Sbjct: 455 TRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLK 514 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL +LT RE +VL Sbjct: 515 IAKEPISMETPIGDDEDSHLGDFIEDQNITSPVDAATSEGLKEATREVLENLTEREAKVL 574 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 575 KMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 627 >gi|294340365|emb|CAZ88746.1| RNA polymerase sigma factor rpoD (Sigma-70) [Thiomonas sp. 3As] Length = 778 Score = 434 bits (1117), Expect = e-119, Method: Compositional matrix adjust. Identities = 264/657 (40%), Positives = 376/657 (57%), Gaps = 64/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD-----LEDE 86 K +IK+ + RG++T E+N +P + E ME V+ML+++GI V + L ++ Sbjct: 177 KSLIKMGKTRGFLTYGEINDHIPDNLADPELMETIVSMLNDVGIAVYETTPDAQTLLLNQ 236 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G S + + + DS T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 237 HGPTASSEEEAEEEAEAAL--SNVDSEFGRTTDPVRMYMREMGTVELLTREGEIVIAKRI 294 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G MM ++ SP T ++ ++ G + E++D G E Sbjct: 295 EDGLRQMMLAISASPSTVAEILAMAARIHHGELPVDEVVD-----------GMVSDDESD 343 Query: 207 SYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVD-SPPENAENDERNLDEDEDDS 265 Y ED VD S E+ E EDED Sbjct: 344 DYVAEED------------------------------VDYSLDESGE-------EDEDGG 366 Query: 266 AHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 A S ++L+ K + A ++ + + ++R D +G + + + L+++ Sbjct: 367 AGATSMKLEELKGKALEAFADVHDAFMKMRRAYDK--DGYRSASYLKAQEAISAALMEVR 424 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 + + +LL Q+ ++ + + G+ ++ F++ G +LD WV Sbjct: 425 FTARTVEKLCNLLRAQVDEVRRYEREIRRYAV---DRCGMPQEEFIKSFPGHQLDLKWVD 481 Query: 386 YAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 K G+ + ++ V +I +++ ++ I + + + + I + + GE A A Sbjct: 482 --KHVASGKPYSVILSRNVPAIKELQQKLIDIQTRVVVPLDDLKEINTQMSLGEQAAREA 539 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGN+GLMKA +KF++ GYKFSTYA WW+ Sbjct: 540 KREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWI 599 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+KV R +R+ + EP +A+K+ MP + VR Sbjct: 600 RQAITRSIADQARTIRIPVHMIETINKVNRISRQHLQETGTEPDAAVLAEKMEMPEDKVR 659 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K+LKI +EPIS+ETPIGD+D SHLGDFIED ++P ++A+QA LR+ +L SLTPRE Sbjct: 660 KILKIAREPISMETPIGDDDDSHLGDFIEDSGTLAPTEAAMQAGLRDVVKEILDSLTPRE 719 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M DHTLEEVGKQF VTRERIRQIEAKA+RKLKHP+RS KLRSFLD Sbjct: 720 AKVLRMRFGIEMANDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPTRSDKLRSFLD 776 >gi|239814768|ref|YP_002943678.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus S110] gi|239801345|gb|ACS18412.1| RNA polymerase, sigma 70 subunit, RpoD [Variovorax paradoxus S110] Length = 754 Score = 434 bits (1117), Expect = e-119, Method: Compositional matrix adjust. Identities = 266/671 (39%), Positives = 383/671 (57%), Gaps = 83/671 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L + RGY+T E++ LP V +E ME V ML++MG+ V + + + Sbjct: 144 KTLITLGKTRGYLTHGEISDHLPDKLVDAETMEVVVTMLNDMGVAVYE------QTPDAE 197 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L ++A ++ + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 198 TLLLNNTAPTATTVEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 257 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G MM ++ SP T ++ ++ +G ++ ++D GF + Sbjct: 258 AKRIEGGLMAMMEAISASPATIAEILRLAADIREGKVVISTVVD-----------GFSNP 306 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E Y ED + E DD G Sbjct: 307 NEADDYVAEEDFDEFDEEDDDDGKGG---------------------------------- 332 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 + L+ ++L+ + D IA ++ ++ + D G + + + L ++L+ Sbjct: 333 ---SKALTKKLEELKRDALERFDRIASMFEKVHKIYDKEGYGTPAYEKAQQA--LSDELM 387 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE--- 378 + + + DL+ Q+ D+ K+ E EL R+ G +D F+ G + Sbjct: 388 TIRFTAKTIEKLCDLVRTQVDDVRKK----ERELRRIIVDKCGFPQDEFIRDFSGYDKNG 443 Query: 379 -------LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHI 430 L+ WV K G+ W +A + + +++ ++ I + +++ + I Sbjct: 444 NRVPSNLLNQKWVE--KQAAAGKPWSAVLARNIPPVQELQQKLADIQSRVVVPLTQLKEI 501 Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + +GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 502 NKRMNEGESSSRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 561 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP Sbjct: 562 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDAG 621 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +A K+ +P + +RK++KI KEPIS+ETPIGD+D SHLGDFIED + +P+++A+QA LR Sbjct: 622 ILAAKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSSNTAPIEAAMQAGLR 681 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + +L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHP Sbjct: 682 DVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHP 741 Query: 671 SRSKKLRSFLD 681 SRS KLRSF+D Sbjct: 742 SRSDKLRSFID 752 >gi|296136130|ref|YP_003643372.1| RNA polymerase, sigma 70 subunit, RpoD [Thiomonas intermedia K12] gi|295796252|gb|ADG31042.1| RNA polymerase, sigma 70 subunit, RpoD [Thiomonas intermedia K12] Length = 778 Score = 434 bits (1117), Expect = e-119, Method: Compositional matrix adjust. Identities = 264/657 (40%), Positives = 375/657 (57%), Gaps = 64/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD-----LEDE 86 K +IK+ + RG++T E+N +P + E ME V+ML+++GI V + L ++ Sbjct: 177 KSLIKMGKTRGFLTYGEINDHIPDNLADPELMETIVSMLNDVGIAVYETTPDAQTLLLNQ 236 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G S + + + DS T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 237 HGPTASSEEEAEEEAEAAL--SNVDSEFGRTTDPVRMYMREMGTVELLTREGEIVIAKRI 294 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G MM ++ SP T ++ ++ G + E++D G E Sbjct: 295 EDGLRQMMLAISASPSTVAEILAMAARIHHGELPVDEVVD-----------GMVSDDESD 343 Query: 207 SYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVD-SPPENAENDERNLDEDEDDS 265 Y ED VD S E+ E EDED Sbjct: 344 DYVAEED------------------------------VDYSLDESGE-------EDEDGG 366 Query: 266 AHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 A S ++L+ K + A ++ + + ++R D +G + + + L+++ Sbjct: 367 AGATSMKLEELKGKALEAFADVHDAFMKMRRAYDK--DGYRSASYLKAQEAISAALMEVR 424 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 + + +LL Q+ ++ + + G+ ++ F++ G +LD WV Sbjct: 425 FTARTVEKLCNLLRAQVDEVRRYEREIRRYAV---DRCGMPQEEFIKSFPGHQLDLKWVD 481 Query: 386 YAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 K G+ + ++ V +I +++ + I + + + + I + + GE A A Sbjct: 482 --KHVASGKPYSVILSRNVPAIKELQQRLIDIQTRVVVPLDDLKEINTQMSLGEQAAREA 539 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGN+GLMKA +KF++ GYKFSTYA WW+ Sbjct: 540 KREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWI 599 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+KV R +R+ + EP +A+K+ MP + VR Sbjct: 600 RQAITRSIADQARTIRIPVHMIETINKVNRISRQHLQETGTEPDAAVLAEKMEMPEDKVR 659 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K+LKI +EPIS+ETPIGD+D SHLGDFIED ++P ++A+QA LR+ +L SLTPRE Sbjct: 660 KILKIAREPISMETPIGDDDDSHLGDFIEDSGTLAPTEAAMQAGLRDVVKEILDSLTPRE 719 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M DHTLEEVGKQF VTRERIRQIEAKA+RKLKHP+RS KLRSFLD Sbjct: 720 AKVLRMRFGIEMANDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPTRSDKLRSFLD 776 >gi|255318840|ref|ZP_05360066.1| RNA polymerase sigma factor RpoD [Acinetobacter radioresistens SK82] gi|255304096|gb|EET83287.1| RNA polymerase sigma factor RpoD [Acinetobacter radioresistens SK82] Length = 626 Score = 434 bits (1117), Expect = e-119, Method: Compositional matrix adjust. Identities = 276/653 (42%), Positives = 381/653 (58%), Gaps = 44/653 (6%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I +++GY+T E+N LP SEQ+ED + ML ++GI V + D+ ED+ Sbjct: 11 LISRGKEQGYLTYAEVNDHLPDSITESEQIEDIIQMLQDVGIPVHERAPESDDAMFEDNA 70 Query: 94 DLASSASNSSVFLQKRK-DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + A + ++ T DPVRMY+REMG++ELL+REGEI+IAKRIE G Sbjct: 71 EAADEVAEEEAAAVLASVENEPGRTTDPVRMYMREMGTVELLTREGEISIAKRIEEGIRD 130 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 ++ S+ P + ++ + +G L +I L + PES E ++ E Sbjct: 131 VLHSIAYWPNAVEVVLKEYKDYQEGERRLADI--LSGYLDPESDEEIPEVIEDAVLEEDE 188 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSA 271 D + K +V+ + + E S DD P PE A+ Sbjct: 189 DETASKSTKEVKLDDDEEEEEESESDDDSEADSGPDPEIAK------------------- 229 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 E+ V++E +S+ +K + S + K E L + Sbjct: 230 ----------VRFTELETVWQETKSVI------EKHGRDSAEAKAALEALASVFMMFKFT 273 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWV--SYAK 388 D++ E + ++I +E E++R A G + R F G+E +P W+ AK Sbjct: 274 PRLFDIISEMIRGTHEQIRTSEREIMRYAVRRGRMDRTQFRTSFPGQESNPGWLDEQMAK 333 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 P+ K + +L + +I I E G+++ + + I + GE +A AKKEM Sbjct: 334 ASPD--IKGHLEKVRPDVLAFQQKIADIEKELGLNVIDIKDISKRMAIGEAKARRAKKEM 391 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 392 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 451 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLK Sbjct: 452 TRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLK 511 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL +LT RE +VL Sbjct: 512 IAKEPISMETPIGDDEDSHLGDFIEDQNITSPVDAATSEGLKEATREVLENLTEREAKVL 571 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 572 KMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 624 >gi|303257749|ref|ZP_07343761.1| RNA polymerase sigma factor RpoD [Burkholderiales bacterium 1_1_47] gi|302859719|gb|EFL82798.1| RNA polymerase sigma factor RpoD [Burkholderiales bacterium 1_1_47] Length = 814 Score = 434 bits (1116), Expect = e-119, Method: Compositional matrix adjust. Identities = 270/692 (39%), Positives = 402/692 (58%), Gaps = 79/692 (11%) Query: 4 GKKRNRD---------SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLP 54 GK + RD S + HE+ D + K +I++ ++RGY+T E+N +P Sbjct: 185 GKGKARDKAMKEALNRSYAHHEEDDKETRLN----KLKALIRMGKERGYLTYSEVNDHMP 240 Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS--SASNSSVFLQKRKDS 112 + V +Q++ ++ L+++GI V + D+ DS+ AS +A + DS Sbjct: 241 ENIVDPDQIDQIISTLADLGIQVYEQAPTADDLLIGDSVPTASDDAAEEEAEAALATVDS 300 Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRD 172 T DPVRMY+REMGS+ELL+REGEI IAKRIE G M+ ++ P T A++ + Sbjct: 301 EFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKHMVHAISGCPTTIVAILEDAE 360 Query: 173 ELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIES 232 ++ +GT + +I+D G G D E+ Sbjct: 361 KVRNGTMQIDQIVD-----------GLVDGL-------------------------DEEA 384 Query: 233 AAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVY 291 + +V++DD E D A ++A + D+L+ V+ LD E+Y Sbjct: 385 SEQVAEDD-------------------ESTDIGASGMTAGQIDELKTVVLAKLDHCKELY 425 Query: 292 RELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 ++L+ + G + ++E+L+ SL + ++ L L + + Sbjct: 426 QDLKHAYE--AEGYRSPAFIKAQDAIQEELL----SLRFTANTVERLCTMLKTQVEEVRK 479 Query: 352 NEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 E + + + + R++FL+ E + W S A + + V ++ I ++ Sbjct: 480 YESRIYDIVVNRAKMPRELFLKEFLDNETNLAW-SQAIAESDKPYAIDVKRKLPEIQHLQ 538 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 ++++I + + + + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQF Sbjct: 539 QQLQNIQNAVTLPLKDLKDVYNQMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQF 598 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGN+GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 599 LDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 658 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+ R +R++ + EP P E+A+K+ MP + +RK+LKI KEPIS+ETPIGD++ SHLGD Sbjct: 659 KMNRISRQILQETGVEPDPAELAEKMDMPEDKIRKILKIAKEPISMETPIGDDEDSHLGD 718 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 F+ED V+P ++A Q++L E T VL SLTPRE +VLRMRFGI M+TDHTLEEVG+QF Sbjct: 719 FLEDFGTVAPAEAAQQSSLTEITKEVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGRQFD 778 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRERIRQIEAKA+RKL+HPSRS KL+SF++G Sbjct: 779 VTRERIRQIEAKALRKLRHPSRSDKLKSFMEG 810 >gi|331001176|ref|ZP_08324803.1| RNA polymerase sigma factor RpoD [Parasutterella excrementihominis YIT 11859] gi|329569108|gb|EGG50900.1| RNA polymerase sigma factor RpoD [Parasutterella excrementihominis YIT 11859] Length = 814 Score = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust. Identities = 270/692 (39%), Positives = 402/692 (58%), Gaps = 79/692 (11%) Query: 4 GKKRNRD---------SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLP 54 GK + RD S + HE+ D + K +I++ ++RGY+T E+N +P Sbjct: 185 GKGKARDKAMKEALNRSYAHHEEDDKETRLN----KLKALIRMGKERGYLTYSEVNDHMP 240 Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS--SASNSSVFLQKRKDS 112 + V +Q++ ++ L+++GI V + D+ DS+ AS +A + DS Sbjct: 241 ENIVDPDQIDQIISTLADLGIQVYEQAPTADDLLIGDSVPTASDDAAEEEAEAALATVDS 300 Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRD 172 T DPVRMY+REMGS+ELL+REGEI IAKRIE G M+ ++ P T A++ + Sbjct: 301 EFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKHMVHAISGCPTTIVAILEDAE 360 Query: 173 ELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIES 232 ++ +GT + +I+D G G D E+ Sbjct: 361 KVRNGTMQIDQIVD-----------GLVDGL-------------------------DEEA 384 Query: 233 AAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAME-DQLRPKVMCALDEIAEVY 291 + +V++DD E D A ++A + D+L+ V+ LD E+Y Sbjct: 385 SEQVAEDD-------------------ESTDIGASGMTAGQIDELKTVVLAKLDHCKELY 425 Query: 292 RELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 ++L+ + G + ++E+L+ SL + ++ L L + + Sbjct: 426 QDLKHAYE--AEGYRSPAFIKAQDAIQEELL----SLRFTANTVERLCTMLKTQVEEVRK 479 Query: 352 NEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 E + + + + R++FL+ E + W S A + + V ++ I ++ Sbjct: 480 YESRIYDIVVNRAKMPRELFLKEFLDNETNLAW-SQAIAESDKPYAIDVKRKLPEIQHLQ 538 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 ++++I + + + + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQF Sbjct: 539 QQLQNIQNAVTLPLKDLKDVYNQMATGEAKARKAKREMTEANLRLVISIAKKYTNRGLQF 598 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGN+GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 599 LDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 658 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+ R +R++ + EP P E+A+K+ MP + +RK+LKI KEPIS+ETPIGD++ SHLGD Sbjct: 659 KMNRISRQILQETGVEPDPAELAEKMDMPEDKIRKILKIAKEPISMETPIGDDEDSHLGD 718 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 F+ED V+P ++A Q++L E T VL SLTPRE +VLRMRFGI M+TDHTLEEVG+QF Sbjct: 719 FLEDFGTVAPAEAAQQSSLTEITKEVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGRQFD 778 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRERIRQIEAKA+RKL+HPSRS KL+SF++G Sbjct: 779 VTRERIRQIEAKALRKLRHPSRSDKLKSFMEG 810 >gi|258593489|emb|CBE69828.1| RNA polymerase sigma factor rpoD (Sigma-80) [NC10 bacterium 'Dutch sediment'] Length = 654 Score = 433 bits (1114), Expect = e-119, Method: Compositional matrix adjust. Identities = 271/681 (39%), Positives = 392/681 (57%), Gaps = 82/681 (12%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 G + N S S + + ++V + K ++ L R++GY+T +E+N+FLP + S +Q+ Sbjct: 52 GARSNAGSKSAKKPT--TVVSAALKEGIKPLVSLGRKKGYLTYDEVNSFLPEEVTSGDQI 109 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 + + + M I VVD + S A + S+ TDDPVRM Sbjct: 110 DKILNLFDEMDIEVVDEAERTKTTRSPAPQQEEEGAEVEPELI----PSSVGRTDDPVRM 165 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMG LL+REGEI IAKRIE G + ++C QA + R+ G LL E Sbjct: 166 YLREMGKTPLLTREGEIQIAKRIEDGHKEVAEAVC------QAGVAVREITEIGERLLHE 219 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSK 243 K + E S + ++ S++KER+ + E +E+ +D++ K Sbjct: 220 ------------KARIY---ELLSLNEFDEISEQKERELLAEHTPTLEAL----RDEQVK 260 Query: 244 VDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN 303 +DS LR + + ++E +++ R L + A Sbjct: 261 IDS-----------------------------LRRRYQRGVGRLSERWQQ-RILDELAHR 290 Query: 304 GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 K L+ L +NQ ID +V ++ ++ +RI E EL +A+ + Sbjct: 291 --------------KAAQATLIRKLHVNQRVIDRVVARIRNLLERIEQGEQELREVARVH 336 Query: 364 GIKRD---VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 + + + +G+ + + K CE ++ I+ +I+ + E Sbjct: 337 HLSMEDIRIIAGNGRGKTTAIRGILRRTGL---DRKGLDECE-HAVAAIQRKIRRVEEEA 392 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 S E R ++ + GE +A +AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 393 DASGKELRSLLHAITTGERKAHLAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 452 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LM+A +KF++ GYKFSTYA WWV+QAITR+IADQ+ TIRIPVHM + I+K+ R +R + Sbjct: 453 LMRAVDKFEYQRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETINKLTRASRYLV 512 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + REPTPEEIA+K+ +PV+ VRKVLKI +EPISLETPIG+E+ SHLGDFIEDK +SP Sbjct: 513 QEFGREPTPEEIAQKIDLPVDKVRKVLKIAQEPISLETPIGEEEGSHLGDFIEDKGVISP 572 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +++ I NL T +VL +LT RE+++L++RFG+G DHTLEEVG+QF VTRERIRQIE Sbjct: 573 IEAVIGMNLSGQTEQVLETLTEREQKILKLRFGLGDGRDHTLEEVGQQFDVTRERIRQIE 632 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HP+RS+KL+SF++ Sbjct: 633 AKALRKLRHPTRSRKLKSFVE 653 >gi|89900350|ref|YP_522821.1| sigma 70 (RpoD) [Rhodoferax ferrireducens T118] gi|89345087|gb|ABD69290.1| sigma 70 (RpoD) [Rhodoferax ferrireducens T118] Length = 783 Score = 431 bits (1109), Expect = e-118, Method: Compositional matrix adjust. Identities = 263/672 (39%), Positives = 386/672 (57%), Gaps = 85/672 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E++ LP V +E +E ++ML++MG+ V + + + Sbjct: 173 KALIKLGKTRGYLTHGEISDHLPDKLVDAETLEVVISMLNDMGVAVYE------QTPDAE 226 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L ++ S ++ + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 227 TLLLNNNVSTAATEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 286 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G MM ++ SP T ++ +++ +G ++ I+D GF + Sbjct: 287 AKRIEGGLMAMMEAISASPATIAEILRLSEDIREGKVVITTIVD-----------GFSNP 335 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E Y ED + DD G Sbjct: 336 NEADDYVAEEDFDEFDAADDDDGKGG---------------------------------- 361 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKC-KVLKEKL 321 + L+ ++L+ + + D + E++ ++ ++ + G S +K K L E+L Sbjct: 362 ---SKALTKKLEELKNEALSRFDRLRELFEKIHTIYNKEGYGTP---SYIKTQKALSEEL 415 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE-- 378 + + + + DL+ Q+ D+ K+ E EL R+ G ++ F+ GR+ Sbjct: 416 MSIRFTAKTIEKLCDLVRSQVDDVRKK----ERELRRIIVDKCGYPQENFIADFSGRDKH 471 Query: 379 --------LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 L+ W+ K G+ W +A + + ++ ++ + + + + + + Sbjct: 472 GNKVASQLLNLKWIE--KQAASGKHWGPIMARNIPPVQDLQQKLTDLQSKVVVPLDQLKD 529 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + +GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 530 INKRMNEGEYSSRAAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 589 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP Sbjct: 590 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDA 649 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +A+++ +P + +RK++KI KEPIS+ETPIGD+D SHLGDFIED +P+++A+QA L Sbjct: 650 SVLAERMEIPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDAANTAPMEAAMQAGL 709 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ +L SLTPRE +VLRMRFGI M +DHTLEEVGKQF VTRERIRQIEAKA+RKLKH Sbjct: 710 RDVVKDILDSLTPREAKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLKH 769 Query: 670 PSRSKKLRSFLD 681 PSRS KLRSF D Sbjct: 770 PSRSDKLRSFTD 781 >gi|241764884|ref|ZP_04762887.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax delafieldii 2AN] gi|241365587|gb|EER60323.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax delafieldii 2AN] Length = 788 Score = 431 bits (1109), Expect = e-118, Method: Compositional matrix adjust. Identities = 262/657 (39%), Positives = 378/657 (57%), Gaps = 65/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E++ LP V +E +E + L+++G+ V D + L + Sbjct: 188 KTLIKLGKTRGYLTHVEISDHLPDKLVDAETLEAVITTLNDLGVAVYEQTPDAEALIITD 247 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 248 NAPSGATEEEAEEAAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 306 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ I+D GF + E Sbjct: 307 GGLMAMMEAISASPATIAEILNMGEEIREGKVVISTIVD-----------GFSNPNEADD 355 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 Y ED + E DD G + Sbjct: 356 YVAEEDFDEFDEADDDDGKGG-------------------------------------SK 378 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV-LKEKLVKLVG 326 L+ ++L+ + + D++ E++ ++ + D G + VK + L E+L+ + Sbjct: 379 ALTKKLEELKKQALERFDKLRELFEKVHKVYDKEGYGTP---AYVKAQTALSEELMTIRF 435 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS 385 + + D++ Q+ D+ K+ E EL R+ G+ ++ F++ L+ WV Sbjct: 436 TAKTIEKLCDMVRGQVDDVRKK----ERELRRIIVDKCGMPQETFIKDFPPNLLNLKWVE 491 Query: 386 YAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 K G+ W +A + I ++ ++ + + ++E + I + +GE + A Sbjct: 492 --KQAAAGKPWSAVMARNIPPIQDLQQKLADLQSRVVVPLAELKGINKRMNEGEATSRDA 549 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 KKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 550 KKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 609 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +R Sbjct: 610 RQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIR 669 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K++KI KEPIS+ETPIGD+D SHLGDFIED +P+++A+QA LR+ +L LTPRE Sbjct: 670 KIMKIAKEPISMETPIGDDDDSHLGDFIEDGANTAPIEAAMQAGLRDVVKDILDGLTPRE 729 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M +DHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 730 AKVLRMRFGIEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 786 >gi|42521867|ref|NP_967247.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus HD100] gi|39574397|emb|CAE77901.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus HD100] Length = 609 Score = 430 bits (1106), Expect = e-118, Method: Compositional matrix adjust. Identities = 274/664 (41%), Positives = 383/664 (57%), Gaps = 100/664 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 ++ +KLA+++G +TIEE+N LPP+ V+ ++ + L G+ + D + EE E Sbjct: 31 QRFLKLAKEKGALTIEEINELLPPEIVAPSVLDSFMQGLEAGGVVISDLSESSKEEEGEG 90 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + + + + +++ +S D +DPVR+YLR+MGS+ LL+REGE+ IA+RIE G Sbjct: 91 AFLENVDSEDEEIDDEEKAESEDVKGNDPVRLYLRKMGSVSLLTREGEVEIARRIEKGER 150 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 ++ ++ SPL +I L++G ++ I F G E Q Sbjct: 151 EIVRAILLSPLGTYEIIQLGKRLDEGRIKVKSI---------------FRGLEDEDTQ-- 193 Query: 212 EDSSQEKER-DDVQETEGDIESAAKVSKD-----DRSKVDSPPENAENDERNLDEDEDDS 265 EKE D + E G + K ++ + + ++P A E Sbjct: 194 ---YDEKEYIDKIHELIGRVTEYQKAAEKLFMTLRKEETNTPARQAAMKE---------- 240 Query: 266 AHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 L AM D+L M + +VN + + V K + LV + Sbjct: 241 ---LVAMNDKL----MANFE---------------SVNFNRKTINRVVIKF--KNLVNRI 276 Query: 326 GSLSLNQSRIDLLVEQLY--DIS------KRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 G+L + RI VE+ + D++ K I NE EL R+ + G+ F Sbjct: 277 GTL---RRRIKDGVERTFSKDVTAMAERMKLIDANEKELTRMTRDTGLNYQKF------- 326 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 SY E E + I + ET ++ + + + + KG Sbjct: 327 ------KSYVLQAQEAEKR----------------ISRLDSETEMNHNWVKETYTAIWKG 364 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E EA AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 365 EREADAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 424 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VRT+R + ++ REPTPEEIA K+ Sbjct: 425 TYATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLIQELGREPTPEEIADKMD 484 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MPV+ VRKVLKI KEPISLETP+G+E+ SHLGDFIEDK ++P ++ + NL E T RVL Sbjct: 485 MPVDKVRKVLKIAKEPISLETPVGEEEDSHLGDFIEDKKVINPAEAIVNLNLAEQTRRVL 544 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS KL+ Sbjct: 545 STLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALRKLRHPSRSNKLK 604 Query: 678 SFLD 681 +F+D Sbjct: 605 AFVD 608 >gi|171059243|ref|YP_001791592.1| RNA polymerase sigma-70 subunit RpoD [Leptothrix cholodnii SP-6] gi|170776688|gb|ACB34827.1| RNA polymerase, sigma 70 subunit, RpoD [Leptothrix cholodnii SP-6] Length = 754 Score = 429 bits (1104), Expect = e-118, Method: Compositional matrix adjust. Identities = 261/657 (39%), Positives = 379/657 (57%), Gaps = 65/657 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IK+ + RG++T +E+N LP V +E +E V+ML++MGI V D L Sbjct: 154 KTLIKMGKTRGFLTHQEINDHLPEKLVEAEILEAIVSMLNDMGIAVYEQAPDAATLLIAG 213 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 214 GGTTTSTEEEAEEAAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 272 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +++ GT + ++D GF E Sbjct: 273 GGLQAMMLAISASPATIAEVLEMANKIRAGTDPISSVVD-----------GFVAADEADD 321 Query: 208 YQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAH 267 Y ED + E +D G + Sbjct: 322 YVAEEDFDEFDEEEDDDGNGG-------------------------------------SK 344 Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 L+ ++L+ + + D + + ++R D +G K + + + +L+ + + Sbjct: 345 ALTKKLEELKNQALVKFDALQLDFDKMRKAYDK--DGYKSPAYNKAQEAISGQLMTVRFT 402 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVS- 385 + + DLL Q+ DI + E EL ++ G+ ++ F++ L+ W Sbjct: 403 VKTIEKLCDLLRSQVDDIRR----FERELRKIVVDRCGMPQEYFIKSFPPNILNLEWAEN 458 Query: 386 -YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 A + P + ++ + +I +++ ++ + + + I + + I + +GE + A Sbjct: 459 EIAANKP---YSAVMSRNLPAIQELQQKLTDLQTKAVVPIDDLKQINRRMNEGEASSREA 515 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 516 KREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 575 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A+K+ MP + +R Sbjct: 576 RQAITRSIADQARTIRIPVHMIETINKMNRLSRQHLQEFGFEPDAPSLAEKMEMPEDKIR 635 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K++KI KEPIS+ETPIGD+D SHLGDFIED N +P+++A+Q+ LR+ +L SLTPRE Sbjct: 636 KIMKIAKEPISMETPIGDDDDSHLGDFIEDTNNTAPIEAAMQSGLRDVVRDILDSLTPRE 695 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKAIRKLKHPSRS KLR++LD Sbjct: 696 AKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKAIRKLKHPSRSDKLRTYLD 752 >gi|212212053|ref|YP_002302989.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212010463|gb|ACJ17844.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] Length = 698 Score = 426 bits (1096), Expect = e-117, Method: Compositional matrix adjust. Identities = 269/664 (40%), Positives = 365/664 (54%), Gaps = 87/664 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---EDE 86 +++ A+ +GY+ E+L LP D QME + L+ MGI V D D L ED Sbjct: 103 LLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDADSLLLEEDT 162 Query: 87 EGSEDSL--DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +D + D+A + + T DPVRMY+REMGS+ELL+REGEI IAK Sbjct: 163 QSDDDEINEDVAEVLATET------------RTTDPVRMYMREMGSVELLTREGEIVIAK 210 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIE G +M ++ + P + I Sbjct: 211 RIEEGIRQVMGAVVQYPELIEKFI------------------------------------ 234 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 KE D + TEG + D+ SP D+ DEDD Sbjct: 235 -------------KEYDTIVATEGRLSDLLIGFFDEEESTASPVAPEARDKEAETSDEDD 281 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLV 322 S + P + + E+ ++L NA+ G+K + K L E Sbjct: 282 GGEGGSDEFGESGPDPLITQQHMEEL-KKLYGRYQNAIKRYGKKAPATLKHQKALAE--- 337 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI-----KRDVFLERHQGR 377 L + L+ + + L QL +R++ RL SY + R F+ Sbjct: 338 -LFSTFKLSIKQFNRLTGQL----RRMLRAARAQERLIMSYCVVKAKTPRKKFIASFPHN 392 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + W+ K+ + + K + I + + + + + ++I E + I V G Sbjct: 393 ETNMKWLEQYKNENKEQAKRLEKYSKE-IYRAQRNLAQLEEQNNLNIQEIKEINRRVAIG 451 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E ++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 452 EAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 511 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E TPEE+ +++ Sbjct: 512 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRMD 571 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP E VRKVLKI KEPIS+ETPIG+++ S+LGDFIED N SP+D A A L E T +L Sbjct: 572 MPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATREIL 631 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR++KL Sbjct: 632 STLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAEKLH 691 Query: 678 SFLD 681 SF++ Sbjct: 692 SFIE 695 >gi|29654887|ref|NP_820579.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|161831165|ref|YP_001597431.1| RNA polymerase sigma factor RpoD [Coxiella burnetii RSA 331] gi|81628631|sp|Q83BB6|RPOD_COXBU RecName: Full=RNA polymerase sigma factor rpoD gi|29542156|gb|AAO91093.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|161763032|gb|ABX78674.1| RNA polymerase sigma factor RpoD [Coxiella burnetii RSA 331] Length = 698 Score = 426 bits (1095), Expect = e-117, Method: Compositional matrix adjust. Identities = 269/664 (40%), Positives = 365/664 (54%), Gaps = 87/664 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---EDE 86 +++ A+ +GY+ E+L LP D QME + L+ MGI V D D L ED Sbjct: 103 LLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDADSLLLEEDT 162 Query: 87 EGSEDSL--DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +D + D+A + + T DPVRMY+REMGS+ELL+REGEI IAK Sbjct: 163 QSDDDEINEDVAEVLATET------------RTTDPVRMYMREMGSVELLTREGEIVIAK 210 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIE G +M ++ + P + I Sbjct: 211 RIEEGIRQVMGAVVQYPELIEKFI------------------------------------ 234 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 KE D + TEG + D+ SP D+ DEDD Sbjct: 235 -------------KEYDTIVATEGRLSDLLIGFFDEEESTASPVAPEARDKEAETSDEDD 281 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLV 322 S + P + + E+ ++L NA+ G+K + K L E Sbjct: 282 GGEGGSDEFGESGPDPLITQQHMEEL-KKLYGRYQNAIKRYGKKAPATLKHQKALAE--- 337 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI-----KRDVFLERHQGR 377 L + L+ + + L QL +R++ RL SY + R F+ Sbjct: 338 -LFSTFKLSIKQFNRLTGQL----RRMLRAARAQERLIMSYCVVKAKTPRKKFIASFPHN 392 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + W+ K+ + + K + I + + + + + ++I E + I V G Sbjct: 393 ETNMKWLEQYKNENKEQAKRLEKYSKE-IYRAQRNLAQLEEQNNLNIQEIKEINRRVAIG 451 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E ++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 452 EAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 511 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E TPEE+ +++ Sbjct: 512 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRMD 571 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP E VRKVLKI KEPIS+ETPIG+++ S+LGDFIED N SP+D A A L E T +L Sbjct: 572 MPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATREIL 631 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR++KL Sbjct: 632 STLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAEKLH 691 Query: 678 SFLD 681 SF++ Sbjct: 692 SFIE 695 >gi|154705741|ref|YP_001423814.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] gi|154355027|gb|ABS76489.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] Length = 698 Score = 426 bits (1095), Expect = e-117, Method: Compositional matrix adjust. Identities = 269/664 (40%), Positives = 365/664 (54%), Gaps = 87/664 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---EDE 86 +++ A+ +GY+ E+L LP D QME + L+ MGI V D D L ED Sbjct: 103 LLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDADSLLLEEDT 162 Query: 87 EGSEDSL--DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +D + D+A + + T DPVRMY+REMGS+ELL+REGEI IAK Sbjct: 163 QSDDDEINEDVAEVLATET------------RTTDPVRMYMREMGSVELLTREGEIVIAK 210 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIE G +M ++ + P + I Sbjct: 211 RIEEGIRQVMGAVVQYPELIEKFI------------------------------------ 234 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 KE D + TEG + D+ SP D+ DEDD Sbjct: 235 -------------KEYDTIVATEGRLSDLLIGFFDEEESTASPVAPEARDKEAETSDEDD 281 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLV 322 S + P + + E+ ++L NA+ G+K + K L E Sbjct: 282 GGEGGSDEFGESGPDPLITQQHMEEL-KKLYGRYQNAIKRYGKKAPATLKHQKALAE--- 337 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI-----KRDVFLERHQGR 377 L + L+ + + L QL +R++ RL SY + R F+ Sbjct: 338 -LFSTFKLSIKQFNRLTGQL----RRMLRAARAQERLIMSYCVVKAKTPRKKFIASFPHN 392 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + W+ K+ + + K + I + + + + + ++I E + I V G Sbjct: 393 ETNMKWLEQYKNENKEQAKRLEKYSKE-IYRAQRNLAQLEEQNNLNIQEIKEINRRVAIG 451 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E ++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 452 EAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 511 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E TPEE+ +++ Sbjct: 512 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRMD 571 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP E VRKVLKI KEPIS+ETPIG+++ S+LGDFIED N SP+D A A L E T +L Sbjct: 572 MPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATREIL 631 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR++KL Sbjct: 632 STLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAEKLH 691 Query: 678 SFLD 681 SF++ Sbjct: 692 SFIE 695 >gi|153208748|ref|ZP_01946986.1| RNA polymerase sigma factor RpoD [Coxiella burnetii 'MSU Goat Q177'] gi|212219307|ref|YP_002306094.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] gi|120575780|gb|EAX32404.1| RNA polymerase sigma factor RpoD [Coxiella burnetii 'MSU Goat Q177'] gi|212013569|gb|ACJ20949.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] Length = 698 Score = 426 bits (1094), Expect = e-117, Method: Compositional matrix adjust. Identities = 269/664 (40%), Positives = 365/664 (54%), Gaps = 87/664 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---EDE 86 +++ A+ +GY+ E+L LP D QME + L+ MGI V D D L ED Sbjct: 103 LLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDADSLLLEEDT 162 Query: 87 EGSEDSL--DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +D + D+A + + T DPVRMY+REMGS+ELL+REGEI IAK Sbjct: 163 QSDDDEINEDVAEVLATET------------RTTDPVRMYMREMGSVELLTREGEIVIAK 210 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTE 204 RIE G +M ++ + P + I Sbjct: 211 RIEEGIRQVMGAVVQYPELIEKFI------------------------------------ 234 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 KE D + TEG + D+ SP D+ DEDD Sbjct: 235 -------------KEYDTIVATEGRLSDLLIGFFDEEESTASPVAPEARDKEAETSDEDD 281 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLV 322 S + P + + E+ ++L NA+ G+K + K L E Sbjct: 282 GGEGGSDEFGESGPDPLITQQHMEEL-KKLYGRYQNAIKRYGKKAPATLKHQKALAE--- 337 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI-----KRDVFLERHQGR 377 L + L+ + + L QL +R++ RL SY + R F+ Sbjct: 338 -LFSTFKLSIKQFNRLTGQL----RRMLRAARAQERLIMSYCVVKAKTPRKKFIASFPHN 392 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + W+ K+ + + K + I + + + + + ++I E + I V G Sbjct: 393 ETNMKWLEQYKNENKEQAKRLEKYSKE-IYRAQRNLAQLEEQNNLNIQEIKEINRRVAIG 451 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E ++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 452 EAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 511 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E TPEE+ +++ Sbjct: 512 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRID 571 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP E VRKVLKI KEPIS+ETPIG+++ S+LGDFIED N SP+D A A L E T +L Sbjct: 572 MPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATREIL 631 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR++KL Sbjct: 632 STLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAEKLH 691 Query: 678 SFLD 681 SF++ Sbjct: 692 SFIE 695 >gi|261755428|ref|ZP_05999137.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] gi|261745181|gb|EEY33107.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] Length = 235 Score = 411 bits (1056), Expect = e-112, Method: Compositional matrix adjust. Identities = 194/234 (82%), Positives = 220/234 (94%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 1 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQ+ TIRIPVHM + I+K+VRT+R+M ++I REPTPEE+A+KLAMP+E VRKVL Sbjct: 61 ITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVL 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANLR+TTTRVLASLTPREERV Sbjct: 121 KIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRDTTTRVLASLTPREERV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKHPSRS+KLRSFLD Sbjct: 181 LRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 234 >gi|197120055|ref|YP_002140482.1| RNA polymerase sigma-70 factor RpoD [Geobacter bemidjiensis Bem] gi|197089415|gb|ACH40686.1| RNA polymerase sigma-70 factor RpoD [Geobacter bemidjiensis Bem] Length = 584 Score = 409 bits (1052), Expect = e-112, Method: Compositional matrix adjust. Identities = 214/414 (51%), Positives = 294/414 (71%), Gaps = 21/414 (5%) Query: 279 KVMCALDEIAEV---YRELRSLQDNAVNGQKD-EKSSVKCKVLKEKLVKLVGSLSLNQSR 334 KV+ +DEI E+ E++ + DN K+ E + LK K+ + + SL L Sbjct: 181 KVLTIIDEIKEIDLRMNEIQGVLDNEKAAAKEREALGAEHAELKVKMAETLKSLRLKDRH 240 Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 I+ + ++L ++S ++ E+ L + G +R+ FL +G AK E E Sbjct: 241 IEKIAQRLKELSCKVDTVMQEITELEKESGAEREPFLAAFEG----------AKGGSEAE 290 Query: 395 WKNFVACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEASIAKKE 447 ++ + ++ K+ +S I E+G SE + + + +GE +A +AK E Sbjct: 291 FQKKLNLTLEEGQKLEKRFRSSEARLKKIEQESGFKASELANALLAIEEGEHKAKLAKSE 350 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 351 LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQA 410 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEIA+++A+P++ VRKVL Sbjct: 411 ITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPLDKVRKVL 470 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPISLETPIG+E+ SHLGDFIEDK VSPL++ I+ANL E T+RVL++LTPREE+V Sbjct: 471 KIAKEPISLETPIGEEEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKV 530 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+KKL+SF++ Sbjct: 531 LRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE 584 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 54/143 (37%), Positives = 87/143 (60%), Gaps = 3/143 (2%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S D K++I L +++G++T EE+N LPPD VSS+Q++D ++M +M I +VD + Sbjct: 5 SMDEVKQLIDLGKEKGFLTYEEVNDLLPPDIVSSDQIDDVMSMFGDMDIEIVDSA--QKV 62 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKR 145 + + +DL + + + T DPVRMYLREMGS+ LL+REGE+ IAKR Sbjct: 63 KIPKIKMDLEEEEEHEGSEEEVEFEPGTLGRTSDPVRMYLREMGSVSLLTREGEVEIAKR 122 Query: 146 IEAGRAMMMASLCESPLTFQALI 168 IE G + + + +P+T + ++ Sbjct: 123 IEVGERDVASVILNTPITVREVV 145 >gi|253702377|ref|YP_003023566.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251777227|gb|ACT19808.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 584 Score = 409 bits (1051), Expect = e-112, Method: Compositional matrix adjust. Identities = 211/414 (50%), Positives = 294/414 (71%), Gaps = 21/414 (5%) Query: 279 KVMCALDEIAEVYRELRSLQD----NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSR 334 KV+ +DEI E+ + + +Q V ++ E + LK K+ + + SL L Sbjct: 181 KVLTIIDEIKEIEQRMSEIQSALEAEKVAAKEREALGAEHAELKVKMAETLKSLRLKDRH 240 Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 I+ + ++L ++S ++ E+ L + G +R+ FL +G AK E + Sbjct: 241 IEKIAQRLKELSCKVDTVMQEIAELEKESGAEREPFLTAFEG----------AKGGSEAD 290 Query: 395 WKNFVACEVDSILKIRN-------EIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 ++ + ++ K+ ++K I E+G SE + + + +GE +A +AK E Sbjct: 291 FQKKLNMTLEEGQKLEKRFRSSEAKLKKIEQESGFKASELANALLAIEEGEHKAKLAKSE 350 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 351 LVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQA 410 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEIA+++A+P++ VRKVL Sbjct: 411 ITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPLDKVRKVL 470 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPISLETPIG+E+ SHLGDFIEDK VSPL++ I+ANL E T+RVL++LTPREE+V Sbjct: 471 KIAKEPISLETPIGEEEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKV 530 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+KKL+SF++ Sbjct: 531 LRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE 584 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 54/143 (37%), Positives = 87/143 (60%), Gaps = 3/143 (2%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S D K++I L +++G++T EE+N LPPD VSS+Q++D ++M +M I +VD + Sbjct: 5 SMDEVKQLIDLGKEKGFLTYEEVNDLLPPDIVSSDQIDDVMSMFGDMDIEIVDSA--QKV 62 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKR 145 + + +DL + + + T DPVRMYLREMGS+ LL+REGE+ IAKR Sbjct: 63 KIPKIKMDLEEEEEHEGSEEEVEFEPGTLGRTSDPVRMYLREMGSVSLLTREGEVEIAKR 122 Query: 146 IEAGRAMMMASLCESPLTFQALI 168 IE G + + + +P+T + ++ Sbjct: 123 IEVGERDVASVILNTPITVREVV 145 >gi|114321663|ref|YP_743346.1| RNA polymerase, sigma 70 subunit, RpoD [Alkalilimnicola ehrlichii MLHE-1] gi|114228057|gb|ABI57856.1| RNA polymerase, sigma 70 subunit, RpoD [Alkalilimnicola ehrlichii MLHE-1] Length = 598 Score = 406 bits (1043), Expect = e-111, Method: Compositional matrix adjust. Identities = 209/373 (56%), Positives = 266/373 (71%), Gaps = 5/373 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF 370 S +C L+E+L ++ + ID LV+ L + NE +L+ G+ R F Sbjct: 228 SPECAELREQLAEIFLTFKFPPKIIDQLVDGLRRDVNVLRRNERHILKACTKAGMPRKTF 287 Query: 371 LERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 + RE DP W+ A P W +A D I + + + + G++I E + Sbjct: 288 VRSFISRETDPGWLDEMLASKEP---WAQRLAEHEDDIRRAQQVLIDAERKVGMTIGEIK 344 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 345 DINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 404 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+ Sbjct: 405 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPS 464 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 P+E+A+++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED NA+SP+DSA + Sbjct: 465 PDELAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDINAMSPVDSATREG 524 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE+ VL+ LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+ Sbjct: 525 LRESVKGVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 584 Query: 669 HPSRSKKLRSFLD 681 HP+RS+ LRSFLD Sbjct: 585 HPTRSEGLRSFLD 597 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 56/155 (36%), Positives = 91/155 (58%), Gaps = 1/155 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++I +++G++T E+N LP D V EQ+ED + M+++MGINV + D ++ S+ Sbjct: 10 KQLIAKGKEQGFLTYAEVNDHLPDDIVDPEQIEDIIGMINDMGINVHEVAPDADELLLSD 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ + + D+ T DPVRMY+REMG++ELL+REGEI +AKRIE G Sbjct: 70 AAVSTDEDEAEEAAAALAAVDAEFGRTTDPVRMYMREMGTVELLTREGEIELAKRIEEGL 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++A+L P L+ ++ DG L E++ Sbjct: 130 DQVLAALSAYPGAAAKLLDLYRKVQDGEMRLNELM 164 >gi|67810071|gb|AAY81984.1| RNase polymerase sigma factor [Wolbachia pipientis] Length = 571 Score = 405 bits (1041), Expect = e-110, Method: Compositional matrix adjust. Identities = 237/557 (42%), Positives = 349/557 (62%), Gaps = 33/557 (5%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 DDPVR+YL++M S++LLSR EI IAK+IE+ + M+ ++ E+ +T + + +WRD+L++ Sbjct: 36 NDDPVRIYLQDMSSVKLLSRADEIEIAKKIESEKHNMLRAIIETSVTLKVIKVWRDDLSN 95 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 G LLREIIDL+A + ++ + K E E+ +DV+++E E A Sbjct: 96 GALLLREIIDLDA----------IYNSDFNVVPKEESEESEESAEDVEDSEDVSEDAEYC 145 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 S D++ DS + E D N D + ++ ME L PKV+ ALDEI + E Sbjct: 146 SDDEK---DSKKSDDEKDGNNEDISSVNLNVSILEMESDLLPKVIVALDEIITLTNEALI 202 Query: 297 LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGEL 356 L+ N+ N S + + L ++ + + L+ + + + ++LY I++ I E L Sbjct: 203 LRKNSKNF------SNELENLYNQIWSIALQIKLSDAAVARITQELYKINRSITLEEANL 256 Query: 357 LRLAQSYGIKRDVF-------LERHQGRELDPHWVSYAKDFPEGEWKN----FVACEVDS 405 + A+ Y I R+ F L +H+ +++ ++ + GE KN F+ + Sbjct: 257 IAEARKYDIDRESFYKVYDDVLLKHELKKISLLKINENQSSFTGELKNKFLRFIDDNSEH 316 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I N IK E ++ EF+ ++ ++K E E S AK+EM++ANLRLV+S+AKKY+ Sbjct: 317 IASTLNGIKQHIQED--NVQEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSK 374 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL LDLIQEGNIGLMKA +KFD+ GYKFSTY WWV+Q+ITR+I +QS +RIPVHM Sbjct: 375 RGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHM 434 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I K+ R R+M++++ REPT EE++ +L MP+E +RKV+KI ++P+SLE P G +D+ Sbjct: 435 VEIISKINRALRKMTHEMGREPTLEELSVELTMPLERIRKVMKIARDPVSLEAPTGKDDS 494 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEE 644 S GD IEDK P D+AI A+LR TT VLA+LTP+EER+LRMRFG+G + +HTLEE Sbjct: 495 STFGDCIEDKRVSRPEDAAILADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEE 554 Query: 645 VGKQFCVTRERIRQIEA 661 VGK F VTRERIRQIEA Sbjct: 555 VGKIFNVTRERIRQIEA 571 >gi|269468904|gb|EEZ80491.1| DNA-directed RNA polymerase, sigma subunit [uncultured SUP05 cluster bacterium] Length = 603 Score = 405 bits (1041), Expect = e-110, Method: Compositional matrix adjust. Identities = 250/656 (38%), Positives = 370/656 (56%), Gaps = 67/656 (10%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI----NVVDGDDLED 85 + +K+I + +++GY+T E+N LP D ++ EQ+E V +L + I V D D L Sbjct: 11 ALQKLIMIGKEQGYLTYAEINDILPEDLLTQEQVEPIVTILEELDIAVSDTVPDADTLVV 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E G++ S+++ ++V DS T DPVRMY+REMG ++LL + EI IAK Sbjct: 71 ESGAKAQ----STSAEAAVAALAALDSEFGRTTDPVRMYMREMGVVDLLEQSDEIRIAKE 126 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEG 205 IEAG +M S+ P L +G + ++I G +G Sbjct: 127 IEAGVFEIMKSITLYPAITGFFFKAHTRLEEGKCKMTDVI---------------IGYQG 171 Query: 206 HSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDS 265 + ED +++K D G+ + + + + + P D Sbjct: 172 DA----EDFAKKKAAFDA----GEFDDDEEYEEMEEMEYTGP----------------DE 207 Query: 266 AHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 E L+ C+ E Y+ + N +G +D+K+ + L E L Sbjct: 208 GQVYGRFETVLK----CS-----EAYQ-----KTNEKHGFRDKKTIAARQQLSEGL---- 249 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 L L + ++E + D + E + G++R+ F + E + W+ Sbjct: 250 SDLRLAPKLVSTMMEVICDRVALVKKQEKTIQSACLYAGMEREQFFKLFNDNETNFDWLK 309 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 AK + + + D I + + E +++ E + + + R+G+ A AK Sbjct: 310 GAK--LDKKVAEALKVSKDEIYYAQKNLLEFEEEMQLTVPELKALNKLYRRGDRRAKKAK 367 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +M+EANLRLVIS+AKKY NRGLQFLDLIQEGN+GLMKA +KF++ GYKFSTYA WW++ Sbjct: 368 SQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYATWWIR 427 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R R++ K RE TPEE+A ++ +P + K Sbjct: 428 QAITRSIADQARTIRIPVHMIETINKLNRVRRQLLQKFGREATPEELAVEMELPEYKINK 487 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +LKI KEP+S+ETP+GD++ S++GDFIED N SP++ + +L+ETT +LA+L+PRE Sbjct: 488 ILKIAKEPLSMETPVGDDEDSNIGDFIEDTNLSSPVEITTRESLKETTGELLANLSPREA 547 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VL+MRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+RKL+HPSR+ KL+SFL+ Sbjct: 548 KVLKMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRAHKLQSFLE 603 >gi|295698783|ref|YP_003603438.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] gi|291157386|gb|ADD79831.1| RNA polymerase sigma factor RpoD [Candidatus Riesia pediculicola USDA] Length = 607 Score = 404 bits (1039), Expect = e-110, Method: Compositional matrix adjust. Identities = 262/644 (40%), Positives = 373/644 (57%), Gaps = 60/644 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP D V S+Q+ED + + +MGI V + E ED Sbjct: 10 KVLVNKGKEKGYLTYSEVNDNLPEDIVDSDQIEDIIQTIIDMGIRVTE------EVPDED 63 Query: 92 SLDLASSASNS--------SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L L S++ + L + R+TD P+RMY+REMG+IELL+REGEI IA Sbjct: 64 ELILTDPTSSTDEETVEAATQVLSSVEQEIGRTTD-PIRMYMREMGTIELLTREGEIDIA 122 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KRIE G + S+ E P + ++ G L +II G S+ F Sbjct: 123 KRIEDGINQIQRSISEYPKSISYILKQYFLFESGEMKLSDII-----TGLSSEDTF---- 173 Query: 204 EGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 S + + + + + + +I S KD +S N E++ ++D Sbjct: 174 --SSSKNVDKNFSSMKLNRINSVLDEILSNNYEKKDISKSQNSTRTNVEDEWNHID---- 227 Query: 264 DSAHTLSAMEDQLRPKVM-CALDEIAEVYREL-RSLQDNAVNGQKDEKSSVKCKVLKEKL 321 PK+ E+ Y ++ SL++N + KSS +++ L Sbjct: 228 --------------PKIARKKFLELQNQYEKVTHSLKENGI------KSSQSILDIQD-L 266 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLE--RHQGRE 378 ++ L ++D L+ + ++I E ++ ++ + Y I + FL +E Sbjct: 267 CEIFKQFRLVPKQLDFLISDIRKTIEKIKIQEKLIINISFKEYKIPKKYFLNLFSENPKE 326 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 D + + + + + K F ++DS I++ NE+ I +TGISIS+ + I + G Sbjct: 327 YDLKELIVSNRYNKKDEKKF---KLDSTIVQALNELNEIEKDTGISISKIKEIGRKISIG 383 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 384 ETIARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 443 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ +R++ + REP+PEE+++++ Sbjct: 444 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNHISRQILQETGREPSPEELSERML 503 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E +RKVLKI +EPIS+ETPIGD++ SHLGDFIED PL+SA +LR T VL Sbjct: 504 IPEEKIRKVLKIAREPISMETPIGDDEDSHLGDFIEDTTLELPLESATSESLRSATNEVL 563 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + LT RE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEA Sbjct: 564 SGLTTREAKVLRMRFGIDMHTDHTLEEVGKQFDVTRERIRQIEA 607 >gi|261492895|ref|ZP_05989441.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261496755|ref|ZP_05993130.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. OVINE] gi|261307594|gb|EEY08922.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. OVINE] gi|261311436|gb|EEY12593.1| DNA-directed RNA polymerase sigma subunit RpoD [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 623 Score = 404 bits (1037), Expect = e-110, Method: Compositional matrix adjust. Identities = 216/382 (56%), Positives = 274/382 (71%), Gaps = 10/382 (2%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY- 363 QK ++S K K E L + L + DLLV + + K++ E ++ R A Y Sbjct: 246 QKHGRTSKKSKEQIEILSHIFREFRLVSKQFDLLVASMQKLMKQVRTEERQIQRYAVEYA 305 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFV---ACEVDSI-LKIRNEIKSISVE 419 G+K+ FL+ QG EL W+ A + KN V A VD+I + I N ++++ Sbjct: 306 GMKKADFLKAFQGHELSEAWIEKAINAK----KNAVPKLANYVDNIRVNIAN-LQNLEQT 360 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 +G++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNI Sbjct: 361 SGLTIAQIREIGGRISNGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI 420 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 421 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQC 480 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFI+D++ Sbjct: 481 LQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIQDESLEL 540 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PLDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQI Sbjct: 541 PLDSATAESLRMATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI 600 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKL+HPSRS+ LRSFLD Sbjct: 601 EAKALRKLRHPSRSETLRSFLD 622 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 90/155 (58%), Gaps = 9/155 (5%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGSE 90 I R++GY+T+ E++ LP + V +EQ+ED + M+++MGI V+ D DDL E Sbjct: 19 ISQGREQGYLTLSEVHDHLPEELVDAEQIEDIIQMINDMGIQVLEAAPDTDDLLLAENIA 78 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D D+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 79 DE-DVVEEATK---VLSTVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEGI 133 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ E P L+ ++ G L +++ Sbjct: 134 NEVQCAIAEYPEALSGLLACYAQVETGEMRLSDLV 168 >gi|118602160|ref|YP_903375.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|118567099|gb|ABL01904.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 600 Score = 403 bits (1036), Expect = e-110, Method: Compositional matrix adjust. Identities = 256/661 (38%), Positives = 377/661 (57%), Gaps = 80/661 (12%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----GDDLED 85 S +K+I +++GY+T E+N LP D ++ EQ+E V +L + I V D D L Sbjct: 11 SLQKLIMAGKEKGYLTYSEINDILPEDLLTQEQVEPIVTILEELDIAVSDIVPDADTLVV 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E G++ S+++ +++ DS T DPVRMY+REMG ++LL +E EI IAK Sbjct: 71 ESGAKAQ----STSAEAAIAALAALDSEFGRTTDPVRMYMREMGVVDLLEQEDEIRIAKE 126 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEG 205 IEAG +M + P+ L +G + ++I IG Sbjct: 127 IEAGVFEIMKGITLYPVITDFFFKAHTRLEEGKCKMTDVI-----IG------------- 168 Query: 206 HSYQKREDSSQEKERDDVQETEGDIES-AAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 YQ GD E A K + D K D+ DE+ +D Sbjct: 169 --YQ------------------GDTEDFAVKKAAFDAGKFDN------------DEEHED 196 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD-NAVNGQKDEKSSVKCKV---LKEK 320 +T DE +VY ++ + + +EK + K ++++ Sbjct: 197 MEYT--------------GPDE-NQVYNRFETISKCSKTYNETNEKLGFRHKKTIEMRQQ 241 Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELD 380 L + + L L ++ ++E + + +++ E + G+ R F E E + Sbjct: 242 LSQSLSDLRLAPKLVNTMIEVICNRVEQVKKQEKTIQNKCLDAGMNRLYFFESFSKNETN 301 Query: 381 PHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 W+S K + E K + D I + ++ E ++I+E + + M R+G+ Sbjct: 302 FDWLSAIKLDEKTEEK--LKVSKDEIYYAQKNLQQFEEEMQLTITELKTLNKMYRRGDRR 359 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AK +M+EANLRLVIS+AKKY NRGLQFLDLIQEGN+GLMKA +KF++ GYKFSTYA Sbjct: 360 AKKAKSQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFSTYA 419 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R R++ K RE +PEE+A ++ +P Sbjct: 420 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRVRRQLLQKFGREASPEELATEMELPE 479 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + K+LKI+KEP+S+ETP+GD++ S++GDFIED N SP++ + +LRETT+ +L++L Sbjct: 480 YKIIKILKISKEPLSMETPVGDDEDSNIGDFIEDTNLSSPVEITTKESLRETTSELLSNL 539 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +PRE +VL+MRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+RKL+HPSR+ KL+SFL Sbjct: 540 SPREAKVLKMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRAHKLQSFL 599 Query: 681 D 681 + Sbjct: 600 E 600 >gi|255019635|ref|ZP_05291715.1| RNA polymerase sigma factor RpoD [Acidithiobacillus caldus ATCC 51756] gi|254970938|gb|EET28420.1| RNA polymerase sigma factor RpoD [Acidithiobacillus caldus ATCC 51756] Length = 625 Score = 403 bits (1036), Expect = e-110, Method: Compositional matrix adjust. Identities = 202/357 (56%), Positives = 261/357 (73%), Gaps = 3/357 (0%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSY 386 + LN +IDL+ + L ++++ + E EL+ L G R F+ + G E D WV Sbjct: 264 MKLNVRQIDLMADALRNLTEEVRLAERELMALCIDRAGFPRKEFVRSYPGHESDIAWVD- 322 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A+ + + D I+ + ++ I G+ I+E + ++ GE +A AKK Sbjct: 323 AQIAAGRPYSPMMLVLRDEIVAVMTQLADIEERAGLPIAEIKEASRLMSIGEAKARRAKK 382 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 383 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 442 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A ++ MP + +RKV Sbjct: 443 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAARMEMPEDKIRKV 502 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREE 625 LKI KEPIS+ETPIGD++ SHLGDFIED+N +P D+A+ A +RE +L LTPRE Sbjct: 503 LKIAKEPISMETPIGDDEDSHLGDFIEDRNVAAPTDAAVNAAIREVVEELLDTGLTPREA 562 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +VLRMRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSF+DG Sbjct: 563 KVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSERLRSFVDG 619 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 61/169 (36%), Positives = 92/169 (54%), Gaps = 9/169 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDD---LEDE 86 K++I +++GY+T E+N LP D EQME+ + M+++MGI V + DD L D Sbjct: 11 KRLIARGKEQGYLTYREINDLLPEDVFDPEQMENVITMINDMGIEVFEEAPDDETLLMDN 70 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 EG+ + + D T DPVRMY+REMG++ELL+REGEI IA+RI Sbjct: 71 EGNPIVAAQEAEEAAEEALAVVEADIG--RTSDPVRMYMREMGTVELLTREGEIEIARRI 128 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 E G ++ ++ P T L+ ++ G L E++D A I P + Sbjct: 129 EDGLLQVLRAVSTCPTTIALLLEAAQKVEQGELRLDEVVD--AFIDPNA 175 >gi|322421611|ref|YP_004200834.1| RpoD subfamily RNA polymerase sigma-70 factor [Geobacter sp. M18] gi|320127998|gb|ADW15558.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M18] Length = 583 Score = 403 bits (1035), Expect = e-110, Method: Compositional matrix adjust. Identities = 212/413 (51%), Positives = 293/413 (70%), Gaps = 20/413 (4%) Query: 279 KVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV----LKEKLVKLVGSLSLNQSR 334 +V+ +DEI E+ + + +Q A+ G+ K S LK K+ + + SL L Sbjct: 181 RVLGIIDEIKEMDQRMEQIQ-TALEGKVSAKESDALNSEHGELKVKMAETLKSLRLKDRH 239 Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD----F 390 I+ + ++L ++S ++ E+ + +DVFL +G + ++K Sbjct: 240 IEKIAQRLKELSCKVDTVMQEVAEFEKETSTVKDVFLTAFEGLK-SASEADFSKKMHMTL 298 Query: 391 PEGEW--KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 EG+ K + + E + +K I E+G SE + + + +GE +A +AK E+ Sbjct: 299 EEGQKLEKRYRSSEAN--------LKKIEQESGFKASELANALLAIEEGEHKAKLAKSEL 350 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 351 VEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAI 410 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEIA+++A+P++ VRKVLK Sbjct: 411 TRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPLDKVRKVLK 470 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPISLETPIG+E+ SHLGDFIEDK VSPL++ I+ANL E T+RVL++LTPREE+VL Sbjct: 471 IAKEPISLETPIGEEEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVL 530 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+KKL+SF++ Sbjct: 531 RMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE 583 >gi|32034495|ref|ZP_00134667.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126208939|ref|YP_001054164.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae L20] gi|307257544|ref|ZP_07539308.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|126097731|gb|ABN74559.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 5b str. L20] gi|306863980|gb|EFM95899.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 10 str. D13039] Length = 619 Score = 403 bits (1035), Expect = e-110, Method: Compositional matrix adjust. Identities = 213/395 (53%), Positives = 275/395 (69%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + LR + A+ QK +S K + + L + L + DLLVE + + K Sbjct: 225 EKFYALREQHEKALQAIQKHGRSHKKSREQIQALSDIFREFRLVPKQFDLLVESMQKMMK 284 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 ++ E ++ R A Y +K+ FL+ QG E W+ A + +G +A +D I Sbjct: 285 QVRSEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWIEKAINAKKGAAPK-LANYIDQI 343 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + ++ + TG++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 344 RVNIDNLQRMEQTTGLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNR 403 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 404 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 463 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D S Sbjct: 464 ETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDS 523 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFI+D++ PLDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVG Sbjct: 524 HLGDFIQDESLELPLDSATAESLRLATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVG 583 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 584 KQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 618 >gi|295701329|ref|YP_003610330.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295441652|gb|ADG20819.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 663 Score = 402 bits (1034), Expect = e-110, Method: Compositional matrix adjust. Identities = 254/660 (38%), Positives = 371/660 (56%), Gaps = 58/660 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG---------DD 82 + +I+L ++RGY+T E+N LP + + +E V+ ++MG+ V + +D Sbjct: 51 RALIQLGKERGYLTHAEINDHLPDNFAQTAAIETIVSTFNDMGVAVYEQAPSAEVLLMND 110 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +D D + + SSV DS T DP RMY+REMG+ LL+R GEI I Sbjct: 111 ATPATMLDDQADEEAEVALSSV------DSEFGRTTDPFRMYMREMGATGLLTRAGEIEI 164 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ SP T A+++ ++ G + E++D G Sbjct: 165 AKRIEGGLHEMVQAIAVSPATVSAILLSAKQIEAGELRIDELVD-----------GINAE 213 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 TE S E+ D E E D E A + DD D E++E ++R Sbjct: 214 TE----------SVEQSSTDFAE-EPDTEQA---TADDDGGGD---EHSEIEDR------ 250 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 D+A + A QL + + E++ ++ Q A G K V L+E + Sbjct: 251 -DTARSNEARLKQLTSDSLVIFARVRELFEQISGSQ--AAQG----KGRVARADLREAIQ 303 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDP 381 + + + ID L + ++ E +L++A G+ R+ F+E QGRE D Sbjct: 304 RELAPIRFTARTIDRLCNAVQQQVAQVRAVERHILQIAVDRCGMPREKFVESFQGRETDL 363 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W S + E+ + + +I + ++ I + G+ + + + I + E + Sbjct: 364 AW-SESTAAASREYGAALERSLPAIQAEQRKLLDIETKVGLPLQQLKKINRQMMAAESKM 422 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK+EM+EANLRLVIS+AKKY NRG+ FLDLIQEGNIGLMKA +KF++ G+KFSTYA Sbjct: 423 LQAKREMIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYAT 482 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WWV+QA+TRS+ADQ+ TIRIPVHM + I+K+ R +R + + RE P +A+++ +P E Sbjct: 483 WWVRQAVTRSLADQARTIRIPVHMMESINKLNRISREILQQTGREAHPAVLAQRMEVPEE 542 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR +LKI ++P+SLETP+GDE + L D IED A SP D+A+QANLR L +L+ Sbjct: 543 KVRAMLKIGRQPLSLETPVGDEADTTLSDVIEDPMATSPADAAVQANLRAAINTALDALS 602 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE +VLRMRFGI +D TLEE+GKQF +TRERIRQIE+KA+RKL HP+R+ KLR FLD Sbjct: 603 PREAKVLRMRFGIDTASDCTLEELGKQFDLTRERIRQIESKAMRKLMHPNRTAKLRPFLD 662 >gi|165976903|ref|YP_001652496.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|303252483|ref|ZP_07338647.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307248518|ref|ZP_07530536.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307250749|ref|ZP_07532682.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307261955|ref|ZP_07543613.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|165877004|gb|ABY70052.1| RNA polymerase sigma factor [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|302648684|gb|EFL78876.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306854994|gb|EFM87179.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306857217|gb|EFM89340.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306868366|gb|EFN00185.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 12 str. 1096] Length = 619 Score = 402 bits (1033), Expect = e-110, Method: Compositional matrix adjust. Identities = 213/395 (53%), Positives = 275/395 (69%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + LR + A+ QK +S K + + L + L + DLLVE + + K Sbjct: 225 EKFYALREQHEKALQAIQKHGRSHKKSREQIQALSDIFREFRLVPKQFDLLVESMQKMMK 284 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 ++ E ++ R A Y +K+ FL+ QG E W+ A + +G +A +D I Sbjct: 285 QVRSEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWIEKAINAKKGAAPK-LANYIDQI 343 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + ++ + TG++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 344 RVNIDNLQRMEQTTGLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNR 403 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 404 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 463 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D S Sbjct: 464 ETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDS 523 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFI+D++ PLDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVG Sbjct: 524 HLGDFIQDESLELPLDSATAESLRLATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVG 583 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 584 KQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 618 >gi|121997892|ref|YP_001002679.1| RpoD family RNA polymerase sigma factor [Halorhodospira halophila SL1] gi|121589297|gb|ABM61877.1| RNA polymerase, sigma 70 subunit, RpoD [Halorhodospira halophila SL1] Length = 602 Score = 402 bits (1033), Expect = e-110, Method: Compositional matrix adjust. Identities = 213/398 (53%), Positives = 280/398 (70%), Gaps = 5/398 (1%) Query: 287 IAEVYRELRSLQDNAVNGQKDEKS-SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 +AE++ LR+ + E S S + L+ +L ++ S+ +D + ++L Sbjct: 206 VAELFERLRAAYNEMQEVLATEGSASPRIAELRGELEEVFLSIKFTPKVVDAVADRLRGT 265 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWK-NFVACEV 403 I E E++ L G + R F++ Q RE DP W+ EGE + + Sbjct: 266 VDTIRAREREIMNLCTREGRMARKEFVKSFQDRETDPTWLDDL--LAEGEERAERLQPHA 323 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 ++I K ++E+K I+ + G+S++E + I + GE +A AKKEMVEANLRLVIS+AKKY Sbjct: 324 EAIRKAQSELKEIADKNGLSVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKY 383 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 384 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 443 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+ R +R+M ++ RE TPEE+A+++ MP + VRKVLKI KEPIS+ETPIGD+ Sbjct: 444 HMIETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKVRKVLKIAKEPISMETPIGDD 503 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIED + SP+DSA LRE+ VL+ LTPRE +VLRMRFGI MNTDHTLE Sbjct: 504 EDSHLGDFIEDTSVTSPVDSATSEGLRESVREVLSGLTPREAKVLRMRFGIDMNTDHTLE 563 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGKQF VTRERIRQIEAKA+RKL+HP+RS LRSFL+ Sbjct: 564 EVGKQFDVTRERIRQIEAKALRKLRHPTRSDGLRSFLE 601 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 58/158 (36%), Positives = 91/158 (57%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I +++G++T E+N LP D V +Q++D + M+++MGINV D D+L Sbjct: 10 KQLIAKGKEQGFLTYAEVNDHLPDDIVDPDQIDDIIGMINDMGINVHETAPDSDELL--- 66 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +E ++ + + D+ T DPVRMY+REMGS+ELL+REGEI +AKRIE Sbjct: 67 LAETTVATDEDEAEEAAAALAAVDAEFGRTTDPVRMYMREMGSVELLTREGEIQLAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G +A+L P + LI+ D +G L +I+ Sbjct: 127 DGLDRALAALSSYPEAARQLIMLYDRAQEGEARLTDIV 164 >gi|303250977|ref|ZP_07337166.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307253124|ref|ZP_07535005.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302650194|gb|EFL80361.1| RNA polymerase sigma factor RpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306859418|gb|EFM91450.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 619 Score = 401 bits (1031), Expect = e-109, Method: Compositional matrix adjust. Identities = 212/395 (53%), Positives = 273/395 (69%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + LR + A+ QK +S K + + L + L + DLLVE + + K Sbjct: 225 EKFYALREQHEKALQAIQKHGRSHKKSREQIQALSDIFREFRLVPKQFDLLVESMQKMMK 284 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 ++ E ++ R A Y +K+ FL+ QG E W+ A + +G +D I Sbjct: 285 QVRSEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWIEKAINAKKGAAPKLTNY-IDQI 343 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + ++ + TG++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 344 RVNIDNLQRMEQTTGLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNR 403 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 404 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 463 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D S Sbjct: 464 ETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDS 523 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFI+D++ PLDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVG Sbjct: 524 HLGDFIQDESLELPLDSATAESLRLATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVG 583 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 584 KQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 618 >gi|261855081|ref|YP_003262364.1| RNA polymerase, sigma 70 subunit, RpoD [Halothiobacillus neapolitanus c2] gi|261835550|gb|ACX95317.1| RNA polymerase, sigma 70 subunit, RpoD [Halothiobacillus neapolitanus c2] Length = 608 Score = 400 bits (1028), Expect = e-109, Method: Compositional matrix adjust. Identities = 205/377 (54%), Positives = 281/377 (74%), Gaps = 10/377 (2%) Query: 307 DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGI 365 DE+S L ++LV+L LN + + L+EQ+ RI E +++ A G+ Sbjct: 236 DERSPEYLASLADQLVQL----KLNPAFNEKLLEQIRQAIARIRLLEKQIMHQAVDKGGL 291 Query: 366 KRDVFLERHQGRELDPHWVSYA-KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 KR+ F+E + E D WV A K P ++ V E++ +++ + +++ ++ +++ Sbjct: 292 KRETFIEAFRSNESDIGWVKVATKGKPTAKFSQ-VQPEIE---RLQKRLNTVARDSKLTV 347 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ R + ++ GE +A AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 348 AQTREVHRLITLGEAKARRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 407 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 408 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 467 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 RE TPEE+A+++ +P + +RKVLKI KEPIS+ETPIG++D S+LGDFIED++A+SP+DSA Sbjct: 468 REATPEELAERMDLPEDKIRKVLKIAKEPISMETPIGEDDDSNLGDFIEDQSAISPMDSA 527 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A+L E +LASLTPRE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 528 TNASLSEIVREILASLTPREAKVLMMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKAL 587 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS++LRSF++ Sbjct: 588 RKLRHPSRSERLRSFIE 604 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 59/160 (36%), Positives = 93/160 (58%), Gaps = 5/160 (3%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLED 85 S K +I R++GY+T E++ LP V ++Q+ED + M+ MGI+V DGDDL Sbjct: 8 SIKSLIARGREQGYLTYAEISDHLPEALVDADQIEDIIGMIQEMGISVSEVAPDGDDLGL 67 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 + S + D ++ +V L + D+ T DPVRMY+REMG+++LL+R+GEI IAKR Sbjct: 68 ADESRAASDEDATEEAVAV-LASQVDAEFGRTTDPVRMYMREMGTVDLLNRQGEIEIAKR 126 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IE G + +L P T + L+ + G ++++I Sbjct: 127 IEEGLIDVTRALAFYPPTIETLLEHYARIEAGDLRMQDVI 166 >gi|21672345|ref|NP_660412.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|401010|sp|P32001|RPOD_BUCAP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|144139|gb|AAA73234.1| sigma factor [Buchnera aphidicola] gi|21622948|gb|AAM67623.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 617 Score = 399 bits (1026), Expect = e-109, Method: Compositional matrix adjust. Identities = 214/403 (53%), Positives = 279/403 (69%), Gaps = 19/403 (4%) Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLK-EKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E +RELR N N K++ + + +L+ L ++ L + D LV + ++ Sbjct: 223 EKFRELRKQYTNTSNTIKNKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMN 282 Query: 348 RIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWV--------SYAKDFPEGEWKNF 398 R+ E ++++L + I + +FL+ G+E D +W S++K E + K F Sbjct: 283 RVRKQERKIMKLCIEECKIPKKIFLKIFSGKETDQNWFKKEQSSNQSWSKKLEEIKEKVF 342 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + + ++K I ETG++I + + I + GE +A AKKEMVEANLRLVIS Sbjct: 343 SSMK---------KLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVIS 393 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 394 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 453 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P + +RKVLKI KEPIS+ET Sbjct: 454 IRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMET 513 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD+D SHLGDFIED PLDSA +LR T VL+ LT RE +VLRMRFGI MNT Sbjct: 514 PIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREAKVLRMRFGIDMNT 573 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 574 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 616 Score = 107 bits (267), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 67/176 (38%), Positives = 101/176 (57%), Gaps = 9/176 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + + SEQ++D + M+++MGI VV D DDL E Sbjct: 10 KLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 INTDTDEDAVEAATQ--VLSSVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 G + +S+ E P L+ D + G L +II + P ++ F H T Sbjct: 127 EGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRLSDIIT--GFVDPNAEEIFSHST 180 >gi|307246390|ref|ZP_07528466.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307255376|ref|ZP_07537186.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307259826|ref|ZP_07541544.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306852723|gb|EFM84952.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306861685|gb|EFM93669.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306866124|gb|EFM97994.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 619 Score = 398 bits (1023), Expect = e-108, Method: Compositional matrix adjust. Identities = 212/395 (53%), Positives = 274/395 (69%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + LR + A+ QK +S K + + L + L + DLLVE + + K Sbjct: 225 EKFYALREQHEKALQAIQKHGRSHKKSREQIQALSDIFREFRLVPKQFDLLVESMQKMMK 284 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 ++ E ++ R A Y +K+ FL+ QG E W+ A + +G +A +D I Sbjct: 285 QVRSEERQIQRYAVEYAQMKKADFLKLFQGNETSEEWIEKAINAKKGAAPK-LANYIDQI 343 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + ++ + TG++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 344 RVNIDNLQRMEQTTGLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNR 403 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 404 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 463 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D S Sbjct: 464 ETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDS 523 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFI+D++ PLDSA +LR T VL LT RE +VLRMRFGI MNTDHTLEEVG Sbjct: 524 HLGDFIQDESLELPLDSATAESLRLATNEVLEGLTLREAKVLRMRFGIDMNTDHTLEEVG 583 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 584 KQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 618 >gi|329898803|ref|ZP_08272472.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088] gi|328920738|gb|EGG28203.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088] Length = 600 Score = 396 bits (1018), Expect = e-108, Method: Compositional matrix adjust. Identities = 212/400 (53%), Positives = 278/400 (69%), Gaps = 7/400 (1%) Query: 286 EIAEVYRELRSLQDNA--VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E A+ ++ELR + +K +S V K L +KL ++ L D L++ Sbjct: 203 EAAKRFKELRKQWEKTEKALAEKGRQSKVTLKEL-DKLGEVFKFFKLTPRVFDPLLDMAR 261 Query: 344 DISKRIMHNEGELLRLAQSY-GIKRDVFLERHQGRELDPHWVS-YAKDFPEGEWKNFVAC 401 D+ + + E E++ + + + R F++ G E + W+ K PE K + Sbjct: 262 DVLQEVRTQEREIMTICVRHCSVPRKAFIDSFVGNETNEAWLDDLIKKAPERAAK--LEA 319 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 + D++++++ I + ++G+S+SE + I + GE A AKKEMVEANLRLVIS+AK Sbjct: 320 DRDTLMRLQRRIIATEEKSGLSVSEIKEINRRMSMGEARARRAKKEMVEANLRLVISIAK 379 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 380 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 439 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + VRKVLKI KEPIS+ETPIG Sbjct: 440 PVHMIETINKLNRISRQMLQEMGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIG 499 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED SP+DSA L+E TT VLA LT RE +VLRMRFGI MNTDHT Sbjct: 500 DDEDSHLGDFIEDVTIASPVDSATGQGLQEATTEVLAGLTAREAKVLRMRFGIDMNTDHT 559 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HP+RS LRSFLD Sbjct: 560 LEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFLD 599 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 55/134 (41%), Positives = 84/134 (62%), Gaps = 7/134 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D+L E Sbjct: 12 KSLIAKGKEQGYLTYSEVNDHLPEDISDPDQVEDIIQMINDMGIQVFEEAPDADELLMTE 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G + D+A++ + +++ + + T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 72 GDSSADDIAAAEAAAALAAVETEAG---RTTDPVRMYMREMGTVELLTREGEIVIAKRIE 128 Query: 148 AGRAMMMASLCESP 161 G +MA+L P Sbjct: 129 EGIRELMAALAHYP 142 >gi|115375627|ref|ZP_01462884.1| sigma factor [Stigmatella aurantiaca DW4/3-1] gi|310823184|ref|YP_003955542.1| RNA polymerase sigma factor rpod [Stigmatella aurantiaca DW4/3-1] gi|115367403|gb|EAU66381.1| sigma factor [Stigmatella aurantiaca DW4/3-1] gi|309396256|gb|ADO73715.1| RNA polymerase sigma factor RpoD [Stigmatella aurantiaca DW4/3-1] Length = 706 Score = 396 bits (1017), Expect = e-108, Method: Compositional matrix adjust. Identities = 208/377 (55%), Positives = 274/377 (72%), Gaps = 25/377 (6%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 L+ K+++++ + LN+ ++D +V L + +R+ E EL RD LER G Sbjct: 342 LRTKMMEVLEEMRLNKKQVDRIVLNLKQLIERVDKAEEEL----------RD--LERRNG 389 Query: 377 ---RELDPHWVSYAKDFPEGEWK-----NFVACEVDSILK-IRN---EIKSISVETGISI 424 +EL P + ++D P K NF +++++ + +R +IK + E + + Sbjct: 390 VSMKELRPQ-LKESRDNPNTAKKLQKQLNFTPEQLEALDRDVRTAVRKIKRVEEEANLPV 448 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 R +R GE A AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 449 DALRRNYDAIRLGERRAERAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKA 508 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + +I Sbjct: 509 VDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIG 568 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEEIA+K+ +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ Sbjct: 569 REPTPEEIAEKMELPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPADAV 628 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I NL E T +VLA+LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+ Sbjct: 629 INMNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL 688 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRSK+LRSF++ Sbjct: 689 RKLRHPSRSKRLRSFVE 705 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 47/155 (30%), Positives = 87/155 (56%), Gaps = 1/155 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ R++G++T +E+N LP D VSS+Q++D ++M + I +VD + Sbjct: 107 KDLLAAGREKGFLTYDEVNDALPADIVSSDQIDDVMSMFGDNDIEIVDAQKAAQSNEIKP 166 Query: 92 SLDLAS-SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ + S ++ D ++DPVR+YLR+MGS+ LL+REGE+ IAKRIE G Sbjct: 167 TVAVEEESKQDADADDDDEDDEPGGKSNDPVRLYLRKMGSVSLLTREGEVEIAKRIEDGE 226 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ ++ + ++ ++L G +R++I Sbjct: 227 KEVLRAMLACRVAVADILDIGNKLKTGKLRVRDVI 261 >gi|220936192|ref|YP_002515091.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. HL-EbGR7] gi|219997502|gb|ACL74104.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. HL-EbGR7] Length = 619 Score = 395 bits (1016), Expect = e-108, Method: Compositional matrix adjust. Identities = 211/400 (52%), Positives = 284/400 (71%), Gaps = 7/400 (1%) Query: 285 DEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYD 344 +E E + +LR++ + A+ G +K + K + ++E++ L +D L L++ Sbjct: 222 EEARERFTKLRAMYEEAM-GFAAKKHTAKYRKVREEMASYFMEFKLLPRFVDQLTADLHE 280 Query: 345 ISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKN--FVAC 401 + +RI E ++ + + R F+ E + W+ +G+ K+ +A Sbjct: 281 MVERIRMQERTVMDICVNRCNMPRKEFITAFPENETNLKWLDTQT---KGKSKHAKLLAE 337 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 D IL+I+ ++ +I E+ ++ISE + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 338 HKDEILRIQKKLVAIEDESNLTISEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 397 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 398 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 457 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ RE TPEE+++++ MP + VRKVLKI KEPIS+ETPIG Sbjct: 458 PVHMIETINKLNRISRQMLQEMGREATPEELSERMEMPEDKVRKVLKIAKEPISMETPIG 517 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED N +SP+++A + L E T VLASLTPRE +VLRMRFGI MNTDHT Sbjct: 518 DDEDSHLGDFIEDVNVMSPIEAATREGLSEATRDVLASLTPREAKVLRMRFGIDMNTDHT 577 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEMLRSFLD 617 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 58/161 (36%), Positives = 92/161 (57%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++G++T E+N LP V EQ+ED +AM+++MGI V ++ D Sbjct: 11 KELIAKGKEQGFLTYAEVNDHLPDTIVDPEQIEDIIAMINDMGIAV------HEQAPDSD 64 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTD-------DPVRMYLREMGSIELLSREGEIAIAK 144 SL L+ S ++ + +A S D DPVRMY+REMG++ELL+REGEI IAK Sbjct: 65 SLILSDSTVSTDEDAAEEAAAALASVDSEFGRTTDPVRMYMREMGTVELLTREGEIKIAK 124 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G ++ +L P + L+ D++ G L +++ Sbjct: 125 RIEDGLGQVLFALAHYPQSISTLLAEFDKVEAGEMKLTDLV 165 >gi|260222953|emb|CBA33035.1| RNA polymerase sigma factor rpoD [Curvibacter putative symbiont of Hydra magnipapillata] Length = 519 Score = 395 bits (1015), Expect = e-107, Method: Compositional matrix adjust. Identities = 236/574 (41%), Positives = 337/574 (58%), Gaps = 70/574 (12%) Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 +RMY+REMG++ELL+REGEI IAKRIE G MM ++ SP T ++ +E+ +G + Sbjct: 1 MRMYMREMGTVELLTREGEIEIAKRIEGGLMDMMEAISASPATIAEILRLGEEIREGKVV 60 Query: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 + I+D GF + E Y ED + E DD G Sbjct: 61 ITTIVD-----------GFSNPNEADDYVAEEDFDEFDEADDDDGKGG------------ 97 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 + L+ ++L+ + + D++ E++ ++ + D Sbjct: 98 -------------------------SKALTKKLEELKKQALERFDKMRELFEKVHKVYDK 132 Query: 301 AVNGQKDEKSSVKC-KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 G + VK K L ++L+ + + + D++ Q+ D+ K+ E EL R+ Sbjct: 133 EGYGTP---AYVKAQKALSDELMTIRFTAKAIEKLCDMVRAQVDDVRKK----ERELRRI 185 Query: 360 -AQSYGIKRDVFLERHQGRE----------LDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 G ++ F+ GR+ L+ W+ K G+ W + + + Sbjct: 186 IVDKCGYPQENFIADFSGRDKAGNKVASNLLNLKWIE--KQAASGKSWAAVMGRNIPPVQ 243 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 ++ ++ + + + + + + I + +GE + AKKEM+EANLRLVIS+AKKYTNRG Sbjct: 244 DLQQKLIDLQAQVVVPLDQLKDINKRMNEGEYASRAAKKEMIEANLRLVISIAKKYTNRG 303 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 304 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 363 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+ + EP +A+K+ +P + +RK++KI KEPIS+ETPIGD+D SH Sbjct: 364 TINKMNRISRQHLQEFGFEPDASVLAEKMEIPEDKIRKIMKIAKEPISMETPIGDDDDSH 423 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED +P+++A+QA LR+ +L SLTPRE +VLRMRFGI M +DHTLEEVGK Sbjct: 424 LGDFIEDSANTAPMEAAMQAGLRDVVKDILDSLTPREAKVLRMRFGIEMTSDHTLEEVGK 483 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKLKHPSRS KLRSF D Sbjct: 484 QFDVTRERIRQIEAKALRKLKHPSRSDKLRSFTD 517 >gi|257464575|ref|ZP_05628946.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202] gi|257450235|gb|EEV24278.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202] Length = 621 Score = 395 bits (1015), Expect = e-107, Method: Compositional matrix adjust. Identities = 207/381 (54%), Positives = 269/381 (70%), Gaps = 8/381 (2%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY- 363 QK ++ K + L + L + DLLV + + K++ E ++ R A Y Sbjct: 244 QKHGRTHAKAREQINALSDIFREFRLVPKQFDLLVGSMQKLMKQVRAEERQIQRYAVEYA 303 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEG---EWKNFVACEVDSILKIRNEIKSISVET 420 G+K+ FL+ Q E W+ A + +G + N+V +I+ ++N + ++ Sbjct: 304 GMKKADFLKAFQNNETTEAWIEKAINAKKGGAPKLANYVEKIRINIVNLQN----LEQQS 359 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 360 GLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 419 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 420 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQCL 479 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFI+D++ P Sbjct: 480 QEMGREATPEELAERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIQDESLELP 539 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 540 LDSATAESLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 599 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS+ LRSFLD Sbjct: 600 AKALRKLRHPSRSETLRSFLD 620 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 51/133 (38%), Positives = 80/133 (60%), Gaps = 11/133 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I R++GY+ + E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 18 LIAQGREQGYLILSEVHDHLPEELVDAEQIEDIIQMITDMGIQVLETAPDTDE------L 71 Query: 94 DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 LA + ++ V + K +S T DPVRMY+REMG++ELL+RE EI I+KRIE Sbjct: 72 MLAENITDEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREDEIQISKRIEE 131 Query: 149 GRAMMMASLCESP 161 G + ++ E P Sbjct: 132 GINEVQCAVAEYP 144 >gi|240948851|ref|ZP_04753207.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305] gi|240296666|gb|EER47277.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305] Length = 621 Score = 395 bits (1015), Expect = e-107, Method: Compositional matrix adjust. Identities = 207/381 (54%), Positives = 269/381 (70%), Gaps = 8/381 (2%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY- 363 QK ++ K + L + L + DLLV + + K++ E ++ R A Y Sbjct: 244 QKHGRTHAKAREQINALSDIFREFRLVPKQFDLLVGSMQKLMKQVRAEERQIQRYAVEYA 303 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEG---EWKNFVACEVDSILKIRNEIKSISVET 420 G+K+ FL+ Q E W+ A + +G + N+V +I+ ++N + ++ Sbjct: 304 GMKKADFLKAFQNNETTEAWIEKAINAKKGGVPKLANYVEKIRINIVNLQN----LEQQS 359 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G++I++ R I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 360 GLTIAQIREIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 419 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 420 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQCL 479 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFI+D++ P Sbjct: 480 QEMGREATPEELAERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIQDESLELP 539 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSA +LR T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 540 LDSATAESLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 599 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS+ LRSFLD Sbjct: 600 AKALRKLRHPSRSETLRSFLD 620 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 51/133 (38%), Positives = 80/133 (60%), Gaps = 11/133 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I R++GY+ + E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 18 LIAQGREQGYLILSEVHDHLPEELVDAEQIEDIIQMITDMGIQVLETAPDTDE------L 71 Query: 94 DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 LA + ++ V + K +S T DPVRMY+REMG++ELL+RE EI I+KRIE Sbjct: 72 MLAENITDEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREDEIQISKRIEE 131 Query: 149 GRAMMMASLCESP 161 G + ++ E P Sbjct: 132 GINEVQCAVAEYP 144 >gi|118581452|ref|YP_902702.1| RpoD family RNA polymerase sigma factor [Pelobacter propionicus DSM 2379] gi|118504162|gb|ABL00645.1| RNA polymerase, sigma 70 subunit, RpoD [Pelobacter propionicus DSM 2379] Length = 582 Score = 395 bits (1014), Expect = e-107, Method: Compositional matrix adjust. Identities = 181/276 (65%), Positives = 233/276 (84%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +L ++K I +E+G SE + + +GEC+A IAK E++EANLRLV+S+AKKYTN Sbjct: 307 LLSTARKLKKIELESGFKASELSAALQAIEEGECKARIAKSELIEANLRLVVSIAKKYTN 366 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 367 RGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 426 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++RT+R++ + REP PEEIA+++ +P++ VRKVLKI KEPISLETPIG+E+ Sbjct: 427 IETINKLIRTSRQLVQENGREPAPEEIAERMQLPLDKVRKVLKIAKEPISLETPIGEEED 486 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIEDK +SP+++ I+ANL E T+RVL++LTPREE+VLRMRFGIG +DHTLEEV Sbjct: 487 SHLGDFIEDKAVISPIEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEV 546 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ F VTRERIRQIEAKA+RKL+HPSRSKKL+SF++ Sbjct: 547 GQDFAVTRERIRQIEAKALRKLRHPSRSKKLKSFVE 582 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 53/146 (36%), Positives = 88/146 (60%), Gaps = 2/146 (1%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I L +++G++T EE+N LPPD +++EQ++D + M ++ I +VD Sbjct: 7 DGVKQLIDLGKEKGFLTFEEVNDILPPD-IATEQIDDVMGMFGDLDIEIVDSAQKVKIPK 65 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ++ A + ++ S R T DPVRMYLREMGS+ LL+REGE+ IAKRIE Sbjct: 66 MKLEMEEEEEAEGEAEEVEFEPGSIGR-TSDPVRMYLREMGSVSLLTREGEVEIAKRIED 124 Query: 149 GRAMMMASLCESPLTFQALIIWRDEL 174 G + + + +P+T + ++ D+L Sbjct: 125 GERDVASVILNTPITIKEVLQLGDKL 150 >gi|222053802|ref|YP_002536164.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] gi|221563091|gb|ACM19063.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] Length = 586 Score = 395 bits (1014), Expect = e-107, Method: Compositional matrix adjust. Identities = 208/416 (50%), Positives = 290/416 (69%), Gaps = 23/416 (5%) Query: 279 KVMCALDEIAEVYRELR----SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSR 334 +++ +DEI + R + +L+ + ++ E + + K KL +L+ SL L Sbjct: 181 RLLATIDEIRDHDRRMEEIFLALEQTTLPAKEREALLAEQRDFKAKLAELLKSLRLKDRH 240 Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 I+ + ++L ++S ++ E+ L + G+ +L AK P+ E Sbjct: 241 IEKISQRLKELSHKVDKMMHEIADLEKEAGV---------SSADLAAMLGKMAKG-PDEE 290 Query: 395 WKNF--VACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEASIAK 445 K + ++ + K+ KS I E+G SE + + +GE +A +AK Sbjct: 291 KKVLKKLGISLEDVQKLEKRFKSAERKLKKIEQESGFKASELSTALQAIEEGEHKAKLAK 350 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 351 SELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIR 410 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITR+IADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEIA+++++P++ VRK Sbjct: 411 QAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMSLPLDKVRK 470 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPISLETPIG+E+ SHLGDFIEDK VSPL++ I+ANL E T+RVL++LTPREE Sbjct: 471 VLKIAKEPISLETPIGEEEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREE 530 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+KKL+SF++ Sbjct: 531 KVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE 586 Score = 104 bits (260), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 58/147 (39%), Positives = 88/147 (59%), Gaps = 3/147 (2%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I L +++G++T EE+N LPPD VSSEQ++D ++M +M I +VD + + Sbjct: 7 DEVKQLIDLGKEKGFLTYEEVNDLLPPDIVSSEQIDDVMSMFGDMDIEIVDSA--QKVKI 64 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + LDL + + T DPVRMYLREMGS+ LL+REGE+ IAKRIE Sbjct: 65 PKVKLDLEDEEEMEGEQEEVEFEPGTLGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDEL 174 G + + + +P+T + +I D+L Sbjct: 125 VGERDVASVILNTPITVKEVISLGDKL 151 >gi|330448778|ref|ZP_08312425.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492969|dbj|GAA06922.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 616 Score = 394 bits (1013), Expect = e-107, Method: Compositional matrix adjust. Identities = 212/402 (52%), Positives = 273/402 (67%), Gaps = 17/402 (4%) Query: 289 EVYRELRSLQDNA-----VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E + ELR+ D NG++D+++ + E+L ++ L + D LV L Sbjct: 222 EKFLELRNAYDKMALAIDTNGRQDKQTEIAV----EELSEVFKQFRLIPKQFDRLVSSLR 277 Query: 344 DISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 D ++ NE ++R+ + + + F+ G E + W+ A + + + E Sbjct: 278 DAMDKVRTNERLIMRMCVDNSKMPKKTFVTLFAGNEANQDWIDEALNSGKPYAERLKTYE 337 Query: 403 VD---SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 D S +K+R + ETG+SI + I + GE +A AKKEMVEANLRLVIS+ Sbjct: 338 EDLRRSAIKLR----MLEEETGLSIERIKDISRRMSIGEAKARRAKKEMVEANLRLVISI 393 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TI Sbjct: 394 AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 453 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETP Sbjct: 454 RIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETP 513 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IGD++ SHLGDFIED P+D+A NLR T VLA LTPRE +VLRMRFGI MNTD Sbjct: 514 IGDDEDSHLGDFIEDTTLQLPMDAATATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTD 573 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 HTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFLD Sbjct: 574 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFLD 615 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 59/142 (41%), Positives = 88/142 (61%), Gaps = 11/142 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLE-DE 86 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+L E Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADELMMTE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + +++ A++ + SSV +S T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 DNADEDAIEAAAQALSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALI 168 E G + S+ E P L+ Sbjct: 124 EDGINQVQCSVAEYPSAIAHLL 145 >gi|254480921|ref|ZP_05094167.1| Sigma-70, non-essential region family [marine gamma proteobacterium HTCC2148] gi|214038716|gb|EEB79377.1| Sigma-70, non-essential region family [marine gamma proteobacterium HTCC2148] Length = 605 Score = 394 bits (1012), Expect = e-107, Method: Compositional matrix adjust. Identities = 206/364 (56%), Positives = 261/364 (71%), Gaps = 3/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGR 377 EKL +L L D + + +I + E E++R+A + G+ R F+ QG Sbjct: 243 EKLGELFKFFKLTPRVFDPISDTPRNILAAVRDQEREIMRIAIKVCGMPRKDFISTFQGS 302 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E D W+S + + ++ + E + I +++ I++I + G+ ISE + I + G Sbjct: 303 ESDLKWLS--RQARKKDYGPKLNAEKEIIHRLQRRIQAIEGQCGLQISEIKEINRRMSMG 360 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 361 EARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 420 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 421 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMD 480 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+DSA L+E T VL Sbjct: 481 MPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTISSPVDSATGQGLQEATKDVL 540 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS LR Sbjct: 541 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLR 600 Query: 678 SFLD 681 SFLD Sbjct: 601 SFLD 604 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 53/141 (37%), Positives = 88/141 (62%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D+L E Sbjct: 12 KALIAKGKEQGYLTYAEVNDHLPQDISDPDQVEDIIQMINDMGIQVFEQAPDADELLMTE 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G + D+A++ + +++ + + T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 72 GDRSADDIAAAEAAAALAAVETEAG---RTTDPVRMYMREMGTVELLTREGEIVIAKRIE 128 Query: 148 AGRAMMMASLCESPLTFQALI 168 G ++++L P ++++ Sbjct: 129 EGIRELLSALALYPGAVKSIL 149 >gi|77163592|ref|YP_342117.1| hypothetical protein Noc_0045 [Nitrosococcus oceani ATCC 19707] gi|254436143|ref|ZP_05049650.1| Sigma-70, non-essential region family [Nitrosococcus oceani AFC27] gi|76881906|gb|ABA56587.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus oceani ATCC 19707] gi|207089254|gb|EDZ66526.1| Sigma-70, non-essential region family [Nitrosococcus oceani AFC27] Length = 602 Score = 394 bits (1011), Expect = e-107, Method: Compositional matrix adjust. Identities = 213/401 (53%), Positives = 283/401 (70%), Gaps = 11/401 (2%) Query: 284 LDEIAEVYRELRSLQD--NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 LD + E + +LR L + A + + ++++ + +L KLV LS L+E Sbjct: 205 LDRVREQFTQLRELYERYQAADLKDNDRALAELSECFLQL-KLVPRLSQR------LIEN 257 Query: 342 LYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVA 400 L + I E ++++A S + R FL Q +E + +WV + + + + Sbjct: 258 LRGVVAEIRVLERSIMKIAVNSAQMPRKDFLSSFQKQETNLNWVE-KHIRAKKHYSSVLR 316 Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 + D+I K + ++ + G+SI++ + I + GE A AKKEMVEANLRLVIS+A Sbjct: 317 KQGDAIQKAQEKLIVLEQRAGMSITQIKEINRSLSIGEARARRAKKEMVEANLRLVISIA 376 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIR Sbjct: 377 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 436 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPVHM + I+K+ R +R+M ++ REPTP+E+A+++ MP + VRKVLKI +EPIS+ETPI Sbjct: 437 IPVHMIETINKLNRVSRQMLQEMGREPTPDELAERVEMPKDKVRKVLKIAREPISMETPI 496 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GD++ SHLGDF+ED +SP DSAI + LRETT +LA LTPRE +VLRMRFGI MNTDH Sbjct: 497 GDDEDSHLGDFVEDAAVISPPDSAIFSGLRETTQLILAGLTPREAKVLRMRFGIDMNTDH 556 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 557 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 597 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 52/137 (37%), Positives = 75/137 (54%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I + RGY++ E+N LP D + EQ+ED + M ++MGI+V + D D Sbjct: 14 KLLIARGKDRGYLSYSEVNDHLPDDVIDPEQIEDIITMFNDMGISVHEDMAEADALAIMD 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + + + D T DPVRMY+REMGS+ELL+REGEI+IAKRIE G Sbjct: 74 TAVADDEVAEEAAAALVSVDGEFARTSDPVRMYMREMGSVELLTREGEISIAKRIEEGMR 133 Query: 152 MMMASLCESPLTFQALI 168 + +L P + L+ Sbjct: 134 QVYTALSRFPGSVAELL 150 >gi|198284073|ref|YP_002220394.1| RNA polymerase sigma-70 subunit RpoD [Acidithiobacillus ferrooxidans ATCC 53993] gi|198248594|gb|ACH84187.1| RNA polymerase, sigma 70 subunit, RpoD [Acidithiobacillus ferrooxidans ATCC 53993] Length = 631 Score = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 200/358 (55%), Positives = 260/358 (72%), Gaps = 5/358 (1%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSY 386 + LN +ID++ + L +++ + E EL+ L + R F+ + G E D W+ Sbjct: 270 IKLNGRQIDVMTDALRGLTEEVRQCERELMELCIERARFPRKEFVRSYPGHEGDIGWID- 328 Query: 387 AKDFPEGEWKNFVACEV-DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 + G + E D I+ I + +I G+ I+E + ++ GE +A AK Sbjct: 329 -QQIAAGHAYSTRLVEFRDDIVAIMKRLANIEKRAGLPIAEIKEASRLMSIGEAKARRAK 387 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 388 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 447 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RK Sbjct: 448 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMEMPEDKIRK 507 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPRE 624 VLKI KEPIS+ETPIGD++ SHLGDFIED+N +P DSA+ A +RE +L LT RE Sbjct: 508 VLKIAKEPISMETPIGDDEDSHLGDFIEDRNVTAPADSAVNAAIREVVEELLDNGLTARE 567 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +VLRMRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSF+DG Sbjct: 568 AKVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSERLRSFVDG 625 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 59/160 (36%), Positives = 88/160 (55%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDD---LEDE 86 K++I +++GY+T E+N LP + EQME+ ++M+++MGI V + DD L D Sbjct: 18 KRLIARGKEQGYLTYREINDHLPEEVFDPEQMENVISMINDMGIEVFEEAPDDDTLLMDG 77 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 EG + + D T DPVRMY+REMGS+ELL+REGEI IA+RI Sbjct: 78 EGGTVVAAQEAEEAAEEALAVVEADIG--RTSDPVRMYMREMGSVELLTREGEIEIARRI 135 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G ++ ++ P T L+ + G T L E++D Sbjct: 136 EDGLMQVLRAVSTCPTTISLLLDAAARVERGETRLDEVVD 175 >gi|152656|gb|AAA26473.1| sigma factor [Stigmatella aurantiaca] Length = 706 Score = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 207/377 (54%), Positives = 273/377 (72%), Gaps = 25/377 (6%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 L+ K+++++ + LN+ ++D +V L + +R+ E EL RD LER G Sbjct: 342 LRTKMMEVLEEMRLNKKQVDRIVLNLKQLIERVDKAEEEL----------RD--LERRNG 389 Query: 377 ---RELDPHWVSYAKDFPEGEWK-----NFVACEVDSILK-IRN---EIKSISVETGISI 424 +EL P + ++D P K NF +++++ + +R +IK + E + + Sbjct: 390 VSMKELRPQ-LKESRDNPNTAKKLQKQLNFTPEQLEALDRDVRTAVRKIKRVEEEANLPV 448 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 R +R GE A AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 449 DALRRNYDAIRLGERRAERAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKA 508 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + +I Sbjct: 509 VDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIG 568 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEEIA+K+ +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ Sbjct: 569 REPTPEEIAEKMELPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPADAV 628 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I NL T +VLA+LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+ Sbjct: 629 INMNLAARTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL 688 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRSK+LRSF++ Sbjct: 689 RKLRHPSRSKRLRSFVE 705 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 47/155 (30%), Positives = 87/155 (56%), Gaps = 1/155 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ R++G++T +E+N LP D VSS+Q++D ++M + I +VD + Sbjct: 107 KDLLAAGREKGFLTYDEVNDALPADIVSSDQIDDVMSMFGDNDIEIVDAQKAAQSNEIKP 166 Query: 92 SLDLAS-SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ + S ++ D ++DPVR+YLR+MGS+ LL+REGE+ IAKRIE G Sbjct: 167 TVAVEEESKQDADADDDDEDDEPGGKSNDPVRLYLRKMGSVSLLTREGEVEIAKRIEDGE 226 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ ++ + ++ ++L G +R++I Sbjct: 227 KEVLRAMLACRVAVADILDIGNKLKTGKLRVRDVI 261 >gi|90580773|ref|ZP_01236576.1| RNA polymerase sigma factor [Vibrio angustum S14] gi|90438041|gb|EAS63229.1| RNA polymerase sigma factor [Vibrio angustum S14] Length = 616 Score = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 213/398 (53%), Positives = 271/398 (68%), Gaps = 9/398 (2%) Query: 289 EVYRELRSLQDN-AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + ELR D A+ + + + + +V E+L ++ L + D LV L D Sbjct: 222 EKFLELRQAYDKMALAIETNGRQNATTEVAVEELSEVFKQFRLIPKQFDRLVSSLRDSMD 281 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD-- 404 ++ NE ++R+ + + + F+ G E W+ A + + + A E D Sbjct: 282 KVRTNERLIMRMCVDNSKMPKKTFVSLFAGNESSQDWIDEALNSGKPYAERLKAYEEDLR 341 Query: 405 -SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 S LK+R + ETG+SI + I + GE +A AKKEMVEANLRLVIS+AKKY Sbjct: 342 RSSLKLR----MLEEETGLSIERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKY 397 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 398 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 457 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+ Sbjct: 458 HMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDD 517 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + SHLGDFIED P+D+A NLR T VLA LTPRE +VLRMRFGI MNTDHTLE Sbjct: 518 EDSHLGDFIEDTTLQLPMDAATATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLE 577 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFLD Sbjct: 578 EVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFLD 615 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 63/159 (39%), Positives = 95/159 (59%), Gaps = 11/159 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLE-DE 86 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+L E Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADELMMTE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + +++ A++ + SSV +S T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 DNADEDAIEAAAQALSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G + S+ E P L+ D++ L +II Sbjct: 124 EDGINQVQCSVAEYPSAIAHLLEQFDKVEADELRLTDII 162 >gi|53802939|ref|YP_115383.1| RNA polymerase sigma-70 factor [Methylococcus capsulatus str. Bath] gi|53756700|gb|AAU90991.1| RNA polymerase sigma-70 factor [Methylococcus capsulatus str. Bath] Length = 599 Score = 393 bits (1009), Expect = e-107, Method: Compositional matrix adjust. Identities = 199/345 (57%), Positives = 253/345 (73%), Gaps = 2/345 (0%) Query: 338 LVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 L + L D +I E L + + G + + F+E G E D W+ D P + Sbjct: 254 LTDTLRDTVAKIREQERALTDICVTKGKMPKAEFIESFSGSETDEGWLDRVCD-PAKPYA 312 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + + I +I+ ++ I E + I+ + I V GE +A +AK+EM+EANLRLV Sbjct: 313 AAIKAHAEEIRRIQAKLAQIEKENRLDIALIKDIHRRVSAGENQARLAKREMIEANLRLV 372 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 373 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 432 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REPTP+E+A ++ MP + VRKV+KI KEPIS+ Sbjct: 433 RTIRIPVHMIETINKLNRISRQMLQEMGREPTPDELAARMDMPEDKVRKVMKIAKEPISM 492 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD+D SHLGDFIED +SP++ A A+LRETT +VLA LT RE +VLRMRFGI M Sbjct: 493 ETPIGDDDDSHLGDFIEDSRVLSPVEHATVASLRETTQQVLAGLTAREAKVLRMRFGIDM 552 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 553 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 597 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 57/158 (36%), Positives = 94/158 (59%), Gaps = 5/158 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I + +GY+T E+N LP D V EQMED + M+++MGI V + D ++E+ +D Sbjct: 11 KELIAKGKMQGYLTFSEVNDHLPSDIVDPEQMEDIICMINDMGIEVHE-DVPDNEDLIQD 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +A S + + + S+ + T DPVRMY+REMG++ELL+REGE++IAKRIE Sbjct: 70 TAVVAESDEDEAAEVAAALASSVDTELGRTTDPVRMYMREMGTVELLTREGELSIAKRIE 129 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + L P + + + +++G L ++I Sbjct: 130 EGLNIAANELVRFPAAMEHFLKAFETVDNGELRLSDLI 167 >gi|218665974|ref|YP_002426728.1| RNA polymerase sigma factor RpoD [Acidithiobacillus ferrooxidans ATCC 23270] gi|218518187|gb|ACK78773.1| RNA polymerase sigma factor RpoD [Acidithiobacillus ferrooxidans ATCC 23270] Length = 624 Score = 393 bits (1009), Expect = e-107, Method: Compositional matrix adjust. Identities = 200/358 (55%), Positives = 260/358 (72%), Gaps = 5/358 (1%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSY 386 + LN +ID++ + L +++ + E EL+ L + R F+ + G E D W+ Sbjct: 263 IKLNGRQIDVMTDALRGLTEEVRQCERELMELCIERARFPRKEFVRSYPGHEGDIGWID- 321 Query: 387 AKDFPEGEWKNFVACEV-DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 + G + E D I+ I + +I G+ I+E + ++ GE +A AK Sbjct: 322 -QQIAAGHAYSTRLVEFRDDIVAIMKRLANIEKRAGLPIAEIKEASRLMSIGEAKARRAK 380 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 381 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 440 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RK Sbjct: 441 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMEMPEDKIRK 500 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPRE 624 VLKI KEPIS+ETPIGD++ SHLGDFIED+N +P DSA+ A +RE +L LT RE Sbjct: 501 VLKIAKEPISMETPIGDDEDSHLGDFIEDRNVTAPADSAVNAAIREVVEELLDNGLTARE 560 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +VLRMRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSF+DG Sbjct: 561 AKVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSERLRSFVDG 618 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/160 (36%), Positives = 88/160 (55%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDD---LEDE 86 K++I +++GY+T E+N LP + EQME+ ++M+++MGI V + DD L D Sbjct: 11 KRLIARGKEQGYLTYREINDHLPEEVFDPEQMENVISMINDMGIEVFEEAPDDDTLLMDG 70 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 EG + + D T DPVRMY+REMGS+ELL+REGEI IA+RI Sbjct: 71 EGGTVVAAQEAEEAAEEALAVVEADIG--RTSDPVRMYMREMGSVELLTREGEIEIARRI 128 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G ++ ++ P T L+ + G T L E++D Sbjct: 129 EDGLMQVLRAVSTCPTTISLLLDAAARVERGETRLDEVVD 168 >gi|284008589|emb|CBA75169.1| RNA polymerase sigma-70 factor [Arsenophonus nasoniae] Length = 622 Score = 392 bits (1006), Expect = e-106, Method: Compositional matrix adjust. Identities = 202/364 (55%), Positives = 263/364 (72%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGR 377 E+L ++ L + D LV + D+ +R+ E +++L + + + F+ G Sbjct: 259 EQLSEIFKQFRLIPKQFDYLVNNMRDMMERVRSQERLIMKLCIEQCKMPKKNFITLFSGN 318 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + +W++ AK + + V E + I + +++ I ETG++I + + I + G Sbjct: 319 ETNVNWLAAAKAMNKPWSEKLVEVE-EEIQRSLQKLQQIEEETGLTIEQVKDINRRMSIG 377 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 378 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 437 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ Sbjct: 438 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERML 497 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 498 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHEVL 557 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 558 AGLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 617 Query: 678 SFLD 681 SFLD Sbjct: 618 SFLD 621 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 17 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLILAE 76 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 77 TATDTDDDAVEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 133 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ + G T L +II Sbjct: 134 DGINQVQCSVAEYPEAIAYLLDQYQRVEKGETRLSDII 171 >gi|268590608|ref|ZP_06124829.1| RNA polymerase sigma factor RpoD [Providencia rettgeri DSM 1131] gi|291314000|gb|EFE54453.1| RNA polymerase sigma factor RpoD [Providencia rettgeri DSM 1131] Length = 617 Score = 392 bits (1006), Expect = e-106, Method: Compositional matrix adjust. Identities = 203/374 (54%), Positives = 263/374 (70%), Gaps = 2/374 (0%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKR 367 +S K E+L ++ L + D LV + ++ R+ E +++L + + + Sbjct: 244 RSDAKTAAAIEQLSEVFKEFRLVPKQFDYLVNNMREMMDRVRLQERTIMKLCVEQCKMPK 303 Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W++ AK + + + E + IL+ ++ I ETG++I + Sbjct: 304 KNFITLFSGNETSETWLTAAKAMNKPWSEKLLEVE-EEILRCLQRLRQIEEETGLTIEQV 362 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 363 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 422 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 423 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 482 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 483 SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSE 542 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 543 SLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 602 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 603 RHPSRSEVLRSFLD 616 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLILAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|254491243|ref|ZP_05104424.1| Sigma-70, non-essential region family [Methylophaga thiooxidans DMS010] gi|224463756|gb|EEF80024.1| Sigma-70, non-essential region family [Methylophaga thiooxydans DMS010] Length = 610 Score = 391 bits (1005), Expect = e-106, Method: Compositional matrix adjust. Identities = 195/316 (61%), Positives = 244/316 (77%), Gaps = 2/316 (0%) Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +RD F++ QG E + +W + + + + D ++ ++++ IS + G+SIS Sbjct: 293 RRD-FIDSFQGNESNVNWAD-KHIRAKKHYSSTIKKHHDEVVAAQSKLAEISEDRGLSIS 350 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + I + E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 351 EIKEIARQMSISEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 410 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R AR+M ++ R Sbjct: 411 DKFEYQRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVARQMLQEMGR 470 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTP+E+A+++ MP + VRKVLKI+KEPIS+ETPIGD++ SHLGDF+ED N +SP DSAI Sbjct: 471 EPTPDELAERVEMPEDKVRKVLKISKEPISMETPIGDDEDSHLGDFVEDVNVISPSDSAI 530 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 LRE T VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+R Sbjct: 531 IEGLREATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 590 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HPSRS +LRSFLD Sbjct: 591 KLRHPSRSDQLRSFLD 606 >gi|183597880|ref|ZP_02959373.1| hypothetical protein PROSTU_01215 [Providencia stuartii ATCC 25827] gi|188022641|gb|EDU60681.1| hypothetical protein PROSTU_01215 [Providencia stuartii ATCC 25827] Length = 617 Score = 391 bits (1005), Expect = e-106, Method: Compositional matrix adjust. Identities = 202/364 (55%), Positives = 260/364 (71%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 E+L ++ L + D LV + ++ R+ E +++L + + + F+ G Sbjct: 254 EELSEVFKQFRLVPKQFDYLVNNMREMMDRVRLQERTIMKLCVEQCKMPKKNFITLFSGN 313 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E W++ AK + + V E + IL+ ++ I ETG++I + + I + G Sbjct: 314 ETSETWLTAAKAMNKPWCEKLVEVE-EEILRCLQRLRQIEEETGLTIEQVKDINRRMSIG 372 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 373 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 432 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ Sbjct: 433 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMM 492 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 493 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPLDSATSESLRSATHEVL 552 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 553 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 612 Query: 678 SFLD 681 SFLD Sbjct: 613 SFLD 616 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLILAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TTSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDHVEAGESRLSDLI 164 >gi|190575994|ref|YP_001973839.1| RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia K279a] gi|190013916|emb|CAQ47556.1| putative RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia K279a] Length = 617 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 210/396 (53%), Positives = 269/396 (67%), Gaps = 4/396 (1%) Query: 289 EVYRELRSLQD--NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDIS 346 EV +++L D NA + L+E++ + +L L D+L +QL D Sbjct: 221 EVAARMQALSDAFNAFKKAATKGDKKNLPRLREEMSAVFVTLKLPLPLTDVLTKQLRDTM 280 Query: 347 KRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDS 405 I +E +L LA + R F+ +G + + WV A + +W + + D Sbjct: 281 ASIKAHERRVLNLATVTARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSALREVKDQ 339 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I+ + I T + + E + I + GE +A AKKEMVEANLRLVIS+AKKYTN Sbjct: 340 IIAEQQATIDIETLTQLDLEELKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTN 399 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 400 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 459 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ETPIGD++ Sbjct: 460 IETINKLNRISRQMLQQYGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDED 519 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED N SP+++ NL ET VLA LTPRE +VLRMRFGI MNTDHTLEEV Sbjct: 520 SHLGDFIEDTNVESPIENTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEV 579 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 580 GKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 615 >gi|90020363|ref|YP_526190.1| Fis family transcriptional regulator [Saccharophagus degradans 2-40] gi|89949963|gb|ABD79978.1| RNA polymerase sigma factor RpoD-like protein [Saccharophagus degradans 2-40] Length = 613 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 202/364 (55%), Positives = 257/364 (70%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E L ++ L + D + + + I R+ E E++RL G + R F++ G+ Sbjct: 250 EALGEIFKYFKLPPRQFDPIYQGIRQILTRVRAEEREIMRLCTRLGGMPRKTFMKEFPGQ 309 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E D W+ A ++ + + + I++ + ++K I E+G+S+ + I + G Sbjct: 310 ETDEDWIP-ATIGKGRDYSDSLKPYAEDIIRAQRKLKQIQEESGLSLGHIKEINRRMSIG 368 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 369 EARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 428 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 429 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERME 488 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+DSA L E T VL Sbjct: 489 MPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIDSPVDSATIQGLTEATRSVL 548 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LR Sbjct: 549 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDHLR 608 Query: 678 SFLD 681 FLD Sbjct: 609 GFLD 612 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 87/141 (61%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K++I R++GY+T +E+N LP D +Q+ED + M+++MGI V D D+L + Sbjct: 12 KELINRGREQGYLTYDEVNDHLPDDISDPDQVEDIIQMINDMGIRVYEVAPDADELLMTD 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS +A+ ++ L + A R+T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 72 G--DSSADEIAAAEAAAALAAVETEAGRTT-DPVRMYMREMGTVELLTREGEIAIAKRIE 128 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + ++ P Q + Sbjct: 129 EGLRELNHAIALWPEAVQQYV 149 >gi|83648911|ref|YP_437346.1| RNA polymerase sigma-70 factor RpoD [Hahella chejuensis KCTC 2396] gi|83636954|gb|ABC32921.1| RNA polymerase sigma-70 factor RpoD [Hahella chejuensis KCTC 2396] Length = 639 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 206/385 (53%), Positives = 269/385 (69%), Gaps = 4/385 (1%) Query: 300 NAVNGQKDE--KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELL 357 N +N D+ ++S + + +++ ++ L Q + D ++ + + + E E+L Sbjct: 255 NTLNAAIDKHGRASREAQECFDEVSRIFAPFKLAQKQFDEIINTIRVTNDSVRKYEREIL 314 Query: 358 RL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSI 416 + + + R F++ G E + WV E EW + + I +++ I SI Sbjct: 315 NICTRDCKMPRKNFIKMFPGNETNLEWVKGLGARSE-EWAKTAQTKEEEITRLQRRIVSI 373 Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 E + +++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQE Sbjct: 374 QNEVDLPVADIKEIHRRISIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQE 433 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R + Sbjct: 434 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRIS 493 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R M ++ RE TPEE+AKK+ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED + Sbjct: 494 RHMLQEMGREATPEELAKKMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSH 553 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A SP+DSA L+E+T RVLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERI Sbjct: 554 AESPIDSATTEGLKESTRRVLAGLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERI 613 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIEAKA+RKL+HPSRS LRSF+D Sbjct: 614 RQIEAKALRKLRHPSRSDHLRSFID 638 >gi|197121174|ref|YP_002133125.1| RNA polymerase, sigma 70 subunit, RpoD family [Anaeromyxobacter sp. K] gi|196171023|gb|ACG71996.1| RNA polymerase, sigma 70 subunit, RpoD family [Anaeromyxobacter sp. K] Length = 805 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 210/417 (50%), Positives = 287/417 (68%), Gaps = 26/417 (6%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK-------EKLVKLVGSLSLNQ 332 V+ +D I ++ R++ +++ G+K S VK K LK ++++ + ++ LN+ Sbjct: 399 VLKHIDRIRKLERDVAKVRETLQGGKK--LSEVKRKELKGEIRAIEAEMMENLEAIQLNK 456 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK-RDVFLERHQGRELDPHWVSYAKDFP 391 +ID +V +L KR+ E E + G+ +D+ + RE + AK Sbjct: 457 KQIDRIVLRLKSFIKRVEEAEREFFDCERRTGVPVKDLRRLLRETREDEAERKKLAKKL- 515 Query: 392 EGEWKNFVACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEASIA 444 C +D + ++ ++S + E + + E R M+ GE +A A Sbjct: 516 --------RCALDEVEELDRTLRSAGRKILRVQEEAEVPVEELRRTYRMIGDGERKAERA 567 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 568 KTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWI 627 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ +P++ VR Sbjct: 628 RQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPTPEEIAEKMELPLDKVR 687 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ I NL E T +VLA+LTPRE Sbjct: 688 KVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPSDAVINMNLAEQTRKVLATLTPRE 747 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+SF++ Sbjct: 748 EKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLKSFVE 804 >gi|86157148|ref|YP_463933.1| sigma 70 (RpoD) [Anaeromyxobacter dehalogenans 2CP-C] gi|85773659|gb|ABC80496.1| RNA polymerase, sigma 70 subunit, RpoD [Anaeromyxobacter dehalogenans 2CP-C] Length = 805 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 210/417 (50%), Positives = 287/417 (68%), Gaps = 26/417 (6%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK-------EKLVKLVGSLSLNQ 332 V+ +D I ++ R++ +++ G+K S VK K LK ++++ + ++ LN+ Sbjct: 399 VLKHIDRIRKLERDVAKVRETLQGGKK--LSEVKRKELKGEVRAIEAEMMENLEAIQLNK 456 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK-RDVFLERHQGRELDPHWVSYAKDFP 391 +ID +V +L KR+ E E + G+ +D+ + RE + AK Sbjct: 457 KQIDRIVLRLKSFIKRVEEAEREFFDCERRTGVPVKDLRRLLRETREDEAERKKLAKKL- 515 Query: 392 EGEWKNFVACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEASIA 444 C +D + ++ ++S + E + + E R M+ GE +A A Sbjct: 516 --------RCALDEVEELDRTLRSAGRKILRVQEEAEVPVDELRRTYRMIGDGERKAERA 567 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 568 KTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWI 627 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ +P++ VR Sbjct: 628 RQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPTPEEIAEKMELPLDKVR 687 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ I NL E T +VLA+LTPRE Sbjct: 688 KVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPSDAVINMNLAEQTRKVLATLTPRE 747 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+SF++ Sbjct: 748 EKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLKSFVE 804 >gi|148266058|ref|YP_001232764.1| RpoD family RNA polymerase sigma factor [Geobacter uraniireducens Rf4] gi|146399558|gb|ABQ28191.1| RNA polymerase, sigma 70 subunit, RpoD [Geobacter uraniireducens Rf4] Length = 586 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 180/271 (66%), Positives = 232/271 (85%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 ++K I E+G +E + + +GE +A +AK E+VEANLRLV+S+AKKYTNRGLQF Sbjct: 316 KKLKKIEQESGFQATELSTALLAIEEGERKAKLAKSELVEANLRLVVSIAKKYTNRGLQF 375 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+ Sbjct: 376 LDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN 435 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K++RT+R++ +I REP+PEEIA+++++P++ VRKVLKI KEPISLETPIG+E+ SHLGD Sbjct: 436 KLIRTSRQLVQEIGREPSPEEIAERMSLPLDKVRKVLKIAKEPISLETPIGEEEDSHLGD 495 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDK VSPL++ I+ANL E T+RVL++LTPREE+VLRMRFGIG +DHTLEEVG+ F Sbjct: 496 FIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFE 555 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKL+HPSR+KKL+SF++ Sbjct: 556 VTRERIRQIEAKALRKLRHPSRAKKLKSFVE 586 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 57/146 (39%), Positives = 87/146 (59%), Gaps = 1/146 (0%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I L +++G++T EE+N LPPD VSSEQ++D ++M +M I +VD Sbjct: 7 DEVKQLIDLGKEKGFLTYEEVNDLLPPDIVSSEQIDDVMSMFGDMDIEIVDSAQKVKIPK 66 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + L+ ++ + R T DPVRMYLREMGS+ LL+REGE+ IAKRIE Sbjct: 67 VKLDLEDEEELEGEQEEVEFEPGTLGR-TSDPVRMYLREMGSVSLLTREGEVEIAKRIEV 125 Query: 149 GRAMMMASLCESPLTFQALIIWRDEL 174 G + + + +P+T + +I D+L Sbjct: 126 GERDVASVILNTPITVKEVISLGDKL 151 >gi|78221616|ref|YP_383363.1| RNA polymerase sigma factor RpoD-like [Geobacter metallireducens GS-15] gi|78192871|gb|ABB30638.1| RNA polymerase, sigma 70 subunit, RpoD [Geobacter metallireducens GS-15] Length = 579 Score = 391 bits (1004), Expect = e-106, Method: Compositional matrix adjust. Identities = 201/369 (54%), Positives = 269/369 (72%), Gaps = 16/369 (4%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 ++EK LV SL L I + ++L ++S ++ E+ + GI + E Sbjct: 223 IREKFADLVKSLRLKDRHITKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKE---- 278 Query: 377 RELDPHWVSYAKDFPEGEWKNFV-ACEVDSILKIR---NEIKSISVETGISISEFRHIVS 432 V+ + +G N A ++D KIR ++K + E+G E + Sbjct: 279 ------IVAKGDEKAKGLKVNLEDAQKLDK--KIRAAEKKLKKLEHESGFKAQELSDALH 330 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + +GE +A +AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 331 AIDRGEAKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQR 390 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEI Sbjct: 391 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEI 450 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+++ +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK VSPL++ I+ANL E Sbjct: 451 AERMNLPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKGVVSPLEAVIKANLSEQ 510 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 T+RVL++LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR Sbjct: 511 TSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSR 570 Query: 673 SKKLRSFLD 681 +KKL+SF++ Sbjct: 571 AKKLKSFVE 579 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 53/149 (35%), Positives = 88/149 (59%), Gaps = 4/149 (2%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 SD+ ++++ + +++G++T +E+N LPPD S+EQ++D ++M M I++VD + Sbjct: 6 SDEVKQQLVDIGKEKGFLTYDEVNDVLPPD-FSTEQIDDVMSMFGEMDIDLVDSS--QKV 62 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKR 145 + + LDL + + T DPVRMYLREMGS+ LL+REGE+ IAKR Sbjct: 63 KIPKMKLDLEEEEEMEGEQEEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIAKR 122 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDEL 174 IE G + + +P+T + +I D+L Sbjct: 123 IEEGERDIARVILTTPITVKEIIALGDKL 151 >gi|312883925|ref|ZP_07743642.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC BAA-2122] gi|309368383|gb|EFP95918.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC BAA-2122] Length = 618 Score = 390 bits (1003), Expect = e-106, Method: Compositional matrix adjust. Identities = 205/374 (54%), Positives = 262/374 (70%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K ++ E ++ + L + D LVE+L +R+ E +++ + YG + + Sbjct: 247 SPKAQIAHELVLDVFREFRLTPKQFDYLVEELRTSMERVRTQERLIMKASVEYGKMPKKS 306 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ A D P E + D I + ++K+I ET +++ Sbjct: 307 FITLFTGNESSDAWLDEILASDKPYAEK---IRRSEDDIRRSIAKLKTIEEETSLTVQSI 363 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 364 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 423 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 424 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 483 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 484 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATAG 543 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 544 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 603 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 604 RHPSRSETLRSFLD 617 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +D++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDTITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|220915874|ref|YP_002491178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaeromyxobacter dehalogenans 2CP-1] gi|219953728|gb|ACL64112.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaeromyxobacter dehalogenans 2CP-1] Length = 802 Score = 390 bits (1003), Expect = e-106, Method: Compositional matrix adjust. Identities = 210/417 (50%), Positives = 287/417 (68%), Gaps = 26/417 (6%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLK-------EKLVKLVGSLSLNQ 332 V+ +D I ++ R++ +++ G+K S VK K LK ++++ + ++ LN+ Sbjct: 396 VLKHIDRIRKLERDVAKVRETLQGGKK--LSEVKRKELKGEIRAIEAEMMENLEAIQLNK 453 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK-RDVFLERHQGRELDPHWVSYAKDFP 391 +ID +V +L KR+ E E + G+ +D+ + RE + AK Sbjct: 454 KQIDRIVLRLKSFIKRVEEAEREFFDCERRTGVPVKDLRRLLRETREDEAERKKLAKKL- 512 Query: 392 EGEWKNFVACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEASIA 444 C +D + ++ ++S + E + + E R M+ GE +A A Sbjct: 513 --------RCALDEVEELDRTLRSAGRKILRVQEEAEVPVEELRRTYRMIGDGERKAERA 564 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW+ Sbjct: 565 KTELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWI 624 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ +P++ VR Sbjct: 625 RQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPTPEEIAEKMELPLDKVR 684 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ I NL E T +VLA+LTPRE Sbjct: 685 KVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPSDAVINMNLAEQTRKVLATLTPRE 744 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+SF++ Sbjct: 745 EKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLKSFVE 801 >gi|254517369|ref|ZP_05129426.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3] gi|219674207|gb|EED30576.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3] Length = 607 Score = 390 bits (1003), Expect = e-106, Method: Compositional matrix adjust. Identities = 212/426 (49%), Positives = 282/426 (66%), Gaps = 15/426 (3%) Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV 316 N+DED++DS +E + R + R+ + + + +K+++K Sbjct: 193 NVDEDDNDSPAGPDPVEAKKR---------FTALKRQFNKTEKILLEKGRQDKAAIKEM- 242 Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQ 375 EKL ++ D L ++ + E E++RLA + + R F+ Q Sbjct: 243 --EKLGEIFKFFKFTPKVFDPLNDEARSALAGVREQEREIMRLAVRRCQMPRKDFITSFQ 300 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 G E + W+S + + ++ + + IL+ + +I I TG++++E + I + Sbjct: 301 GNESNAKWLS--RHTRKKDYGPKLNAYKEEILRAQRQIGQIEAATGLTVTEIKEINRRMS 358 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 359 MGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 418 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ ++ Sbjct: 419 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGER 478 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+ SP+D+A L E T Sbjct: 479 MEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQTINSPIDAATGQGLMEATKD 538 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS Sbjct: 539 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDY 598 Query: 676 LRSFLD 681 LRSFLD Sbjct: 599 LRSFLD 604 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 60/143 (41%), Positives = 89/143 (62%), Gaps = 11/143 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL--ED 85 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D DDL D Sbjct: 12 KSLIAKGKEQGYLTYAEVNDHLPEDISDPDQVEDIIQMINDMGIQVFEQAPDADDLILTD 71 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 +GS D + A +A+ + + A R+TD PVRMY+REMG++ELL+REGEI IAKR Sbjct: 72 GDGSADDIAAAEAAAALA----AVETEAGRTTD-PVRMYMREMGTVELLTREGEIVIAKR 126 Query: 146 IEAGRAMMMASLCESPLTFQALI 168 IE G +MA+L P ++++ Sbjct: 127 IEEGIRELMAALAFYPGAVKSVL 149 >gi|116748652|ref|YP_845339.1| RpoD family RNA polymerase sigma factor [Syntrophobacter fumaroxidans MPOB] gi|116697716|gb|ABK16904.1| RNA polymerase, sigma 70 subunit, RpoD family [Syntrophobacter fumaroxidans MPOB] Length = 599 Score = 390 bits (1002), Expect = e-106, Method: Compositional matrix adjust. Identities = 220/482 (45%), Positives = 313/482 (64%), Gaps = 37/482 (7%) Query: 227 EGDIESAAKVSKDDRSKVDSPPENA------ENDERNLDEDEDDSAHTLSAMEDQLRPKV 280 EG++E A ++ +R ++ E++ N + L++D + L ++D++ + Sbjct: 127 EGEVEIAKRIEAGEREIFNAIMESSIGIKEIMNLKHKLEDDNARVSDVLREVDDEITVEE 186 Query: 281 MCALDE-IAEVYRELRSLQDNAVNGQ---------KDEKSSVKCKVL--KEKLVKLVGSL 328 A E + + RE++SL ++ Q +DE+ +K +V KE++V L+ L Sbjct: 187 ETAQKERVVGILREVQSLDESNKILQTRLLSDSLTRDEEFVLKSQVQQNKEQIVSLLKGL 246 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAK 388 L++ ID ++++L+ I +E EL + + L +EL P + + + Sbjct: 247 QLSKRHIDSIIDKLHLCLDVIERSEDEL---------RNCLLLSGKPLQELKPLYETAIE 297 Query: 389 DFPEG---------EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 D + E K+F+ + ++ + I+ + +E + R I+ V G Sbjct: 298 DRGKARACADQVNMEEKDFLEL-ANKAIEAKQRIEELEIEAKMDSRSLRLILRRVEDGLI 356 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A +AK E++EANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 357 RAKLAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTY 416 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ P Sbjct: 417 ATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPTPEEIAEKMEFP 476 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK SP+D+ I NL E T + LA+ Sbjct: 477 VEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKRVASPVDAVINLNLSEQTRKALAT 536 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPREE+VLRMRFGIG DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR K+L+SF Sbjct: 537 LTPREEKVLRMRFGIGEKADHTLEEVGQDFAVTRERIRQIEAKALRKLRHPSRRKELKSF 596 Query: 680 LD 681 ++ Sbjct: 597 IE 598 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/162 (35%), Positives = 89/162 (54%), Gaps = 5/162 (3%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I + +++GY+T +E+N LP D VS E+++D + + M I +VD + Sbjct: 20 DDIKRLITVGKEKGYLTYDEVNEALPEDLVSPEKLDDMMMIFDEMDIEIVDSEQQVQVVR 79 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 D S LQ D R TD PV+MYLREMG + LL+REGE+ IAKRIEA Sbjct: 80 ETSGADSDSLLEEEEDELQIEADVTSRVTD-PVKMYLREMGQVSLLTREGEVEIAKRIEA 138 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTT----LLREIID 186 G + ++ ES + + ++ + +L D +LRE+ D Sbjct: 139 GEREIFNAIMESSIGIKEIMNLKHKLEDDNARVSDVLREVDD 180 >gi|119504971|ref|ZP_01627048.1| putative transcriptional regulator, Fis family protein [marine gamma proteobacterium HTCC2080] gi|119459257|gb|EAW40355.1| putative transcriptional regulator, Fis family protein [marine gamma proteobacterium HTCC2080] Length = 606 Score = 390 bits (1002), Expect = e-106, Method: Compositional matrix adjust. Identities = 208/368 (56%), Positives = 259/368 (70%), Gaps = 11/368 (2%) Query: 319 EKLVKLVGSLSLNQSRIDLLV----EQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLER 373 +KL +L L D L+ E LY I K E ++R+A + + R F++ Sbjct: 244 DKLGELFKFFKLTPRVFDPLIDEPRESLYIIRK----QERAIMRIAVRECRMDRKEFIKS 299 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 G E D W+S + + +A D I +++ I + TG+S++E + I Sbjct: 300 FSGSESDSRWISRVAR--KKDIGARLALHKDDIQRMQRRISEVEQATGLSVAEIKEINRR 357 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G Sbjct: 358 MSMGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 417 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ Sbjct: 418 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELG 477 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+DSA + L E T Sbjct: 478 ERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDVTISSPVDSATEEGLTEAT 537 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VLA LT RE +VLRMRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS Sbjct: 538 QDVLAGLTAREAKVLRMRFGIGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRS 597 Query: 674 KKLRSFLD 681 LRSFLD Sbjct: 598 DYLRSFLD 605 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 57/134 (42%), Positives = 84/134 (62%), Gaps = 7/134 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D+L E Sbjct: 12 KALIAKGKEQGYLTYAEVNDHLPQDISEPDQVEDIIQMINDMGIQVFEQAPDADELILTE 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G D +A+ ++ L ++ A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 72 G--DRSADEIAAAEAAAALAAVENEAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 128 Query: 148 AGRAMMMASLCESP 161 G +MA++ P Sbjct: 129 EGIRELMAAMAHYP 142 >gi|1938356|gb|AAC45155.1| RpoD [Xanthomonas campestris pv. campestris] Length = 622 Score = 390 bits (1002), Expect = e-106, Method: Compositional matrix adjust. Identities = 205/356 (57%), Positives = 259/356 (72%), Gaps = 6/356 (1%) Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYA 387 +LN D LV QL + I +E ++L LA + + R F+ +G + + WV A Sbjct: 268 TLNVPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDA 327 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAK 445 + +W + + D I + + SI +E ++++E + I + GE +A AK Sbjct: 328 LKRKQ-KWSSALRDVKDQI--VSEQQGSIEMEKANYLTLAEIKDISRAMAYGEAKARKAK 384 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 385 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 444 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + REPTPEE+AK++ MP + +RK Sbjct: 445 QAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREPTPEELAKEMDMPEDKIRK 504 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 V+KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE Sbjct: 505 VMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREA 564 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 565 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 620 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 87/142 (61%), Gaps = 4/142 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ ++ D+ T DPVRMY+REMG++ELL+RE EIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEAAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREAEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALII 169 G + + A+L PL +A + Sbjct: 133 EGLSQVQAALGTFPLVDRAAAV 154 >gi|254784701|ref|YP_003072129.1| RNA polymerase sigma factor RpoD [Teredinibacter turnerae T7901] gi|237686864|gb|ACR14128.1| RNA polymerase sigma factor RpoD [Teredinibacter turnerae T7901] Length = 619 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 212/413 (51%), Positives = 277/413 (67%), Gaps = 27/413 (6%) Query: 274 DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQS 333 D+LR +++ A D IA+ +G +++ V + L E + L Sbjct: 228 DELRVQLVAANDAIAK-------------HGLDSKETGVALEALGE----VFKFFKLAPR 270 Query: 334 RIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS----YAK 388 + D + + D+ RI E E++RL + G+ R F++ G E++ W+ + Sbjct: 271 QFDPIYNYVRDVLARIRAEEKEIMRLCVRMAGMPRKTFVKEFPGNEINEDWIPEIIRKKR 330 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 D+ + + E D IL+ + +++ I ETG+ ++ + I + GE A AKKEM Sbjct: 331 DYSD----SLRPVEGD-ILRSQRKLQQIEEETGLELTAIKEINRRMSIGEARARRAKKEM 385 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 386 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 445 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + VRKVLK Sbjct: 446 TRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKVRKVLK 505 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED SP++SA L E T VLA LT RE +VL Sbjct: 506 IAKEPISMETPIGDDEDSHLGDFIEDTTITSPVESATSQGLMEATKAVLAGLTAREAKVL 565 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LR FLD Sbjct: 566 RMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDHLRGFLD 618 >gi|261250212|ref|ZP_05942788.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891] gi|260939328|gb|EEX95314.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891] Length = 618 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 206/374 (55%), Positives = 260/374 (69%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K + E ++ + L + D LVE+L +R+ E +++ YG + + Sbjct: 247 SPKATLAHEMVIDVFKEFRLTPKQFDYLVEELRTSMERVRTQERLIMKATVEYGKMPKKS 306 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ A D P E V D I + +++K I ET +++ Sbjct: 307 FITLFTGNESTDAWLDEILASDKPYAEK---VRRSEDDIRRSISKLKIIEEETSLTVQNI 363 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 364 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 423 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 424 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 483 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 484 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATAG 543 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 544 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 603 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 604 RHPSRSETLRSFLD 617 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +D++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDTITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|295700891|ref|YP_003608784.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295440104|gb|ADG19273.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 665 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 244/662 (36%), Positives = 367/662 (55%), Gaps = 63/662 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 + +I+L +++GY+T ++N LP + ++ ++ V+ S+MG+ V + D E Sbjct: 54 RALIQLGKEQGYLTHAQINDHLPDNFTATAAIDSIVSAFSDMGVQVYE--QAPDAETLLL 111 Query: 89 --------SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEI Sbjct: 112 NSNSPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEI 165 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 AIAKRIE G M+ ++ PL A++ ++ DG + E++D G + G Sbjct: 166 AIAKRIEDGLHEMVQAIAACPLAISAILASAQQVADGELRIDELVD-----GLNEETG-- 218 Query: 201 HGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDE 260 + ++ E + + E D V A + S D+ D P +++ DE L Sbjct: 219 ------AAEEVESADADAEEDGV---------ADEDSDDEEEDDDGPADSSAADEARL-- 261 Query: 261 DEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK 320 QL + ++ +Y E+ NA + + D S + +E+ Sbjct: 262 -------------KQLTSDCLEIFAQVGILYDEM-----NAAHTRGDVTSKGYLRA-REE 302 Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS-YGIKRDVFLERHQGREL 379 + + + + ID L + ++ E +L++ S G+ R+ F+E G E Sbjct: 303 IQQHLAKIRFTARTIDRLCGDVQHQVAQVRAIERNILQIVVSKAGMPREKFIETFAGNEA 362 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 D W A + + + +I + ++ I + + + I + E Sbjct: 363 DLGWTERAARTGASTYGAALERHLPAIQSEQQKLIDIEATVSLPLKHLKEINRKMVAAES 422 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + AK EM+EANLRLVIS+AKKY NRG+ FLDLIQEGNIGLMKA +KF++ G+KFSTY Sbjct: 423 KMRKAKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFSTY 482 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WWV+QA+TRS+ADQ+ TIR+PVHM + I+K+ R +R + + +E P +A+++ + Sbjct: 483 ATWWVRQAVTRSLADQARTIRVPVHMIETINKLNRISREILQQTGQEAHPAVLAERMELS 542 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E VR +LKI K+P+SLETP+GD+ + LGD IED SP D+A+QA+LR L S Sbjct: 543 EEKVRGILKIAKQPVSLETPVGDDGDATLGDMIEDAAVSSPADAAMQADLRAAIDDALDS 602 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+PRE +VLRMR+GI +DHTLEEVGKQF VTRERIRQIE+KA+RKL HPSR+ +L+SF Sbjct: 603 LSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIESKAMRKLMHPSRADRLKSF 662 Query: 680 LD 681 LD Sbjct: 663 LD 664 >gi|294666254|ref|ZP_06731505.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|292603963|gb|EFF47363.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 625 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 215/405 (53%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 228 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 281 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 282 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 340 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I I + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 341 LRDVKDQI--ISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 398 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 399 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 458 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 459 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 518 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 519 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 578 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 579 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 623 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|294625247|ref|ZP_06703887.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292600475|gb|EFF44572.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] Length = 621 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 215/405 (53%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 224 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 277 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 278 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 336 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I I + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 337 LRDVKDQI--ISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 394 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 395 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 454 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 455 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 514 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 515 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 574 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 575 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 619 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|21244512|ref|NP_644094.1| RNA polymerase sigma factor RpoD [Xanthomonas axonopodis pv. citri str. 306] gi|32130007|sp|Q8PG33|RPOD_XANAC RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|21110182|gb|AAM38630.1| RNA polymerase sigma-70 factor [Xanthomonas axonopodis pv. citri str. 306] Length = 625 Score = 390 bits (1001), Expect = e-106, Method: Compositional matrix adjust. Identities = 215/405 (53%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 228 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 281 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 282 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 340 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I I + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 341 LRDVKDQI--ISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 398 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 399 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 458 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 459 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 518 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 519 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 578 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 579 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 623 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|89075585|ref|ZP_01161990.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] gi|89048725|gb|EAR54297.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] Length = 616 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 207/395 (52%), Positives = 270/395 (68%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDN-AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + ELR+ D A+ + + + ++ E+L ++ L + D LV L D Sbjct: 222 EKFLELRNAYDKMALAIDTNGRQNATTEIAVEELSEVFKQFRLIPKQFDRLVSSLRDSMD 281 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 ++ NE ++R+ + + + F+ G E W+ A + + + E D + Sbjct: 282 KVRTNERLIMRMCVDNSKMPKKTFVSLFAGNESKQDWIDEALNSGKPYAERLKVYEED-L 340 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + +++ + ETG+SI + I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 341 RRASIKLRMLEEETGLSIERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 400 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 401 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 460 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ S Sbjct: 461 ETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDS 520 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED P+D+A NLR T VLA LTPRE +VLRMRFGI MNTDHTLEEVG Sbjct: 521 HLGDFIEDTTLQLPMDAATATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVG 580 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS LRSFLD Sbjct: 581 KQFDVTRERIRQIEAKALRKLRHPSRSDVLRSFLD 615 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 63/159 (39%), Positives = 95/159 (59%), Gaps = 11/159 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLE-DE 86 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D D+L E Sbjct: 10 KLLVAKGKEQGYLTYAEVNDHLPEDIVDSDQVEDIIQMINDMGIKVVETAPDADELMMTE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + +++ A++ + SSV +S T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 DNADEDAIEAAAQALSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 123 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G + S+ E P L+ D++ L +II Sbjct: 124 EDGINQVQCSVAEYPSAIAHLLEQFDKVEADELRLTDII 162 >gi|226946707|ref|YP_002801780.1| RNA polymerase sigma factor RpoD [Azotobacter vinelandii DJ] gi|226721634|gb|ACO80805.1| RNA polymerase sigma factor, sigma70; RpoD [Azotobacter vinelandii DJ] Length = 620 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 261/365 (71%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + D LVEQ+ D R+ E +++L + + R FL + G Sbjct: 257 QALASLFMPIKLVPKQYDTLVEQVRDALTRVRAQERAIMQLCVRDARMPRADFLRQFPGN 316 Query: 378 ELDPHWVSY-AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D WV AK + ++ + D I + + ++ + + G++I+E + I + Sbjct: 317 ETDQDWVDLLAKG--KAKYAEALGNLADDIKQCQQKLIDLEQKVGLTIAEIKDINRQMSI 374 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 375 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 434 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 435 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 494 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++ A +L+E T V Sbjct: 495 DMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEVATVESLKEATREV 554 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 555 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHL 614 Query: 677 RSFLD 681 RSFLD Sbjct: 615 RSFLD 619 >gi|289207448|ref|YP_003459514.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. K90mix] gi|288943079|gb|ADC70778.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp. K90mix] Length = 629 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 205/401 (51%), Positives = 276/401 (68%), Gaps = 7/401 (1%) Query: 285 DEIAEVYRELRSLQDNAVNG--QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 +E E + +LR L A + D K+ + E K L +D L +L Sbjct: 232 EEARERFNKLRKLHAKAHKAFEKGDRKAYATAR---EATAKYFMEFKLVPRMVDQLTTKL 288 Query: 343 YDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 + RI +E ++ LA + + R F++ E + W+ A +G++ +A Sbjct: 289 HGTIDRIRSHERRIMELAVNQAQMPRKSFIDSFPKNETNLDWIKQACK-AKGKYTTALAE 347 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 D I++++ ++ I E ++ISE + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 348 HEDEIVRLQKKLAEIEHEASLNISEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAK 407 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 408 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 467 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ RE TPEE+A+++ MP + +RKVLKI+KEPIS+ETPIG Sbjct: 468 PVHMIETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKIRKVLKISKEPISMETPIG 527 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED+ SP DSA + +L E T +L++LTPRE +VLRMRFGI MNTDHT Sbjct: 528 DDEDSHLGDFIEDEKVASPSDSAARESLSEATREILSTLTPREAKVLRMRFGIDMNTDHT 587 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LEEVGKQF VTRERIRQIEAKA+RKL+HP+R++ LR++ D Sbjct: 588 LEEVGKQFDVTRERIRQIEAKALRKLRHPTRAELLRTYTDA 628 >gi|323493625|ref|ZP_08098746.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546] gi|323312148|gb|EGA65291.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546] Length = 617 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 205/374 (54%), Positives = 261/374 (69%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K ++ E ++ + L + D LVE+L +R+ E +++ + YG + + Sbjct: 246 SPKAQIAHELVLDVFKEFRLTPKQFDYLVEELRTSMERVRTQERLIMKASVEYGKMPKKS 305 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ A D P E + D I + ++K I ET +++ Sbjct: 306 FITLFTGNESSDAWLDEILASDKPYAEK---IRRSEDDIRRSIAKLKVIEEETSLTVQNI 362 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 363 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 422 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 423 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 482 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 483 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATAT 542 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 543 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 602 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 603 RHPSRSETLRSFLD 616 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +D++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDTITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|319788464|ref|YP_004147939.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoxanthomonas suwonensis 11-1] gi|317466976|gb|ADV28708.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoxanthomonas suwonensis 11-1] Length = 618 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 207/376 (55%), Positives = 263/376 (69%), Gaps = 7/376 (1%) Query: 308 EKSSVKCKV-LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-I 365 +K +K + + E+ V L L D+LV +L D+ I E +L LA + + Sbjct: 246 DKKVIKLRAEMAEQFVTFKLPLPLT----DVLVRKLRDVLTEIKDRERRVLHLATNVARM 301 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 R F+ +G +++ WV + +W + + D I+ + +I + +S Sbjct: 302 PRKDFIRAWEGNQVNLEWVDEVLKRKQ-KWSSALRDVKDQIIAEQQATIAIEQAMCLDLS 360 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + R I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 361 DIREIGRQLAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 420 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + R Sbjct: 421 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQYGR 480 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 E TPEE+AK++ MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+DS Sbjct: 481 EATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDSTT 540 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 NL ET VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+R Sbjct: 541 NTNLMETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 600 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HPSRS++LRSFLD Sbjct: 601 KLRHPSRSEQLRSFLD 616 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 87/141 (61%), Gaps = 4/141 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K++I ++GY+T E+N LP D V EQ+ED + M++ MGI+V D + L + Sbjct: 12 KQLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDVETLLLND 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + DS T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 72 GNTGNREIDDTAAEEAAAALTALDSEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 131 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + A+L P + +AL+ Sbjct: 132 EGLGQVQAALGSVPASVEALL 152 >gi|325924346|ref|ZP_08185890.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas gardneri ATCC 19865] gi|325545211|gb|EGD16521.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas gardneri ATCC 19865] Length = 625 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 214/405 (52%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 228 VATRMENLANEYAKFKKIY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 281 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 282 TQLRGVVNGIKDHERKVLHLATAVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 340 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I + + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 341 LRDVKDQI--VSEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 398 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 399 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 458 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 459 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 518 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 519 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 578 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 579 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 623 >gi|254522302|ref|ZP_05134357.1| RNA polymerase sigma-70 factor [Stenotrophomonas sp. SKA14] gi|219719893|gb|EED38418.1| RNA polymerase sigma-70 factor [Stenotrophomonas sp. SKA14] Length = 617 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 204/366 (55%), Positives = 259/366 (70%), Gaps = 2/366 (0%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQ 375 L+E++ + +L L D+L +QL D I +E +L LA + R F+ + Sbjct: 251 LREEMSAVFVTLKLPLPLTDVLTKQLRDTMADIKSHERRVLNLATVTARMPRKDFIRSWE 310 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 G + + WV A + +W + + D I+ + I T + + E + I + Sbjct: 311 GNQTNLEWVEDALKRKQ-KWSSALREVKDQIIAEQQATIDIEKLTQLDLEELKEISRAMA 369 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 370 YGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 429 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK+ Sbjct: 430 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQYGREATPEELAKE 489 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+++ NL ET Sbjct: 490 MDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIENTTNINLSETVRD 549 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++ Sbjct: 550 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQ 609 Query: 676 LRSFLD 681 LRSFLD Sbjct: 610 LRSFLD 615 >gi|261344812|ref|ZP_05972456.1| RNA polymerase sigma factor RpoD [Providencia rustigianii DSM 4541] gi|282567259|gb|EFB72794.1| RNA polymerase sigma factor RpoD [Providencia rustigianii DSM 4541] Length = 616 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 202/374 (54%), Positives = 262/374 (70%), Gaps = 2/374 (0%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKR 367 +S K +L + L + D LV + ++ +R+ E +++L + + + Sbjct: 243 RSDAKTVAAINQLSDVFKEFRLVPKQFDYLVNNMREMMERVRQQERTIMKLCVEQCKMPK 302 Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W++ AK + + + E D +L+ ++ I ETG++I + Sbjct: 303 KNFITLFGGNETSETWLTAAKAMNKPWSEKLLDVEED-VLRCLQRLRQIEEETGLTIEQV 361 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 362 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 421 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 422 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 481 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 482 SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSE 541 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 542 SLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 602 RHPSRSEVLRSFLD 615 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLILAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|289667862|ref|ZP_06488937.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 624 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 211/403 (52%), Positives = 275/403 (68%), Gaps = 8/403 (1%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I+ + + + +++ E + I + GE +A AKKEMVEANLRLVIS Sbjct: 340 LRDVKDQIISEQQGSMEMEKSSYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 399 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ET Sbjct: 460 IRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMET 519 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNT Sbjct: 520 PIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNT 579 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|289664793|ref|ZP_06486374.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 624 Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust. Identities = 211/403 (52%), Positives = 275/403 (68%), Gaps = 8/403 (1%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I+ + + + +++ E + I + GE +A AKKEMVEANLRLVIS Sbjct: 340 LRDVKDQIISEQQGSMEMEKSSYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 399 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ET Sbjct: 460 IRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMET 519 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNT Sbjct: 520 PIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNT 579 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|166713725|ref|ZP_02244932.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzicola BLS256] Length = 624 Score = 389 bits (999), Expect = e-106, Method: Compositional matrix adjust. Identities = 211/403 (52%), Positives = 275/403 (68%), Gaps = 8/403 (1%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMENLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I+ + + + +++ E + I + GE +A AKKEMVEANLRLVIS Sbjct: 340 LRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 399 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ET Sbjct: 460 IRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMET 519 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNT Sbjct: 520 PIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNT 579 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|108763751|ref|YP_633357.1| RNA polymerase sigma factor RpoD [Myxococcus xanthus DK 1622] gi|133312|sp|P17531|RPOD_MYXXA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-80 gi|150118|gb|AAA25404.1| sigma factor (rpoD) [Myxococcus xanthus] gi|710343|gb|AAB60208.1| major sigma factor [Myxococcus xanthus] gi|108467631|gb|ABF92816.1| RNA polymerase sigma factor RpoD [Myxococcus xanthus DK 1622] gi|1586812|prf||2204381D sigma factor Length = 708 Score = 389 bits (999), Expect = e-106, Method: Compositional matrix adjust. Identities = 201/370 (54%), Positives = 267/370 (72%), Gaps = 3/370 (0%) Query: 314 CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK-RDVFLE 372 K L+ K+++++ + LN+ ++D +V L + +R+ E EL L + Y +++ + Sbjct: 341 IKDLRTKMMEVLEEMRLNKKQVDRIVINLKALIERVDKAEDELRDLERRYDCSMKELRPQ 400 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 + RE +P+ + + + D +R IK + E + + R Sbjct: 401 LKESRE-NPNIGKKLQKQLNLTPEQLEVLDRDVRTAVRK-IKKVEEEANLPVESLRRNYD 458 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +R GE A AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 459 AIRLGERRAERAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKR 518 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + +I REPTPEEI Sbjct: 519 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEI 578 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+K+ +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK+ VSP D+ I NL E Sbjct: 579 AEKMELPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPADAVINMNLAEQ 638 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 T +VLA+LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR Sbjct: 639 TRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSR 698 Query: 673 SKKLRSFLDG 682 SK+LRSF++ Sbjct: 699 SKRLRSFVES 708 >gi|315634867|ref|ZP_07890149.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter segnis ATCC 33393] gi|315476419|gb|EFU67169.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter segnis ATCC 33393] Length = 621 Score = 389 bits (999), Expect = e-106, Method: Compositional matrix adjust. Identities = 207/389 (53%), Positives = 267/389 (68%), Gaps = 8/389 (2%) Query: 295 RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 ++L+ A +G+ +K+ + + L + + L + D LV D+ KR+ H E Sbjct: 238 KTLEIIAKHGRTGKKAKDEIQALSD----IFTQFRLVPKQFDTLVLSTRDMMKRVRHQER 293 Query: 355 ELLRLA-QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNE 412 + RL + + + F + G E W+ K G+ W +A D + + Sbjct: 294 LIQRLVVDNAKMPKSSFQKSFIGHETSDVWL--VKALAAGKSWSEKLAQYEDELRQAIAH 351 Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +T ++I + R I + +GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLD Sbjct: 352 LVQIEQDTNLTIGQIREIGERISQGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLD 411 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ Sbjct: 412 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 471 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R +R+M ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFI Sbjct: 472 NRISRQMLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFI 531 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 ED PLDSA +L+ T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VT Sbjct: 532 EDSTLELPLDSATAQSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 591 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 592 RERIRQIEAKALRKLRHPSRSETLRSFLD 620 >gi|254509368|ref|ZP_05121455.1| RNA polymerase sigma factor [Vibrio parahaemolyticus 16] gi|219547710|gb|EED24748.1| RNA polymerase sigma factor [Vibrio parahaemolyticus 16] Length = 620 Score = 389 bits (999), Expect = e-105, Method: Compositional matrix adjust. Identities = 204/374 (54%), Positives = 261/374 (69%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K V E ++ + L + D LV++L +R+ E +++ + YG + + Sbjct: 249 SPKATVAHEMVIDVFKEFRLTPKQFDYLVDELRTSMERVRTQERLIMKASVEYGKMPKKS 308 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ A D P + + + D I + ++K I ET +++ Sbjct: 309 FIALFSGNESSDAWLDEILASDKP---YADKIRRSEDDIRRSIAKLKIIEEETSLTVQNI 365 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 366 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 425 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 426 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 485 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 486 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATAG 545 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 546 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 605 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 606 RHPSRSETLRSFLD 619 Score = 90.5 bits (223), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DETITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|188993312|ref|YP_001905322.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. B100] gi|167735072|emb|CAP53284.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris] Length = 624 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 214/405 (52%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMENLANEYAKFKKIY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I + + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 340 LRDVKDQI--VSEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 397 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 398 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 457 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 458 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 517 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 518 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 577 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 578 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTELLLADYEAHKEGKKRLAEIV 170 >gi|78049468|ref|YP_365643.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325926137|ref|ZP_08187498.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas perforans 91-118] gi|78037898|emb|CAJ25643.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|325543482|gb|EGD14904.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas perforans 91-118] Length = 625 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 206/367 (56%), Positives = 261/367 (71%), Gaps = 6/367 (1%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQG 376 +E + + +L L D LV QL + I +E ++L LA + + R F+ +G Sbjct: 260 REDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEG 319 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMV 434 + + WV A + +W + + D I I + SI +E +++ E + I + Sbjct: 320 NQTNLEWVEDALKRKQ-KWSSALRDVKDQI--ISEQQGSIEMEKANYLTLGEIKEISRAM 376 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 377 AYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 436 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK Sbjct: 437 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAK 496 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET Sbjct: 497 EMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVR 556 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 557 DVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 616 Query: 675 KLRSFLD 681 +LRSFLD Sbjct: 617 QLRSFLD 623 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|194367344|ref|YP_002029954.1| RNA polymerase sigma factor RpoD [Stenotrophomonas maltophilia R551-3] gi|194350148|gb|ACF53271.1| RNA polymerase, sigma 70 subunit, RpoD [Stenotrophomonas maltophilia R551-3] Length = 618 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 213/400 (53%), Positives = 275/400 (68%), Gaps = 12/400 (3%) Query: 289 EVYRELRSLQDNAVNGQK------DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 EV +++L D A N K D+KS +K L+E++ + +L L D+L +QL Sbjct: 222 EVAARMQALSD-AFNAFKKAVAKGDKKSLLK---LREEMSAVFVTLKLPLPLTDVLTKQL 277 Query: 343 YDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 D I +E +L LA + R F+ +G + + WV A + +W + + Sbjct: 278 RDTMAGIKSHERRVLNLATVTARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSALRE 336 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 D I+ + I T + + + + + + GE +A AKKEMVEANLRLVIS+AK Sbjct: 337 VKDQIIAEQQATIDIEKLTQLDLDDLKELSRAMAYGEAKARKAKKEMVEANLRLVISIAK 396 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 397 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 456 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ETPIG Sbjct: 457 PVHMIETINKLNRISRQMLQQYGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIG 516 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED N SP+++ NL ET VLA LTPRE +VLRMRFGI MNTDHT Sbjct: 517 DDEDSHLGDFIEDTNVESPIENTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHT 576 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 577 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 616 >gi|84622216|ref|YP_449588.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188574947|ref|YP_001911876.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae PXO99A] gi|84366156|dbj|BAE67314.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|188519399|gb|ACD57344.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae PXO99A] Length = 624 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 211/403 (52%), Positives = 274/403 (67%), Gaps = 8/403 (1%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V + +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMQNLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I+ + + + +++ E + I + GE +A AKKEMVEANLRLVIS Sbjct: 340 LRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 399 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ET Sbjct: 460 IRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMET 519 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNT Sbjct: 520 PIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNT 579 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|325913856|ref|ZP_08176215.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas vesicatoria ATCC 35937] gi|325539931|gb|EGD11568.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthomonas vesicatoria ATCC 35937] Length = 624 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 214/405 (52%), Positives = 277/405 (68%), Gaps = 12/405 (2%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V ++ +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 227 VATRMENLANEYAKFKKIY--AKNG-AEHKLVVKAR---EDIAAIFTTLKLPLPLTDALV 280 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 281 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 339 Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + D I + + SI +E +++ E + I + GE +A AKKEMVEANLRLV Sbjct: 340 LRDVKDQI--VSEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLV 397 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 398 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 457 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ Sbjct: 458 RTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISM 517 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI M Sbjct: 518 ETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDM 577 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 578 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 622 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 170 >gi|285019606|ref|YP_003377317.1| RNA polymerase sigma-70 factor, rpod protein [Xanthomonas albilineans GPE PC73] gi|283474824|emb|CBA17323.1| probable rna polymerase sigma-70 factor, rpod protein [Xanthomonas albilineans] Length = 620 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 202/366 (55%), Positives = 260/366 (71%), Gaps = 2/366 (0%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQ 375 L+ + ++ +L L D LV +L D ++ +E +L LA + R F+ + Sbjct: 254 LRNDIAEVFVTLKLPLPLTDALVRKLRDAMAQVKEHERRVLHLATHVARMPRKDFIRSWE 313 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 G + + WV A + +W + + D I+ + + T +S++E + I + Sbjct: 314 GNQTNVVWVDDALKRKQ-KWSSALRDVKDQIIAEQEATVGVEQSTYLSLTELKEISRAMA 372 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 373 YGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 432 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK+ Sbjct: 433 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQYGREATPEELAKE 492 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+++ NL ET Sbjct: 493 MDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIENTTNINLSETVRD 552 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++ Sbjct: 553 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQ 612 Query: 676 LRSFLD 681 LRSFLD Sbjct: 613 LRSFLD 618 >gi|21233164|ref|NP_639081.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66770104|ref|YP_244866.1| RNA polymerase sigma factor RpoD [Xanthomonas campestris pv. campestris str. 8004] gi|32130006|sp|Q8P4H2|RPOD_XANCP RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|21115012|gb|AAM42993.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66575436|gb|AAY50846.1| RNA polymerase sigma-70 factor [Xanthomonas campestris pv. campestris str. 8004] Length = 624 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 205/367 (55%), Positives = 262/367 (71%), Gaps = 6/367 (1%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQG 376 +E + + +L L D LV QL + I +E ++L LA + + R F+ +G Sbjct: 259 REDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEG 318 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMV 434 + + WV A + +W + + D I + + SI +E ++++E + I + Sbjct: 319 NQTNLEWVEDALKRKQ-KWSSALRDVKDQI--VSEQQGSIEMEKANYLTLAEIKDISRAM 375 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 376 AYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 435 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + RE TPEE+AK Sbjct: 436 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAK 495 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ NL ET Sbjct: 496 EMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVR 555 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 556 DVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 615 Query: 675 KLRSFLD 681 +LRSFLD Sbjct: 616 QLRSFLD 622 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 13 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 72 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 73 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 132 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 133 EGLSQVQAALGTFPLSTELLLSDYEAHKEGKKRLAEIV 170 >gi|58580221|ref|YP_199237.1| RNA polymerase sigma factor RpoD [Xanthomonas oryzae pv. oryzae KACC10331] gi|58424815|gb|AAW73852.1| RNA polymerase sigma-70 factor [Xanthomonas oryzae pv. oryzae KACC10331] Length = 629 Score = 389 bits (998), Expect = e-105, Method: Compositional matrix adjust. Identities = 211/403 (52%), Positives = 274/403 (67%), Gaps = 8/403 (1%) Query: 280 VMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 V + +A Y + + + A NG + K VK + E + + +L L D LV Sbjct: 232 VATRMQNLANEYAKFKKVY--AKNG-AEHKLVVKAR---EDMAAIFTTLKLPLPLTDALV 285 Query: 340 EQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 QL + I +E ++L LA + + R F+ +G + + WV A + +W + Sbjct: 286 TQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQ-KWSSA 344 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I+ + + + +++ E + I + GE +A AKKEMVEANLRLVIS Sbjct: 345 LRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS 404 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 405 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 464 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ET Sbjct: 465 IRIPVHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMET 524 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNT Sbjct: 525 PIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNT 584 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 585 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 627 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 95/158 (60%), Gaps = 4/158 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEE 87 K +I ++GY+T E+N LP D V EQ+ED ++M++ MGI+V D + L + Sbjct: 18 KLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLND 77 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ + ++ +A+ + D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 78 GNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIE 137 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + + A+L PL+ + L+ + +G L EI+ Sbjct: 138 EGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIV 175 >gi|78060207|ref|YP_366782.1| sigma 70 (RpoD) [Burkholderia sp. 383] gi|77964757|gb|ABB06138.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. 383] Length = 677 Score = 388 bits (997), Expect = e-105, Method: Compositional matrix adjust. Identities = 251/660 (38%), Positives = 362/660 (54%), Gaps = 61/660 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I L R+RGY+T ++N LP + + M+ V+ S+MG+ V D + L E Sbjct: 68 RALIALGRERGYLTHADINDHLPDNFAQTAAMDTIVSTFSDMGVAVYEQAPDAEALLLTE 127 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + A+ S+V DS T DPVRMY+REMG+ ELL+R GEI + Sbjct: 128 AAPAVASDDQADEEAEAALSTV------DSEFGRTTDPVRMYMREMGASELLTRAGEIEV 181 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P ++ D + G + E++D Sbjct: 182 AKRIEDGLQDMIQAIAACPSIVSTILADVDRIVAGELRIDELVD---------------- 225 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 G S D+ + + + QE E ++ +A S +D + D+ N R L+E Sbjct: 226 --GISV----DTDESEMTPESQEEEAEVLAADDDSDEDDVETDAGDSEKVNAAR-LEELT 278 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 +DS L A V L D V G E S ++ + Sbjct: 279 NDS------------------LVIFARVRALFEQLPDVPVTG---EARSAAAAQVRAAIQ 317 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDP 381 + + + ID L E ++ + E +L +A G+ RD F+E G E D Sbjct: 318 RELAPIRFTAKTIDRLCEIVHGQVTEVRAIERSVLAIAVDRCGMPRDAFVESFPGHETDL 377 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W S + ++ + +I + ++ I + + + + I + E + Sbjct: 378 DWTSRTAATSQ-QFGAALERHQPAIQAAQQKLVDIESRVSLPLQQLKQINRQMSAAELKM 436 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK+EM+EANLRLVIS+AKKY NRG+QFLDLIQEGNIGLMKA +KF++ G+KFSTYA Sbjct: 437 RQAKREMIEANLRLVISIAKKYVNRGMQFLDLIQEGNIGLMKAVDKFEYRRGWKFSTYAT 496 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WWV+QA+TR++ADQ+ TIR+PVHM + I+K+ R +R + + +E P +AK++ M E Sbjct: 497 WWVRQAVTRALADQARTIRVPVHMIETINKLNRISREILQQTGQEAHPAVLAKRMEMSEE 556 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR +LKI K+P+SLETP+GD+ + LGD IED +A SP ++AI AN+R L L+ Sbjct: 557 KVRSILKIAKQPVSLETPVGDDADATLGDMIEDVSASSPAEAAIHANMRAAIDEALNGLS 616 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE +VLRMRFG+ N+DHTLEEVGKQF VTRERIRQIE+KA+RKL HPSR+ KLR FL+ Sbjct: 617 PREAKVLRMRFGLDTNSDHTLEEVGKQFDVTRERIRQIESKAMRKLMHPSRADKLRPFLE 676 >gi|170719016|ref|YP_001784175.1| RNA polymerase sigma factor RpoD [Haemophilus somnus 2336] gi|168827145|gb|ACA32516.1| RNA polymerase, sigma 70 subunit, RpoD [Haemophilus somnus 2336] Length = 621 Score = 388 bits (997), Expect = e-105, Method: Compositional matrix adjust. Identities = 201/364 (55%), Positives = 253/364 (69%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 + L + L + D LV + D+ K + +E ++ +L + ++ F + G Sbjct: 258 QALADIFTQFRLVPKQFDALVNYMRDMMKSVRQHERQIQKLVVDLAKMPKENFQKLFIGN 317 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E W+ W + ++ + N++ I ET ++IS+ R I V +G Sbjct: 318 ESSEGWLDKLL-LARKPWSERLIQHESAVRQSINQLLKIEQETNLTISQIREICDKVAQG 376 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 377 ELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 436 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M K+ RE T EE+A+++ Sbjct: 437 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQKMGREATSEELAERMG 496 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL Sbjct: 497 MPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDNTLELPLDSATAQSLRAATHEVL 556 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 557 EGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLR 616 Query: 678 SFLD 681 SFLD Sbjct: 617 SFLD 620 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 60/164 (36%), Positives = 92/164 (56%), Gaps = 21/164 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---- 83 K +I +++GY+T E+N LP D V ++Q+ED + M+++MGI V+ D DDL Sbjct: 10 KLLIARGKEQGYLTYAEVNDHLPEDLVDADQIEDVIQMINDMGIQVLESVPDADDLMLNE 69 Query: 84 --EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DE+ E++ + SS ++ T DPVRMY+REMGS+ELL+REGEI Sbjct: 70 NITDEDAVEEATQVLSSV-----------EAELGRTTDPVRMYMREMGSVELLTREGEID 118 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAKRIE G + +++ P L+ + +G L ++I Sbjct: 119 IAKRIEEGINEVQSAVAAYPKALNYLLEQYTLVEEGGMRLADLI 162 >gi|145630289|ref|ZP_01786070.1| aspartate ammonia-lyase [Haemophilus influenzae R3021] gi|260582763|ref|ZP_05850550.1| aspartate ammonia-lyase [Haemophilus influenzae NT127] gi|144984024|gb|EDJ91461.1| aspartate ammonia-lyase [Haemophilus influenzae R3021] gi|260094213|gb|EEW78114.1| aspartate ammonia-lyase [Haemophilus influenzae NT127] Length = 629 Score = 388 bits (997), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 17 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEGGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 136 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 170 >gi|304312382|ref|YP_003811980.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma proteobacterium HdN1] gi|301798115|emb|CBL46337.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma proteobacterium HdN1] Length = 627 Score = 388 bits (997), Expect = e-105, Method: Compositional matrix adjust. Identities = 207/386 (53%), Positives = 267/386 (69%), Gaps = 4/386 (1%) Query: 300 NAVNGQKDEKS--SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELL 357 NA ++EK S +E+L + L + LV + + +R+ NE ++ Sbjct: 239 NAAKTTREEKGRKSKPFTNAQEELANQFITFKLVPRLFEQLVGGVRETLERVRENERAIM 298 Query: 358 -RLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSI 416 R + + R F+++ G E + WV + + V D I+K++ + + Sbjct: 299 TRCIRIAKMPRKDFVKQFPGNETNIEWVDKIAG-GKTAYAERVGALKDDIIKLQQNLLGL 357 Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 +SI+E + I + GE +A+ AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQE Sbjct: 358 ESTLSLSIAEIKEINRRISIGEAKAARAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQE 417 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R + Sbjct: 418 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVS 477 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R+M ++ REPTPEE+ +++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 478 RQMLQEMGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTT 537 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 SP+D+A +LRE T VLASLT RE +VL MRFGI MNTDHTLEEVGKQF VTRERI Sbjct: 538 MQSPVDAATAESLREATRDVLASLTAREAKVLAMRFGIDMNTDHTLEEVGKQFDVTRERI 597 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFLDG 682 RQIEAKA+RKL+HPSRS+ LRSFLDG Sbjct: 598 RQIEAKALRKLRHPSRSEHLRSFLDG 623 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 56/135 (41%), Positives = 82/135 (60%), Gaps = 10/135 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++G++T ++N LPPD EQ+ED +AM+++MGI V E G+E Sbjct: 12 KQLIARGKEQGFLTFADVNDHLPPDITDPEQVEDIIAMINDMGIPV-----HEAAPGAEG 66 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 L ++ SN ++ D+ T DPVRMY+REMGS+ELL+REGEI IAKRI Sbjct: 67 LLRGGANPSNEDASDEESPANAVIDAEPGRTTDPVRMYMREMGSVELLTREGEIVIAKRI 126 Query: 147 EAGRAMMMASLCESP 161 E G +M++L P Sbjct: 127 EEGIREVMSALAFWP 141 >gi|260775520|ref|ZP_05884417.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC BAA-450] gi|260608701|gb|EEX34866.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC BAA-450] Length = 617 Score = 388 bits (997), Expect = e-105, Method: Compositional matrix adjust. Identities = 204/374 (54%), Positives = 260/374 (69%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K + E ++ + L + D LVE+L +R+ E +++ + YG + + Sbjct: 246 SPKATLAHEMVIDVFKEFRLTPKQFDYLVEELRTSMERVRTQERLIMKASVEYGKMPKKS 305 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ + D P E + D I + ++K I ET +++ Sbjct: 306 FITLFTGNESSEAWLDEILSSDKPYAEK---IRRSEDDIRRSIMKLKVIEEETSLTVQNI 362 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 363 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 422 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 423 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 482 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 483 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATST 542 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 543 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 602 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 603 RHPSRSETLRSFLD 616 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +D++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDTITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|37527834|ref|NP_931179.1| RNA polymerase sigma factor RpoD [Photorhabdus luminescens subsp. laumondii TTO1] gi|36787270|emb|CAE16351.1| RNA polymerase sigma factor rpoD (Sigma-70) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 614 Score = 388 bits (996), Expect = e-105, Method: Compositional matrix adjust. Identities = 200/363 (55%), Positives = 258/363 (71%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++++ + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNNMRSMMDRVRLQERQIMKMCVEQCKMPKKNFITLFSGNE 311 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + AK + + + E D + + +++ I ETG++I + + I + GE Sbjct: 312 TSDIWFTAAKAMNKPWSEKLLEVE-DEVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 370 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 371 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 430 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 431 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 490 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 491 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 550 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 551 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 610 Query: 679 FLD 681 FLD Sbjct: 611 FLD 613 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TANDTDEDAVEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|113461378|ref|YP_719447.1| RNA polymerase sigma factor RpoD [Haemophilus somnus 129PT] gi|112823421|gb|ABI25510.1| RNA polymerase, sigma 70 subunit, RpoD [Haemophilus somnus 129PT] Length = 595 Score = 388 bits (996), Expect = e-105, Method: Compositional matrix adjust. Identities = 201/364 (55%), Positives = 253/364 (69%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 + L + L + D LV + D+ K + +E ++ +L + ++ F + G Sbjct: 232 QALADIFTQFRLVPKQFDALVNYMRDMMKSVRQHERQIQKLVVDLAKMPKENFQKLFIGN 291 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E W+ W + ++ + N++ I ET ++IS+ R I V +G Sbjct: 292 ESSEGWLDKLL-LARKPWSERLIQHESAVRQSINQLLKIEQETNLTISQIREICDKVAQG 350 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 351 ELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 410 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M K+ RE T EE+A+++ Sbjct: 411 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQKMGREATSEELAERMG 470 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL Sbjct: 471 MPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDNTLELPLDSATAQSLRAATHEVL 530 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 531 EGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLR 590 Query: 678 SFLD 681 SFLD Sbjct: 591 SFLD 594 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 51/130 (39%), Positives = 74/130 (56%), Gaps = 21/130 (16%) Query: 49 LNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL------EDEEGSEDSLDLASS 98 +N LP D V ++Q+ED + M+++MGI V+ D DDL DE+ E++ + SS Sbjct: 1 MNDHLPEDLVDADQIEDVIQMINDMGIQVLESVPDADDLMLNENITDEDAVEEATQVLSS 60 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLC 158 ++ T DPVRMY+REMGS+ELL+REGEI IAKRIE G + +++ Sbjct: 61 V-----------EAELGRTTDPVRMYMREMGSVELLTREGEIDIAKRIEEGINEVQSAVA 109 Query: 159 ESPLTFQALI 168 P L+ Sbjct: 110 AYPKALNYLL 119 >gi|68249130|ref|YP_248242.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae 86-028NP] gi|68057329|gb|AAX87582.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae 86-028NP] Length = 623 Score = 388 bits (996), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 262 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITANGS 321 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 322 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 380 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 381 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 440 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 441 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 500 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 501 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 560 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 561 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 620 Query: 680 LD 681 LD Sbjct: 621 LD 622 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 17 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEGGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 136 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 170 >gi|323495834|ref|ZP_08100902.1| RNA polymerase sigma factor RpoD [Vibrio sinaloensis DSM 21326] gi|323319050|gb|EGA71993.1| RNA polymerase sigma factor RpoD [Vibrio sinaloensis DSM 21326] Length = 620 Score = 388 bits (996), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/374 (54%), Positives = 261/374 (69%), Gaps = 6/374 (1%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDV 369 S K ++ E ++ + L + D LV +L +R+ E +++ + YG + + Sbjct: 249 SPKAQIAHELVLDVFKEFRLTPKQFDYLVNELRTSMERVRTQERLIMKASVEYGKMPKKS 308 Query: 370 FLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W+ A D P + + + D I + ++K I ET +++ Sbjct: 309 FISLFSGNESSDAWLDEILASDKP---YADKIRRSEDDIRRSIMKLKMIEEETSLTVQSI 365 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 366 KDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 425 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 426 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 485 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 486 LPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATAT 545 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 546 SLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 605 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 606 RHPSRSETLRSFLD 619 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KLLVLKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIRVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++++ +A ++ L ++ R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DETITDEDAAEAAAAALSSVENEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + ++ E P T ++ Sbjct: 129 INQVQNAVAEYPGTIPYIL 147 >gi|148827724|ref|YP_001292477.1| DNA primase [Haemophilus influenzae PittGG] gi|148718966|gb|ABR00094.1| DNA primase [Haemophilus influenzae PittGG] Length = 629 Score = 387 bits (995), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITANGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|290474860|ref|YP_003467740.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus bovienii SS-2004] gi|289174173|emb|CBJ80960.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus bovienii SS-2004] Length = 616 Score = 387 bits (995), Expect = e-105, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 258/362 (71%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++++ + + + F+ G E Sbjct: 255 LSEVFKQFRLIPKQFDYLVNNMRSMMDRVRLQERQIMKMCVELCKMPKKNFITLFSGNET 314 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W + AK W + ++ D +++ +++ I ETG++I + + I + GE Sbjct: 315 TDTWFTAAKAM-NKPWSDKLSEVEDDVMRSLQKLRQIEEETGLTIEQVKDINRRMSIGEA 373 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 433 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP Sbjct: 434 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMP 493 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETP+GD+D SHLGDFIED PLDSA +LR T VLA Sbjct: 494 EDKIRKVLKIAKEPISMETPVGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAG 553 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 554 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 613 Query: 680 LD 681 LD Sbjct: 614 LD 615 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGECRLSDLI 164 >gi|149376143|ref|ZP_01893908.1| sigma factor RpoD [Marinobacter algicola DG893] gi|149359548|gb|EDM48007.1| sigma factor RpoD [Marinobacter algicola DG893] Length = 616 Score = 387 bits (995), Expect = e-105, Method: Compositional matrix adjust. Identities = 198/365 (54%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L ++ L D LV + + + NE ++++ + + R F++ G E Sbjct: 250 ELGQVFAPFKLGNKAFDELVNVVRSTNDLVRENERAIMKICVRECKMPRKDFIKSFPGNE 309 Query: 379 LDPHWVSYAKDFPEGE--WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W A+ +G+ + +A +D +++++ I +I E + +S+ + I V Sbjct: 310 TSLDW---AEKMSKGKKPYAPLIAERIDEVVRLQKRIANIQTEVDLDVSDIKEINRRVSI 366 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 367 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 426 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 427 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 486 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED A+SP+DSA LRE T V Sbjct: 487 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDIQALSPVDSATAEGLREATRSV 546 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L Sbjct: 547 LSGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDHL 606 Query: 677 RSFLD 681 R F+D Sbjct: 607 RGFID 611 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D L + Sbjct: 11 KDLIARGKEQGYLTYAEVNDHLPEDIADPDQVEDIIRMINDMGIQVSEVAPDADTLLMTD 70 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS ++A+ ++ L + A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 71 G--DSTADEAAAAEAAAALAAVESDAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G +MA++ P +I D + + L +I+ Sbjct: 128 EGIRDVMAAVAHFPGITGTVIQAYDRIIENEGRLSDIV 165 >gi|212711167|ref|ZP_03319295.1| hypothetical protein PROVALCAL_02239 [Providencia alcalifaciens DSM 30120] gi|212686335|gb|EEB45863.1| hypothetical protein PROVALCAL_02239 [Providencia alcalifaciens DSM 30120] Length = 615 Score = 387 bits (995), Expect = e-105, Method: Compositional matrix adjust. Identities = 202/374 (54%), Positives = 261/374 (69%), Gaps = 2/374 (0%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKR 367 +S K E+L ++ L + D LV + ++ R+ E +++L + + + Sbjct: 242 RSDAKTVAAIEQLSEVFKEFRLVPKQFDYLVNNMREMMDRVRLQERTIMKLCVEQCKMPK 301 Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W++ AK W + + +L+ ++ I ETG++I + Sbjct: 302 KNFITLFSGNETSETWLTAAKAM-NKPWSEKLLEVEEEVLRCLQRLRQIEEETGLTIEQV 360 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 361 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 420 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 421 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 480 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 481 SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSE 540 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 541 SLRSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 600 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LRSFLD Sbjct: 601 RHPSRSEVLRSFLD 614 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLILAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|145633515|ref|ZP_01789244.1| aspartate ammonia-lyase [Haemophilus influenzae 3655] gi|144985884|gb|EDJ92492.1| aspartate ammonia-lyase [Haemophilus influenzae 3655] Length = 628 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 267 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYEERQLQKILVDIAGMPKDDFEKIITTNGS 326 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 327 NSEWVTKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 385 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 386 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 445 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 446 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 505 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 506 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 565 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 566 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 625 Query: 680 LD 681 LD Sbjct: 626 LD 627 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 17 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEEGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 136 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 170 >gi|16272477|ref|NP_438691.1| RNA polymerase sigma-70 factor [Haemophilus influenzae Rd KW20] gi|260580980|ref|ZP_05848803.1| transcription initiation factor sigma 70 [Haemophilus influenzae RdAW] gi|1173125|sp|P43766|RPOD_HAEIN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|1573517|gb|AAC22190.1| RNA polymerase sigma-70 factor (rpoD) [Haemophilus influenzae Rd KW20] gi|260092339|gb|EEW76279.1| transcription initiation factor sigma 70 [Haemophilus influenzae RdAW] Length = 629 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|262392398|ref|YP_003284252.1| RNA polymerase sigma factor RpoD [Vibrio sp. Ex25] gi|262335992|gb|ACY49787.1| RNA polymerase sigma factor RpoD [Vibrio sp. Ex25] Length = 620 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 211/399 (52%), Positives = 268/399 (67%), Gaps = 11/399 (2%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N +S K V E ++ + L + D LV +L Sbjct: 226 EKFNQLRSTYQNLQLAINEYG--YNSPKATVANEMMLDVFREFRLTPKQFDHLVNELRTA 283 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A D P E + Sbjct: 284 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAEK---IKRN 340 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 341 EEEIRRSIAKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKK 400 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 401 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 460 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD Sbjct: 461 VHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGD 520 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 521 DEDSHLGDFIEDTTLELPLDSATATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTL 580 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 581 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 619 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 10 KSLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 129 INQVQSSVAEYPGTIPYIL 147 >gi|145628917|ref|ZP_01784717.1| DNA primase [Haemophilus influenzae 22.1-21] gi|145635386|ref|ZP_01791088.1| aspartate ammonia-lyase [Haemophilus influenzae PittAA] gi|144979387|gb|EDJ89073.1| DNA primase [Haemophilus influenzae 22.1-21] gi|145267392|gb|EDK07394.1| aspartate ammonia-lyase [Haemophilus influenzae PittAA] Length = 623 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 262 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 321 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 322 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 380 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 381 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 440 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 441 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 500 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 501 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 560 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 561 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 620 Query: 680 LD 681 LD Sbjct: 621 LD 622 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 17 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEGGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 136 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 170 >gi|148825193|ref|YP_001289946.1| aspartate ammonia-lyase [Haemophilus influenzae PittEE] gi|148715353|gb|ABQ97563.1| aspartate ammonia-lyase [Haemophilus influenzae PittEE] Length = 645 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 284 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 343 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 344 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 402 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 403 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 462 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 463 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 522 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 523 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 582 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 583 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 642 Query: 680 LD 681 LD Sbjct: 643 LD 644 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 39 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 98 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 99 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEGGI 157 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 158 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 192 >gi|262275021|ref|ZP_06052832.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886] gi|262221584|gb|EEY72898.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886] Length = 615 Score = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 205/381 (53%), Positives = 264/381 (69%), Gaps = 10/381 (2%) Query: 304 GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY 363 G+ E+++V L E + L + D LV ++ D R+ E ++RL Sbjct: 241 GRFHEQTTVAIAELSE----VFKQFRLVPKQFDRLVNEMRDTMDRVRTQERIIMRLCVDQ 296 Query: 364 G-IKRDVFLERHQGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 + + F++ G E W+ + A D P E + + + + ++K + ET Sbjct: 297 AKMPKKTFVQLFAGNESSDAWLDKALASDKPYAER---LKQHEEDLRRCIQKLKIVEDET 353 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+S+ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 354 GLSVERVKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 413 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 414 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML 473 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P Sbjct: 474 QEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELP 533 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +DSA NL+ T+ VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 534 MDSATMNNLKMATSEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 593 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS+ LRSFLD Sbjct: 594 AKALRKLRHPSRSEVLRSFLD 614 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 58/154 (37%), Positives = 92/154 (59%), Gaps = 1/154 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV+ DE + Sbjct: 10 KLLVAKGKEQGYLTYSEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVETAPDADELMMSE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 ++ + ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 TVADEDAVEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGIN 128 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P + +L+ D++ L +II Sbjct: 129 QVQVSVAEYPGSISSLLDQFDKVEAEELRLTDII 162 >gi|145638551|ref|ZP_01794160.1| aspartate ammonia-lyase [Haemophilus influenzae PittII] gi|229844308|ref|ZP_04464448.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 6P18H1] gi|229846616|ref|ZP_04466724.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 7P49H1] gi|145272146|gb|EDK12054.1| aspartate ammonia-lyase [Haemophilus influenzae PittII] gi|229810709|gb|EEP46427.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 7P49H1] gi|229812557|gb|EEP48246.1| RNA polymerase sigma-70 factor [Haemophilus influenzae 6P18H1] gi|309750056|gb|ADO80040.1| RNA polymerase sigma-70 factor [Haemophilus influenzae R2866] gi|309972316|gb|ADO95517.1| RNA polymerase sigma-70 factor [Haemophilus influenzae R2846] Length = 629 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|319775546|ref|YP_004138034.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3047] gi|317450137|emb|CBY86351.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3047] Length = 629 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|319897950|ref|YP_004136147.1| RNA polymerase, sigma 70 (sigma d) factor [Haemophilus influenzae F3031] gi|329122411|ref|ZP_08250998.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus aegyptius ATCC 11116] gi|317433456|emb|CBY81839.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae F3031] gi|327473693|gb|EGF19112.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus aegyptius ATCC 11116] Length = 629 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|301169248|emb|CBW28845.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus influenzae 10810] Length = 629 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN-MGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L N GI V+D D+ Sbjct: 17 EQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLS 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEGGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ P L+ D++ G L ++I Sbjct: 136 DEVQTSIAAYPEALNGLLKNYDDVEKGNFRLTDLI 170 >gi|189424079|ref|YP_001951256.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] gi|189420338|gb|ACD94736.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] Length = 586 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 178/263 (67%), Positives = 226/263 (85%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E+G +E + +R+GE +A IAK E++EANLRLV+S+AKKYTNRGLQFLDLIQEGN Sbjct: 324 ESGFKATELSKAIRAIREGEHKARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGN 383 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R+ Sbjct: 384 IGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQ 443 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + + REP+PEEIA ++ +P++ VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK V Sbjct: 444 LVQENGREPSPEEIADRMQLPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKGVV 503 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +PL++ I+ANL E T+RVL++LTPREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQ Sbjct: 504 NPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQ 563 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKL+HPSRSKKL+SF++ Sbjct: 564 IEAKALRKLRHPSRSKKLKSFVE 586 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 50/146 (34%), Positives = 85/146 (58%), Gaps = 1/146 (0%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I + +++G++T +E+N LPPD +++EQ++D + M +M I +VD Sbjct: 7 DEVKQLIDIGKEKGFLTFDEVNDILPPD-IATEQIDDVMGMFGDMDIEIVDSAQKVKIPK 65 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + L+ + + + A T DPVRMYLREMGS+ LL+REGE+ IAKRIE Sbjct: 66 IKIDLEEGEEEAEGEAEEVEFEPGAIGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIED 125 Query: 149 GRAMMMASLCESPLTFQALIIWRDEL 174 G + + +P+T + ++ ++L Sbjct: 126 GDREVAGIILNTPITVKEVLALGEKL 151 >gi|145637426|ref|ZP_01793085.1| aspartate ammonia-lyase [Haemophilus influenzae PittHH] gi|145269372|gb|EDK09316.1| aspartate ammonia-lyase [Haemophilus influenzae PittHH] Length = 629 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRYQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|77920269|ref|YP_358084.1| RNA polymerase, sigma(70) factor [Pelobacter carbinolicus DSM 2380] gi|77546352|gb|ABA89914.1| RNA polymerase, sigma 70 subunit, RpoD [Pelobacter carbinolicus DSM 2380] Length = 588 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 207/420 (49%), Positives = 297/420 (70%), Gaps = 28/420 (6%) Query: 277 RPKVMCALDEIAEVYRELRSL-QDNAVNGQKDEKSSVKCKVLKEK--LVKLVGSLSLNQS 333 R +++ +++I + EL L Q+ A G + +++S++ ++ ++K + +L+ + L Sbjct: 180 RTRILDLVEKIRQQNDELMVLCQELADCGDRQQRNSLRDQIAEKKASIGELMREIRLKDF 239 Query: 334 RIDLLVEQLYDISKRIMHNEGELL----RLAQSYG-IKRDVFLERHQGRELDPHWVSYAK 388 ++D +V++L D+++++ E+ L Q + IKR L R + + + H +S Sbjct: 240 QVDKIVDRLKDMAQQVKKGLSEVQACEEELKQPHKEIKR--LLRRMRKSDEEAHRISQDL 297 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKS-------ISVETGISISEFRHIVSMVRKGECEA 441 P +D++L + +KS + E+G + E + V KGE A Sbjct: 298 GVP-----------IDTLLSVEKRLKSAQRKFNRVEDESGFAPEELLGSLKEVMKGEWRA 346 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 347 KAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 406 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R++ ++ REP PEEIA+++ +P+E Sbjct: 407 WWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEMGREPVPEEIAERMELPLE 466 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR+VLKI KEPISLETPIG+E+ S LGDFIEDK VSPL++ I+ NL + T+RVLASLT Sbjct: 467 KVRRVLKIAKEPISLETPIGEEEDSSLGDFIEDKGVVSPLEAVIKGNLSDQTSRVLASLT 526 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PREE+VLRMRFGIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+++L+SF++ Sbjct: 527 PREEKVLRMRFGIGEKSDHTLEEVGQDFAVTRERIRQIEAKALRKLRHPSRARRLKSFVE 586 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 51/137 (37%), Positives = 85/137 (62%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I + +++GY+T +E+N +LP VSS+Q++D +++ M I VVD + ++ Sbjct: 11 QQLIDMGKEKGYLTYDEVNDYLPESVVSSDQLDDVMSLFGEMDIEVVDSEQKVSVSKTQS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 D +SS S + + T DPVRMYLREMG + LL+REGE+ IAKRIE G A Sbjct: 71 DSDDSSSDSGEEEEETEYEAGTLGRTSDPVRMYLREMGQVSLLTREGEVEIAKRIEEGEA 130 Query: 152 MMMASLCESPLTFQALI 168 ++ + ++P+ F+ +I Sbjct: 131 LVARVIMKTPIAFREVI 147 >gi|119773960|ref|YP_926700.1| RNA polymerase sigma-70 factor [Shewanella amazonensis SB2B] gi|119766460|gb|ABL99030.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella amazonensis SB2B] Length = 620 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 212/400 (53%), Positives = 280/400 (70%), Gaps = 13/400 (3%) Query: 289 EVYRELRSLQDNA-----VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E + LR+ DNA V G+ +S+ + L E L ++ L + D LV+ + Sbjct: 226 ERFAALRAAYDNALKVIEVKGRAHPEST---RALFE-LGEIFKEFRLVPKQFDRLVKSMR 281 Query: 344 DISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 ++ ++ E +++L + + + F++ G E D W + K+ G + Sbjct: 282 EMMDKVRVQERLIMKLCVEQAKMPKKNFVKLFTGNETDLTW--FNKEIEAGRPYSADLKL 339 Query: 403 VDS-ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 VD + + R ++++I VETG+SI + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 340 VDEDVQRCRAKLEAIEVETGLSIESIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 399 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 400 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 459 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ REP+PEE+A+++AMP + +RKVLKI KEPIS+ETPIG Sbjct: 460 PVHMIETINKLNRISRQMLQEMGREPSPEELAERMAMPEDKIRKVLKIAKEPISMETPIG 519 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED PLDSA +L++ T VLA LT RE +VLRMRFGI MNTDHT Sbjct: 520 DDEDSHLGDFIEDTTLELPLDSATSESLKQATHEVLAGLTAREAKVLRMRFGIDMNTDHT 579 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 580 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 619 Score = 94.4 bits (233), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 58/155 (37%), Positives = 89/155 (57%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D ++ SE Sbjct: 13 KMLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEEAPDADEMMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 131 NTVQSSVAEYPQAISMILEQFDQFEADAIRLSDII 165 >gi|311693206|gb|ADP96079.1| RNA polymerase, sigma 70 subunit, RpoD [marine bacterium HP15] Length = 615 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/383 (53%), Positives = 269/383 (70%), Gaps = 8/383 (2%) Query: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL- 359 A +G+ D+K+ + L E L ++ L D LV + + + NE ++++ Sbjct: 233 AKHGRSDKKTQ---EALNE-LGQVFAPFKLANKAFDELVNVVRSTNDLVRENERAIMQIC 288 Query: 360 AQSYGIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 + + R F++ G E + W AK + + +A +D +++++ I+++ Sbjct: 289 VRECKMPRKDFIKSFPGNETNLDWADKIAKS--KKPYAAPLAERIDEVVRLQKRIQNVQT 346 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E + +++ + I V GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 347 EVDLDVADIKEINRRVSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 406 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 407 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ 466 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++ REPTPEE+ +++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED A+ Sbjct: 467 MLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDIQAL 526 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 SP+DSA LRE T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQ Sbjct: 527 SPVDSATAEGLREATRSVLAGLTARESKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQ 586 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKL+HPSRS LR F+D Sbjct: 587 IEAKALRKLRHPSRSDHLRGFID 609 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 63/152 (41%), Positives = 92/152 (60%), Gaps = 9/152 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D L E Sbjct: 11 KDLIARGKEQGYLTYAEVNDHLPEDIADPDQVEDIIRMINDMGIQVCEETPDADTLLMTE 70 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS ++A+ ++ L + A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 71 G--DSTADEAAAAEAAAALAAVETDAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALIIWRDEL--NDG 177 G +MA++ P T +I D + N+G Sbjct: 128 EGIRDVMAAVAHFPGTAGTVIQAYDRILENEG 159 >gi|28897178|ref|NP_796783.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus RIMD 2210633] gi|153839257|ref|ZP_01991924.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ3810] gi|260361470|ref|ZP_05774529.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus K5030] gi|260878083|ref|ZP_05890438.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AN-5034] gi|260896978|ref|ZP_05905474.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio parahaemolyticus Peru-466] gi|260902497|ref|ZP_05910892.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ4037] gi|28805387|dbj|BAC58667.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus RIMD 2210633] gi|149747222|gb|EDM58210.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ3810] gi|308088714|gb|EFO38409.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio parahaemolyticus Peru-466] gi|308089726|gb|EFO39421.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AN-5034] gi|308109810|gb|EFO47350.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus AQ4037] gi|308110993|gb|EFO48533.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus K5030] gi|328471947|gb|EGF42824.1| RNA polymerase sigma factor RpoD [Vibrio parahaemolyticus 10329] Length = 620 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 211/399 (52%), Positives = 268/399 (67%), Gaps = 11/399 (2%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N + S K V E ++ + L + D LV +L Sbjct: 226 EKFNQLRSTYQNLQLAINEYGYD--SPKATVANEMMLDVFKEFRLTPKQFDHLVNELRTA 283 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A D P E + Sbjct: 284 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGNESSDAWLDEILASDKPYAEK---IKRN 340 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 341 EEEIRRSIAKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKK 400 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 401 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 460 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD Sbjct: 461 VHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGD 520 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 521 DEDSHLGDFIEDTTLELPLDSATATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTL 580 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 581 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 619 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 129 INQVQSSVAEYPGTIPYIL 147 >gi|117618585|ref|YP_855378.1| RNA polymerase sigma factor RpoD [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559992|gb|ABK36940.1| RNA polymerase sigma factor RpoD [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 618 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 255/363 (70%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L + L + D LV + ++ +R+ E +++L + + + F+ E Sbjct: 256 QLADVFRQFRLMPKQFDRLVNNMREMMERVRVQERIIMKLCVEQAKMPKKTFVAAFTNNE 315 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + W Y K + V + D +L+ +++ I ETG+SI++ + I + GE Sbjct: 316 CETAWFEYQKQAGKAWSPRLVEMDED-VLRAIGKLQQIEEETGLSIAQIKDINRRMSIGE 374 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 375 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 434 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A ++ M Sbjct: 435 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELAMRMGM 494 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P D+A +LR T VLA Sbjct: 495 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLALPADAATSESLRNATREVLA 554 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 555 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 614 Query: 679 FLD 681 FLD Sbjct: 615 FLD 617 >gi|145640511|ref|ZP_01796095.1| DNA primase [Haemophilus influenzae R3021] gi|145275097|gb|EDK14959.1| DNA primase [Haemophilus influenzae 22.4-21] Length = 629 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/362 (56%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGREL 379 L ++ L + DLLV + ++ KR+ + E +L + L G+ +D F + Sbjct: 268 LGEIFKQFRLVPKQFDLLVLSMKEMMKRVRNQERQLQKILVDIAGMPKDDFEKIITTNGS 327 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + WV+ A + K + E D I + N + T ++I++ R I V +GE Sbjct: 328 NSEWVAKALKSSKPWAKRLIKYE-DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQ 386 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 387 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 446 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE TPEE+A+++ MP Sbjct: 447 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMP 506 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +L+ T VL Sbjct: 507 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEG 566 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 567 LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSF 626 Query: 680 LD 681 LD Sbjct: 627 LD 628 >gi|271499150|ref|YP_003332175.1| RNA polymerase sigma-70 subunit RpoD [Dickeya dadantii Ech586] gi|270342705|gb|ACZ75470.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya dadantii Ech586] Length = 611 Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust. Identities = 201/363 (55%), Positives = 257/363 (70%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + DLLV + + R+ E ++++L + + + F+ G E Sbjct: 249 KLSEVFKQFRLVPKQFDLLVNNMRSMMDRVRAQERQIMKLCVELCKMPKKNFVTLFTGNE 308 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + W A + + E D + + +++ I ETG++I + + I + GE Sbjct: 309 TNSKWFEAAVSMGKPWCEKLREVE-DDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIGE 367 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 368 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 427 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 428 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 487 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 488 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 547 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 548 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 607 Query: 679 FLD 681 FLD Sbjct: 608 FLD 610 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 96/155 (61%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + G + L ++I Sbjct: 128 NQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 162 >gi|300724881|ref|YP_003714206.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297631423|emb|CBJ92120.1| sigma D (sigma 70) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] Length = 616 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 197/362 (54%), Positives = 257/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++++ + + + F+ G E Sbjct: 255 LSEVFKQFRLVPKQFDYLVNNMRSMMDRVRLQERQIMKMCVEQCKMPKKNFITLFSGNET 314 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W + AK W N + + +++ +++ I ETG++I + + I + GE Sbjct: 315 TDTWFTAAKAM-NKPWSNKLLEIEEEVMRSLQKLRQIEEETGLTIEQVKDINRRMSIGEA 373 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 433 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP Sbjct: 434 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMP 493 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETP+GD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 494 EDKIRKVLKIAKEPISMETPVGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAG 553 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 554 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 613 Query: 680 LD 681 LD Sbjct: 614 LD 615 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|91227144|ref|ZP_01261628.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|91188796|gb|EAS75083.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] Length = 574 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 211/399 (52%), Positives = 268/399 (67%), Gaps = 11/399 (2%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N +S K V E ++ + L + D LV +L Sbjct: 180 EKFNQLRSTYQNLQLAINEYG--YNSPKATVANEMMLDVFREFRLTPKQFDHLVNELRTA 237 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A D P E + Sbjct: 238 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAEK---IKRN 294 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 295 EEEIRRSIAKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKK 354 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 355 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 414 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD Sbjct: 415 VHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGD 474 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 475 DEDSHLGDFIEDTTLELPLDSATATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTL 534 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 535 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 573 Score = 65.1 bits (157), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 30/52 (57%), Positives = 39/52 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 T DPVRMY+REMG++ELL+REGEI IAKRIE G + +S+ E P T ++ Sbjct: 50 TTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINQVQSSVAEYPGTIPYIL 101 >gi|77461370|ref|YP_350877.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf0-1] gi|77385373|gb|ABA76886.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas fluorescens Pf0-1] Length = 615 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 198/355 (55%), Positives = 260/355 (73%), Gaps = 2/355 (0%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSY 386 + L + + LVE++ R+ E +++L + + R FL + G E+D W S Sbjct: 261 IKLVPKQFEALVERVRSALDRLRQQERAIMQLCVRDARMPRADFLRQFPGNEVDESW-SD 319 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A + ++ +A I++ + ++ ++ ETG++I+E + I + GE +A AKK Sbjct: 320 ALAKGKSKYAEAIARVQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIGEAKARRAKK 379 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 380 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 439 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKV Sbjct: 440 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKV 499 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE + Sbjct: 500 LKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAK 559 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 560 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 614 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/136 (39%), Positives = 83/136 (61%), Gaps = 1/136 (0%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++IKL R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D+ Sbjct: 13 ELIKLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLADA 72 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIRE 131 Query: 153 MMASLCESPLTFQALI 168 +M+++ P T ++ Sbjct: 132 VMSAIAHFPGTVDHIL 147 >gi|163802687|ref|ZP_02196578.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4] gi|159173575|gb|EDP58395.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4] Length = 620 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 210/403 (52%), Positives = 272/403 (67%), Gaps = 9/403 (2%) Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 AL++ +++ ++LQ A+N E S K + E ++ + L + D LV + Sbjct: 223 LALEKFSQLRNTYQNLQ-LAINEHGYE--SPKATLANELMLDVFREFRLTPKQFDHLVNE 279 Query: 342 LYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNF 398 L R+ E +++ YG + + F+ G E W+ A D P E Sbjct: 280 LRTAMDRVRTQERLIMKSTVEYGKMPKKSFIALFTGNESSEAWLDEILASDKPYAEK--- 336 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS Sbjct: 337 IKRSEEDIRRSITKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVIS 396 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 397 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 456 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ET Sbjct: 457 IRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMET 516 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNT Sbjct: 517 PIGDDEDSHLGDFIEDTTLELPLDSATATSLKMATKDVLAGLTPREAKVLRMRFGIDMNT 576 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 577 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 619 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 129 INQVQSSVAEYPGTIPYIL 147 >gi|251791058|ref|YP_003005779.1| RNA polymerase sigma factor RpoD [Dickeya zeae Ech1591] gi|247539679|gb|ACT08300.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya zeae Ech1591] Length = 611 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 201/363 (55%), Positives = 257/363 (70%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + DLLV + + R+ E ++++L + + + F+ G E Sbjct: 249 KLSEVFKQFRLVPKQFDLLVNNMRSMMDRVRTQERQIMKLCVELCKMPKKNFVTLFTGNE 308 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + W A + + E D + + +++ I ETG++I + + I + GE Sbjct: 309 TNSKWFEAALSMGKPWCEKLREVE-DDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIGE 367 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 368 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 427 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 428 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 487 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 488 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 547 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 548 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 607 Query: 679 FLD 681 FLD Sbjct: 608 FLD 610 Score = 97.4 bits (241), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 63/175 (36%), Positives = 102/175 (58%), Gaps = 13/175 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII----------DLEACIGPES 195 + S+ E P L+ D + G + L ++I DL + PE+ Sbjct: 128 NQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLITGFVDPNAEEDLAPNVAPEN 182 >gi|39546362|ref|NP_462126.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|161616204|ref|YP_001590169.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167551873|ref|ZP_02345626.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|167990234|ref|ZP_02571334.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168237909|ref|ZP_02662967.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168243042|ref|ZP_02667974.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168262827|ref|ZP_02684800.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168463576|ref|ZP_02697493.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|194445988|ref|YP_002042478.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451693|ref|YP_002047209.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194472915|ref|ZP_03078899.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194736124|ref|YP_002116168.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197251872|ref|YP_002148141.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197264102|ref|ZP_03164176.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|198242489|ref|YP_002217192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200389116|ref|ZP_03215728.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928094|ref|ZP_03219294.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|207858469|ref|YP_002245120.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213425630|ref|ZP_03358380.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213586893|ref|ZP_03368719.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213646106|ref|ZP_03376159.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213865054|ref|ZP_03387173.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|238910014|ref|ZP_04653851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|61234163|sp|P0A2E3|RPOD_SALTY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|61234169|sp|P0A2E4|RPOD_SALTI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|154406|gb|AAA27242.1| rpoD protein [Salmonella enterica subsp. enterica serovar Typhimurium] gi|161365568|gb|ABX69336.1| hypothetical protein SPAB_04007 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194404651|gb|ACF64873.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409997|gb|ACF70216.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194459279|gb|EDX48118.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194711626|gb|ACF90847.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195633147|gb|EDX51561.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197215575|gb|ACH52972.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197242357|gb|EDY24977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197289083|gb|EDY28452.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197937005|gb|ACH74338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199606214|gb|EDZ04759.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322416|gb|EDZ07613.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205323318|gb|EDZ11157.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205331247|gb|EDZ18011.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205337819|gb|EDZ24583.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205348629|gb|EDZ35260.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206710272|emb|CAR34630.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|301159764|emb|CBW19283.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312914239|dbj|BAJ38213.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|321225894|gb|EFX50948.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] Length = 615 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 490 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 549 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609 Query: 677 RSFLD 681 RSFLD Sbjct: 610 RSFLD 614 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|87119778|ref|ZP_01075675.1| RNA polymerase sigma factor [Marinomonas sp. MED121] gi|86165254|gb|EAQ66522.1| RNA polymerase sigma factor [Marinomonas sp. MED121] Length = 614 Score = 386 bits (991), Expect = e-105, Method: Compositional matrix adjust. Identities = 196/326 (60%), Positives = 241/326 (73%), Gaps = 17/326 (5%) Query: 364 GIKRDVFLERHQGRELDPHW--------VSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 G+ R FL+R E + W YA E E + ++ + ++++ Sbjct: 297 GMPRTEFLKRFPNNETNIQWFPDQIASGAGYAAALQENEAE---------FMRSQRKLRN 347 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS +TG++I E + I + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 348 ISKDTGLTIVELKEINRRISIGETRARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 407 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R Sbjct: 408 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRI 467 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R+M ++ RE TPEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 468 SRQMLQEMGREATPEELAVRMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDD 527 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A SP+D+A LRE TT VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRER Sbjct: 528 GAESPIDTATIEGLREATTSVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 587 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 588 IRQIEAKALRKLRHPSRSEHLRSFLD 613 >gi|145300336|ref|YP_001143177.1| RNA polymerase sigma factor RpoD [Aeromonas salmonicida subsp. salmonicida A449] gi|142853108|gb|ABO91429.1| RNA polymerase sigma factor RpoD [Aeromonas salmonicida subsp. salmonicida A449] Length = 616 Score = 385 bits (990), Expect = e-105, Method: Compositional matrix adjust. Identities = 199/378 (52%), Positives = 261/378 (69%), Gaps = 2/378 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSY 363 QK+ ++ + +L + L + D LV + ++ +R+ E +++L + Sbjct: 239 QKNGRAHEDTQAAIAQLADVFRQFRLMPKQFDRLVNNMREMMERVRVQERIIMKLCVEQA 298 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + + F+ E + W Y K + W + + +L+ +++ I ETG+S Sbjct: 299 KMPKKTFVAAFTNNECETAWFEYQKQAGKA-WSPRLLEMDEEVLRSIGKLQQIEEETGLS 357 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 358 IAQIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 417 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 418 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM 477 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REP PEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P D+ Sbjct: 478 GREPNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLALPADA 537 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 538 ATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 597 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKL+HPSRS+ LRSFLD Sbjct: 598 LRKLRHPSRSEVLRSFLD 615 >gi|330505280|ref|YP_004382149.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01] gi|328919566|gb|AEB60397.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01] Length = 615 Score = 385 bits (990), Expect = e-105, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 258/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV Q+ D R+ E +++L + + R FL G E+ Sbjct: 254 LAELFMPIKLVPKQYDALVTQVRDALDRLRAQERAIMQLCVRDARMPRADFLRLFPGNEI 313 Query: 380 DPHWVSYAKDFPEGEWKNFVACE--VDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 D W A D +G+ K A I + + ++ + E +S++E + I + G Sbjct: 314 DMDW---AADLAKGKAKYAEALGNLQGDIQRCQQKLADLEAECSLSLAEIKDINRRMSIG 370 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 430 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERME 490 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL Sbjct: 491 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVL 550 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LR Sbjct: 551 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLR 610 Query: 678 SFLD 681 SFLD Sbjct: 611 SFLD 614 >gi|88704608|ref|ZP_01102321.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71] gi|88700929|gb|EAQ98035.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71] Length = 607 Score = 385 bits (990), Expect = e-104, Method: Compositional matrix adjust. Identities = 213/424 (50%), Positives = 277/424 (65%), Gaps = 16/424 (3%) Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKE 319 +DEDD+A T P + A + R+ + + +K+S+K E Sbjct: 195 DDEDDNAPT--------GPDPVEAKKRFTALKRQFNKTEKVLAEKGRQDKASIKEM---E 243 Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRE 378 KL ++ D L ++ + E E++R+ + + R F+ QG E Sbjct: 244 KLGEIFKFFKFTPKVFDPLNDEARSALAGVREQEREIMRIVVRRCQMPRKEFITSFQGNE 303 Query: 379 LDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W+S +A+ G N + I + + +I I TG++++E + I + G Sbjct: 304 SNAKWLSRHARKKDYGPKLN---AHKEEIHRAQRQIGQIEEATGLTVTEIKEINRRMSMG 360 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 361 EARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 420 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 421 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERME 480 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+ SP+DSA L+E T VL Sbjct: 481 MPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQTIHSPIDSATGQGLQEATKDVL 540 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS LR Sbjct: 541 GGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLR 600 Query: 678 SFLD 681 SFLD Sbjct: 601 SFLD 604 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 58/143 (40%), Positives = 87/143 (60%), Gaps = 11/143 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL--ED 85 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D DDL D Sbjct: 12 KSLIAKGKEQGYLTYAEVNDHLPEDISDPDQVEDIIQMINDMGIQVFEQAPDADDLILTD 71 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 +GS D + A +A+ + ++ T DPVRMY+REMG++ELL+REGEI IAKR Sbjct: 72 GDGSADDIAAAEAAAALAA-----VETEAGRTTDPVRMYMREMGTVELLTREGEIVIAKR 126 Query: 146 IEAGRAMMMASLCESPLTFQALI 168 IE G +MA+L P ++++ Sbjct: 127 IEEGIRELMAALAFYPGAVKSVL 149 >gi|146309042|ref|YP_001189507.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina ymp] gi|145577243|gb|ABP86775.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas mendocina ymp] Length = 615 Score = 385 bits (990), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 258/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV Q+ D R+ E +++L + + R FL G E+ Sbjct: 254 LAELFMPIKLVPKQYDALVTQVRDALDRLRAQERAIMQLCVRDARMPRADFLRLFPGNEI 313 Query: 380 DPHWVSYAKDFPEGEWKNFVACE--VDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 D W A D +G+ K A I + + ++ + E +S++E + I + G Sbjct: 314 DMDW---AADLAKGKAKYAEALGNLQGDIQRCQQKLADLEAECSLSLAEIKDINRRMSIG 370 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 430 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERME 490 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL Sbjct: 491 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVL 550 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LR Sbjct: 551 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLR 610 Query: 678 SFLD 681 SFLD Sbjct: 611 SFLD 614 >gi|253991033|ref|YP_003042389.1| RNA polymerase sigma factor RpoD [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253782483|emb|CAQ85647.1| rna polymerase, sigma(70) factor; regulation of proteins induced a high temperatures (rna polymerase sigma 70 factor rpod) [Photorhabdus asymbiotica] Length = 651 Score = 385 bits (990), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/363 (55%), Positives = 257/363 (70%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++++ + + + F+ G E Sbjct: 289 KLSEIFKQFRLVPKQFDYLVNNMRSMMDRVRLQERQIMKMCVEQCKMPKKNFITLFSGNE 348 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + AK + + + E + I + ++ I ETG++I + + I + GE Sbjct: 349 TSDIWFTAAKAMNKPWSEKLLEVE-EEIQRSLQRLRQIEEETGLTIEQVKDINRRMSIGE 407 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 408 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 467 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 468 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 527 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 528 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 587 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 588 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 647 Query: 679 FLD 681 FLD Sbjct: 648 FLD 650 Score = 101 bits (252), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 45 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 104 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 105 TTNDTDEDAVEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 161 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 162 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 199 >gi|62181728|ref|YP_218145.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|62129361|gb|AAX67064.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322716214|gb|EFZ07785.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 658 Score = 385 bits (990), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 296 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 355 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 356 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 412 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 413 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 472 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 473 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 532 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 533 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 592 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 593 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 652 Query: 677 RSFLD 681 RSFLD Sbjct: 653 RSFLD 657 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|289827081|ref|ZP_06545870.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] Length = 615 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFIMLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 490 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 549 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609 Query: 677 RSFLD 681 RSFLD Sbjct: 610 RSFLD 614 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|224585014|ref|YP_002638813.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|224469542|gb|ACN47372.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] Length = 658 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 296 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 355 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 356 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 412 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 413 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 472 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 473 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 532 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 533 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 592 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 593 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 652 Query: 677 RSFLD 681 RSFLD Sbjct: 653 RSFLD 657 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|56415151|ref|YP_152226.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197364081|ref|YP_002143718.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205358509|ref|ZP_02656872.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205359720|ref|ZP_02831723.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|16421768|gb|AAL22085.1| sigma D factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|56129408|gb|AAV78914.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197095558|emb|CAR61123.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|205333914|gb|EDZ20678.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205343355|gb|EDZ30119.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|261248341|emb|CBG26178.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995406|gb|ACY90291.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|320087665|emb|CBY97429.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|323131572|gb|ADX19002.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|326624968|gb|EGE31313.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332990077|gb|AEF09060.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 660 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 298 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 357 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 358 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 414 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 415 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 474 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 475 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 534 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 535 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 594 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654 Query: 677 RSFLD 681 RSFLD Sbjct: 655 RSFLD 659 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|161506225|ref|YP_001573337.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160867572|gb|ABX24195.1| hypothetical protein SARI_04418 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 660 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 298 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 357 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 358 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 414 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 415 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 474 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 475 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 534 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 535 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 594 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654 Query: 677 RSFLD 681 RSFLD Sbjct: 655 RSFLD 659 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|254229773|ref|ZP_04923181.1| sigma-70, non-essential region family [Vibrio sp. Ex25] gi|269968567|ref|ZP_06182570.1| RNA polymerase sigma factor [Vibrio alginolyticus 40B] gi|151937740|gb|EDN56590.1| sigma-70, non-essential region family [Vibrio sp. Ex25] gi|269826825|gb|EEZ81156.1| RNA polymerase sigma factor [Vibrio alginolyticus 40B] Length = 639 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 211/399 (52%), Positives = 268/399 (67%), Gaps = 11/399 (2%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N +S K V E ++ + L + D LV +L Sbjct: 245 EKFNQLRSTYQNLQLAINEYG--YNSPKATVANEMMLDVFREFRLTPKQFDHLVNELRTA 302 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A D P E + Sbjct: 303 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAEK---IKRN 359 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 360 EEEIRRSIAKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKK 419 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 420 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD Sbjct: 480 VHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGD 539 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 540 DEDSHLGDFIEDTTLELPLDSATATSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTL 599 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 600 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 638 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 29 KSLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 88 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 89 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 147 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 148 INQVQSSVAEYPGTIPYIL 166 >gi|16761985|ref|NP_457602.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|29143472|ref|NP_806814.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|25288442|pir||AB0893 RNA polymerase sigma-70 factor [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16504288|emb|CAD07736.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhi] gi|29139106|gb|AAO70674.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 660 Score = 385 bits (989), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 298 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 357 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 358 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 414 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 415 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 474 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 475 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 534 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 535 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 594 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654 Query: 677 RSFLD 681 RSFLD Sbjct: 655 RSFLD 659 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|325576583|ref|ZP_08147301.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus parainfluenzae ATCC 33392] gi|325161146|gb|EGC73261.1| DNA-directed RNA polymerase sigma subunit RpoD [Haemophilus parainfluenzae ATCC 33392] Length = 629 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 206/377 (54%), Positives = 259/377 (68%), Gaps = 2/377 (0%) Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYG 364 K +S + K +L + L + D+LV + ++ KR+ E +L + L G Sbjct: 253 KHGRSGKRAKDQIAQLADIFKQFRLVPKQFDVLVLSMKNMIKRVRAEERQLQKVLVDIAG 312 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 + +D F + WV+ A + K E L + N + +I T ++I Sbjct: 313 MPKDEFEALIVANGSNDTWVAKALKSTKAWAKRLPKYEERIRLSLDN-LANIEQHTNLTI 371 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + R I V +GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 372 QQMREICDAVSRGEQKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 431 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 432 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 491 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA Sbjct: 492 REATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSA 551 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +L+ T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 552 TAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 611 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS+ LRSFLD Sbjct: 612 RKLRHPSRSETLRSFLD 628 >gi|291618943|ref|YP_003521685.1| RpoD [Pantoea ananatis LMG 20103] gi|291153973|gb|ADD78557.1| RpoD [Pantoea ananatis LMG 20103] gi|327395293|dbj|BAK12715.1| RNA polymerase sigma factor RpoD [Pantoea ananatis AJ13355] Length = 614 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/366 (54%), Positives = 258/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGR 377 + L + L + D LV + ++ +R+ E +++L + + + F+ G Sbjct: 251 QNLSDVFKQFRLVPKQFDYLVNNMREMMERVRTQERLIMKLCIEVCKMPKKNFITLFTGN 310 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W + A + P W + D +++ ++ I ETG++I + + I + Sbjct: 311 ETNESWFKAALAMNKP---WSEKLLDVQDDVMRSLQKLAQIEEETGLTIEQVKDINRRMS 367 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 368 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 427 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 428 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 487 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 488 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 547 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 548 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 607 Query: 676 LRSFLD 681 LRSFLD Sbjct: 608 LRSFLD 613 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLDQYDRVEAGESRLSDLI 164 >gi|289676145|ref|ZP_06497035.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae FF5] Length = 438 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 213/427 (49%), Positives = 289/427 (67%), Gaps = 10/427 (2%) Query: 259 DEDEDDSAHTLSAMEDQLR--PKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV 316 D+DE++SA S ED++ P + A V ++ + +D+K ++ V Sbjct: 17 DDDEEESADA-SDEEDEVESGPDPVIAQQRFGAVSDQMEITRKALKKFGRDDKHAIAEMV 75 Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQ 375 L +L + L + + LVE++ +R+ E +++L + + R FL + Sbjct: 76 ---ALAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFP 132 Query: 376 GRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 G E+D W + AK + ++ + I + + ++ ++ ETG+ I+E + I + Sbjct: 133 GNEVDESWTDALAKG--KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRM 190 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 191 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 250 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ + Sbjct: 251 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 310 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T Sbjct: 311 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATR 370 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ Sbjct: 371 EVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSE 430 Query: 675 KLRSFLD 681 LRSFLD Sbjct: 431 HLRSFLD 437 >gi|330831100|ref|YP_004394052.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328806236|gb|AEB51435.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 618 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/378 (52%), Positives = 260/378 (68%), Gaps = 2/378 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSY 363 QK+ ++ + +L + L + D LV + ++ +R+ E +++L + Sbjct: 241 QKNGRAHEDTQAAIAQLADVFRQFRLMPKQFDRLVNNMREMMERVRVQERIIMKLCVEQA 300 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + + F+ E + W Y K + V + D I + +++ I ETG+S Sbjct: 301 KMPKKTFVAAFTNNECETAWFEYQKQAGKAWSPRLVEMDED-IQRAIGKLQQIEEETGLS 359 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 360 IAQIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 419 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 420 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM 479 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REP PEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P D+ Sbjct: 480 GREPNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLALPADA 539 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 540 ATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 599 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKL+HPSRS+ LRSFLD Sbjct: 600 LRKLRHPSRSEVLRSFLD 617 >gi|146329704|ref|YP_001209965.1| RNA polymerase sigma-70 factor [Dichelobacter nodosus VCS1703A] gi|146233174|gb|ABQ14152.1| RNA polymerase sigma-70 factor [Dichelobacter nodosus VCS1703A] Length = 623 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/398 (51%), Positives = 274/398 (68%), Gaps = 7/398 (1%) Query: 284 LDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 L E+++V+++L++ D GQ ++ K + L +++ + + S Q +DL+ QL Sbjct: 230 LLELSQVFKKLKTALDK---GQS--LATKKNQKLHDEVKQYFVAFSFPQKTMDLMEAQLE 284 Query: 344 DISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 + + I E L+RL + G+ R F+ G E D WV ++ + Sbjct: 285 EPMEMIHAIERRLMRLVIEKSGMPRKSFISDFPGHETDLEWVVKQSTL-RRKYAEKLKLM 343 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ + + + + G+SI + + I + G+ A AK+EMVEANLRLVIS+AKK Sbjct: 344 IEDVQAEQQKFLEVEKTYGMSIQQIKDIYRQLAVGKERAKRAKEEMVEANLRLVISIAKK 403 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ G+KFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 404 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIP 463 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R + K R+PTPEE++ + MP + +RKV KI KEPIS+ETPIGD Sbjct: 464 VHMIETINKLNRISRMLQQKNGRDPTPEELSVAMDMPEDKIRKVWKIAKEPISMETPIGD 523 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDF+ED N +SPL++A L E T VLASLTPREERVLRMRFGI MNTDHTL Sbjct: 524 DEDSHLGDFLEDSNVISPLEAATTRGLSEATNEVLASLTPREERVLRMRFGIDMNTDHTL 583 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EEVG+QF VTRERIRQIEAKA+RKL+HP+RS+ L+SFL Sbjct: 584 EEVGRQFDVTRERIRQIEAKALRKLRHPNRSELLKSFL 621 >gi|89094383|ref|ZP_01167323.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89081275|gb|EAR60507.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 616 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 196/345 (56%), Positives = 250/345 (72%), Gaps = 2/345 (0%) Query: 338 LVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 LV Q+ + I + E ++R+ Q + R F++ G E++ W + + E + Sbjct: 271 LVNQVRSTIENIRNQERTIMRICTQRAKMPRKTFIKEFPGNEVNADWFNQVIESGES-YS 329 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + + + + + ++ +ETGIS++E + + + GE A AKKEMVEANLRLV Sbjct: 330 RAIKTNLIELKRAQKKLIQAEIETGISLAEIKEVNRRMSIGEARARRAKKEMVEANLRLV 389 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 390 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 449 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ RE TPEE+A+++ MP + VRKVLKI KEPIS+ Sbjct: 450 RTIRIPVHMIETINKLNRISRQMLQEMGREATPEELAERMEMPEDKVRKVLKIAKEPISM 509 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ S LGDFIED SP+DSA LRE T VLA LT RE +VLRMRFGI M Sbjct: 510 ETPIGDDEDSSLGDFIEDTTISSPVDSATGEGLREATREVLAGLTVRESKVLRMRFGIEM 569 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR FLD Sbjct: 570 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRGFLD 614 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 51/138 (36%), Positives = 83/138 (60%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++I +++GY+T E+N LP D +Q+ED + M+++MGI+V + D E +E Sbjct: 13 KELIARGKEQGYLTYSEVNDHLPQDIADPDQVEDIIRMINDMGISVSEEAPDAETLLMTE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + + D+ T DPVRMY+REMG++ELL+REGEI+IAKRIE G Sbjct: 73 GDSAEEADEEAVAALAAVESDAG--RTTDPVRMYMREMGTVELLTREGEISIAKRIEEGL 130 Query: 151 AMMMASLCESPLTFQALI 168 +M+++ P T ++++ Sbjct: 131 REVMSAVACFPGTVESIL 148 >gi|94676896|ref|YP_589041.1| RNA polymerase, sigma 70 factor [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|94220046|gb|ABF14205.1| RNA polymerase, sigma 70 factor [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 612 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 209/381 (54%), Positives = 266/381 (69%), Gaps = 10/381 (2%) Query: 307 DEKSSVKCKVLKE--KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ--S 362 D K K ++E KL ++ L + D LV+ + + RI E +++L S Sbjct: 235 DTKGRSHAKAIEEILKLSEIFKQFHLAPKQFDYLVKNMRAVMDRIRLQERLVMKLCVDIS 294 Query: 363 YGIKRDVFLERHQGRELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 K+D F++ G E W + A + P E V V + L+ +++ I ET Sbjct: 295 KMPKKD-FIKLFAGNETSETWFKTALAMNQPWSEKLYNVDKNVHNSLQ---KLRQIEEET 350 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+SI + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 351 GLSIEQIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 410 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 411 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML 470 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 +I REPTPEE+A+++ MP + +RKVLKI KEP+S+ETPIGD++ +HLGDFIED P Sbjct: 471 QEIGREPTPEELAERMFMPEDKIRKVLKIAKEPLSMETPIGDDEDTHLGDFIEDTTLELP 530 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 L+SA +LR T +LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 531 LESATSESLRSATHEILAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFAVTRERIRQIE 590 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS+ LRSFLD Sbjct: 591 AKALRKLRHPSRSEVLRSFLD 611 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 66/161 (40%), Positives = 95/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDD-LEDE 86 K ++ +++GY+T+ E+N LP D V S+Q+ED + M+++MGI V+ D DD L DE Sbjct: 10 KLLVTRGKEQGYLTVAEVNDLLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDILLDE 69 Query: 87 EGSEDSLDLASSASN--SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 S+ D +A+ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 TNSDTDEDAVEAAAQVLSSV------ESEIVRTTDPVRMYMREMGTVELLTREGEINIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G L ++I Sbjct: 124 RIEDGMTQVQCSVAEYPEAITYLLKQYDRVELGEARLSDLI 164 >gi|242240773|ref|YP_002988954.1| RNA polymerase sigma factor RpoD [Dickeya dadantii Ech703] gi|242132830|gb|ACS87132.1| RNA polymerase, sigma 70 subunit, RpoD [Dickeya dadantii Ech703] Length = 612 Score = 385 bits (988), Expect = e-104, Method: Compositional matrix adjust. Identities = 206/366 (56%), Positives = 259/366 (70%), Gaps = 8/366 (2%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + DLLV + + R+ E +++L + + + F+ G E Sbjct: 250 KLSEVFKQFRLVPKQFDLLVNSMRSMMDRVRTQERLIMKLCVEQCKMPKKNFMTMFTGNE 309 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVD-SILKIRNEIKSISVETGISISEFRHIVSMVR 435 W + A P E V +V+ S+LK+ + I ETG++I + + I + Sbjct: 310 TSIKWFEAALAMGKPWSEKLREVTDDVERSLLKL----QQIEEETGLTIEQVKDINRRMS 365 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 366 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 425 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 426 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 485 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 486 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 545 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 546 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 605 Query: 676 LRSFLD 681 LRSFLD Sbjct: 606 LRSFLD 611 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 96/155 (61%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + G + L ++I Sbjct: 128 NQVQCSVAEYPEAITYLLDQYDRVEAGESRLSDLI 162 >gi|238918478|ref|YP_002931992.1| RNA polymerase sigma factor RpoD [Edwardsiella ictaluri 93-146] gi|238868046|gb|ACR67757.1| RNA polymerase sigma factor RpoD, putative [Edwardsiella ictaluri 93-146] Length = 611 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 209/377 (55%), Positives = 265/377 (70%), Gaps = 8/377 (2%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA--QSYGIK 366 +SS K + + L ++ L + D LV + ++ R+ E +++L QS K Sbjct: 238 RSSGKAQEEIQNLSEIFKQFRLVPKQFDYLVSNMREMMDRVRGQERLIMKLCVEQSKMPK 297 Query: 367 RDVFLERHQGRELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 ++ F+ G E W + A P GE + EV+ L+ ++ I ETG++I Sbjct: 298 KN-FITLFTGNETSITWFDAALAMGKPWGEKLKDMREEVERSLQ---KLHQIEEETGLTI 353 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 354 EQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 413 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 414 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 473 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 474 REPTPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSA 533 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 534 TSESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS+ LRSFLD Sbjct: 594 RKLRHPSRSEVLRSFLD 610 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 60/158 (37%), Positives = 90/158 (56%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ +A + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 ----NIADEDAAEAAVQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + L ++I Sbjct: 125 DGINQVQCSVAEYPEAITYLLEQYDRVEASEARLSDLI 162 >gi|322613615|gb|EFY10556.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621208|gb|EFY18066.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624271|gb|EFY21105.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322627991|gb|EFY24780.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633109|gb|EFY29851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636314|gb|EFY33022.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322643488|gb|EFY40050.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322644793|gb|EFY41328.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322648602|gb|EFY45049.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322653654|gb|EFY49980.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322657762|gb|EFY54030.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322663863|gb|EFY60062.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322669126|gb|EFY65277.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322672881|gb|EFY68988.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322678129|gb|EFY74192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681305|gb|EFY77338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322687765|gb|EFY83732.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323195577|gb|EFZ80754.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199742|gb|EFZ84832.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202510|gb|EFZ87550.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323208002|gb|EFZ92948.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323212446|gb|EFZ97263.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323215072|gb|EFZ99820.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323222802|gb|EGA07167.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323224117|gb|EGA08410.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323230441|gb|EGA14559.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323235207|gb|EGA19293.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323239248|gb|EGA23298.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323244394|gb|EGA28400.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323247011|gb|EGA30977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323253507|gb|EGA37336.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323256187|gb|EGA39923.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323262637|gb|EGA46193.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267267|gb|EGA50751.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323269331|gb|EGA52786.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] Length = 615 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVSEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 490 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 549 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609 Query: 677 RSFLD 681 RSFLD Sbjct: 610 RSFLD 614 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|33340521|gb|AAQ14856.1| RpoD [Pseudomonas fluorescens] Length = 616 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 264/363 (72%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + + LVE++ +R+ E +++L + + R F+ + G E+ Sbjct: 255 LAELFMPIKLVPKQFEGLVERVRSALERLRAQERAIMQLCVRDARMPRADFVRQFPGNEV 314 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D W + AK + ++ + I++ + ++ ++ ETG++I+E + I + GE Sbjct: 315 DESWTDALAKG--KAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIGE 372 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 373 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 432 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 433 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEM 492 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ Sbjct: 493 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDVLS 552 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRS Sbjct: 553 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRS 612 Query: 679 FLD 681 FLD Sbjct: 613 FLD 615 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 56/137 (40%), Positives = 85/137 (62%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++GY+T E+N LP D EQ+ED + M+++MGINV + +D D Sbjct: 12 KELIVLGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFEAAPDKDSLMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|72383848|ref|YP_293202.1| sigma-70 region 1.2 [Ralstonia eutropha JMP134] gi|72123191|gb|AAZ65345.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 624 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 243/664 (36%), Positives = 360/664 (54%), Gaps = 69/664 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGD-----D 82 + +I L R+RGY+T ++N LP + + ME V+ S+MG+ V D D D Sbjct: 15 RALIALGRERGYLTHADINDHLPDNFTQTAAMETIVSTFSDMGVTVYEQAPDADTLLLSD 74 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + A+ S+V DS T DPVR+Y+REMG+ ELL+R GEI I Sbjct: 75 TAPAGASDDQADEEAEAALSTV------DSEFGRTTDPVRLYMREMGASELLTRAGEIEI 128 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ P ++ D + G + E++ +G Sbjct: 129 AKRIEGGLQGMIQAIAACPSVVSTMLADVDRIVAGELRIDELV---------------YG 173 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 DDV ++E A S D + D+ ++ D +++ D Sbjct: 174 IS----------------DDVNDSE-----IALASDDVHVEADASDDDPVGD--DVEPDA 210 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 DS +A +QL + +L A V L D V G+ S + L+ K+ Sbjct: 211 GDSEKANAARLEQL---TLDSLAIFARVRALFEQLPDAPVTGKA---RSAAVEQLRSKIQ 264 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDP 381 + + ID L +++ + E +L +A G+ R VF+E G E D Sbjct: 265 SELAPIRFTAKTIDRLCASVHEQLTEVRAIERSILEIAVDRCGMPRKVFVESFPGNETDL 324 Query: 382 HWVS----YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 W S ++ F ++ A + + ++ I + + + +F+ I + Sbjct: 325 KWTSKMAATSRQFGAALKRHLPAIQAG-----QQKLIDIEAKVTLPLQQFKQINRQMSAA 379 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + AK+E++EANLRLVIS+AKKY NRG+ FLDLIQEGNIGLMKA +KF++ G+KFS Sbjct: 380 ELKMRQAKRELIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGLMKAVDKFEYRRGWKFS 439 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WWV+QA+TR++ADQ+ TIR+PVHM + I+K+ R +R + RE P +A+++ Sbjct: 440 TYATWWVRQAVTRALADQARTIRVPVHMVEMINKLNRISRDFRQQTGREAHPAVLAERME 499 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M E VR +L+ ++P+SLETP+GD+ + LGD IED +A SP ++AI A++R L Sbjct: 500 MSEEKVRSILRSARQPVSLETPVGDDADATLGDMIEDVSASSPAEAAIHADMRAAIDEAL 559 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 L+PRE +VLRMRFG+ +D TLEEV KQF VTRERIRQIE++A+RKL HPSR+ KLR Sbjct: 560 DGLSPREAKVLRMRFGLDTTSDRTLEEVSKQFDVTRERIRQIESQAMRKLLHPSRADKLR 619 Query: 678 SFLD 681 FL+ Sbjct: 620 PFLE 623 >gi|86148095|ref|ZP_01066395.1| RNA polymerase sigma factor [Vibrio sp. MED222] gi|218708434|ref|YP_002416055.1| RNA polymerase sigma factor RpoD [Vibrio splendidus LGP32] gi|85834082|gb|EAQ52240.1| RNA polymerase sigma factor [Vibrio sp. MED222] gi|218321453|emb|CAV17405.1| RNA polymerase sigma factor rpoD (Sigma-70) [Vibrio splendidus LGP32] Length = 614 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 212/404 (52%), Positives = 270/404 (66%), Gaps = 21/404 (5%) Query: 289 EVYRELRSLQDN---AVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E + LR+ N A+N G + K+++ ++++ + L + D LV +L Sbjct: 220 EKFTALRTSYQNRQLAINEYGHESPKATLATTMMQD----VFKEFRLTPKQFDYLVNELR 275 Query: 344 DISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVA 400 R+ E ++R YG + + F+ G E W+ A D P E Sbjct: 276 TSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAE--KIKR 333 Query: 401 CEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 E D IR I+ + + ET +++ + I + GE +A AKKEMVEANLRLVI Sbjct: 334 NEHD----IRRSIQKLDIIERETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVI 389 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 390 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 449 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+E Sbjct: 450 TIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISME 509 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD++ SHLGDFIED PLDSA +LR T VLA LTPRE +VLRMRFGI MN Sbjct: 510 TPIGDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVLRMRFGIDMN 569 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 570 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 613 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 55/138 (39%), Positives = 86/138 (62%), Gaps = 1/138 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D +D ++ Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D ++ A+ ++ +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDANIDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P T ++ Sbjct: 130 NTVQLSVAEYPGTIPYIL 147 >gi|307129360|ref|YP_003881376.1| RNA polymerase sigma-70 (sigma D) factor [Dickeya dadantii 3937] gi|306526889|gb|ADM96819.1| RNA polymerase, sigma 70 (sigma D) factor [Dickeya dadantii 3937] Length = 611 Score = 384 bits (987), Expect = e-104, Method: Compositional matrix adjust. Identities = 201/363 (55%), Positives = 257/363 (70%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + DLLV + + R+ E ++++L + + + F+ G E Sbjct: 249 KLSEVFKQFRLVPKQFDLLVNNMRAMMDRVRAQERQIMKLCVELCKMPKKNFVTLFTGNE 308 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + W A + + E D + + +++ I ETG++I + + I + GE Sbjct: 309 TNRKWFDAALSMGKPWCEKLREVE-DDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIGE 367 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 368 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 427 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 428 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 487 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 488 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 547 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 548 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 607 Query: 679 FLD 681 FLD Sbjct: 608 FLD 610 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 96/155 (61%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + G + L ++I Sbjct: 128 NQVQCSVAEYPEAITYLLDQYDRVEAGESRLSDLI 162 >gi|270263179|ref|ZP_06191449.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13] gi|270042867|gb|EFA15961.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13] Length = 648 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/363 (55%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 286 KLSEVFKQFRLVPKQFDFLVNSMRIMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFAGNE 345 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W A + W + D + + +++ I ETG++I + + I + GE Sbjct: 346 TSNSWFEAALAMAKP-WSEKLKDVTDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 404 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 405 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 464 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 465 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 524 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 525 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 584 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 585 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 644 Query: 679 FLD 681 FLD Sbjct: 645 FLD 647 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 96/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 46 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 105 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 106 NSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 159 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G L ++I Sbjct: 160 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 200 >gi|197335189|ref|YP_002157048.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio fischeri MJ11] gi|197316679|gb|ACH66126.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio fischeri MJ11] Length = 613 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 256/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRE 378 +L + L + D LV+++ D R+ E ++R+ YG + + F+ G E Sbjct: 251 ELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKKSFIALFTGNE 310 Query: 379 LDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A D P E E D I + ++ SI ETG+ + + I + Sbjct: 311 SSDEWFNEIMASDKPYVE--RLQRYEED-IRRSIAKLDSIEKETGLPVENIKDISRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+DSA +L+ T V Sbjct: 488 QMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV D DD+ Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMS--L 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +D++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 68 NDDDAVTDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D++ L +II Sbjct: 127 EGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRLTDII 164 >gi|148979373|ref|ZP_01815479.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3] gi|145961809|gb|EDK27102.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3] Length = 614 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 209/401 (52%), Positives = 269/401 (67%), Gaps = 15/401 (3%) Query: 289 EVYRELRSLQDN---AVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E + LR+ N A+N G + K+ + ++++ + L + D LV +L Sbjct: 220 EKFTALRTSYQNRQLAINEYGHESPKAMLATTMMQD----VFKEFRLTPKQFDYLVNELR 275 Query: 344 DISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVA 400 + R+ E ++R YG + + F+ G E W+ A D P E + Sbjct: 276 NSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAEK---IK 332 Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 + I + ++ I ET +++ + I + GE +A AKKEMVEANLRLVIS+A Sbjct: 333 RHENDIRRSIQKLDMIEKETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVISIA 392 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIR Sbjct: 393 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 452 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPI Sbjct: 453 IPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPI 512 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GD++ SHLGDFIED PLDSA +LR T VLA LTPRE +VLRMRFGI MNTDH Sbjct: 513 GDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDH 572 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 573 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 613 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 60/167 (35%), Positives = 97/167 (58%), Gaps = 3/167 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D +D ++ Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D ++ A+ ++ +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DDANIDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 + S+ E P T ++ D + L ++I+ + P+ G Sbjct: 130 NTVQLSVAEYPGTIPYILEQFDRVQAEEIRLTDLIN--GFVDPDDDG 174 >gi|84394590|ref|ZP_00993293.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] gi|84374781|gb|EAP91725.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] Length = 573 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 212/404 (52%), Positives = 270/404 (66%), Gaps = 21/404 (5%) Query: 289 EVYRELRSLQDN---AVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E + LR+ N A+N G + K+++ ++++ + L + D LV +L Sbjct: 179 EKFTALRTSYQNRQLAINEYGHESPKATLATTMMQD----VFKEFRLTPKQFDYLVNELR 234 Query: 344 DISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVA 400 R+ E ++R YG + + F+ G E W+ A D P E Sbjct: 235 TSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEVLASDKPYAE--KIKR 292 Query: 401 CEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 E D IR I+ + + ET +++ + I + GE +A AKKEMVEANLRLVI Sbjct: 293 NEHD----IRRSIQKLDIIERETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVI 348 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 349 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 408 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+E Sbjct: 409 TIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISME 468 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD++ SHLGDFIED PLDSA +LR T VLA LTPRE +VLRMRFGI MN Sbjct: 469 TPIGDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVLRMRFGIDMN 528 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 529 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 572 Score = 64.7 bits (156), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 43/106 (40%), Positives = 65/106 (61%), Gaps = 1/106 (0%) Query: 64 EDTVAMLSNMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 ED + M+++MGI VV+ D +D ++D ++ A+ ++ +S T DPVR Sbjct: 1 EDIIQMINDMGIKVVETAPDADDLALNDDDANIDEDAAEAAAAALSSVESEIGRTTDPVR 60 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 MY+REMG++ELL+REGEI IAKRIE G + S+ E P T ++ Sbjct: 61 MYMREMGTVELLTREGEIDIAKRIEDGINTVQLSVAEYPGTIPYIL 106 >gi|262199546|ref|YP_003270755.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliangium ochraceum DSM 14365] gi|262082893|gb|ACY18862.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliangium ochraceum DSM 14365] Length = 697 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/393 (51%), Positives = 266/393 (67%), Gaps = 17/393 (4%) Query: 297 LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGEL 356 L D + K +K + KE + + + L LN+S +D +V L I ++ E E+ Sbjct: 313 LADRTLGEVKKKKYRDSIQANKEAMFEDLSELQLNKSVVDRMVANLKAIIVKLDRAETEI 372 Query: 357 LRLAQSYGIK--------RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK 408 + G+ RD+ + R + + DF E +I Sbjct: 373 RAVENRLGMPAKEIRKTLRDMKASATKTRSVGKRFALTVDDFDAFEA---------AIKN 423 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 + +IK + E S+ E R + GE A AK E+VEANLRLV+S+AKKYTNRGL Sbjct: 424 AQKKIKVLEEECRSSVEELRQTFREMSDGERMAERAKSELVEANLRLVVSIAKKYTNRGL 483 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 484 QFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIET 543 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VRT+R + ++ REPTPEEIA+++ +P++ VRKVLKI KEPISLETPIG+E+ SHL Sbjct: 544 INKLVRTSRYLVQELGREPTPEEIAERMELPLDKVRKVLKIAKEPISLETPIGEEEDSHL 603 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+ SP D+ I NL E T +VLA+LTPREE+VLRMRFGIG +DHTLEEVG+ Sbjct: 604 GDFIEDKSVTSPSDAVISVNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQD 663 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L++F++ Sbjct: 664 FEVTRERIRQIEAKALRKLRHPSRSKRLKAFVE 696 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 64/164 (39%), Positives = 91/164 (55%), Gaps = 14/164 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----------GD 81 KK+I+L R +G+VT +E+N +P D +SSEQ++ ++ L GI++VD D Sbjct: 114 KKLIELGRSKGFVTYDEVNDHMPEDVISSEQIDSWLSALGEEGIDIVDSAASARKKAPAD 173 Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 D + G SL+ S R T DPVRMYLR+MGS+ LL+REGE+ Sbjct: 174 DDDSSGGKVASLNDDKELEKEEEEEDY---SYSR-TSDPVRMYLRKMGSVSLLTREGEVE 229 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAKRIE G M+A++ S + + LI +L DG +EII Sbjct: 230 IAKRIEEGERRMLAAVLNSSVAVEELIDLGKQLADGKARAKEII 273 >gi|169794936|ref|YP_001712729.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter baumannii AYE] gi|184159289|ref|YP_001847628.1| DNA-directed RNA polymerase, sigma subunit [Acinetobacter baumannii ACICU] gi|213157659|ref|YP_002320457.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii AB0057] gi|215482482|ref|YP_002324668.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB307-0294] gi|239502295|ref|ZP_04661605.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB900] gi|260557301|ref|ZP_05829517.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii ATCC 19606] gi|301346958|ref|ZP_07227699.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB056] gi|301513036|ref|ZP_07238273.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB058] gi|301596278|ref|ZP_07241286.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB059] gi|332854224|ref|ZP_08435244.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013150] gi|332866334|ref|ZP_08436939.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013113] gi|332872549|ref|ZP_08440518.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6014059] gi|169147863|emb|CAM85726.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter baumannii AYE] gi|183210883|gb|ACC58281.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii ACICU] gi|193078173|gb|ABO13119.2| sigma D (sigma 70) factor of RNA polymerase major sigma factor during exponential growth [Acinetobacter baumannii ATCC 17978] gi|213056819|gb|ACJ41721.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii AB0057] gi|213988184|gb|ACJ58483.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter baumannii AB307-0294] gi|260409407|gb|EEX02709.1| RNA polymerase sigma factor sigma-70 [Acinetobacter baumannii ATCC 19606] gi|322509200|gb|ADX04654.1| rpoD [Acinetobacter baumannii 1656-2] gi|323519229|gb|ADX93610.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii TCDC-AB0715] gi|332728149|gb|EGJ59537.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013150] gi|332734682|gb|EGJ65786.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6013113] gi|332739235|gb|EGJ70093.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii 6014059] Length = 628 Score = 384 bits (986), Expect = e-104, Method: Compositional matrix adjust. Identities = 201/379 (53%), Positives = 260/379 (68%), Gaps = 1/379 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K ++S + E L + D++ E + ++I NE E++R A G Sbjct: 249 EKHGRNSPEANEALESLATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREIMRYAVRRG 308 Query: 365 -IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + R+ F +E +P W+ E K + +L + +I I E G++ Sbjct: 309 RMDRNQFRTSFPKQESNPAWLDEQIAKAPAEIKAHLEKVRPDVLAFQQKIADIEKELGLN 368 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 +SE + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 369 VSEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 428 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ Sbjct: 429 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEM 488 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+ Sbjct: 489 GREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDA 548 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A L+E T VL +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 549 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 608 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS+ LRSFL+ Sbjct: 609 LRKLRHPSRSEHLRSFLEN 627 >gi|169632612|ref|YP_001706348.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter baumannii SDF] gi|169151404|emb|CAP00133.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter baumannii] Length = 630 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 201/379 (53%), Positives = 260/379 (68%), Gaps = 1/379 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K ++S + E L + D++ E + ++I NE E++R A G Sbjct: 251 EKHGRNSPEANEALESLATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREIMRYAVRRG 310 Query: 365 -IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + R+ F +E +P W+ E K + +L + +I I E G++ Sbjct: 311 RMDRNQFRTSFPKQESNPAWLDEQIAKAPAEIKAHLEKVRPDVLAFQQKIADIEKELGLN 370 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 +SE + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 371 VSEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 430 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ Sbjct: 431 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEM 490 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+ Sbjct: 491 GREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDA 550 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A L+E T VL +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 551 ATSKGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 610 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS+ LRSFL+ Sbjct: 611 LRKLRHPSRSEHLRSFLEN 629 >gi|283787203|ref|YP_003367068.1| RNA polymerase sigma-70 factor [Citrobacter rodentium ICC168] gi|282950657|emb|CBG90329.1| RNA polymerase sigma-70 factor [Citrobacter rodentium ICC168] Length = 614 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ ++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVADEVHRGLQ---KLHQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|94499953|ref|ZP_01306488.1| RNA polymerase sigma factor [Oceanobacter sp. RED65] gi|94427811|gb|EAT12786.1| RNA polymerase sigma factor [Oceanobacter sp. RED65] Length = 606 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 201/368 (54%), Positives = 258/368 (70%), Gaps = 10/368 (2%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 EKL +L + L+ D LV D I E +++ + + +KR F++ QG Sbjct: 243 EKLAELFAPIKLSPKYFDDLVGTARDNLDFIRVQERQIMVICTRKAKMKRQEFIKSFQGN 302 Query: 378 ELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 E + W+ + KD+ + + + + + +I+ + G+ IS+ + I Sbjct: 303 EGNDSWIDDLINAGKDYSQ-----IIENHGYDLKRAQKKIRQVKDRVGLEISDIKEINRR 357 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G Sbjct: 358 VSIGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 417 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE TPEE+A Sbjct: 418 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREATPEELA 477 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED N SP+D+A + L + T Sbjct: 478 ERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDVNGHSPIDTATETGLTDAT 537 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS Sbjct: 538 RSVLSGLTARESKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 597 Query: 674 KKLRSFLD 681 LRSFLD Sbjct: 598 DHLRSFLD 605 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 52/138 (37%), Positives = 83/138 (60%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++I +++GY+T ++N LP D + EQ+ED + M++++GI V + D ++ E Sbjct: 10 KELIAKGKEQGYLTYAQVNDHLPDDIATPEQVEDIIRMINDIGITVSEVAPDADELNMGE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + D A+ ++ D T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 VTTDEAAIEEAAAALAAVETDVG--RTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALI 168 +MA+L P + ++ Sbjct: 128 REVMAALSYFPGAVRTVL 145 >gi|308050979|ref|YP_003914545.1| RNA polymerase, sigma 70 subunit, RpoD [Ferrimonas balearica DSM 9799] gi|307633169|gb|ADN77471.1| RNA polymerase, sigma 70 subunit, RpoD [Ferrimonas balearica DSM 9799] Length = 610 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 198/374 (52%), Positives = 264/374 (70%), Gaps = 2/374 (0%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKR 367 + S++ +L +L +L L + D+LV + + R+ E ++++ + + + Sbjct: 237 RDSLEAAMLITRLSELFKEFRLVPKQFDVLVNNMRSMMDRVRVQERLIMKMCVEQAKMPK 296 Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 FL+ G E + W+ D + + + + + + ++ I ETG+SI++ Sbjct: 297 KNFLKLFAGHESETAWLQAEIDAGKS-YSAALGEHQEELHRCIQKLAQIQEETGLSIAKI 355 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 356 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 415 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 416 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 475 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+DSA Sbjct: 476 TPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLAQPVDSATAE 535 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL Sbjct: 536 SLKAATAEVLAGLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 595 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ L+SFLD Sbjct: 596 RHPSRSEILKSFLD 609 >gi|170723972|ref|YP_001751660.1| RNA polymerase sigma factor RpoD [Pseudomonas putida W619] gi|169761975|gb|ACA75291.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida W619] Length = 616 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/365 (54%), Positives = 260/365 (71%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + D+LVE++ D R+ E +++L + + R FL Sbjct: 253 QALADLFMPIKLVPKQFDVLVERVRDALARLRQQERAIMQLCVRDARMPRADFLRLFPSN 312 Query: 378 ELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D W AK +W + + +I+ + ++ + ETG++++E + I + Sbjct: 313 ETDQTWSGDLAKR--NTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKDINRRMSI 370 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 371 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 490 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T V Sbjct: 491 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610 Query: 677 RSFLD 681 RSFLD Sbjct: 611 RSFLD 615 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDYIL 147 >gi|283836397|ref|ZP_06356138.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220] gi|291067770|gb|EFE05879.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220] Length = 615 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/364 (54%), Positives = 256/364 (70%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 +KL ++ L + D LV + + R+ E +++L + + + F+ G Sbjct: 252 QKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGN 311 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E W + A + W + D + + +++ I ETG++I + + I + G Sbjct: 312 ETSETWFNAAIAMNKP-WSEKLHDVADDVHRGLQKLQQIEEETGLTIEQVKDINRRMSIG 370 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 430 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 431 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 490 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 491 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVL 550 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 551 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 610 Query: 678 SFLD 681 SFLD Sbjct: 611 SFLD 614 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 TSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|332994458|gb|AEF04513.1| RNA polymerase sigma factor [Alteromonas sp. SN2] Length = 608 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 188/312 (60%), Positives = 240/312 (76%), Gaps = 1/312 (0%) Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 F++ G E W++ A + + +A + I + +++ + ETG+ I++ + Sbjct: 297 FIKAFAGNETSSAWLTKAIK-ANAAYSDALAVNKEEIERCISKMNQVEQETGLVIADIKD 355 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 356 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 415 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTP Sbjct: 416 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 475 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+++++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED + PLDSA +L Sbjct: 476 EELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIIQPLDSATGGSL 535 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+H Sbjct: 536 KDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 595 Query: 670 PSRSKKLRSFLD 681 PSRS++LRSFLD Sbjct: 596 PSRSEQLRSFLD 607 Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 55/137 (40%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI V + DE ++ Sbjct: 10 KLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIQVSESAPDSDELLMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 ATADEDAAEAAAQALATVESEIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEDGIN 128 Query: 152 MMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 129 QVQCSVAEYPEAITYLL 145 >gi|205354126|ref|YP_002227927.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205273907|emb|CAR38909.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] Length = 615 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+E PIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 490 LMPEDKIRKVLKIAKEPISMEAPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 549 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609 Query: 677 RSFLD 681 RSFLD Sbjct: 610 RSFLD 614 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|156932573|ref|YP_001436489.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii ATCC BAA-894] gi|156530827|gb|ABU75653.1| hypothetical protein ESA_00355 [Cronobacter sakazakii ATCC BAA-894] Length = 614 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E ++++ + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRTMMDRVRTQERIIMKMCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA +V L+ +++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVAEDVHRSLQ---KLQQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 95/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G L ++I Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|50119628|ref|YP_048795.1| RNA polymerase sigma factor RpoD [Pectobacterium atrosepticum SCRI1043] gi|49610154|emb|CAG73594.1| RNA polymerase sigma-70 factor [Pectobacterium atrosepticum SCRI1043] Length = 611 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/364 (56%), Positives = 257/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 250 LSEVFKQFRLVPKQFDFLVNSMRTMMDRVRTQERLIIKLCVEQCKMPKKNFVTMFTSNET 309 Query: 380 DPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W + A P E N VA +V L+ ++K I ETG++I + + I + G Sbjct: 310 NNSWFAAAVAMGKPWSEKLNDVAEDVTRSLQ---KLKQIEEETGLTIEQVKDINRRMSIG 366 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 426 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 427 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 486 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 487 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 546 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 547 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 606 Query: 678 SFLD 681 SFLD Sbjct: 607 SFLD 610 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDADEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|324115354|gb|EGC09318.1| RNA polymerase sigma proteinRpoD [Escherichia fergusonii B253] Length = 613 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ ++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVADEVHRSLQ---KLHQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|237809411|ref|YP_002893851.1| RNA polymerase, sigma 70 subunit, RpoD [Tolumonas auensis DSM 9187] gi|237501672|gb|ACQ94265.1| RNA polymerase, sigma 70 subunit, RpoD [Tolumonas auensis DSM 9187] Length = 617 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 199/383 (51%), Positives = 263/383 (68%), Gaps = 4/383 (1%) Query: 300 NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL 359 +A+ + K ++L+ L + L + D LV + ++ +R+ E +LR Sbjct: 237 DAIKANGRDSDLAKVQILE--LANVFKEFRLVPKQFDRLVNSMREMMERVRVQERLILRY 294 Query: 360 AQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 Y + + F+ E W +AK + W +A + + + +++ + Sbjct: 295 CVEYAKMPKKNFVTAFTNNESSNGWFEFAKSSGK-PWSTALANMDEDVQRSIQKLQQVEQ 353 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ETG+SI++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 354 ETGLSIAQIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 413 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 414 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ 473 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 474 MLQEMGREPNPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLA 533 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P D+A +L+ T VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQ Sbjct: 534 LPADAATSESLKAATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ 593 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKL+HPSRS+ LRSFLD Sbjct: 594 IEAKALRKLRHPSRSEVLRSFLD 616 >gi|332163001|ref|YP_004299578.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|318604173|emb|CBY25671.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica Y11] gi|325667231|gb|ADZ43875.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. palearctica 105.5R(r)] Length = 612 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 207/394 (52%), Positives = 268/394 (68%), Gaps = 5/394 (1%) Query: 291 YRELRSLQDNA-VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + ELR +NA + +K+ +S KL ++ L + D LV + + R+ Sbjct: 220 FSELREQYENARLEIKKNGRSHANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRV 279 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 280 RTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAAIAMGKPWSEKLKDVSDDVQ 337 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 338 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 397 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 398 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 457 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 458 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 517 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 518 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 577 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 611 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|218550316|ref|YP_002384107.1| RNA polymerase sigma factor RpoD [Escherichia fergusonii ATCC 35469] gi|218357857|emb|CAQ90501.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia fergusonii ATCC 35469] gi|325498620|gb|EGC96479.1| RNA polymerase sigma factor RpoD [Escherichia fergusonii ECD227] Length = 613 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ ++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVADEVHRSLQ---KLHQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|152978401|ref|YP_001344030.1| RNA polymerase sigma factor RpoD [Actinobacillus succinogenes 130Z] gi|150840124|gb|ABR74095.1| RNA polymerase, sigma 70 subunit, RpoD [Actinobacillus succinogenes 130Z] Length = 623 Score = 384 bits (985), Expect = e-104, Method: Compositional matrix adjust. Identities = 209/398 (52%), Positives = 271/398 (68%), Gaps = 8/398 (2%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + LR D + K + S K + + L ++ L + D+LV + + K Sbjct: 228 EKFYALRDQHDKTIATIAKHGRGSAKAREQMKALSEIFTQFRLVPRQFDVLVIPMRKMMK 287 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQ-GRELDPHWVS--YAKDFPEGEWKNFVACEV 403 RI E ++ R A Y + +D F++ G+E + W++ P E +A Sbjct: 288 RIRAEERQIQRWAVDYARMPKDEFVKVFSTGKETNDAWLTKLLGGKKPYAEK---LAKYA 344 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D+I ++++ E ++I + R+I + +GE +A AKKEMVEANLRLVIS+AKKY Sbjct: 345 DNIRASIARLQNLEQEAHLTIEQIRNIGDRISQGELKARRAKKEMVEANLRLVISIAKKY 404 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 405 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 464 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+ R +R+ ++ RE TPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+ Sbjct: 465 HMIETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDD 524 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D SHLGDFIED PLDSA +L+ T VL LTPRE +VLRMRFGI MNTDHTLE Sbjct: 525 DDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLE 584 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 585 EVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 622 >gi|88798840|ref|ZP_01114422.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88778320|gb|EAR09513.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 614 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 191/321 (59%), Positives = 246/321 (76%), Gaps = 2/321 (0%) Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 ++ + R F++ G E + W++ + P+ + F EV+ + + + ++++I T Sbjct: 295 RTLNMPRKAFIDAFVGHETEDEWLNELLENPKYADEAF-RYEVE-LRRAQRKLRNIQKNT 352 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GI+++E + I + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 353 GITLAEVKDIHRRISIGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 412 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 413 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML 472 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ REPTPEE+A+++ MP + +RKVLKI+KEPISLETPIGD++ S LGDFIED + P Sbjct: 473 QEMGREPTPEELAERMDMPEDKIRKVLKISKEPISLETPIGDDEDSSLGDFIEDNTMILP 532 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++SA LR+ TT VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 533 VNSATSTGLRDATTEVLAGLTAREAKVLRMRFGINMNTDHTLEEVGKQFDVTRERIRQIE 592 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS LRSF+D Sbjct: 593 AKALRKLRHPSRSDHLRSFID 613 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 55/141 (39%), Positives = 85/141 (60%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K++I +++GY+T E+N LP + S +Q+ED +AM++++GI V D D L E Sbjct: 12 KELIAKGKEQGYLTFAEVNDHLPEEINSPDQVEDIIAMINDIGIEVFEQAPDADQLLLSE 71 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S+ S D ++ ++ D+ T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 72 -SDQSTDEDATEEAAAALAAVETDTG--RTTDPVRMYMREMGTVELLTREGEIVIAKRIE 128 Query: 148 AGRAMMMASLCESPLTFQALI 168 G +M ++ P ++I Sbjct: 129 EGTREVMQAMAFYPGVIDSMI 149 >gi|59712861|ref|YP_205637.1| RNA polymerase sigma factor RpoD [Vibrio fischeri ES114] gi|59480962|gb|AAW86749.1| RNA polymerase, sigma-70 (sigma-D) factor [Vibrio fischeri ES114] Length = 613 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/366 (55%), Positives = 256/366 (69%), Gaps = 8/366 (2%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRE 378 +L + L + D LV+++ D R+ E ++R+ YG + + F+ G E Sbjct: 251 ELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKKSFIALFTGNE 310 Query: 379 LDPHWVS--YAKDFPEGEWKNFVACEVD-SILKIRNEIKSISVETGISISEFRHIVSMVR 435 W + A D P E ++ SI K+ SI ETG+ + + I + Sbjct: 311 SSDEWFNEIMASDKPYVERLQRYEEDIRRSIAKL----DSIEKETGLPVENIKDISRRMS 366 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 367 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 426 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A++ Sbjct: 427 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAER 486 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+DSA +L+ T Sbjct: 487 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATND 546 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 547 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606 Query: 676 LRSFLD 681 LRSFLD Sbjct: 607 LRSFLD 612 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 63/170 (37%), Positives = 96/170 (56%), Gaps = 9/170 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV D DD+ Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMS--L 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +D++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 68 NDDDAVTDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 G + S+ E P L+ D++ L +II + P G Sbjct: 127 EGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRLTDIIS--GFVDPNDDG 174 >gi|326629245|gb|EGE35588.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 660 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 298 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 357 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 358 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 414 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 415 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 474 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 475 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 534 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+E PIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 535 LMPEDKIRKVLKIAKEPISMEAPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 594 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654 Query: 677 RSFLD 681 RSFLD Sbjct: 655 RSFLD 659 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|167031434|ref|YP_001666665.1| RNA polymerase sigma factor RpoD [Pseudomonas putida GB-1] gi|166857922|gb|ABY96329.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida GB-1] Length = 616 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 199/365 (54%), Positives = 260/365 (71%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + ++LVE++ D R+ E +++L + + R FL Sbjct: 253 QALADLFMPIKLVPKQFEVLVERVRDALNRLRQQERAIMQLCVRDARMPRADFLRMFPSN 312 Query: 378 ELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D W AK +W + + +I+ + ++ + ETG++++E + I + Sbjct: 313 ETDQTWSGDLAKR--NTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRMSI 370 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 371 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 490 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T V Sbjct: 491 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610 Query: 677 RSFLD 681 RSFLD Sbjct: 611 RSFLD 615 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDYIL 147 >gi|123443868|ref|YP_001007839.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. enterocolitica 8081] gi|122090829|emb|CAL13711.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp. enterocolitica 8081] Length = 612 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 207/394 (52%), Positives = 268/394 (68%), Gaps = 5/394 (1%) Query: 291 YRELRSLQDNA-VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + ELR +NA + +K+ +S KL ++ L + D LV + + R+ Sbjct: 220 FSELREQYENARLEIKKNGRSHANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRV 279 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 280 RTQERIIMKLCVEQCKMPKKNFVTLFTSNETSDTW--FAAAIAMGKPWSEKLKDVSDDVQ 337 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 338 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 397 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 398 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 457 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 458 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 517 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 518 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 577 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 611 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|27364091|ref|NP_759619.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6] gi|320157475|ref|YP_004189854.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O] gi|27360209|gb|AAO09146.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6] gi|319932787|gb|ADV87651.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O] Length = 624 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 208/403 (51%), Positives = 272/403 (67%), Gaps = 9/403 (2%) Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 AL++ ++ ++LQ AVN E S + E ++ + L + D LV + Sbjct: 227 MALEKFTQLRNSYQNLQ-LAVNEHGRE--SAQTAQAHELMLDVFKEFRLTPKQFDHLVNE 283 Query: 342 LYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNF 398 L R+ E +++ A + + F+ G E + W+ A D P + Sbjct: 284 LRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGNESNEEWLDQILASDKP---YVEK 340 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + + I + ++++I ET +S++ + I + GE +A AKKEMVEANLRLVIS Sbjct: 341 IKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMSIGEAKARRAKKEMVEANLRLVIS 400 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 401 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 460 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ET Sbjct: 461 IRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMET 520 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNT Sbjct: 521 PIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATKDVLAGLTPREAKVLRMRFGIDMNT 580 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 581 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 623 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 87/141 (61%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV D DDL Sbjct: 10 KLLVIRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLA--L 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 E ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 68 SDETNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + +S+ E P T ++ Sbjct: 127 DGINQVQSSVAEYPGTIPYIL 147 >gi|238789198|ref|ZP_04632986.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC 33641] gi|238722730|gb|EEQ14382.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC 33641] Length = 612 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 207/394 (52%), Positives = 268/394 (68%), Gaps = 5/394 (1%) Query: 291 YRELRSLQDNA-VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + ELR +NA + +K+ +S KL ++ L + D LV + + R+ Sbjct: 220 FSELREQYENARLEIKKNGRSHANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRV 279 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 280 RTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAAIAMGKPWSEKLKDVSDDVQ 337 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 338 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 397 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 398 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 457 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 458 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 517 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 518 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 577 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 611 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|317049603|ref|YP_004117251.1| RNA polymerase,sigma 70 subunit,RpoD [Pantoea sp. At-9b] gi|316951220|gb|ADU70695.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. At-9b] Length = 614 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 200/366 (54%), Positives = 258/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L ++ L + D LV + ++ +R+ E +++L + + + F+ G Sbjct: 251 QNLSEVFKQFRLVPKQFDYLVNNMREMMERVRTQERIIMKLCVELCKMPKKNFITLFTGN 310 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W + A + P W + D +++ ++ I ETG++I + + I + Sbjct: 311 ETSESWFKAALAMNKP---WSEKLLEVQDDVMRCLQKLLQIEEETGLTIEQVKDINRRMS 367 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 368 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 427 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 428 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 487 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 488 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 547 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 548 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 607 Query: 676 LRSFLD 681 LRSFLD Sbjct: 608 LRSFLD 613 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 61/155 (39%), Positives = 94/155 (60%), Gaps = 1/155 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV+ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 +S D A+ ++ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NSADTDEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + G + L ++I Sbjct: 130 NQVQCSVAEYPEAITYLLDQYDRVEAGESRLSDLI 164 >gi|1072030|gb|AAB60181.1| RNA polymerase sigma-subunit [Escherichia coli] Length = 603 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 241 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 300 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 301 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 357 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 358 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 417 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 418 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 477 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 478 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 537 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 538 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 597 Query: 677 RSFLD 681 RSFLD Sbjct: 598 RSFLD 602 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESQIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|91212497|ref|YP_542483.1| RNA polymerase sigma factor RpoD [Escherichia coli UTI89] gi|117625379|ref|YP_855524.1| RNA polymerase sigma factor RpoD [Escherichia coli APEC O1] gi|218560154|ref|YP_002393067.1| RNA polymerase sigma factor RpoD [Escherichia coli S88] gi|218691372|ref|YP_002399584.1| RNA polymerase sigma factor RpoD [Escherichia coli ED1a] gi|227887792|ref|ZP_04005597.1| RNA polymerase sigma factor RpoD [Escherichia coli 83972] gi|237706170|ref|ZP_04536651.1| RNA polymerase sigma factor RpoD [Escherichia sp. 3_2_53FAA] gi|300973231|ref|ZP_07172070.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 45-1] gi|301048094|ref|ZP_07195132.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 185-1] gi|306816579|ref|ZP_07450711.1| RNA polymerase sigma factor RpoD [Escherichia coli NC101] gi|331648869|ref|ZP_08349957.1| RNA polymerase sigma factor RpoD [Escherichia coli M605] gi|331659358|ref|ZP_08360300.1| RNA polymerase sigma factor RpoD (Sigma-70) [Escherichia coli TA206] gi|91074071|gb|ABE08952.1| RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli UTI89] gi|115514503|gb|ABJ02578.1| RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli APEC O1] gi|218366923|emb|CAR04694.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli S88] gi|218428936|emb|CAR09739.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli ED1a] gi|226899210|gb|EEH85469.1| RNA polymerase sigma factor RpoD [Escherichia sp. 3_2_53FAA] gi|227835188|gb|EEJ45654.1| RNA polymerase sigma factor RpoD [Escherichia coli 83972] gi|281180121|dbj|BAI56451.1| RNA polymerase sigma factor RpoD [Escherichia coli SE15] gi|294493374|gb|ADE92130.1| RNA polymerase sigma factor RpoD [Escherichia coli IHE3034] gi|300300014|gb|EFJ56399.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 185-1] gi|300410811|gb|EFJ94349.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 45-1] gi|305850144|gb|EFM50603.1| RNA polymerase sigma factor RpoD [Escherichia coli NC101] gi|307555174|gb|ADN47949.1| hypothetical protein ECABU_c34860 [Escherichia coli ABU 83972] gi|307625318|gb|ADN69622.1| RNA polymerase sigma factor RpoD [Escherichia coli UM146] gi|312947638|gb|ADR28465.1| RNA polymerase sigma factor RpoD [Escherichia coli O83:H1 str. NRG 857C] gi|315288818|gb|EFU48216.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 110-3] gi|315295035|gb|EFU54372.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 153-1] gi|315297744|gb|EFU57021.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 16-3] gi|320195230|gb|EFW69859.1| RNA polymerase sigma factor RpoD [Escherichia coli WV_060327] gi|323951399|gb|EGB47274.1| RNA polymerase sigma proteinRpoD [Escherichia coli H252] gi|323957772|gb|EGB53486.1| RNA polymerase sigma proteinRpoD [Escherichia coli H263] gi|324008872|gb|EGB78091.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 57-2] gi|330909133|gb|EGH37647.1| RNA polymerase sigma factor RpoD [Escherichia coli AA86] gi|331042616|gb|EGI14758.1| RNA polymerase sigma factor RpoD [Escherichia coli M605] gi|331053940|gb|EGI25969.1| RNA polymerase sigma factor RpoD (Sigma-70) [Escherichia coli TA206] Length = 613 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|269137812|ref|YP_003294512.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Edwardsiella tarda EIB202] gi|267983472|gb|ACY83301.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Edwardsiella tarda EIB202] gi|304557867|gb|ADM40531.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda FL6-60] Length = 611 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 208/377 (55%), Positives = 265/377 (70%), Gaps = 8/377 (2%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA--QSYGIK 366 +SS K + + L ++ L + D LV + ++ R+ E +++L QS K Sbjct: 238 RSSGKAQEEIQNLSEIFKQFRLVPKQFDYLVSNMREMMDRVRGQERLIMKLCVEQSKMPK 297 Query: 367 RDVFLERHQGRELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 ++ F+ G E W + A P GE + +V+ L+ ++ I ETG++I Sbjct: 298 KN-FITLFTGNETSITWFDAALAMGKPWGEKLKDMREDVERSLQ---KLHQIEEETGLTI 353 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 354 EQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 413 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 414 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 473 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 474 REPTPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSA 533 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 534 TSESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS+ LRSFLD Sbjct: 594 RKLRHPSRSEVLRSFLD 610 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 60/158 (37%), Positives = 90/158 (56%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ +A + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 ----NIADEDAAEAAVQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + L ++I Sbjct: 125 DGINQVQCSVAEYPEAITYLLEQYDRVEASEARLSDLI 162 >gi|187733221|ref|YP_001881829.1| RNA polymerase sigma factor RpoD [Shigella boydii CDC 3083-94] gi|187430213|gb|ACD09487.1| RNA polymerase sigma factor RpoD [Shigella boydii CDC 3083-94] Length = 613 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|15803609|ref|NP_289642.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 EDL933] gi|15833204|ref|NP_311977.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. Sakai] gi|24114367|ref|NP_708877.1| RNA polymerase sigma factor RpoD [Shigella flexneri 2a str. 301] gi|74313602|ref|YP_312021.1| RNA polymerase sigma factor RpoD [Shigella sonnei Ss046] gi|82545322|ref|YP_409269.1| RNA polymerase sigma factor RpoD [Shigella boydii Sb227] gi|110643311|ref|YP_671041.1| RNA polymerase sigma factor RpoD [Escherichia coli 536] gi|110806954|ref|YP_690474.1| RNA polymerase sigma factor RpoD [Shigella flexneri 5 str. 8401] gi|157155497|ref|YP_001464528.1| RNA polymerase sigma factor RpoD [Escherichia coli E24377A] gi|168749343|ref|ZP_02774365.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4113] gi|168754040|ref|ZP_02779047.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4401] gi|168762022|ref|ZP_02787029.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4501] gi|168769477|ref|ZP_02794484.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4486] gi|168781203|ref|ZP_02806210.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4076] gi|168785943|ref|ZP_02810950.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC869] gi|168797660|ref|ZP_02822667.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC508] gi|170683578|ref|YP_001745339.1| RNA polymerase sigma factor RpoD [Escherichia coli SMS-3-5] gi|188493368|ref|ZP_03000638.1| RNA polymerase sigma factor RpoD [Escherichia coli 53638] gi|191166845|ref|ZP_03028670.1| RNA polymerase sigma factor RpoD [Escherichia coli B7A] gi|191172227|ref|ZP_03033770.1| RNA polymerase sigma factor RpoD [Escherichia coli F11] gi|193062048|ref|ZP_03043144.1| RNA polymerase sigma factor RpoD [Escherichia coli E22] gi|193067502|ref|ZP_03048470.1| RNA polymerase sigma factor RpoD [Escherichia coli E110019] gi|194427683|ref|ZP_03060230.1| RNA polymerase sigma factor RpoD [Escherichia coli B171] gi|194431653|ref|ZP_03063944.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae 1012] gi|195937213|ref|ZP_03082595.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4024] gi|208809700|ref|ZP_03252037.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4206] gi|208813639|ref|ZP_03254968.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4045] gi|208820039|ref|ZP_03260359.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4042] gi|209399452|ref|YP_002272540.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4115] gi|209920540|ref|YP_002294624.1| RNA polymerase sigma factor RpoD [Escherichia coli SE11] gi|215488398|ref|YP_002330829.1| RNA polymerase sigma factor RpoD [Escherichia coli O127:H6 str. E2348/69] gi|217326836|ref|ZP_03442919.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14588] gi|218555637|ref|YP_002388550.1| RNA polymerase sigma factor RpoD [Escherichia coli IAI1] gi|218696772|ref|YP_002404439.1| RNA polymerase sigma factor RpoD [Escherichia coli 55989] gi|218701838|ref|YP_002409467.1| RNA polymerase sigma factor RpoD [Escherichia coli IAI39] gi|218706692|ref|YP_002414211.1| RNA polymerase sigma factor RpoD [Escherichia coli UMN026] gi|254795019|ref|YP_003079856.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14359] gi|256019017|ref|ZP_05432882.1| RNA polymerase sigma factor RpoD [Shigella sp. D9] gi|260845821|ref|YP_003223599.1| RNA polymerase, sigma 70 factor [Escherichia coli O103:H2 str. 12009] gi|260857197|ref|YP_003231088.1| RNA polymerase, sigma 70 factor [Escherichia coli O26:H11 str. 11368] gi|260869819|ref|YP_003236221.1| RNA polymerase, sigma 70 factor [Escherichia coli O111:H- str. 11128] gi|261228080|ref|ZP_05942361.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261254936|ref|ZP_05947469.1| RNA polymerase, sigma 70 factor [Escherichia coli O157:H7 str. FRIK966] gi|291284446|ref|YP_003501264.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. CB9615] gi|293406680|ref|ZP_06650606.1| RNA polymerase sigma factor RpoD [Escherichia coli FVEC1412] gi|293412444|ref|ZP_06655167.1| RNA polymerase sigma factor rpoD [Escherichia coli B354] gi|293416506|ref|ZP_06659145.1| RNA polymerase primary sigma factor [Escherichia coli B185] gi|293449405|ref|ZP_06663826.1| RNA polymerase primary sigma factor [Escherichia coli B088] gi|298382421|ref|ZP_06992018.1| RNA polymerase sigma factor rpoD [Escherichia coli FVEC1302] gi|300818835|ref|ZP_07099041.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 107-1] gi|300821663|ref|ZP_07101809.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 119-7] gi|300901451|ref|ZP_07119536.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 198-1] gi|300917392|ref|ZP_07134058.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 115-1] gi|300923730|ref|ZP_07139755.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 182-1] gi|300937447|ref|ZP_07152273.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 21-1] gi|300977468|ref|ZP_07173931.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 200-1] gi|301021861|ref|ZP_07185824.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 69-1] gi|307310308|ref|ZP_07589956.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli W] gi|309793633|ref|ZP_07688059.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 145-7] gi|312968589|ref|ZP_07782798.1| RNA polymerase sigma factor rpoD [Escherichia coli 2362-75] gi|331654667|ref|ZP_08355667.1| RNA polymerase sigma factor RpoD [Escherichia coli M718] gi|331664680|ref|ZP_08365586.1| RNA polymerase sigma factor RpoD [Escherichia coli TA143] gi|331669908|ref|ZP_08370753.1| RNA polymerase sigma factor RpoD [Escherichia coli TA271] gi|331679143|ref|ZP_08379815.1| RNA polymerase sigma factor RpoD [Escherichia coli H591] gi|331684720|ref|ZP_08385312.1| RNA polymerase sigma factor RpoD [Escherichia coli H299] gi|332280114|ref|ZP_08392527.1| RNA polymerase sigma 70 (sigma D) factor [Shigella sp. D9] gi|12517649|gb|AAG58201.1|AE005536_2 RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures [Escherichia coli O157:H7 str. EDL933] gi|13363423|dbj|BAB37373.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli O157:H7 str. Sakai] gi|24053533|gb|AAN44584.1| sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|73857079|gb|AAZ89786.1| RNA polymerase, sigma(70) factor [Shigella sonnei Ss046] gi|81246733|gb|ABB67441.1| RNA polymerase sigma(70) factor [Shigella boydii Sb227] gi|110344903|gb|ABG71140.1| RNA polymerase sigma factor RpoD [Escherichia coli 536] gi|110616502|gb|ABF05169.1| RpoD protein [Shigella flexneri 5 str. 8401] gi|157077527|gb|ABV17235.1| RNA polymerase sigma factor RpoD [Escherichia coli E24377A] gi|170521296|gb|ACB19474.1| RNA polymerase sigma factor RpoD [Escherichia coli SMS-3-5] gi|188016365|gb|EDU54487.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4113] gi|188488567|gb|EDU63670.1| RNA polymerase sigma factor RpoD [Escherichia coli 53638] gi|189000977|gb|EDU69963.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4076] gi|189358698|gb|EDU77117.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4401] gi|189361403|gb|EDU79822.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4486] gi|189367616|gb|EDU86032.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4501] gi|189374126|gb|EDU92542.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC869] gi|189379773|gb|EDU98189.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC508] gi|190903087|gb|EDV62811.1| RNA polymerase sigma factor RpoD [Escherichia coli B7A] gi|190907537|gb|EDV67133.1| RNA polymerase sigma factor RpoD [Escherichia coli F11] gi|192932268|gb|EDV84866.1| RNA polymerase sigma factor RpoD [Escherichia coli E22] gi|192959459|gb|EDV89894.1| RNA polymerase sigma factor RpoD [Escherichia coli E110019] gi|194414191|gb|EDX30466.1| RNA polymerase sigma factor RpoD [Escherichia coli B171] gi|194420009|gb|EDX36087.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae 1012] gi|195183229|dbj|BAG66772.1| RNA polymerase, sigma(70) factor [Escherichia coli O111:H-] gi|208729501|gb|EDZ79102.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4206] gi|208734916|gb|EDZ83603.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4045] gi|208740162|gb|EDZ87844.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4042] gi|209160852|gb|ACI38285.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC4115] gi|209759228|gb|ACI77926.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759230|gb|ACI77927.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759232|gb|ACI77928.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759234|gb|ACI77929.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209759236|gb|ACI77930.1| RNA polymerase sigma 70 factor RpoD [Escherichia coli] gi|209913799|dbj|BAG78873.1| RNA polymerase sigma factor RpoD [Escherichia coli SE11] gi|215266470|emb|CAS10908.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O127:H6 str. E2348/69] gi|217319203|gb|EEC27628.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. TW14588] gi|218353504|emb|CAU99623.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli 55989] gi|218362405|emb|CAR00029.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli IAI1] gi|218371824|emb|CAR19679.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli IAI39] gi|218433789|emb|CAR14706.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli UMN026] gi|254594419|gb|ACT73780.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli O157:H7 str. TW14359] gi|257755846|dbj|BAI27348.1| RNA polymerase, sigma 70 factor [Escherichia coli O26:H11 str. 11368] gi|257760968|dbj|BAI32465.1| RNA polymerase, sigma 70 factor [Escherichia coli O103:H2 str. 12009] gi|257766175|dbj|BAI37670.1| RNA polymerase, sigma 70 factor [Escherichia coli O111:H- str. 11128] gi|281602456|gb|ADA75440.1| putative DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Shigella flexneri 2002017] gi|284923096|emb|CBG36189.1| RNA polymerase sigma-70 factor [Escherichia coli 042] gi|290764319|gb|ADD58280.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. CB9615] gi|291322495|gb|EFE61924.1| RNA polymerase primary sigma factor [Escherichia coli B088] gi|291426686|gb|EFE99718.1| RNA polymerase sigma factor RpoD [Escherichia coli FVEC1412] gi|291431862|gb|EFF04845.1| RNA polymerase primary sigma factor [Escherichia coli B185] gi|291469215|gb|EFF11706.1| RNA polymerase sigma factor rpoD [Escherichia coli B354] gi|298277561|gb|EFI19077.1| RNA polymerase sigma factor rpoD [Escherichia coli FVEC1302] gi|300308326|gb|EFJ62846.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 200-1] gi|300355153|gb|EFJ71023.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 198-1] gi|300397877|gb|EFJ81415.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 69-1] gi|300415349|gb|EFJ98659.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 115-1] gi|300420000|gb|EFK03311.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 182-1] gi|300457482|gb|EFK20975.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 21-1] gi|300525801|gb|EFK46870.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 119-7] gi|300528620|gb|EFK49682.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 107-1] gi|306909203|gb|EFN39698.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli W] gi|308122590|gb|EFO59852.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 145-7] gi|312286807|gb|EFR14718.1| RNA polymerase sigma factor rpoD [Escherichia coli 2362-75] gi|313648184|gb|EFS12630.1| RNA polymerase sigma factor rpoD [Shigella flexneri 2a str. 2457T] gi|315062375|gb|ADT76702.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli W] gi|320176471|gb|EFW51521.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae CDC 74-1112] gi|320179315|gb|EFW54273.1| RNA polymerase sigma factor RpoD [Shigella boydii ATCC 9905] gi|320182888|gb|EFW57762.1| RNA polymerase sigma factor RpoD [Shigella flexneri CDC 796-83] gi|320189419|gb|EFW64078.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. EC1212] gi|320201978|gb|EFW76553.1| RNA polymerase sigma factor RpoD [Escherichia coli EC4100B] gi|320640141|gb|EFX09713.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. G5101] gi|320645439|gb|EFX14448.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H- str. 493-89] gi|320650750|gb|EFX19207.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H- str. H 2687] gi|320656128|gb|EFX24040.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320661818|gb|EFX29226.1| RNA polymerase sigma factor RpoD [Escherichia coli O55:H7 str. USDA 5905] gi|320666969|gb|EFX33945.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. LSU-61] gi|323154524|gb|EFZ40724.1| RNA polymerase sigma factor rpoD [Escherichia coli EPECa14] gi|323163118|gb|EFZ48951.1| RNA polymerase sigma factor rpoD [Escherichia coli E128010] gi|323168088|gb|EFZ53775.1| RNA polymerase sigma factor rpoD [Shigella sonnei 53G] gi|323173687|gb|EFZ59316.1| RNA polymerase sigma factor rpoD [Escherichia coli LT-68] gi|323178773|gb|EFZ64349.1| RNA polymerase sigma factor rpoD [Escherichia coli 1180] gi|323183651|gb|EFZ69048.1| RNA polymerase sigma factor rpoD [Escherichia coli 1357] gi|323188489|gb|EFZ73774.1| RNA polymerase sigma factor rpoD [Escherichia coli RN587/1] gi|323377037|gb|ADX49305.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli KO11] gi|323946863|gb|EGB42881.1| RNA polymerase sigma protein RpoD [Escherichia coli H120] gi|323966596|gb|EGB62029.1| RNA polymerase sigma proteinRpoD [Escherichia coli M863] gi|323978859|gb|EGB73939.1| RNA polymerase sigma proteinRpoD [Escherichia coli TW10509] gi|324011983|gb|EGB81202.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 60-1] gi|324018214|gb|EGB87433.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 117-3] gi|324119675|gb|EGC13556.1| RNA polymerase sigma proteinRpoD [Escherichia coli E1167] gi|326337771|gb|EGD61605.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. 1125] gi|326347336|gb|EGD71061.1| RNA polymerase sigma factor RpoD [Escherichia coli O157:H7 str. 1044] gi|327251853|gb|EGE63539.1| RNA polymerase sigma factor rpoD [Escherichia coli STEC_7v] gi|331048049|gb|EGI20126.1| RNA polymerase sigma factor RpoD [Escherichia coli M718] gi|331058611|gb|EGI30592.1| RNA polymerase sigma factor RpoD [Escherichia coli TA143] gi|331062821|gb|EGI34735.1| RNA polymerase sigma factor RpoD [Escherichia coli TA271] gi|331073208|gb|EGI44531.1| RNA polymerase sigma factor RpoD [Escherichia coli H591] gi|331078335|gb|EGI49541.1| RNA polymerase sigma factor RpoD [Escherichia coli H299] gi|332086727|gb|EGI91867.1| RNA polymerase sigma factor rpoD [Shigella boydii 5216-82] gi|332086765|gb|EGI91902.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 155-74] gi|332086940|gb|EGI92075.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 155-74] gi|332092163|gb|EGI97241.1| RNA polymerase sigma factor rpoD [Shigella boydii 3594-74] gi|332102466|gb|EGJ05812.1| RNA polymerase sigma 70 (sigma D) factor [Shigella sp. D9] gi|332752740|gb|EGJ83125.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-671] gi|332753124|gb|EGJ83508.1| RNA polymerase sigma factor rpoD [Shigella flexneri 4343-70] gi|332754402|gb|EGJ84768.1| RNA polymerase sigma factor rpoD [Shigella flexneri 2747-71] gi|332765316|gb|EGJ95540.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor [Shigella flexneri 2930-71] gi|332998670|gb|EGK18266.1| RNA polymerase sigma factor rpoD [Shigella flexneri VA-6] gi|332999827|gb|EGK19411.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-272] gi|332999919|gb|EGK19502.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-218] gi|333014798|gb|EGK34143.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-304] gi|333015695|gb|EGK35034.1| RNA polymerase sigma factor rpoD [Shigella flexneri K-227] Length = 613 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|126642737|ref|YP_001085721.1| sigma D (sigma 70) factor of RNA polymerase major sigma factor during exponential growth [Acinetobacter baumannii ATCC 17978] Length = 580 Score = 383 bits (984), Expect = e-104, Method: Compositional matrix adjust. Identities = 201/379 (53%), Positives = 260/379 (68%), Gaps = 1/379 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K ++S + E L + D++ E + ++I NE E++R A G Sbjct: 201 EKHGRNSPEANEALESLATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREIMRYAVRRG 260 Query: 365 -IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + R+ F +E +P W+ E K + +L + +I I E G++ Sbjct: 261 RMDRNQFRTSFPKQESNPAWLDEQIAKAPAEIKAHLEKVRPDVLAFQQKIADIEKELGLN 320 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 +SE + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 321 VSEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 380 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ Sbjct: 381 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEM 440 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+ Sbjct: 441 GREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDA 500 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A L+E T VL +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 501 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 560 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS+ LRSFL+ Sbjct: 561 LRKLRHPSRSEHLRSFLEN 579 >gi|301325578|ref|ZP_07219046.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 78-1] gi|300847629|gb|EFK75389.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 78-1] Length = 613 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDPTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|157162543|ref|YP_001459861.1| RNA polymerase sigma factor RpoD [Escherichia coli HS] gi|170018681|ref|YP_001723635.1| RNA polymerase sigma factor RpoD [Escherichia coli ATCC 8739] gi|194439798|ref|ZP_03071864.1| RNA polymerase sigma factor RpoD [Escherichia coli 101-1] gi|253772097|ref|YP_003034928.1| RNA polymerase sigma factor RpoD [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254038237|ref|ZP_04872295.1| RNA polymerase sigma factor RpoD [Escherichia sp. 1_1_43] gi|254163014|ref|YP_003046122.1| RNA polymerase sigma factor RpoD [Escherichia coli B str. REL606] gi|256024353|ref|ZP_05438218.1| RNA polymerase sigma factor RpoD [Escherichia sp. 4_1_40B] gi|300905790|ref|ZP_07123524.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 84-1] gi|300931954|ref|ZP_07147251.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 187-1] gi|300950721|ref|ZP_07164609.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 116-1] gi|300958456|ref|ZP_07170595.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 175-1] gi|301021226|ref|ZP_07185258.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 196-1] gi|301301890|ref|ZP_07208024.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 124-1] gi|301644765|ref|ZP_07244740.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 146-1] gi|307139755|ref|ZP_07499111.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|312972668|ref|ZP_07786841.1| RNA polymerase sigma factor rpoD [Escherichia coli 1827-70] gi|331643766|ref|ZP_08344897.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|157068223|gb|ABV07478.1| RNA polymerase sigma factor RpoD [Escherichia coli HS] gi|169753609|gb|ACA76308.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli ATCC 8739] gi|194421246|gb|EDX37267.1| RNA polymerase sigma factor RpoD [Escherichia coli 101-1] gi|226839861|gb|EEH71882.1| RNA polymerase sigma factor RpoD [Escherichia sp. 1_1_43] gi|242378617|emb|CAQ33404.1| RNA polymerase, sigma 70 (sigma D) factor, subunit of RNA polymerase sigma 70 [Escherichia coli BL21(DE3)] gi|253323141|gb|ACT27743.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974915|gb|ACT40586.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253979071|gb|ACT44741.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|299881584|gb|EFI89795.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 196-1] gi|300314897|gb|EFJ64681.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 175-1] gi|300402389|gb|EFJ85927.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 84-1] gi|300449958|gb|EFK13578.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 116-1] gi|300460377|gb|EFK23870.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 187-1] gi|300842871|gb|EFK70631.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 124-1] gi|301076919|gb|EFK91725.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 146-1] gi|309703498|emb|CBJ02838.1| RNA polymerase sigma-70 factor [Escherichia coli ETEC H10407] gi|310332610|gb|EFP99823.1| RNA polymerase sigma factor rpoD [Escherichia coli 1827-70] gi|315256981|gb|EFU36949.1| RNA polymerase sigma factor RpoD [Escherichia coli MS 85-1] gi|315617141|gb|EFU97750.1| RNA polymerase sigma factor rpoD [Escherichia coli 3431] gi|323935931|gb|EGB32226.1| RNA polymerase sigma protein RpoD [Escherichia coli E1520] gi|323941835|gb|EGB38014.1| RNA polymerase sigma proteinRpoD [Escherichia coli E482] gi|323960998|gb|EGB56615.1| RNA polymerase sigma proteinRpoD [Escherichia coli H489] gi|323971810|gb|EGB67035.1| RNA polymerase sigma proteinRpoD [Escherichia coli TA007] gi|331037237|gb|EGI09461.1| RNA polymerase sigma factor RpoD [Escherichia coli H736] gi|332345022|gb|AEE58356.1| RNA polymerase sigma factor protein RpoD [Escherichia coli UMNK88] Length = 613 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|253686949|ref|YP_003016139.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251753527|gb|ACT11603.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 612 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 257/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 LSEVFKQFRLVPKQFDFLVNSMRSMMDRVRTQERLIIKLCVEQCKMPKKNFVTMFTGNET 310 Query: 380 DPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W + A P E N V +V L+ +++ I ETG++I + + I + G Sbjct: 311 NSTWFAAAVAMGKPWSEKLNDVEEDVTRSLQ---KLQQIEEETGLTIEQVKDINRRMSIG 367 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 427 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 487 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 488 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 547 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 548 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 607 Query: 678 SFLD 681 SFLD Sbjct: 608 SFLD 611 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDADEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|227113748|ref|ZP_03827404.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 611 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 257/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 250 LSEVFKQFRLVPKQFDFLVNSMRSMMDRVRTQERLIIKLCVEQCKMPKKNFVTMFTGNET 309 Query: 380 DPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W + A P E N V +V L+ +++ I ETG++I + + I + G Sbjct: 310 NSTWFAAAVAMGKPWSEKLNDVEEDVTRSLQ---KLQQIEEETGLTIEQVKDINRRMSIG 366 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 426 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 427 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 486 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 487 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 546 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 547 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 606 Query: 678 SFLD 681 SFLD Sbjct: 607 SFLD 610 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDADEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|331006388|ref|ZP_08329697.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC1989] gi|330419812|gb|EGG94169.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC1989] Length = 601 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 198/359 (55%), Positives = 252/359 (70%), Gaps = 2/359 (0%) Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPH 382 ++ L + D + ++ + + + E +L L ++ + R F++ G E DP Sbjct: 243 IIKFFKLPPRQFDPMYKKARGVLESVRREERRILSLCVRTAKMPRKTFIKEFPGNETDPT 302 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W+ + NF + + IL+ + ++ I GI +S + I + GE A Sbjct: 303 WIPGVIEKKRDYSANFEEVK-EEILRAQRKLDQIQNTVGIELSMIKEINRRMSIGEARAR 361 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 362 RAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 421 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP E Sbjct: 422 WIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEEK 481 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++SA L E+T VL+ LT Sbjct: 482 VRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGTITSPVESATDVGLTESTRDVLSGLTA 541 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS LRSFLD Sbjct: 542 REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDHLRSFLD 600 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 87/141 (61%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI----NVVDGDDLEDEE 87 K +I +++GY+T ++N LP D +Q+ED + M+++MGI N D ++L + Sbjct: 11 KLLIARGKEQGYLTYADVNDHLPQDISDPDQVEDIIQMINDMGIRVYENAPDAEELLMTD 70 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS +++ ++ L + A R+TD PVRMY+REMG++ELL+REGEIAIAKRIE Sbjct: 71 G--DSSADEIASAEAAAALAAVETEAGRTTD-PVRMYMREMGTVELLTREGEIAIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALI 168 G +M +L P Q LI Sbjct: 128 EGTRDLMHALACWPNVVQILI 148 >gi|266618720|pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact Activator- Dependent Transcription Initiation Complex Length = 613 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|258623542|ref|ZP_05718543.1| RNA polymerase sigma factor [Vibrio mimicus VM573] gi|258623776|ref|ZP_05718733.1| RNA polymerase sigma factor [Vibrio mimicus VM603] gi|262172395|ref|ZP_06040073.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451] gi|258583899|gb|EEW08691.1| RNA polymerase sigma factor [Vibrio mimicus VM603] gi|258584204|gb|EEW08952.1| RNA polymerase sigma factor [Vibrio mimicus VM573] gi|261893471|gb|EEY39457.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451] Length = 625 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 213/405 (52%), Positives = 269/405 (66%), Gaps = 23/405 (5%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E SS+ + +E L + D LV Sbjct: 231 EKFNELRGKFQNLQLAVNEFGRDSNQASEASSLVLDIFRE--------FRLTPKQFDHLV 282 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P + Sbjct: 283 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP---YV 339 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 V + D I + +++ I ET +S+ + I + GE +A AKKEMVEANLRLV Sbjct: 340 QKVREQEDDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLV 399 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 400 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 459 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ Sbjct: 460 RTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISM 519 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI M Sbjct: 520 ETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDM 579 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 580 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624 >gi|302185957|ref|ZP_07262630.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae 642] Length = 616 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 262/363 (72%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + + LVE++ +R+ E +++L + + R FL + G E+ Sbjct: 255 LAELFMPIKLVPKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEV 314 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D W + AK + ++ + I + + ++ ++ ETG+ I+E + I + GE Sbjct: 315 DESWTDALAKG--KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGE 372 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 373 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 432 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 433 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEM 492 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ Sbjct: 493 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLS 552 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRS Sbjct: 553 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRS 612 Query: 679 FLD 681 FLD Sbjct: 613 FLD 615 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 82/137 (59%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|259907100|ref|YP_002647456.1| RNA polymerase sigma factor RpoD [Erwinia pyrifoliae Ep1/96] gi|224962722|emb|CAX54177.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia pyrifoliae Ep1/96] gi|283476901|emb|CAY72757.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia pyrifoliae DSM 12163] gi|310766301|gb|ADP11251.1| RNA polymerase sigma factor RpoD [Erwinia sp. Ejp617] Length = 613 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/366 (55%), Positives = 260/366 (71%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L + L + D LV + + R+ E +++L + + + F+ G Sbjct: 250 QNLSDVFKQFRLVPKQFDFLVNSMRVMMDRVRTQERIIMKLCVELCKMPKKNFITLFTGN 309 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W + A + P E N V+ +V+ L+ +++ I ETG++I + + I + Sbjct: 310 ETNETWFKAALAMNKPWSEKLNDVSDDVNRGLQ---KLQQIEEETGLTIEQVKDINRRMS 366 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 367 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 426 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 427 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 486 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 487 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 546 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 547 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606 Query: 676 LRSFLD 681 LRSFLD Sbjct: 607 LRSFLD 612 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|261820103|ref|YP_003258209.1| RNA polymerase sigma factor RpoD [Pectobacterium wasabiae WPP163] gi|261604116|gb|ACX86602.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium wasabiae WPP163] Length = 611 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 257/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 250 LSEVFKQFRLVPKQFDFLVNSMRSMMDRVRTQERLIIKLCVEQCKMPKKNFVTMFTGNET 309 Query: 380 DPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W + A P E N V +V L+ +++ I ETG++I + + I + G Sbjct: 310 NNSWFAAAVAMGKPWSEKLNDVEEDVTRSLQ---KLQQIEEETGLTIEQVKDINRRMSIG 366 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 426 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 427 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 486 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 487 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 546 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 547 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 606 Query: 678 SFLD 681 SFLD Sbjct: 607 SFLD 610 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDADEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|325273045|ref|ZP_08139355.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51] gi|324101818|gb|EGB99354.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51] Length = 616 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 199/365 (54%), Positives = 260/365 (71%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + ++LVE++ D R+ E +++L + + R FL Sbjct: 253 QALADLFMPIKLVPKQFEVLVERVRDALSRLRQQERAIMQLCVRDARMPRADFLRMFPSN 312 Query: 378 ELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D W AK +W + + +I+ + ++ + ETG++++E + I + Sbjct: 313 ETDQTWSGDLAKR--NTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRMSI 370 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 371 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 490 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T V Sbjct: 491 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610 Query: 677 RSFLD 681 RSFLD Sbjct: 611 RSFLD 615 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDYIL 147 >gi|261342495|ref|ZP_05970353.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC 35316] gi|288315137|gb|EFC54075.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC 35316] Length = 614 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 206/397 (51%), Positives = 271/397 (68%), Gaps = 7/397 (1%) Query: 289 EVYRELRS---LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + ELR+ L + + + ++ + ++LK L ++ L + D LV + + Sbjct: 220 EKFAELRTQYELARDTIKAKGRSHAAAQEQILK--LSEVFKQFRLVPKQFDYLVNSMRVM 277 Query: 346 SKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 R+ E +++L + + + F+ G E W + A + W + D Sbjct: 278 MDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAIAMNKP-WSEKLHDVKD 336 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 337 DVHRGLQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 396 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 397 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 456 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 457 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDE 516 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEE Sbjct: 517 DSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEE 576 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 577 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 613 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/141 (41%), Positives = 88/141 (62%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S ++ + A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TSNNTDEDAEEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 127 DGINQVQCSVAEYPEAITYLL 147 >gi|294634612|ref|ZP_06713146.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda ATCC 23685] gi|291091942|gb|EFE24503.1| RNA polymerase sigma factor RpoD [Edwardsiella tarda ATCC 23685] Length = 613 Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust. Identities = 209/377 (55%), Positives = 263/377 (69%), Gaps = 8/377 (2%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA--QSYGIK 366 +SS K + L ++ L + D LV + + R+ E +++L QS K Sbjct: 240 RSSAKAQEEILNLSEIFKQFRLVPKQFDYLVNNMRAMMDRVRGQERLIMKLCVEQSKMPK 299 Query: 367 RDVFLERHQGRELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 ++ F+ G E W + A P GE + EV+ L+ ++ I ETG++I Sbjct: 300 KN-FITLFTGNETSITWFEAALAMGKPWGEKLKDMREEVERSLQ---KLHQIEEETGLTI 355 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 356 EQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 415 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 416 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 475 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA Sbjct: 476 REPTPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSA 535 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 536 TSESLRSATRDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS+ LRSFLD Sbjct: 596 RKLRHPSRSEVLRSFLD 612 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 60/158 (37%), Positives = 90/158 (56%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ +A + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 ----NIADEDAAEAAVQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + L ++I Sbjct: 125 DGINQVQCSVAEYPEAITYLLEQYDRVEASEARLSDLI 162 >gi|260599325|ref|YP_003211896.1| RNA polymerase sigma factor RpoD [Cronobacter turicensis z3032] gi|260218502|emb|CBA33681.1| RNA polymerase sigma factor rpoD [Cronobacter turicensis z3032] Length = 614 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E ++++ + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRIMMDRVRTQERIIMKMCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA +V L+ +++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVADDVHRSLQ---KLQQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 95/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G L ++I Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|119474865|ref|ZP_01615218.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119451068|gb|EAW32301.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 600 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 193/321 (60%), Positives = 239/321 (74%), Gaps = 2/321 (0%) Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 Q+ +RD F++ QG+E + W+ E + + + IL+ + +I I +T Sbjct: 281 QAKMTRRD-FVKSFQGQETNLDWIEQQIKAHE-DVAPVLEANKEEILRAQRKIAQIETQT 338 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G++I + + I + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 339 GLTILDIKEINRRMSIGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 398 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 399 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML 458 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ REPTPEE+ +++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED P Sbjct: 459 QEMGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTIAQP 518 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +DSA L+E T VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 519 VDSATGQGLQEATKDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 578 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HPSRS LRSFLD Sbjct: 579 AKALRKLRHPSRSDHLRSFLD 599 Score = 91.7 bits (226), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/142 (40%), Positives = 85/142 (59%), Gaps = 10/142 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDD-LEDE 86 K +I +++GY+T E+N LP D +Q+ED + M++++GI V D D+ L E Sbjct: 12 KTLIAKGKEQGYLTYAEVNDHLPQDISDPDQVEDIIQMINDLGIQVFETAPDADEILLTE 71 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E S D + A +A+ + + T DPVRMY+REMG++ELL+REGEIAIAKRI Sbjct: 72 EDSTDDIAAAEAAAALAAVETEAG-----RTTDPVRMYMREMGTVELLTREGEIAIAKRI 126 Query: 147 EAGRAMMMASLCESPLTFQALI 168 E G +MA++ P Q +I Sbjct: 127 EEGIRDIMAAVAYYPGAVQDVI 148 >gi|153003633|ref|YP_001377958.1| RNA polymerase sigma-70 subunit RpoD [Anaeromyxobacter sp. Fw109-5] gi|152027206|gb|ABS24974.1| RNA polymerase, sigma 70 subunit, RpoD [Anaeromyxobacter sp. Fw109-5] Length = 819 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 202/396 (51%), Positives = 275/396 (69%), Gaps = 21/396 (5%) Query: 296 SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 +L V+ K ++ + K ++ ++++ + ++ LN+ +ID +V +L KR+ E E Sbjct: 434 TLTTKKVSEPKRKELRSEIKTIEGEMMEHLEAIQLNKKQIDRIVLRLKGFIKRVEEAERE 493 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF---VACEVDSILKIRNE 412 L ++ + REL +D EG K + C + + ++ Sbjct: 494 LADCERATSV---------PVRELRRLLREARED--EGARKKLGKKLGCSAEEVEELDRT 542 Query: 413 IKS-------ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 ++S + E + + E R + GE +A AK E+VEANLRLV+S+AKKYTN Sbjct: 543 VRSAYRKMLRVQEEAEVPVDELRRTYRTISDGEHKAERAKTELVEANLRLVVSIAKKYTN 602 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 603 RGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 662 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++RT+R + ++ REPTPEEIA+K+ +P++ VRKVLKI KEPISLETPIG+E+ Sbjct: 663 IETINKLIRTSRYLVQELGREPTPEEIAEKMELPLDKVRKVLKIAKEPISLETPIGEEED 722 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIEDK+ VSP D+ I NL E T +VLA+LTPREE+VLRMRFGIG +DHTLEEV Sbjct: 723 SHLGDFIEDKSLVSPSDAVINMNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEV 782 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ F VTRERIRQIEAKA+RKL+HPSRSK+L+SF++ Sbjct: 783 GQDFEVTRERIRQIEAKALRKLRHPSRSKRLKSFVE 818 >gi|251793982|ref|YP_003008714.1| RNA polymerase sigma factor RpoD [Aggregatibacter aphrophilus NJ8700] gi|247535381|gb|ACS98627.1| RNA polymerase sigma factor RpoD (Sigma-70) [Aggregatibacter aphrophilus NJ8700] Length = 623 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 204/378 (53%), Positives = 261/378 (69%), Gaps = 2/378 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSY 363 +K ++S K K + L + L + D+LV + D+ KR+ E + R+ + Sbjct: 246 EKHGRTSKKTKDEIQALSDIFTQFRLVPKQFDILVLSMRDMMKRVRAQERFIQRIVVDNA 305 Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + + F + G E W+ A + + V E D I N ++ I +T ++ Sbjct: 306 KMPKSGFQKSFIGHETTDTWLIKALGADKAWSEKLVQYENDLRQAIANLVQ-IEQDTHLT 364 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I + R I + +GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 365 IQQIREICERIAQGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 424 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 425 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM 484 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 RE +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDS Sbjct: 485 GREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDS 544 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A +L+ T VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 545 ATAQSLKAATHEVLEGLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 604 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKL+HPSRS+ LRSFLD Sbjct: 605 LRKLRHPSRSETLRSFLD 622 >gi|227329605|ref|ZP_03833629.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 611 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/364 (55%), Positives = 257/364 (70%), Gaps = 6/364 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 250 LSEVFKQFRLVPKQFDFLVNSMRSMMDRVRTQERLIIKLCVEQCKMPKKNFVTMFTGNET 309 Query: 380 DPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 + W + A P E N V +V L+ +++ I ETG++I + + I + G Sbjct: 310 NNTWFAAAVAMGKPWSEKLNDVEEDVTRSLQ---KLQQIEEETGLTIEQVKDINRRMSIG 366 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 426 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 427 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 486 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 487 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 546 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 547 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 606 Query: 678 SFLD 681 SFLD Sbjct: 607 SFLD 610 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIIDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTNDADEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|238756616|ref|ZP_04617911.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473] gi|238705164|gb|EEP97586.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473] Length = 613 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 206/394 (52%), Positives = 268/394 (68%), Gaps = 5/394 (1%) Query: 291 YRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + +LR +NA +K+ +S + KL ++ L + D LV + + R+ Sbjct: 221 FSDLREQYENARKEIKKNGRSHISAAAEILKLSEVFKQFRLVPKQFDYLVNNMRTMMDRV 280 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 281 RTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAALAMGKPWSEKLKDVSDDVQ 338 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 339 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 398 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 399 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 458 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 459 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 518 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 519 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 578 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 579 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 92/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NT--NDTDDDAAEAAAQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|37678745|ref|NP_933354.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016] gi|37197486|dbj|BAC93325.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016] Length = 643 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 208/403 (51%), Positives = 272/403 (67%), Gaps = 9/403 (2%) Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 AL++ ++ ++LQ AVN E S + E ++ + L + D LV + Sbjct: 246 MALEKFTQLRNSYQNLQ-LAVNEHGRE--SAQTAQAHELMLDVFKEFRLTPKQFDHLVNE 302 Query: 342 LYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNF 398 L R+ E +++ A + + F+ G E + W+ A D P + Sbjct: 303 LRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGNESNEEWLDQILASDKP---YVEK 359 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + + I + ++++I ET +S++ + I + GE +A AKKEMVEANLRLVIS Sbjct: 360 IKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMSIGEAKARRAKKEMVEANLRLVIS 419 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 420 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 479 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ET Sbjct: 480 IRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMET 539 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNT Sbjct: 540 PIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATKDVLAGLTPREAKVLRMRFGIDMNT 599 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 600 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 642 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 88/141 (62%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV D DDL + Sbjct: 29 KLLVIRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 88 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 E ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 89 --ETNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 145 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + +S+ E P T ++ Sbjct: 146 DGINQVQSSVAEYPGTIPYIL 166 >gi|238794325|ref|ZP_04637937.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909] gi|238726319|gb|EEQ17861.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909] Length = 612 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 206/394 (52%), Positives = 268/394 (68%), Gaps = 5/394 (1%) Query: 291 YRELRSLQDNA-VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + +LR +NA + +K+ +S KL ++ L + D LV + + R+ Sbjct: 220 FSDLREQYENARMEIKKNGRSHANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRTMMDRV 279 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 280 RTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAAIAMGKPWSEKLKDVSDDVQ 337 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 338 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 397 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 398 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 457 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 458 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 517 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 518 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 577 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 611 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 7/159 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G + S+ E P L+ D + G L ++I+ Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIN 165 >gi|157148639|ref|YP_001455958.1| RNA polymerase sigma factor RpoD [Citrobacter koseri ATCC BAA-895] gi|157085844|gb|ABV15522.1| hypothetical protein CKO_04466 [Citrobacter koseri ATCC BAA-895] Length = 614 Score = 382 bits (982), Expect = e-104, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V +V L+ +++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVTEDVQRSLQ---KLQQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTNNTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|311278024|ref|YP_003940255.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae SCF1] gi|308747219|gb|ADO46971.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae SCF1] Length = 614 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + +R+ E +++L + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRTMMERVRIQERIIMKLCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V +V L+ +++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVTEDVQRSLQ---KLQQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 94/155 (60%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + L ++I Sbjct: 128 NQVQCSVAEYPEAITYLLEQYDRVEAAEARLSDLI 162 >gi|292486903|ref|YP_003529773.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora CFBP1430] gi|292900702|ref|YP_003540071.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946] gi|291200550|emb|CBJ47679.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946] gi|291552320|emb|CBA19364.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora CFBP1430] gi|312170973|emb|CBX79232.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora ATCC BAA-2158] Length = 614 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/366 (55%), Positives = 259/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L + L + D LV + + R+ E +++L + + + F+ G Sbjct: 251 QNLSDVFKQFRLVPKQFDFLVNSMRVMMDRVRTQERIIMKLCVELCKMPKKNFITLFTGN 310 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W + A + P E N V+ +V+ L+ +++ I ETG++I + + I + Sbjct: 311 ETSETWFKAALAMNKPWSEKLNDVSEDVNRGLQ---KLQQIEEETGLTIEQVKDINRRMS 367 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 368 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 427 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 428 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 487 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 488 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 547 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 548 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 607 Query: 676 LRSFLD 681 LRSFLD Sbjct: 608 LRSFLD 613 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|293394293|ref|ZP_06638593.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera DSM 4582] gi|291423271|gb|EFE96500.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera DSM 4582] Length = 647 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 253/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL + L + D LV + + R+ E +++L + + + F+ G E Sbjct: 285 KLSDVFKQFRLVPKQFDFLVNSMRTMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFAGNE 344 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W A + W + + + + +++ I ETG++I + + I + GE Sbjct: 345 TSDSWFEAALAMAKP-WSEKLKDVAEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 403 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 404 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 463 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 464 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 523 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 524 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 583 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 584 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 643 Query: 679 FLD 681 FLD Sbjct: 644 FLD 646 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 96/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 46 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 105 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 106 NSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 159 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G + L ++I Sbjct: 160 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 200 >gi|304409306|ref|ZP_07390926.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS183] gi|307303664|ref|ZP_07583417.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica BA175] gi|304351824|gb|EFM16222.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS183] gi|306912562|gb|EFN42985.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica BA175] gi|315266575|gb|ADT93428.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS678] Length = 611 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 197/353 (55%), Positives = 256/353 (72%), Gaps = 2/353 (0%) Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAK 388 L + D LV+ + + R+ E +L+L + + + F++ G E + W + K Sbjct: 259 LVPKQFDRLVKSMRTMMDRVRVQERLVLKLCVEQAKMPKKNFVKLFTGNETNLDWFNTEK 318 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + + E D +++ R ++ ++ ETG++IS + I + GE +A AKKEM Sbjct: 319 ASTKPYAEGLRMVE-DDVIRCRTKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKKEM 377 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 378 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 437 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLK Sbjct: 438 TRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLK 497 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +VL Sbjct: 498 IAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAGLTAREAKVL 557 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 558 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 610 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 89/155 (57%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 128 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII 162 >gi|15603106|ref|NP_246178.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp. multocida str. Pm70] gi|12721597|gb|AAK03325.1| RpoD [Pasteurella multocida subsp. multocida str. Pm70] Length = 622 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 206/396 (52%), Positives = 268/396 (67%), Gaps = 5/396 (1%) Query: 289 EVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + EL++ AV +K ++S K K + L + L + D LV + ++ K Sbjct: 228 EKFLELKTQHAKAVAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMK 287 Query: 348 RIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDS 405 + E + ++ + ++ F + G E W+ K G+ W +A + Sbjct: 288 SVRLQERSIQKIVVDKAKMPKEQFQKVFIGHENKDTWL--VKALSSGKTWSEKLAKHEEE 345 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I + I I +T +++S+ R + + GE +A AKKEMVEANLRLVIS+AKKYTN Sbjct: 346 IRYYIDNILEIERQTNLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIAKKYTN 405 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 406 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 465 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ R +R+M ++ RE +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D Sbjct: 466 IETINKLNRISRQMLQEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDD 525 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED PLDSA +L+ T VL LTPRE +VLRMRFGI MNTDHTLEEV Sbjct: 526 SHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEV 585 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 586 GKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 621 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 60/160 (37%), Positives = 93/160 (58%), Gaps = 13/160 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP + V +EQ+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAPDADDLMLNE 69 Query: 88 --GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 ED+++ A+ +S ++ T DPVRMY+REMGS+ELL+REGEI IAKR Sbjct: 70 TIADEDAVEEATQVLSSV-------EAEIGRTTDPVRMYMREMGSVELLTREGEIDIAKR 122 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IE G + +++ P L+ + +G L ++I Sbjct: 123 IEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLADLI 162 >gi|188532569|ref|YP_001906366.1| RNA polymerase sigma factor RpoD [Erwinia tasmaniensis Et1/99] gi|188027611|emb|CAO95461.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia tasmaniensis Et1/99] Length = 613 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/366 (55%), Positives = 259/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L + L + D LV + + R+ E +++L + + + F+ G Sbjct: 250 QNLSDVFKQFRLVPKQFDFLVNSMRVMMDRVRTQERLIMKLCVELCKMPKKNFITLFTGN 309 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W + A + P E N V+ +V L+ +++ I ETG++I + + I + Sbjct: 310 ETNETWFKAALAMNKPWSEKLNDVSEDVTRGLQ---KLQQIEEETGLTIEQVKDINRRMS 366 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 367 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 426 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 427 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 486 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 487 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 546 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 547 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606 Query: 676 LRSFLD 681 LRSFLD Sbjct: 607 LRSFLD 612 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAINYLLEQYDRVEAGEARLSDLI 164 >gi|71891846|ref|YP_277575.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|71795952|gb|AAZ40703.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 611 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 202/380 (53%), Positives = 262/380 (68%), Gaps = 6/380 (1%) Query: 303 NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQ 361 NG+ KSS + KL ++ L + D LV + + +R+ E +++L + Sbjct: 236 NGRNHIKSSKEIL----KLSEIFKQFRLVPKQFDYLVNNMRSMMERVRKQERLIMKLCVE 291 Query: 362 SYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 + + F+ G + + W + A W + + + +++ I ETG Sbjct: 292 ISKMPKKNFIALFSGNQTNKTWFNTALSM-HTSWSEKLYKVDEDVQNSLSKLHQIEKETG 350 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 351 LTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 410 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 411 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQ 470 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +I EPTPEE+A+++ M + +RKVLKI KEPIS+ETP+GD++ SHLGDFIED N PL Sbjct: 471 EIGHEPTPEELAERMLMSEDKIRKVLKIAKEPISMETPVGDDEDSHLGDFIEDTNHDLPL 530 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 DSA NLR T +L+ LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEA Sbjct: 531 DSATSDNLRTATHDILSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 590 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HPSRS+ LRSFLD Sbjct: 591 KALRKLRHPSRSEILRSFLD 610 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 60/158 (37%), Positives = 90/158 (56%), Gaps = 5/158 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE----E 87 K ++ L +++GY+T E+N LP D V Q+E+ + M+++MGI V++ DE E Sbjct: 10 KLLVTLGKEQGYLTFSEVNDHLPEDIVDPGQIENIIQMMNDMGIQVMEEAPNSDEFLLIE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + D A+ ++V DS T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 HTHSTND-EEDATEAAVQALTNVDSELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIE 128 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ + G T L ++I Sbjct: 129 DGINQVQCSVSEYPEAITYLLEQYKRVETGETRLSDLI 166 >gi|308188146|ref|YP_003932277.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pantoea vagans C9-1] gi|308058656|gb|ADO10828.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pantoea vagans C9-1] Length = 613 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/366 (54%), Positives = 257/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGR 377 + L + L + D LV + + +R+ E +++L + + + F+ G Sbjct: 250 QNLSDVFKQFRLVPKQFDYLVGSMRTMMERVRTQERLIMKLCIELCKMPKKNFITLFTGN 309 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W + A + P W + D +++ ++ + ETG++I + + I + Sbjct: 310 ETNESWFKAALAMNKP---WSEKLLEVQDDVMRSLQKLAQVEEETGLTIEQVKDINRRMS 366 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 367 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 426 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 427 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 486 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 487 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 546 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 547 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606 Query: 676 LRSFLD 681 LRSFLD Sbjct: 607 LRSFLD 612 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 96/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D++ G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLDQYDKVEAGESRLSDLI 164 >gi|317493716|ref|ZP_07952133.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium 9_2_54FAA] gi|316918043|gb|EFV39385.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium 9_2_54FAA] Length = 610 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/365 (56%), Positives = 259/365 (70%), Gaps = 8/365 (2%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA--QSYGIKRDVFLERHQGRE 378 L ++ L + D LV + + R+ E +++L QS K++ F+ G E Sbjct: 249 LSEVFKQFRLVPKQFDYLVNNMRQMMDRVRTQERLIMKLCVEQSKMPKKN-FITLFTGNE 307 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 + W + A P GE V +V+ L+ ++ I ETG++I + + I + Sbjct: 308 TNTTWFDAALAMAKPWGEKLKDVREDVERSLQ---KLHQIEEETGLTIEQVKDINRRMSI 364 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 365 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 424 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 425 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 484 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 485 MMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATRDV 544 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 545 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 604 Query: 677 RSFLD 681 RSFLD Sbjct: 605 RSFLD 609 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 90/158 (56%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ +A + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 ----NIADEDAAEAAVQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + L +II Sbjct: 125 DGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDII 162 >gi|237729995|ref|ZP_04560476.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2] gi|226908601|gb|EEH94519.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2] Length = 660 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 204/366 (55%), Positives = 260/366 (71%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 +KL ++ L + D LV + + R+ E +++L + + + F+ G Sbjct: 297 QKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGN 356 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W + A + P E + VA +V L+ +++ I ETG++I + + I + Sbjct: 357 ETSETWFNAAIAMNKPWSEKLHDVADDVHRGLQ---KLQQIEEETGLTIEQVKDINRRMS 413 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 414 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 473 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 474 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 533 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 534 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHD 593 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 594 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 653 Query: 676 LRSFLD 681 LRSFLD Sbjct: 654 LRSFLD 659 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 55 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 114 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 115 TSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 168 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 169 RIEDGINQVQCSVAEYPEAITYLL 192 >gi|217974326|ref|YP_002359077.1| RNA polymerase sigma 70 subunit RpoD [Shewanella baltica OS223] gi|217499461|gb|ACK47654.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS223] Length = 611 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 206/400 (51%), Positives = 276/400 (69%), Gaps = 5/400 (1%) Query: 285 DEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 +E E + +LR+ ++A+ K + K L E + ++ L + D LV+ + Sbjct: 213 EEARERFGQLRTAYESALKIIDAKGREHPESVKALFE-IGEIFKEFRLVPKQFDRLVKSM 271 Query: 343 YDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 + R+ E +L+L + + + F++ G E + W + K + + Sbjct: 272 RTMMDRVRVQERLVLKLCVEQAKMPKKNFVKFFTGNETNLDWFNTEKASTKPYAEGLRMV 331 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E D +++ R ++ ++ ETG++IS + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 332 E-DDVIRCRTKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 390 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 391 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 450 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLKI KEPIS+ETPIG Sbjct: 451 PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIG 510 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED PLDSA +L+ T VLA LT RE +VLRMRFGI MNTDHT Sbjct: 511 DDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHT 570 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 571 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 610 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 91/155 (58%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D+ D ++ ++ +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DNTDEDAAEEAAAA--LATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 128 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII 162 >gi|304396867|ref|ZP_07378747.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB] gi|304355663|gb|EFM20030.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB] Length = 613 Score = 382 bits (981), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/366 (54%), Positives = 257/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGR 377 + L + L + D LV + + +R+ E +++L + + + F+ G Sbjct: 250 QNLSDVFKQFRLVPKQFDYLVGSMRTMMERVRTQERLIMKLCIELCKMPKKNFITLFTGN 309 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W + A + P W + D +++ ++ + ETG++I + + I + Sbjct: 310 ETNESWFKAALAMNKP---WSEKLLEVQDDVMRSLQKLAQVEEETGLTIEQVKDINRRMS 366 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 367 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 426 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 427 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 486 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 487 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 546 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 547 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606 Query: 676 LRSFLD 681 LRSFLD Sbjct: 607 LRSFLD 612 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 65/158 (41%), Positives = 96/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D++ G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLDQYDKVEAGESRLSDLI 164 >gi|262371919|ref|ZP_06065198.1| RNA polymerase sigma factor sigma-70 [Acinetobacter junii SH205] gi|262311944|gb|EEY93029.1| RNA polymerase sigma factor sigma-70 [Acinetobacter junii SH205] Length = 627 Score = 382 bits (980), Expect = e-103, Method: Compositional matrix adjust. Identities = 208/400 (52%), Positives = 267/400 (66%), Gaps = 3/400 (0%) Query: 286 EIAEV-YRELRSL-QDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 E+A+V + EL S D +K +SS + K E L + D++ E + Sbjct: 227 EVAKVRFTELESAWNDTKAIIEKHGRSSEEAKAALESLAAVFMMFKFTPRLFDIISEMIR 286 Query: 344 DISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 +I NE E++R A G + R+ F +E +P W+ E K + Sbjct: 287 GTHDQIRANEREIMRYAVRRGRMDRNQFRTTFPEQESNPAWLDEQIAKAPAEIKPHLEKV 346 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +L + +I I E +++ E + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 347 RPDVLAFQQKIADIEKELDLNVKEIKDISKRMAVGEAKARRAKKEMVEANLRLVISIAKK 406 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 407 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 466 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD Sbjct: 467 VHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGD 526 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFGI M TDHTL Sbjct: 527 DEDSHLGDFIEDSNITSPVDAATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTL 586 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 587 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 626 >gi|82778397|ref|YP_404746.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae Sd197] gi|309785377|ref|ZP_07680008.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617] gi|81242545|gb|ABB63255.1| RNA polymerase, sigma(70) factor [Shigella dysenteriae Sd197] gi|308926497|gb|EFP71973.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617] Length = 613 Score = 382 bits (980), Expect = e-103, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 257/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A P E + V+ EV L+ ++ I ETG++I + + I + Sbjct: 311 TSDTWFNAATAMNKPWSEKLHDVSEEVHRALQ---KLLQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|206576865|ref|YP_002236518.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342] gi|288933503|ref|YP_003437562.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22] gi|290511438|ref|ZP_06550807.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55] gi|206565923|gb|ACI07699.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342] gi|288888232|gb|ADC56550.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22] gi|289776431|gb|EFD84430.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55] Length = 613 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/397 (51%), Positives = 271/397 (68%), Gaps = 7/397 (1%) Query: 289 EVYRELRS---LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + ELR+ L + + + ++ + ++LK L ++ L + D LV + + Sbjct: 219 EKFAELRTQYELTRDTIKAKGRSHAAAQEEILK--LSEVFKQFRLVPKQFDYLVNSMRSM 276 Query: 346 SKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 R+ E +++L + + + F+ G E W + A + W + + Sbjct: 277 MDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAVAMNKP-WSEKLLEVKE 335 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 336 DVQRGLQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 395 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 396 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 455 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 456 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDE 515 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEE Sbjct: 516 DSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEE 575 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 576 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 89/138 (64%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|152971991|ref|YP_001337100.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|330003818|ref|ZP_08304768.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3] gi|150956840|gb|ABR78870.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|328536802|gb|EGF63114.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3] Length = 613 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/397 (51%), Positives = 271/397 (68%), Gaps = 7/397 (1%) Query: 289 EVYRELRS---LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + ELR+ L + + + ++ + ++LK L ++ L + D LV + + Sbjct: 219 EKFAELRTQYELTRDTIKAKGRSHAAAQEEILK--LSEVFKQFRLVPKQFDYLVNSMRSM 276 Query: 346 SKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 R+ E +++L + + + F+ G E W + A + W + + Sbjct: 277 MDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAVAMNKP-WSEKLLEVKE 335 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 336 DVQRGLQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 395 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 396 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 455 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 456 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDE 515 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEE Sbjct: 516 DSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEE 575 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 576 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 89/138 (64%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|114048481|ref|YP_739031.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-7] gi|113889923|gb|ABI43974.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-7] Length = 619 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 207/400 (51%), Positives = 275/400 (68%), Gaps = 5/400 (1%) Query: 285 DEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 +E E + +LR+ +NA+ K + K L E + ++ L + D LV+ + Sbjct: 221 EEARERFGQLRTAYENALKIIEAKGREHPESIKALFE-IGEIFKEFRLVPKQFDRLVKSM 279 Query: 343 YDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 + R+ E L++L + + + F++ G E + W K+ + + Sbjct: 280 RSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLDWFDAEKNSTKPYAEGLRMV 339 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E D + + R+++ +I ETG+ I+ + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 340 EED-VQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 398 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 399 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 458 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLKI KEPIS+ETPIG Sbjct: 459 PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIG 518 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED PLDSA +L+ T VLA LT RE +VLRMRFGI MNTDHT Sbjct: 519 DDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHT 578 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 579 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 618 >gi|85711761|ref|ZP_01042817.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina baltica OS145] gi|85694376|gb|EAQ32318.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina baltica OS145] Length = 611 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/377 (53%), Positives = 262/377 (69%), Gaps = 18/377 (4%) Query: 314 CKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLE 372 +V +KL L L + D LV+ + + +R+ E +++ A + G+ + F++ Sbjct: 243 ARVEIDKLSDLFKQFRLVPKQFDRLVQDMRAMMQRVRVQERLVMKAAVEQAGMPKRAFMK 302 Query: 373 RHQGRELDPHWVS--------YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 G E WV YA E E++ + NEI+ ETG++I Sbjct: 303 AFAGNENSLAWVDEQISAGVDYATTLQEAR------VEIERCVTKLNEIEK---ETGLTI 353 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 354 AKVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 413 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 414 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 473 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REP PEE+A+++AMP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED P+DSA Sbjct: 474 REPLPEELAERMAMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLDLPIDSA 533 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +LR + VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 534 TSESLRNSVRDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 593 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS++L+SFLD Sbjct: 594 RKLRHPSRSEQLKSFLD 610 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 85/158 (53%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++G++T E+N LP + V S+Q+ED + M+++MGI V D DDL E Sbjct: 10 KVLIAKGKEQGFLTFAEVNDHLPQEIVDSDQIEDIIRMINDMGIRVFESAPDADDLMMSE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D +A + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 SAADEDAAEEAAQALATV-----DGEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D L EII Sbjct: 125 DGINQVQCSVAEYPEAINFLLEQWDSYEAEELRLTEII 162 >gi|262042263|ref|ZP_06015428.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|259040327|gb|EEW41433.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] Length = 611 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/397 (51%), Positives = 271/397 (68%), Gaps = 7/397 (1%) Query: 289 EVYRELRS---LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + ELR+ L + + + ++ + ++LK L ++ L + D LV + + Sbjct: 217 EKFAELRTQYELTRDTIKAKGRSHAAAQEEILK--LSEVFKQFRLVPKQFDYLVNSMRSM 274 Query: 346 SKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 R+ E +++L + + + F+ G E W + A + W + + Sbjct: 275 MDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAVAMNKP-WSEKLLEVKE 333 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 334 DVQRGLQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 393 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 394 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 453 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 454 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDE 513 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEE Sbjct: 514 DSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEE 573 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 574 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 610 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 89/138 (64%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|146313109|ref|YP_001178183.1| RNA polymerase sigma factor RpoD [Enterobacter sp. 638] gi|145319985|gb|ABP62132.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter sp. 638] Length = 631 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 208/395 (52%), Positives = 268/395 (67%), Gaps = 3/395 (0%) Query: 289 EVYRELRSLQDNAVNGQKDE-KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 E + ELR+ + A + K + +S K +KL + L + D LV + + Sbjct: 237 EKFGELRTQYELARDTIKAKGRSHAAAKEEIQKLSDVFKQFRLVPKQFDYLVNSMRVMMD 296 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 R+ E +++L + + + F+ G E W + A W + D + Sbjct: 297 RVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAIAM-NKPWSEKLHDVSDDV 355 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 356 QRGLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 415 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 416 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 475 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ S Sbjct: 476 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 535 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVG Sbjct: 536 HLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG 595 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 596 KQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 630 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 95/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 29 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 88 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 89 NSNNTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 142 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + L +II Sbjct: 143 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDII 183 >gi|297520936|ref|ZP_06939322.1| RNA polymerase sigma factor RpoD [Escherichia coli OP50] Length = 436 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 204/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 74 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 133 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 134 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 190 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 191 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 250 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 251 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 310 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 311 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 370 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 371 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 430 Query: 677 RSFLD 681 RSFLD Sbjct: 431 RSFLD 435 >gi|157372533|ref|YP_001480522.1| RNA polymerase sigma factor RpoD [Serratia proteamaculans 568] gi|157324297|gb|ABV43394.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia proteamaculans 568] Length = 647 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 285 KLSEVFKQFRLVPKQFDFLVNSMRIMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 344 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + D + + +++ I ETG++I + + I + GE Sbjct: 345 TSDTWFAAALAMAKP-WSEKLKDVADDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 403 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 404 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 463 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 464 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 523 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 524 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 583 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 584 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 643 Query: 679 FLD 681 FLD Sbjct: 644 FLD 646 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 46 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 105 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 106 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 162 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 163 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 200 >gi|152999721|ref|YP_001365402.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS185] gi|160874340|ref|YP_001553656.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS195] gi|151364339|gb|ABS07339.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS185] gi|160859862|gb|ABX48396.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS195] Length = 627 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 197/353 (55%), Positives = 256/353 (72%), Gaps = 2/353 (0%) Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAK 388 L + D LV+ + + R+ E +L+L + + + F++ G E + W + K Sbjct: 275 LVPKQFDRLVKSMRTMMDRVRVQERLVLKLCVEQAKMPKKNFVKLFTGNETNLDWFNTEK 334 Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 + + E D +++ R ++ ++ ETG++IS + I + GE +A AKKEM Sbjct: 335 ASTKPYAEGLRMVE-DDVIRCRTKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKKEM 393 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 VEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI Sbjct: 394 VEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 453 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLK Sbjct: 454 TRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLK 513 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +VL Sbjct: 514 IAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAGLTAREAKVL 573 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 574 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 626 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 89/155 (57%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 26 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 85 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 86 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 143 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 144 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII 178 >gi|113971243|ref|YP_735036.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-4] gi|113885927|gb|ABI39979.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella sp. MR-4] Length = 619 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 207/400 (51%), Positives = 275/400 (68%), Gaps = 5/400 (1%) Query: 285 DEIAEVYRELRSLQDNAVN--GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 +E E + +LR+ +NA+ K + K L E + ++ L + D LV+ + Sbjct: 221 EEARERFGQLRTAYENALKIIEAKGREHPESIKALFE-IGEIFKEFRLVPKQFDRLVKSM 279 Query: 343 YDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 + R+ E L++L + + + F++ G E + W K+ + + Sbjct: 280 RSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLDWFDAEKNSNKPYAEGLKMV 339 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E D + + R+++ +I ETG+ I+ + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 340 EED-VQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK 398 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 399 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 458 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLKI KEPIS+ETPIG Sbjct: 459 PVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIG 518 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D++ SHLGDFIED PLDSA +L+ T VLA LT RE +VLRMRFGI MNTDHT Sbjct: 519 DDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHT 578 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 579 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 618 >gi|162420372|ref|YP_001604920.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola] gi|162353187|gb|ABX87135.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola] Length = 612 Score = 381 bits (979), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 250 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 309 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 310 TSDTWFNAAVAMGKP-WSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 368 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 369 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 428 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 429 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 488 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA NLR T VLA Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSENLRSATHDVLA 548 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 549 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 608 Query: 679 FLD 681 FLD Sbjct: 609 FLD 611 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|50085952|ref|YP_047462.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ADP1] gi|49531928|emb|CAG69640.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter sp. ADP1] Length = 629 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 206/400 (51%), Positives = 266/400 (66%), Gaps = 3/400 (0%) Query: 286 EIAEV-YRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 EIA+V + EL + N +K ++S + E L + D++ E + Sbjct: 229 EIAKVRFEELEAAWKNTKTVIEKHGRNSEEANAALESLATVFMMFKFTPRLFDIISEMIR 288 Query: 344 DISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 + I NE E++R A G + R F G+E +P W+ E K ++ Sbjct: 289 GTHENIRSNEREVMRYAVRRGRMDRTQFRTSFPGQESNPAWLEEQIAKAPNESKAYLEKV 348 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 I + +I I + +++ E + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 349 RPDIQAFQQKIAEIEQDLNLNVREIKEIAKRMAVGEAKARRAKKEMVEANLRLVISIAKK 408 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 409 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 468 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD Sbjct: 469 VHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGD 528 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFGI M TDHTL Sbjct: 529 DEDSHLGDFIEDSNITSPVDAATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTL 588 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 589 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 628 >gi|238762467|ref|ZP_04623438.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638] gi|238699452|gb|EEP92198.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638] Length = 613 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/395 (51%), Positives = 266/395 (67%), Gaps = 7/395 (1%) Query: 291 YRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 + ELR +N A+ +S ++L L ++ L + D LV + + Sbjct: 221 FSELREQYENTRMAIKKNGRSHASAAAEILN--LSEVFKQFRLVPKQFDYLVNNMRAMMD 278 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 R+ E +++L + + + F+ E W + A + W + D + Sbjct: 279 RVRTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTWFAAAVAMGKP-WSEKLKDVSDDV 337 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 338 QRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 397 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 398 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 457 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ S Sbjct: 458 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 517 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVG Sbjct: 518 HLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG 577 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 578 KQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 612 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 7/159 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G + S+ E P L+ D + G L ++I+ Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIN 165 >gi|221134905|ref|ZP_03561208.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola sp. HTCC2999] Length = 607 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 202/376 (53%), Positives = 266/376 (70%), Gaps = 6/376 (1%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR--LAQSYGIK 366 +S+ K KL + L + D +V+ + + R+ E +++ +AQ+ K Sbjct: 234 RSNAAAKKQIAKLSDVFKEFRLIPKQFDRMVKNMRGMMDRVRIQERLIMKHCVAQAKMPK 293 Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV-DSILKIRNEIKSISVETGISIS 425 +D F++ G E W Y K + V + I + +++ ++ ETG+ I+ Sbjct: 294 KD-FIKAFAGNETSTDW--YYKILKTSKPYVLVLETFQEDIERSVSKMNAVEAETGLCIA 350 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 351 DIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 410 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ R Sbjct: 411 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR 470 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+++++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED + PLDSA Sbjct: 471 EPTPEELSERMIMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTIIQPLDSAT 530 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +L++ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+R Sbjct: 531 GGSLKDATQDVLAGLTQREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 590 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HPSRS++LRSFLD Sbjct: 591 KLRHPSRSEQLRSFLD 606 Score = 94.4 bits (233), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 57/141 (40%), Positives = 82/141 (58%), Gaps = 9/141 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI V D D+L E Sbjct: 9 KLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIQVFESAPDSDELLMAE 68 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D ++A + +S T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 69 TTTDEEVAEAAAQALATV-----ESEIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIE 123 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 124 DGINQVQCSVAEYPEAITYLL 144 >gi|320539899|ref|ZP_08039558.1| putative RNA polymerase, sigma 70 (sigma D) factor [Serratia symbiotica str. Tucson] gi|320030085|gb|EFW12105.1| putative RNA polymerase, sigma 70 (sigma D) factor [Serratia symbiotica str. Tucson] Length = 607 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ +E +++L + + + F+ G E Sbjct: 245 KLSEVFKQFRLVPKQFDFLVNSMRAMMDRVHTHERTIMKLCVEQCKMPKKNFVTLFAGNE 304 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W A+ + W + + + + ++ I ETG++I + + I + GE Sbjct: 305 TSDVWFEKAQAMTKP-WSEKLKDVAEDVQRSLQKLHQIEEETGLTIEQVKDINRRMSIGE 363 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 364 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 423 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ M Sbjct: 424 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPMPEELAERMLM 483 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 484 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTFELPLDSATSESLRSATHDVLA 543 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 544 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 603 Query: 679 FLD 681 FLD Sbjct: 604 FLD 606 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 63/169 (37%), Positives = 97/169 (57%), Gaps = 7/169 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D A+ ++ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTTDTDEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII------DLEACIGP 193 + S+ E P L+ D + G L ++I D E I P Sbjct: 130 NQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLITGFVDPDAEEDIAP 178 >gi|238750950|ref|ZP_04612447.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380] gi|238710864|gb|EEQ03085.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380] Length = 612 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 200/364 (54%), Positives = 255/364 (70%), Gaps = 4/364 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 250 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 309 Query: 379 LDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 W +A G+ W + D + + +++ I ETG++I + + I + G Sbjct: 310 TSDTW--FAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 427 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 487 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 488 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVL 547 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 548 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 607 Query: 678 SFLD 681 SFLD Sbjct: 608 SFLD 611 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 EGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|85058229|ref|YP_453931.1| RNA polymerase sigma factor RpoD [Sodalis glossinidius str. 'morsitans'] gi|84778749|dbj|BAE73526.1| RNA polymerase sigma-70 factor RpoD [Sodalis glossinidius str. 'morsitans'] Length = 615 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/383 (53%), Positives = 263/383 (68%), Gaps = 10/383 (2%) Query: 302 VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-A 360 NG+ KS+ ++L L + L + D LV + + R+ E +++L Sbjct: 239 TNGRSHAKSA--SEILN--LSDVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERLIMKLCV 294 Query: 361 QSYGIKRDVFLERHQGRELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 + + + F+ G E W + A + P W + D + + +++ I Sbjct: 295 EISKMPKKNFVTLFAGNETSESWFKAALAMNKP---WSEKLHEVDDDVYRSLQKLRQIEE 351 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 352 ETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 411 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 412 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ 471 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 472 MLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLE 531 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQ Sbjct: 532 LPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ 591 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKL+HPSRS+ LRSFLD Sbjct: 592 IEAKALRKLRHPSRSEVLRSFLD 614 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTFAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TTSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|126173383|ref|YP_001049532.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS155] gi|125996588|gb|ABN60663.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella baltica OS155] Length = 627 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/355 (56%), Positives = 256/355 (72%), Gaps = 6/355 (1%) Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSY-- 386 L + D LV+ + + R+ E +L+L + + + F++ G E + W + Sbjct: 275 LVPKQFDRLVKSIRTMMDRVRVQERLVLKLCVEQAKMPKKNFVKLFTGNETNLDWFNTEK 334 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 A P E V D +++ R ++ ++ ETG++IS + I + GE +A AKK Sbjct: 335 ASTKPYAEGLRMVE---DDVIRCRTKLAAVEEETGLAISAIKDINRRMSIGEAKARRAKK 391 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 392 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 451 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKV Sbjct: 452 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKV 511 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE + Sbjct: 512 LKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAGLTAREAK 571 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 572 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 626 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 89/155 (57%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 26 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 85 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 86 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 143 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 144 NTVQSSVAEYPQAIAMILEQFDQFEADELRLSDII 178 >gi|302342714|ref|YP_003807243.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfarculus baarsii DSM 2075] gi|301639327|gb|ADK84649.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfarculus baarsii DSM 2075] Length = 590 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 182/280 (65%), Positives = 228/280 (81%), Gaps = 1/280 (0%) Query: 403 VDSILKI-RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 VD L++ R I+ + +E + R I+ V KG+ A AK+E+VEANLRLV+S+AK Sbjct: 310 VDESLRVARGRIREVEMECKMGAPSLRKILDRVGKGQTLAQDAKQELVEANLRLVVSIAK 369 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRI Sbjct: 370 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRI 429 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K++RT+R + + REPTPEEIA+K+ P+E VRKVLKI KEPISLETPIG Sbjct: 430 PVHMIETINKLIRTSRYLVQEFGREPTPEEIAEKMDFPLEKVRKVLKIAKEPISLETPIG 489 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 +E+ SHLGDFIEDK ++P D+ I NL E T +VLA+LTPREE+VLRMRFGIG +DHT Sbjct: 490 EEEDSHLGDFIEDKKVINPADAVISLNLCEQTRKVLATLTPREEKVLRMRFGIGQKSDHT 549 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LEEVG+ F VTRERIRQIEAKA+RKL+HPSR+KKL++F++ Sbjct: 550 LEEVGRDFDVTRERIRQIEAKALRKLRHPSRAKKLKAFIE 589 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 53/172 (30%), Positives = 90/172 (52%), Gaps = 6/172 (3%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I R +G++T EE+N L +EV+S++M+D + +L MGI +VD + + + S Sbjct: 14 LISKGRSKGFLTYEEINDALD-EEVTSDRMDDMLMVLDEMGIQLVDDEGSLKVKAQDSSF 72 Query: 94 DLASSASNSSVFLQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + + + + D DPV+MYLREMG + LL+REGE+ IAKRIE G Sbjct: 73 EDEAEDEVVEAAEDEAEIPGDEGRVSDPVKMYLREMGQVSLLTREGEVEIAKRIEKGERQ 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREII----DLEACIGPESKGGFF 200 + +L E L ++ L + +R+++ D E+ + E++ F Sbjct: 133 CIDALLECSLCVAEILELGRRLENDELRIRDVVCDIDDEESFVQQETRKAEF 184 >gi|238760057|ref|ZP_04621208.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236] gi|238701744|gb|EEP94310.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236] Length = 611 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 206/396 (52%), Positives = 267/396 (67%), Gaps = 9/396 (2%) Query: 291 YRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 + ELR +N A+ +S ++L L ++ L + D LV + + Sbjct: 219 FSELRDQYENTRMAIKKNGRSHASAAAEILN--LSEVFKQFRLVPKQFDYLVNNMRAMMD 276 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDS 405 R+ E +++L + + + F+ E W +A G+ W + D Sbjct: 277 RVRTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAAIAMGKPWSEKLKDVSDD 334 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTN Sbjct: 335 VQRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN 394 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 395 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 454 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 455 IETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDED 514 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEV Sbjct: 515 SHLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEV 574 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 575 GKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 610 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 7/159 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G + S+ E P L+ D + G L ++I+ Sbjct: 127 EGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIN 165 >gi|238896571|ref|YP_002921314.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae NTUH-K2044] gi|238548896|dbj|BAH65247.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Length = 632 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/397 (51%), Positives = 270/397 (68%), Gaps = 7/397 (1%) Query: 289 EVYRELRS---LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + ELR+ L + + + ++ + ++LK L ++ L + D LV + + Sbjct: 238 EKFAELRTQYELTRDTIKAKGRSHAAAQEEILK--LSEVFKQFRLVPKQFDYLVNSMRSM 295 Query: 346 SKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD 404 R+ E +++L + + + F+ G E W + A W + + Sbjct: 296 MDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNETSETWFNAAVAM-NKPWSEKLLEVKE 354 Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 + + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 355 DVQRGLQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 414 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 415 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 474 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ Sbjct: 475 MIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDE 534 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEE Sbjct: 535 DSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEE 594 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 595 VGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 631 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 89/138 (64%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 29 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 88 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 89 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 146 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 147 NQVQCSVAEYPEAITYLL 164 >gi|147756|gb|AAA24601.1| RNA polymerase sigma-subunit [Escherichia coli] Length = 613 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTD+TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|328954514|ref|YP_004371848.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] gi|328454838|gb|AEB10667.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] Length = 577 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/415 (49%), Positives = 288/415 (69%), Gaps = 8/415 (1%) Query: 271 AMEDQLRP----KVMCALDEIAEVYRELRS-LQDNAVNGQKDEKSSVKCKVLKEKLVKLV 325 +E ++P +V+ + + ++ + L+S L ++ +K + + + ++++V+ Sbjct: 162 GLEQGIQPDRLQQVIQGIYRLNDLIKRLQSCLASKTLSEEKRVQLQTRLERYRQRMVEQF 221 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS 385 SL L Q +++ ++ Q+ D S + ++ E+ R Q G+ F RH R+L +S Sbjct: 222 KSLKLPQHQLNRIIRQINDYSYAVRASQKEIDRCLQKIGLDAPEF--RHLCRKLQEKLLS 279 Query: 386 YAKDFPEGEWKNF-VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 +GE +A +S + ++ I ETG+S + I V++G+ +AS A Sbjct: 280 GISPELDGELSIVEIAQLAESWRGAQRRLQKIESETGLSAEKLLEIQKRVQRGDRQASRA 339 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA EKF++ GYKFSTYA WW+ Sbjct: 340 KSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYERGYKFSTYATWWI 399 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR+IADQ+ TIRIPVHM + I+K++RT+R + +I REPTPEE+A+K+ P+E VR Sbjct: 400 RQAITRAIADQARTIRIPVHMIETINKLLRTSRYLVQEIGREPTPEELAEKMEYPLEKVR 459 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 KVLKI KEPISLETPIG+E+ S+L DFIEDK SP ++ NL E T +VL++LTPRE Sbjct: 460 KVLKIAKEPISLETPIGEEEDSYLADFIEDKKISSPTEAVENLNLAEITRKVLSTLTPRE 519 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+V+R+RFGIG TDHTLEEVGK+F VTRERIRQIEAKA+RKL+H SR K+L+SF Sbjct: 520 EKVIRLRFGIGEKTDHTLEEVGKKFMVTRERIRQIEAKALRKLRHASRLKRLQSF 574 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 28/51 (54%), Positives = 40/51 (78%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 DDPV+MYLREMG++ LL+REGEI IAKRIE G ++++L E+ +A++ Sbjct: 88 DDPVKMYLREMGTVSLLTREGEIEIAKRIEEGCKEIVSALLETKFGIRAIL 138 >gi|16130963|ref|NP_417539.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. MG1655] gi|89109837|ref|AP_003617.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. W3110] gi|170082610|ref|YP_001731930.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. DH10B] gi|238902178|ref|YP_002927974.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli BW2952] gi|1710680|sp|P00579|RPOD_ECOLI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|882590|gb|AAA89147.1| CG Site No. 231; alternate gene name alt [Escherichia coli str. K-12 substr. MG1655] gi|1789448|gb|AAC76103.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. MG1655] gi|73671318|gb|AAZ80070.1| RpoD [Escherichia coli LW1655F+] gi|85675868|dbj|BAE77118.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K12 substr. W3110] gi|169890445|gb|ACB04152.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli str. K-12 substr. DH10B] gi|238863501|gb|ACR65499.1| RNA polymerase, sigma 70 (sigma D) factor [Escherichia coli BW2952] gi|260447898|gb|ACX38320.1| RNA polymerase, sigma 70 subunit, RpoD [Escherichia coli DH1] gi|315137660|dbj|BAJ44819.1| RNA polymerase sigma factor RpoD [Escherichia coli DH1] Length = 613 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 259/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTD+TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|332307721|ref|YP_004435572.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175050|gb|AEE24304.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola agarilytica 4H-3-7+YE-5] Length = 613 Score = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/377 (53%), Positives = 267/377 (70%), Gaps = 8/377 (2%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR--LAQSYGIK 366 +S K + ++L ++ L + D +V+ + + RI E +++ +A + K Sbjct: 240 RSHAKSRKEIDELSEIFKEFRLVPKQFDRMVKNMRSMMDRIRVQERIVMKHCVAAAKMPK 299 Query: 367 RDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 +D F++ G E W+ A D P E E++ + ++ ++ ETG+ I Sbjct: 300 KD-FIKAFSGNETSTDWLYELMASDAPYVEELKVHQEELERSI---GKMNAVEEETGLII 355 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 356 ADIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 415 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 416 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 475 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+++++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED V PLDSA Sbjct: 476 REPTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIVQPLDSA 535 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +L+ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 536 TGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS++LRSFLD Sbjct: 596 RKLRHPSRSEQLRSFLD 612 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 57/141 (40%), Positives = 83/141 (58%), Gaps = 9/141 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI----NVVDGDDLEDEE 87 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI N D D+L +E Sbjct: 10 KLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIKVFENAPDSDELLMQE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D ++A + +S T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TTTDEEVAEAAAQALATV-----ESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 125 EGINQVQCSVAEYPEAITYLL 145 >gi|152984199|ref|YP_001346113.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PA7] gi|150959357|gb|ABR81382.1| sigma factor RpoD [Pseudomonas aeruginosa PA7] Length = 617 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 259/363 (71%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV ++ + + E +++L + + R FL E Sbjct: 256 LAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRLFPNHET 315 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D WV S K P+ + + D IL+ + ++ ++ E ++++E + I + GE Sbjct: 316 DEKWVDSVLKSKPK--YAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGE 373 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 374 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 433 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 434 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMDM 493 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++ A +L+E+T VLA Sbjct: 494 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTREVLA 553 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 554 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRS 613 Query: 679 FLD 681 FLD Sbjct: 614 FLD 616 >gi|296104731|ref|YP_003614877.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295059190|gb|ADF63928.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 615 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V +V L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVKEDVHRGLQ---KLQQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 490 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 549 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609 Query: 677 RSFLD 681 RSFLD Sbjct: 610 RSFLD 614 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/141 (41%), Positives = 88/141 (62%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S ++ + A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TSNNTDEDAEEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 127 DGINQVQCSVAEYPEAITYLL 147 >gi|262281266|ref|ZP_06059048.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus RUH2202] gi|262257497|gb|EEY76233.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus RUH2202] Length = 627 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/365 (54%), Positives = 252/365 (69%), Gaps = 1/365 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E L + D++ E + ++I NE E++R A G + R F + Sbjct: 262 EALATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREVMRYAVRRGRMDRTQFRTSFPKQ 321 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E +P W+ E K + IL + +I I E +S++E + I + G Sbjct: 322 ESNPAWLDEQIAKAPAEIKAHLEKVRPDILAFQQKIADIEKELNLSVAEIKDISKRMAIG 381 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 382 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 441 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L Sbjct: 442 TYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLE 501 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL Sbjct: 502 MDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDAATSEGLKEATREVL 561 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 562 ENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLR 621 Query: 678 SFLDG 682 SFL+ Sbjct: 622 SFLEN 626 >gi|260767412|ref|ZP_05876349.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972] gi|260617524|gb|EEX42706.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972] gi|315181195|gb|ADT88109.1| RNA polymerase sigma factor RpoD [Vibrio furnissii NCTC 11218] Length = 628 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 207/403 (51%), Positives = 273/403 (67%), Gaps = 9/403 (2%) Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 AL + E+ + ++LQ A+N +E S K + + ++ + L + D LV+ Sbjct: 231 LALQKFTELRNKFQNLQ-LAINEHGNESS--KAQQATDLVLDVFREFRLTPKQFDHLVDT 287 Query: 342 LYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNF 398 L R+ E +++ + + + + F+ G E W+ A D P + + Sbjct: 288 LRTSMDRVRTQERLIMKSVVEVAKMPKKSFIAVFTGNESSEAWLDQVLASDKP---YVDK 344 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + D I + +++ I ET +++ + I + GE +A AKKEMVEANLRLVIS Sbjct: 345 IRQYEDDIRRSIQKLQIIEQETSLTVERIKDISRRMSIGEAKARRAKKEMVEANLRLVIS 404 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 405 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 464 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ET Sbjct: 465 IRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMET 524 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI MNT Sbjct: 525 PIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNT 584 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 585 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 627 >gi|329298675|ref|ZP_08256011.1| RNA polymerase sigma factor RpoD [Plautia stali symbiont] Length = 610 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/362 (54%), Positives = 255/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + ++ +R+ E +++L + + + F+ G E Sbjct: 249 LSEVFKQFRLVPKQFDYLVNNMREMMERVRTQERLIMKLCVELCKMPKKNFITLFTGNET 308 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W A + + E D +++ ++ I ETG++I + + I + GE Sbjct: 309 SESWFKTALAMNKPWSEKLQEVEKD-VMRSLQKLLQIEEETGLTIEQVKDINRRMSIGEA 367 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 368 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 427 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP Sbjct: 428 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMP 487 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 488 EDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAG 547 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 548 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 607 Query: 680 LD 681 LD Sbjct: 608 LD 609 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 61/155 (39%), Positives = 93/155 (60%), Gaps = 1/155 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ + +GY+T E+N LP D V S+Q+ED + M+++MGI VV+ D +D +E Sbjct: 10 KLLVTRGKVQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLMLNE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 +S D A+ ++ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NSTDTDEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + S+ E P L+ D + G + L ++I Sbjct: 130 NQVQCSVAEYPEAITYLLDQYDRVEAGESRLSDLI 164 >gi|15595773|ref|NP_249267.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAO1] gi|116054304|ref|YP_788749.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa UCBPP-PA14] gi|218889317|ref|YP_002438181.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa LESB58] gi|254243670|ref|ZP_04936992.1| sigma factor RpoD [Pseudomonas aeruginosa 2192] gi|296387081|ref|ZP_06876580.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAb1] gi|313111780|ref|ZP_07797573.1| sigma factor RpoD [Pseudomonas aeruginosa 39016] gi|133310|sp|P26480|RPOD_PSEAE RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|9946447|gb|AAG03965.1|AE004494_1 sigma factor RpoD [Pseudomonas aeruginosa PAO1] gi|216913|dbj|BAA14146.1| principal sigma factor [Pseudomonas aeruginosa] gi|30060254|gb|AAP13091.1| RpoD [Pseudomonas sp. M18] gi|115589525|gb|ABJ15540.1| sigma factor RpoD [Pseudomonas aeruginosa UCBPP-PA14] gi|126197048|gb|EAZ61111.1| sigma factor RpoD [Pseudomonas aeruginosa 2192] gi|218769540|emb|CAW25300.1| sigma factor RpoD [Pseudomonas aeruginosa LESB58] gi|310884075|gb|EFQ42669.1| sigma factor RpoD [Pseudomonas aeruginosa 39016] Length = 617 Score = 380 bits (977), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 259/363 (71%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV ++ + + E +++L + + R FL E Sbjct: 256 LAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRLFPNHET 315 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D WV S K P+ + + D IL+ + ++ ++ E ++++E + I + GE Sbjct: 316 DEKWVDSVLKSKPK--YAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGE 373 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 374 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 433 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 434 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMDM 493 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++ A +L+E+T VLA Sbjct: 494 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTREVLA 553 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 554 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRS 613 Query: 679 FLD 681 FLD Sbjct: 614 FLD 616 >gi|109897363|ref|YP_660618.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoalteromonas atlantica T6c] gi|109699644|gb|ABG39564.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoalteromonas atlantica T6c] Length = 613 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 204/377 (54%), Positives = 266/377 (70%), Gaps = 8/377 (2%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR--LAQSYGIK 366 +S K + ++L ++ L + D +V+ + + RI E +++ +A + K Sbjct: 240 RSHAKSRKEIDELSEIFKEFRLVPKQFDRMVKNMRSMMDRIRVQERIVMKHCVAAAKMPK 299 Query: 367 RDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 +D F++ G E W+ A D P E E++ + N ++ ETG+ I Sbjct: 300 KD-FIKAFSGNETSTDWLFEILASDAPYVEELKVHQEELERSIGKMNAVED---ETGLII 355 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 356 ADIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 415 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 416 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMG 475 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEE+++++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED V PLDSA Sbjct: 476 REPTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIVQPLDSA 535 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +L+ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 536 TGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 595 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS++LRSFLD Sbjct: 596 RKLRHPSRSEQLRSFLD 612 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 57/141 (40%), Positives = 83/141 (58%), Gaps = 9/141 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI----NVVDGDDLEDEE 87 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI N D D+L +E Sbjct: 10 KLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIKVFENAPDSDELLMQE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D ++A + +S T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TTTDEEVAEAAAQALATV-----ESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 125 EGINQVQCSVAEYPEAITYLL 145 >gi|299768976|ref|YP_003731002.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter sp. DR1] gi|298699064|gb|ADI89629.1| RNA polymerase sigma factor rpoD (Sigma-70) [Acinetobacter sp. DR1] Length = 627 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 198/365 (54%), Positives = 252/365 (69%), Gaps = 1/365 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E L + D++ E + ++I NE E++R A G + R F + Sbjct: 262 EALATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREIMRYAVRRGRMDRTQFRTSFPKQ 321 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E +P W+ E K + +L + +I I E +S++E + I + G Sbjct: 322 ESNPAWLDEQIAKAPAEIKAHLEKVRPDVLAFQQKIADIEKELSLSVAEIKDISKRMAIG 381 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 382 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 441 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L Sbjct: 442 TYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLE 501 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL Sbjct: 502 MDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDAATSEGLKEATREVL 561 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 562 ENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLR 621 Query: 678 SFLDG 682 SFL+ Sbjct: 622 SFLEN 626 >gi|317050370|ref|YP_004111486.1| RNA polymerase sigma factor RpoD [Desulfurispirillum indicum S5] gi|316945454|gb|ADU64930.1| RNA polymerase sigma factor RpoD [Desulfurispirillum indicum S5] Length = 627 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 210/423 (49%), Positives = 286/423 (67%), Gaps = 22/423 (5%) Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKL 324 SAH + ++R V ++ I ++ ++L SL++ G+KD K + E + + Sbjct: 220 SAHVRAENATEMRDFV---INSICDIGQQLLSLREYKAKGKKD-----KYRKTLESMTAV 271 Query: 325 VGSLSLNQ---SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDP 381 + + L SRI ++++ Y S+R EL ++ + G+ RD L+ G E Sbjct: 272 ISEIRLTNETISRISNMIKEQYLESRR---AGSELAKIIKVTGLSRD-DLQYLCGEESSA 327 Query: 382 HWVSYAK---DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 V A+ +++ + +SI +R I TG+ +E IV VR+GE Sbjct: 328 EHVESARAKTSLRAEDFERLLGKASESIASLRE----IEESTGVDANELMSIVQQVREGE 383 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E+ AK +++EANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 384 EESKAAKMQLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 443 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K+VRT+R + ++ REPTPEEIA K+ + Sbjct: 444 YATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRNLVQELGREPTPEEIADKMDL 503 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE VRKVLKI KEPISLETPIG+E+ S LGDFIEDKN VSP ++ I NL+E VL Sbjct: 504 PVEKVRKVLKIAKEPISLETPIGEEEDSSLGDFIEDKNTVSPAEAVISFNLKEQVRSVLH 563 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L+ RE VL++RFGI ++DHTLEEVGK+F VTRERIRQIEAKA+RKL+HP+RSK LR+ Sbjct: 564 TLSAREAEVLKLRFGIDTDSDHTLEEVGKKFNVTRERIRQIEAKALRKLRHPTRSKILRT 623 Query: 679 FLD 681 FL+ Sbjct: 624 FLE 626 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 57/185 (30%), Positives = 98/185 (52%), Gaps = 25/185 (13%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 + ++++ +++RG++T +ELN FLP + + ++ + L +GI +V + L +G E Sbjct: 11 FTQLMEKSKERGFITYDELNDFLPKETTDPDLIDSIIENLGRIGIRLVATNKLSKGKG-E 69 Query: 91 DSLDLASSASNSSVFLQKRK-----------------------DSADRSTDDPVRMYLRE 127 S + A + L D++ R TDDPVR+YL+E Sbjct: 70 SSDEFAVFLKDQPAVLDGDDIENDDEEESDEEESEESTLDLTPDTSFR-TDDPVRLYLKE 128 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 MGS+ LL+REGE+ IAK+IEAG +++SL P ++L ++L G L++II L Sbjct: 129 MGSVPLLTREGEVDIAKKIEAGYEKIISSLIAIPKAVESLQELAEKLEAGEIGLKDIIML 188 Query: 188 EACIG 192 + +G Sbjct: 189 DDEVG 193 >gi|253997427|ref|YP_003049491.1| RNA polymerase sigma-70 subunit RpoD [Methylotenera mobilis JLW8] gi|253984106|gb|ACT48964.1| RNA polymerase, sigma 70 subunit, RpoD [Methylotenera mobilis JLW8] Length = 646 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/383 (51%), Positives = 270/383 (70%), Gaps = 10/383 (2%) Query: 302 VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-A 360 V G +D V +L E LV+L + + +++ L +Q+ + + + +E ++L Sbjct: 267 VKGSQD---PVYLALLSEILVELT-AFRFSPKQVETLCDQVRGLVETVRGHERKVLDFCV 322 Query: 361 QSYGIKRDVFLERHQGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISV 418 + G+ R F++ G E + W+ D P + +A SIL + I + Sbjct: 323 EKAGMPRPYFIKSFPGNESNLAWLDDELKLDNP---YNEKLARFNHSILDQQQRIIDLET 379 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + GIS E + I + GE A AK+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 380 KVGISAKELKEINKQMTTGEARARRAKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGN 439 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 440 IGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ 499 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + + EP P +A+K+ MP + +RK+LKI+KEPIS+ETPIGD++ SHLGDFIED + Sbjct: 500 ILQETGIEPDPALLAEKMEMPEDKIRKILKISKEPISMETPIGDDEDSHLGDFIEDSTTL 559 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P+D+A+ A+LR+ T+ VL SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQ Sbjct: 560 APVDAAVYASLRDATSEVLESLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQ 619 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA+RKL+HP+RS++LRSFL+ Sbjct: 620 IEAKALRKLRHPTRSERLRSFLE 642 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 58/159 (36%), Positives = 89/159 (55%), Gaps = 23/159 (14%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RGY+T E+N LP D SEQ++ + M+++MGI V E + D Sbjct: 37 KSLIVLGKERGYLTYAEINDHLPDDVQGSEQIDGIIGMINDMGIQVY--------EETPD 88 Query: 92 SLDLASSASNSSVFLQKRKDSADRS----------TDDPVRMYLREMGSIELLSREGEIA 141 + L S + +V + A+++ T DPVRMY+REMG+++LL+RE EI Sbjct: 89 AEALLMSDAPPAVTDDDAVEEAEQALATVDSEFGRTTDPVRMYMREMGTVDLLTRESEIE 148 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALI-----IWRDELN 175 IA+RIE G M+ ++ P T AL+ + RDEL+ Sbjct: 149 IARRIEDGLKHMVQAIAACPTTIAALLEMVDKVERDELS 187 >gi|104779687|ref|YP_606185.1| RNA polymerase sigma factor RpoD [Pseudomonas entomophila L48] gi|95108674|emb|CAK13368.1| sigma D (sigma 70) factor of RNA polymerase [Pseudomonas entomophila L48] Length = 616 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/365 (54%), Positives = 258/365 (70%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + D LVE++ R+ E +++L + + R FL Sbjct: 253 QALADLFMPIKLVPKQFDALVERVRSALDRLRQQERAIMQLCVRDARMPRADFLRLFPSN 312 Query: 378 ELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D W AK +W + + +I+ + ++ + ETG++++E + I + Sbjct: 313 ETDQTWSGDLAKR--NTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRMSI 370 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 371 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 431 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 490 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T V Sbjct: 491 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610 Query: 677 RSFLD 681 RSFLD Sbjct: 611 RSFLD 615 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 55/137 (40%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T +I Sbjct: 131 EVMGAIAHFPGTVDYII 147 >gi|295097580|emb|CBK86670.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 614 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 257/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 252 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERIIMKLCVEQCKMPKKNFITLFTGNE 311 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V +V L+ ++ I ETG++I + + I + Sbjct: 312 TSETWFNAAIAMNKPWSEKLHDVKEDVQRGLQ---KLHQIEEETGLTIEQVKDINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 489 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/141 (41%), Positives = 88/141 (62%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S ++ + A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 TSNNTDEDAEEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 127 DGINQVQCSVAEYPEAITYLL 147 >gi|95928999|ref|ZP_01311744.1| RNA polymerase, sigma 38 subunit, RpoS [Desulfuromonas acetoxidans DSM 684] gi|95134900|gb|EAT16554.1| RNA polymerase, sigma 38 subunit, RpoS [Desulfuromonas acetoxidans DSM 684] Length = 583 Score = 380 bits (976), Expect = e-103, Method: Compositional matrix adjust. Identities = 178/269 (66%), Positives = 223/269 (82%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 K + ETG S E + V +GE A AK E+VEANLRLV+S+AKKYTNRGLQFLD Sbjct: 313 FKRVEEETGFSPEELVDSLKEVHRGEWRAKAAKTELVEANLRLVVSIAKKYTNRGLQFLD 372 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ Sbjct: 373 LIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKL 432 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +RT+R++ ++ REP PEEIA+++ +P+E VR+VLKI KEPISLETPIG+E+ S LGDFI Sbjct: 433 IRTSRQLVQELGREPIPEEIAERMDLPLEKVRRVLKIAKEPISLETPIGEEEDSSLGDFI 492 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDK AVSPL++ I+ NL + T VL++L+PREE+VLRMRFGIG +DHTLEEVG+ F VT Sbjct: 493 EDKGAVSPLEAVIKGNLSDQTAEVLSTLSPREEKVLRMRFGIGERSDHTLEEVGQDFNVT 552 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+RKL+HPSR+K+LRSF+D Sbjct: 553 RERIRQIEAKALRKLRHPSRAKRLRSFVD 581 Score = 107 bits (268), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 54/150 (36%), Positives = 91/150 (60%), Gaps = 4/150 (2%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 ++ ++++I+ +++GY+T +E+N LP D VSS Q+ED + M + I +VD + E++ Sbjct: 7 EEEFQQLIETGKEKGYLTYDEVNDALPEDMVSSTQLEDVMTMFGELDIEIVDNETKEEKS 66 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + D S + F + T DPVRMYLREMG + LL+REGE+ IAKRIE Sbjct: 67 KGDSNDDEDDSKEEGNNF----EAGVIGRTSDPVRMYLREMGQVSLLTREGEVEIAKRIE 122 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDG 177 G ++ + ++P+ Q +I D+L++G Sbjct: 123 EGEGLITQVVLKTPIALQEVITLGDQLSEG 152 >gi|222034799|emb|CAP77541.1| RNA polymerase sigma factor rpoD [Escherichia coli LF82] Length = 613 Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. Identities = 203/365 (55%), Positives = 258/365 (70%), Gaps = 6/365 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIA Q+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIAVQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 RSFLD 681 RSFLD Sbjct: 608 RSFLD 612 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|107099562|ref|ZP_01363480.1| hypothetical protein PaerPA_01000575 [Pseudomonas aeruginosa PACS2] Length = 604 Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. Identities = 199/363 (54%), Positives = 259/363 (71%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV ++ + + E +++L + + R FL E Sbjct: 243 LAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRLFPNHET 302 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D WV S K P+ + + D IL+ + ++ ++ E ++++E + I + GE Sbjct: 303 DEKWVDSVLKSKPK--YAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGE 360 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 361 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 420 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 421 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMDM 480 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++ A +L+E+T VLA Sbjct: 481 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTREVLA 540 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 541 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRS 600 Query: 679 FLD 681 FLD Sbjct: 601 FLD 603 >gi|293610908|ref|ZP_06693207.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292826560|gb|EFF84926.1| conserved hypothetical protein [Acinetobacter sp. SH024] Length = 628 Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. Identities = 196/349 (56%), Positives = 249/349 (71%), Gaps = 1/349 (0%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEG 393 D++ E + ++I NE E++R A G + R F +E +P W+ Sbjct: 279 FDIISEMIRGTHEQIRANEREIMRYAVRRGRMDRTQFRTSFPKQESNPAWLDEQIAKAPA 338 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K + +L + +I I E +S++E + I + GE +A AKKEMVEANL Sbjct: 339 EIKAHLEKVRPDVLAFQQKIADIEKELSLSVAEIKDISKRMAIGEAKARRAKKEMVEANL 398 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 399 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 458 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEP Sbjct: 459 DQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEP 518 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL +LT RE +VL+MRFG Sbjct: 519 ISMETPIGDDEDSHLGDFIEDQNITSPIDAATSEGLKEATREVLENLTEREAKVLKMRFG 578 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 I M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 579 IDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 627 >gi|260773557|ref|ZP_05882473.1| RNA polymerase sigma factor RpoD [Vibrio metschnikovii CIP 69.14] gi|260612696|gb|EEX37899.1| RNA polymerase sigma factor RpoD [Vibrio metschnikovii CIP 69.14] Length = 623 Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/403 (50%), Positives = 273/403 (67%), Gaps = 9/403 (2%) Query: 282 CALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQ 341 AL++ E+ + ++LQ A+N ++ S+ + E ++ + L + D LV Sbjct: 226 LALEKFTELRNKYQNLQ-LAINEHGNDSSTTQQA--SELVLDIFREFRLTPKQFDHLVTT 282 Query: 342 LYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNF 398 L + +R+ E +++ + + + + F+ G E W+ A D P + Sbjct: 283 LRNSMERVRTQERLIMKTVVEVAKMPKKSFIALFTGNESSEAWLDQVLATDKP---YVEK 339 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + + I + +++ I ET + ++ + I + GE +A AKKEMVEANLRLVIS Sbjct: 340 IRANEEMIRRSIQKLRIIEQETSLDVNRIKDISRRMSIGEAKARRAKKEMVEANLRLVIS 399 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 400 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 459 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ET Sbjct: 460 IRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMET 519 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +LR T LA LTPRE +VLRMRFGI MNT Sbjct: 520 PIGDDEDSHLGDFIEDTTLELPLDSATATSLRAATRDALAGLTPREAKVLRMRFGIDMNT 579 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 622 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DNTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAVAEYPGTIPYIL 147 >gi|238796946|ref|ZP_04640450.1| RNA polymerase sigma factor rpoD [Yersinia mollaretii ATCC 43969] gi|238719206|gb|EEQ11018.1| RNA polymerase sigma factor rpoD [Yersinia mollaretii ATCC 43969] Length = 634 Score = 379 bits (974), Expect = e-103, Method: Compositional matrix adjust. Identities = 204/395 (51%), Positives = 266/395 (67%), Gaps = 7/395 (1%) Query: 291 YRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 + ELR +N A+ ++ ++L L ++ L + D LV + + Sbjct: 242 FSELREQYENTRMAIKKNGRSHATAAAEILN--LSEVFKQFRLVPKQFDYLVNNMRAMMD 299 Query: 348 RIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 R+ E +++L + + + F+ E W + A + W + D + Sbjct: 300 RVRTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTWFAAAVAMGKP-WSEKLKDVSDDV 358 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 359 QRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 418 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 419 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 478 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ S Sbjct: 479 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 538 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVG Sbjct: 539 HLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG 598 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 599 KQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 633 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 7/159 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 32 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 91 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 92 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 148 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G + S+ E P L+ D + G L ++I+ Sbjct: 149 EGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIN 187 >gi|260548994|ref|ZP_05823216.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624] gi|260408162|gb|EEX01633.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624] Length = 628 Score = 379 bits (974), Expect = e-103, Method: Compositional matrix adjust. Identities = 200/379 (52%), Positives = 257/379 (67%), Gaps = 1/379 (0%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K ++S + E L + D++ E + ++I NE E++R A G Sbjct: 249 EKHGRNSPEANEALESLATVFMMFKFTPRLFDIISEMIRGTHEQIRANEREIMRYAVRRG 308 Query: 365 -IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 + R F E +P W+ E K + +L + +I I E +S Sbjct: 309 RMDRTQFRTSFPKHESNPAWLDEQIAKAPAEIKVHLEKVRPDVLAFQQKIADIEKELNLS 368 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ++E + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 369 VAEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 428 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ Sbjct: 429 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEM 488 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+ Sbjct: 489 GREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDA 548 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A L+E T VL +LT RE +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 549 ATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKA 608 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS+ LRSFL+ Sbjct: 609 LRKLRHPSRSEHLRSFLEN 627 >gi|322831339|ref|YP_004211366.1| RNA polymerase, sigma 70 subunit, RpoD [Rahnella sp. Y9602] gi|321166540|gb|ADW72239.1| RNA polymerase, sigma 70 subunit, RpoD [Rahnella sp. Y9602] Length = 612 Score = 379 bits (974), Expect = e-103, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 253/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL + L + D LV + + R+ E ++++ + + + F+ G E Sbjct: 250 KLSDVFKQFRLVPKQFDFLVNSMRSMMDRVRAQERLIMKVCVEQCKMPKKNFVNLFAGNE 309 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W A + W + + + + +++ I ETG++I + + I + GE Sbjct: 310 TSDTWFDAALAMGKP-WSEKLKEVTEDVQRGLMKLRQIEEETGLTIEQVKDINRRMSIGE 368 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 369 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 428 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 429 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 488 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 548 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 549 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 608 Query: 679 FLD 681 FLD Sbjct: 609 FLD 611 Score = 99.0 bits (245), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 63/158 (39%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NRPDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEVRLSDLI 164 >gi|262401783|ref|ZP_06078349.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586] gi|262352200|gb|EEZ01330.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586] Length = 627 Score = 379 bits (973), Expect = e-103, Method: Compositional matrix adjust. Identities = 211/405 (52%), Positives = 268/405 (66%), Gaps = 23/405 (5%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 233 EKFNELRGKFQNLQLAVNEFGRDSNQASEASGLVLDIFRE--------FRLTPKQFDHLV 284 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P + Sbjct: 285 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP---YV 341 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 V + + I + +++ I ET +S+ + I + GE +A AKKEMVEANLRLV Sbjct: 342 QKVREQEEDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLV 401 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 402 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 461 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ Sbjct: 462 RTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISM 521 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI M Sbjct: 522 ETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDM 581 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 582 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 626 >gi|145597737|ref|YP_001161813.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F] gi|145209433|gb|ABP38840.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F] Length = 608 Score = 379 bits (973), Expect = e-103, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 246 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 305 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 306 TSDTWFNAAVAMGKP-WSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 364 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 365 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 424 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 425 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 484 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 485 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLKLPLDSATSESLRSATHDVLA 544 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 545 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 604 Query: 679 FLD 681 FLD Sbjct: 605 FLD 607 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|110834924|ref|YP_693783.1| RNA polymerase sigma factor RpoD [Alcanivorax borkumensis SK2] gi|110648035|emb|CAL17511.1| RNA polymerase sigma factor RpoD [Alcanivorax borkumensis SK2] Length = 633 Score = 379 bits (973), Expect = e-102, Method: Compositional matrix adjust. Identities = 191/320 (59%), Positives = 239/320 (74%), Gaps = 1/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F++ G E + W+ +G+ + ++ + + + + +I +I G+ Sbjct: 312 GMDRKDFIKAFPGNETNMEWIDSQLKTKKGKAIADKLSVVKEDVQRAQRKISTIEDIIGL 371 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 +++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 372 PVADIKEINRRISIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 431 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R R+M + Sbjct: 432 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVQRQMLQE 491 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 + REPTPEE+ +L MP + VRKVLKI KEPIS+ETPIGD++ S LGDFIED N SP+D Sbjct: 492 MGREPTPEELGVRLEMPEDKVRKVLKIAKEPISMETPIGDDEDSSLGDFIEDGNMESPVD 551 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SA L E T VLA+LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAK Sbjct: 552 SATSLGLEEATRDVLANLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 611 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS+ LRSFLDG Sbjct: 612 ALRKLRHPSRSEHLRSFLDG 631 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 55/131 (41%), Positives = 80/131 (61%), Gaps = 7/131 (5%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGSE 90 I L +++GY+T E+N LP ++Q+ED + M+++MGI VV D D L +E S Sbjct: 16 IALGKEQGYLTYAEVNDHLPDSITDTDQVEDIIQMINDMGITVVEKAADADQLTIDE-SA 74 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D ++ ++V + T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 75 DSTDEVAAEEAAAVLASVENEPG--RTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGT 132 Query: 151 AMMMASLCESP 161 ++ +L P Sbjct: 133 REVLHALAFWP 143 >gi|51597716|ref|YP_071907.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 32953] gi|108809138|ref|YP_653054.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua] gi|108810668|ref|YP_646435.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516] gi|150260325|ref|ZP_01917053.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125] gi|153950753|ref|YP_001399546.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 31758] gi|165924959|ref|ZP_02220791.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. F1991016] gi|165937882|ref|ZP_02226443.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. IP275] gi|166008817|ref|ZP_02229715.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. E1979001] gi|166212040|ref|ZP_02238075.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. B42003004] gi|167399605|ref|ZP_02305129.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167419320|ref|ZP_02311073.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167425120|ref|ZP_02316873.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Mediaevalis str. K1973002] gi|170022885|ref|YP_001719390.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis YPIII] gi|186896860|ref|YP_001873972.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis PB1/+] gi|218927836|ref|YP_002345711.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92] gi|229837321|ref|ZP_04457484.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Pestoides A] gi|229840533|ref|ZP_04460692.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229842919|ref|ZP_04463070.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229900861|ref|ZP_04515985.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Nepal516] gi|294502714|ref|YP_003566776.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003] gi|51590998|emb|CAH22656.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 32953] gi|108774316|gb|ABG16835.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516] gi|108781051|gb|ABG15109.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua] gi|115346447|emb|CAL19320.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92] gi|149289733|gb|EDM39810.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125] gi|152962248|gb|ABS49709.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP 31758] gi|165914294|gb|EDR32910.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. IP275] gi|165923159|gb|EDR40310.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. F1991016] gi|165992156|gb|EDR44457.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. E1979001] gi|166206786|gb|EDR51266.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. B42003004] gi|166963314|gb|EDR59335.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167052109|gb|EDR63517.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167055883|gb|EDR65664.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Mediaevalis str. K1973002] gi|169749419|gb|ACA66937.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis YPIII] gi|186699886|gb|ACC90515.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis PB1/+] gi|229682200|gb|EEO78292.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Nepal516] gi|229689985|gb|EEO82043.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229696899|gb|EEO86946.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229705444|gb|EEO91454.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis Pestoides A] gi|262360743|gb|ACY57464.1| RNA polymerase sigma factor RpoD [Yersinia pestis D106004] gi|294353173|gb|ADE63514.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003] gi|320016798|gb|ADW00370.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 612 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 250 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 309 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 310 TSDTWFNAAVAMGKP-WSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 368 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 369 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 428 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 429 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 488 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 548 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 549 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 608 Query: 679 FLD 681 FLD Sbjct: 609 FLD 611 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|23428541|gb|AAL11450.1| RNA polymerase sigma-70 subunit [Serratia plymuthica] Length = 612 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 197/363 (54%), Positives = 253/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 250 KLSEVFKQFRLVPKQFDFLVNSMRIMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFAGNE 309 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W A + W + D + + +++ I ETG++I + + I + GE Sbjct: 310 TSDSWFEAALAMAKP-WSEKLKDVTDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 368 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLI++GNIGLMKA +KF++ GYKFST Sbjct: 369 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIRKGNIGLMKAVDKFEYRRGYKFST 428 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 429 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 488 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 548 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF V RERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 549 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVIRERIRQIEAKALRKLRHPSRSEVLRS 608 Query: 679 FLD 681 FLD Sbjct: 609 FLD 611 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 63/161 (39%), Positives = 96/161 (59%), Gaps = 13/161 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K +++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVQRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NSNSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G + S+ E P L+ D + G L ++I Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 164 >gi|238782836|ref|ZP_04626865.1| RNA polymerase sigma factor rpoD [Yersinia bercovieri ATCC 43970] gi|238716259|gb|EEQ08242.1| RNA polymerase sigma factor rpoD [Yersinia bercovieri ATCC 43970] Length = 612 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 253/362 (69%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 251 LSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFASNET 310 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W + A + W + D + + +++ I ETG++I + + I + GE Sbjct: 311 SDTWFAAAVAMGKP-WSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGEA 369 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 370 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 429 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP Sbjct: 430 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMP 489 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 490 EDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAG 549 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 550 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 609 Query: 680 LD 681 LD Sbjct: 610 LD 611 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 95/159 (59%), Gaps = 7/159 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G + S+ E P L+ D + G L ++I+ Sbjct: 127 EGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIN 165 >gi|15640541|ref|NP_230168.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121728933|ref|ZP_01681939.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52] gi|153819447|ref|ZP_01972114.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457] gi|153822185|ref|ZP_01974852.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|227080700|ref|YP_002809251.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2] gi|254291201|ref|ZP_04961997.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226] gi|254850756|ref|ZP_05240106.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10] gi|255744255|ref|ZP_05418208.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101] gi|9654945|gb|AAF93687.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121628781|gb|EAX61245.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52] gi|126510018|gb|EAZ72612.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457] gi|126520320|gb|EAZ77543.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|150422895|gb|EDN14846.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226] gi|220897845|dbj|BAH11107.1| RNA polymerase sigma factor [Vibrio cholerae O1 biovar El tor] gi|227008588|gb|ACP04800.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2] gi|254846461|gb|EET24875.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10] gi|255738195|gb|EET93587.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101] Length = 625 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 231 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 282 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 283 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 337 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 338 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 396 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 397 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 456 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 457 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 516 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 517 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 576 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 577 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAIAEYPGTIPYIL 147 >gi|153801472|ref|ZP_01956058.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3] gi|124122963|gb|EAY41706.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3] Length = 625 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 211/405 (52%), Positives = 268/405 (66%), Gaps = 23/405 (5%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 231 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 282 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P + Sbjct: 283 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP---YA 339 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 V + + I + +++ I ET +S+ + I + GE +A AKKEMVEANLRLV Sbjct: 340 AKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLV 399 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 400 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 459 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ Sbjct: 460 RTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISM 519 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI M Sbjct: 520 ETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDM 579 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 580 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAIAEYPGTIPYIL 147 >gi|261210089|ref|ZP_05924387.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341] gi|260840854|gb|EEX67396.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341] Length = 628 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 211/405 (52%), Positives = 268/405 (66%), Gaps = 23/405 (5%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 234 EKFNELRGKFQNLQLAVNEFGRDSNQASEASGLILDIFRE--------FRLTPKQFDHLV 285 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P + Sbjct: 286 ETLRTSMDRVRTQERLVMKAVVEIAKMPKKSFIALFTGNESNEEWLDKVLASDKP---YV 342 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 V + + I + +++ I ET +S+ + I + GE +A AKKEMVEANLRLV Sbjct: 343 QKVRDQEEDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLV 402 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 403 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 462 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ Sbjct: 463 RTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISM 522 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI M Sbjct: 523 ETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDM 582 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 583 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 627 >gi|254226294|ref|ZP_04919885.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51] gi|125621156|gb|EAZ49499.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51] Length = 625 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 231 EKFNELRGKFQNLQLAVNEFGRESHQASEASDLVLDIFRE--------FRLTPKQFDHLV 282 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 283 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 337 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 338 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 396 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 397 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 456 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 457 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 516 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 517 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 576 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 577 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAIAEYPGTIPYIL 147 >gi|121591668|ref|ZP_01678905.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80] gi|121546475|gb|EAX56696.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80] Length = 603 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 209 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 260 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 261 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 315 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 316 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 374 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 375 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 434 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 435 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 494 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 495 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 554 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 555 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 602 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 49/123 (39%), Positives = 76/123 (61%), Gaps = 3/123 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGSEDSLDLASSASNSSVF 105 E+N LP + V SEQ+ED + M+++MGI VV+ D + + ++ +A ++ Sbjct: 4 EVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSDDTTITDEDAAEAAAAA 63 Query: 106 LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQ 165 L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G + +++ E P T Sbjct: 64 LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQSAIAEYPGTIP 122 Query: 166 ALI 168 ++ Sbjct: 123 YIL 125 >gi|22127411|ref|NP_670834.1| RNA polymerase sigma factor RpoD [Yersinia pestis KIM 10] gi|21960500|gb|AAM87085.1|AE013956_10 RNA polymerase, sigma(70) factor [Yersinia pestis KIM 10] Length = 632 Score = 379 bits (972), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 254/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 270 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 329 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 330 TSDTWFNAAVAMGKP-WSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 388 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 389 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 448 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ M Sbjct: 449 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLM 508 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 509 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 568 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 569 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 628 Query: 679 FLD 681 FLD Sbjct: 629 FLD 631 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 30 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 89 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 90 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 146 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 147 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 184 >gi|153214921|ref|ZP_01949704.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587] gi|262151177|ref|ZP_06028315.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1] gi|124114994|gb|EAY33814.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587] gi|262031008|gb|EEY49634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1] Length = 595 Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 201 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 252 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 253 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 307 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 308 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 366 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 367 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 426 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 427 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 486 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 487 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 546 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 547 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 594 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/118 (38%), Positives = 73/118 (61%), Gaps = 3/118 (2%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGSEDSLDLASSASNSSVFLQKRK 110 +P + V SEQ+ED + M+++MGI VV+ D + + ++ +A ++ L + Sbjct: 1 MPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSDDTTITDEDAAEAAAAALSSVE 60 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 R+TD PVRMY+REMG++ELL+REGEI IAKRIE G + +++ E P T ++ Sbjct: 61 SEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQSAIAEYPGTIPYIL 117 >gi|254237208|ref|ZP_04930531.1| sigma factor RpoD [Pseudomonas aeruginosa C3719] gi|126169139|gb|EAZ54650.1| sigma factor RpoD [Pseudomonas aeruginosa C3719] Length = 617 Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/363 (54%), Positives = 258/363 (71%), Gaps = 4/363 (1%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L +L + L + D LV ++ + + E +++L + + R FL E Sbjct: 256 LAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRLFPNHET 315 Query: 380 DPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D WV S K P+ + + D IL+ + ++ ++ E ++++E + I + GE Sbjct: 316 DEKWVDSVLKSKPK--YAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGE 373 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 374 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 433 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+ +++ M Sbjct: 434 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPNPEELGERMDM 493 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP++ A +L+E+T VLA Sbjct: 494 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTREVLA 553 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 554 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRS 613 Query: 679 FLD 681 FLD Sbjct: 614 FLD 616 >gi|153828433|ref|ZP_01981100.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 623-39] gi|148876142|gb|EDL74277.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 623-39] Length = 572 Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 178 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 229 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 230 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 284 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 285 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 343 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 344 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 403 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 404 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 463 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 464 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 523 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 524 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 571 >gi|239996603|ref|ZP_04717127.1| RNA polymerase sigma factor [Alteromonas macleodii ATCC 27126] Length = 382 Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust. Identities = 188/312 (60%), Positives = 238/312 (76%), Gaps = 1/312 (0%) Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 F++ G E W+ A + +A + I + +++ + ETG+ I++ + Sbjct: 71 FIKAFAGNETSNAWLHEAVK-SGAPYAADLAVNQEEIERCISKMNQVEQETGLVIADIKD 129 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 130 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 189 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTP Sbjct: 190 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 249 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+++++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED + PLDSA +L Sbjct: 250 EELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTIIQPLDSATGGSL 309 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+H Sbjct: 310 KDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 369 Query: 670 PSRSKKLRSFLD 681 PSRS++LRSFLD Sbjct: 370 PSRSEQLRSFLD 381 >gi|262189558|ref|ZP_06047968.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93] gi|262034560|gb|EEY52890.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93] Length = 522 Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 128 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 179 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 180 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 234 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 235 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 293 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 294 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 353 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 354 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 413 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 414 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 473 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 474 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 521 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 22/44 (50%), Positives = 32/44 (72%) Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 +REMG++ELL+REGEI IAKRIE G + +++ E P T ++ Sbjct: 1 MREMGTVELLTREGEIDIAKRIEDGINQVQSAIAEYPGTIPYIL 44 >gi|24372864|ref|NP_716906.1| RNA polymerase sigma-70 factor [Shewanella oneidensis MR-1] gi|24346976|gb|AAN54351.1|AE015572_6 RNA polymerase sigma-70 factor [Shewanella oneidensis MR-1] Length = 616 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 199/355 (56%), Positives = 255/355 (71%), Gaps = 6/355 (1%) Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAK 388 L + D LV+ + + R+ E L++L + + + F++ G E + W K Sbjct: 264 LVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLDWFEAEK 323 Query: 389 --DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 + P E V +V + R+++ +I ETG+ I+ + I + GE +A AKK Sbjct: 324 TSNKPYAEGLRMVEEDVQ---RCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKK 380 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++Q Sbjct: 381 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 440 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKV Sbjct: 441 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKV 500 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 LKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE + Sbjct: 501 LKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAK 560 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 561 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 59/155 (38%), Positives = 89/155 (57%), Gaps = 3/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D +D SE Sbjct: 10 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D + A+ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 D--NTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +S+ E P ++ D+ L +II Sbjct: 128 NTVQSSVAEYPQAIAMILEQYDQYEADELRLSDII 162 >gi|229525180|ref|ZP_04414585.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] gi|229338761|gb|EEO03778.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis VL426] Length = 642 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 211/405 (52%), Positives = 268/405 (66%), Gaps = 23/405 (5%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 248 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 299 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P + Sbjct: 300 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP---YV 356 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 V + + I + +++ I ET +S+ + I + GE +A AKKEMVEANLRLV Sbjct: 357 AKVRAQQEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLV 416 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 417 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 476 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ Sbjct: 477 RTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISM 536 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFGI M Sbjct: 537 ETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDM 596 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 NTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 597 NTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 641 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 27 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 86 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 87 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 145 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 146 INQVQSAIAEYPGTIPYIL 164 >gi|226939395|ref|YP_002794468.1| RNA polymerase sigma factor RpoD [Laribacter hongkongensis HLHK9] gi|226714321|gb|ACO73459.1| RpoD [Laribacter hongkongensis HLHK9] Length = 649 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 190/350 (54%), Positives = 255/350 (72%), Gaps = 2/350 (0%) Query: 334 RIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +++ L ++L + I NE E+ + Q + RDVFL E + WV A + Sbjct: 296 QVEALSDRLRSVVDDIRRNEREIQDICVQKCKMPRDVFLHTFVNNETNLEWVDAAMSLGK 355 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 + + + +I + ++ + ++ + + I E + I + GE +A AK+EM+EAN Sbjct: 356 A-FASAIERYQHAIREKQSNLIALQDSSMLPIRELKEISRQMATGEAKARKAKREMIEAN 414 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 415 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 474 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+ R +R++ + EP P E+A+++ MP + +RK++KI+KE Sbjct: 475 ADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPAELARRMDMPEDKIRKIMKISKE 534 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PIS+ETPIGD+D SHLGDFIED ++P D+A+ A+L+E T VL SLTPRE +VLRMRF Sbjct: 535 PISMETPIGDDDDSHLGDFIEDLATMAPSDAAMYASLKEATKEVLDSLTPREAKVLRMRF 594 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS++LRSFLD Sbjct: 595 GIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDA 644 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 64/191 (33%), Positives = 104/191 (54%), Gaps = 19/191 (9%) Query: 8 NRDSDSEHEDSDDSLVFDFSDDSWKKMIKL---ARQRGYVTIEELNAFLPPDEVSSEQME 64 N +SD E + D +++ K++ +L ++RG++T E+N LP D + +EQ+E Sbjct: 4 NSNSDKAAESKAQAAPLDNTEERRKRLKQLIVQGKERGFLTYAEINDSLPEDVLDAEQIE 63 Query: 65 DTVAMLSNMGINVVDG---------DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR 115 + M+++MGI V D D ED+++ A SA +S DS Sbjct: 64 SIIGMITDMGIQVYDEAPDAEQLLMSDATPVVADEDAVEEAESALSSV-------DSEFG 116 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 T DPVRMY+REMG++ELL+REGEI IAKRIE G M+ ++ P + ++ +++ Sbjct: 117 RTTDPVRMYMREMGTVELLTREGEIEIAKRIEDGLRHMVQAISACPGIVKDVLDQIEKVE 176 Query: 176 DGTTLLREIID 186 + + E+ID Sbjct: 177 NDELRIDEVID 187 >gi|119899516|ref|YP_934729.1| RNA polymerase sigma factor RpoD [Azoarcus sp. BH72] gi|119671929|emb|CAL95843.1| RNA polymerase sigma factor [Azoarcus sp. BH72] Length = 662 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 190/352 (53%), Positives = 255/352 (72%), Gaps = 10/352 (2%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHW----VSYAKD 389 I+ L + + + +++ +E ++L+L G+ R F++ G+E W ++ K Sbjct: 313 IERLCDSVRHMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSIDWLKDEIASGKS 372 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + EG + A +L+++ ++ + GI + E + I + GE + AK+EM Sbjct: 373 YAEGLMRIHPA-----VLEVQQKLIDLQDRIGIPLKELKDINRQMSTGEAKMRRAKREMT 427 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 428 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 487 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP E +RK++KI Sbjct: 488 RSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEKIRKIMKI 547 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 +KEPIS+ETPIGD+D SHLGDFIED ++P ++A+ + LR+ T VL SLTPRE +VLR Sbjct: 548 SKEPISMETPIGDDDDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTPREAKVLR 607 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFLD Sbjct: 608 MRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLD 659 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 60/163 (36%), Positives = 90/163 (55%), Gaps = 13/163 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RGY+T E++ LP D +EQ+E +A +NMGI V D + +ED Sbjct: 48 KTLITLGKERGYLTYAEISDHLPDDVADAEQIEGIIATFNNMGIQVFD-----EAPAAED 102 Query: 92 SL---DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L ++A+S + + DS T DPVRMY+REMG++ELL+REGEI IA Sbjct: 103 LLMSDNVATSVDEDVAEEEAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIA 162 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIE G M+ ++ P T ++ D + + E++D Sbjct: 163 KRIEDGLKHMVQAISACPTTITEMLDTADRVARDEVRIDELVD 205 >gi|112702894|emb|CAL34114.1| RNA polymerase sigma factor rpoD [Cronobacter sakazakii] Length = 359 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 201/361 (55%), Positives = 256/361 (70%), Gaps = 6/361 (1%) Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPH 382 + L + D LV + + R+ E ++++ + + + F+ G E Sbjct: 1 MFKQFRLVPKQFDYLVNSMRTMMDRVRTQERIIMKMCVEQCKMPKKNFITLFTGNETSET 60 Query: 383 WV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 W + A + P E + VA +V L+ +++ I ETG++I + + I + GE + Sbjct: 61 WFNAAIAMNKPWSEKLHDVAEDVHRSLQ---KLQQIEEETGLTIEQVKDINRRMSIGEAK 117 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 118 ARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 177 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP Sbjct: 178 TWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPE 237 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA L Sbjct: 238 DKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGL 297 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL Sbjct: 298 TAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 357 Query: 681 D 681 D Sbjct: 358 D 358 >gi|294651232|ref|ZP_06728560.1| RNA polymerase sigma factor RpoD [Acinetobacter haemolyticus ATCC 19194] gi|292822885|gb|EFF81760.1| RNA polymerase sigma factor RpoD [Acinetobacter haemolyticus ATCC 19194] Length = 626 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 195/349 (55%), Positives = 247/349 (70%), Gaps = 1/349 (0%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEG 393 D++ E + +I NE E++R A G + R F +E +P W+ Sbjct: 277 FDIISEMIRGTHDQIRANEREIMRYAVRRGRMDRTTFRTTFPEQESNPAWLDEQIAKAPA 336 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K + +L + +I I E G+++ + + I + GE +A AKKEMVEANL Sbjct: 337 EIKTHLEKVRPDVLAFQQKIADIEKELGLNVKDIKDISKRMAVGEAKARRAKKEMVEANL 396 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 397 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 456 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEP Sbjct: 457 DQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEP 516 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFG Sbjct: 517 ISMETPIGDDEDSHLGDFIEDSNITSPVDAATSEGLKEATREVLENLTEREAKVLKMRFG 576 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 I M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 577 IDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 625 >gi|262376664|ref|ZP_06069892.1| RNA polymerase sigma factor rpoD [Acinetobacter lwoffii SH145] gi|262308374|gb|EEY89509.1| RNA polymerase sigma factor rpoD [Acinetobacter lwoffii SH145] Length = 628 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 194/348 (55%), Positives = 246/348 (70%), Gaps = 1/348 (0%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEG 393 D++ E + +I E E++R A G + R F G+E +P W+ Sbjct: 279 FDIISEMIRGTHDQIRGAEREVMRYAVRRGRMDRTQFRTSFPGQESNPAWLDEQIAKTPA 338 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 + K ++ +L + +I I E G+ + + I + GE +A AKKEMVEANL Sbjct: 339 DQKAYLEKVRPDVLAFQQKIADIEKELGLDVKGIKDIAKRMAVGEAKARRAKKEMVEANL 398 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 399 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 458 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEP Sbjct: 459 DQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEP 518 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFG Sbjct: 519 ISMETPIGDDEDSHLGDFIEDSNITSPIDAATSEGLKEATREVLENLTEREAKVLKMRFG 578 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 579 IDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 626 >gi|260912696|ref|ZP_05919182.1| DNA-directed RNA polymerase sigma subunit RpoD [Pasteurella dagmatis ATCC 43325] gi|260633074|gb|EEX51239.1| DNA-directed RNA polymerase sigma subunit RpoD [Pasteurella dagmatis ATCC 43325] Length = 623 Score = 378 bits (970), Expect = e-102, Method: Compositional matrix adjust. Identities = 200/378 (52%), Positives = 257/378 (67%), Gaps = 4/378 (1%) Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG- 364 K ++S K K + L + L + D+LV + + K + E + ++ Sbjct: 247 KHGRASKKSKDQIQALADVFTQFRLVPKQFDMLVNLMSGMMKSVRLQERNIQKIVVDKAK 306 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 + ++ F + G E W+ K G+ W +A I + I I +T ++ Sbjct: 307 MPKEQFQKVFIGHENQDTWL--VKALSAGKTWSEKLAKHEAEIRASIDNILEIERQTNLT 364 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + + R + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 365 VQQIREVCERISAGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 424 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ Sbjct: 425 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM 484 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 RE +PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDS Sbjct: 485 GREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDS 544 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A +L+ T VL LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 545 ATAQSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 604 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKL+HPSRS+ LRSFLD Sbjct: 605 LRKLRHPSRSETLRSFLD 622 >gi|226951573|ref|ZP_03822037.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ATCC 27244] gi|226837676|gb|EEH70059.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor during exponential growth [Acinetobacter sp. ATCC 27244] Length = 626 Score = 377 bits (969), Expect = e-102, Method: Compositional matrix adjust. Identities = 195/349 (55%), Positives = 247/349 (70%), Gaps = 1/349 (0%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEG 393 D++ E + +I NE E++R A G + R F +E +P W+ Sbjct: 277 FDIISEMIRGTHDQIRANEREIMRYAVRRGRMDRTTFRTTFPEQESNPAWLDEQIAKAPA 336 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K + +L + +I I E G+++ + + I + GE +A AKKEMVEANL Sbjct: 337 EIKTHLEKVRPDVLAFQQKIADIEKELGLNVKDIKDISKRMAVGEAKARRAKKEMVEANL 396 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 397 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 456 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEP Sbjct: 457 DQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEP 516 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFG Sbjct: 517 ISMETPIGDDEDSHLGDFIEDSNITSPVDAATSEGLKEATREVLENLTEREAKVLKMRFG 576 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 I M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 577 IDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 625 >gi|307824736|ref|ZP_07654959.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacter tundripaludum SV96] gi|307734094|gb|EFO04948.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacter tundripaludum SV96] Length = 602 Score = 377 bits (969), Expect = e-102, Method: Compositional matrix adjust. Identities = 182/267 (68%), Positives = 221/267 (82%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E G++IS + I + GE +A AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 335 IEAEYGLTISGLKDINRRMSIGEAKARRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQ 394 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R Sbjct: 395 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRI 454 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R++ ++ RE TPEE+A+++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 455 SRQILQELGREATPEELAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDA 514 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +SP+++A A LRE+T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRER Sbjct: 515 KVLSPVEAATIAGLRESTQNVLAGLTAREAKVLRMRFGINMNTDHTLEEVGKQFDVTRER 574 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLDG 682 IRQIEAKA+RKL+HPSRS++LR FLDG Sbjct: 575 IRQIEAKALRKLRHPSRSEQLRCFLDG 601 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 54/144 (37%), Positives = 83/144 (57%), Gaps = 18/144 (12%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGS 89 +I + +GY+T E+N LP D V EQ+ED + M+++MGI V D D L + + Sbjct: 13 LIAKGKVQGYLTYAEVNDHLPSDIVDPEQIEDIIGMINDMGIQVYEVAPDEDSLITDSAA 72 Query: 90 -----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 ED+ ++A+ AS S F + T DPVRMY+REMGS+ELL+R E+ IAK Sbjct: 73 VTTDDEDAEEVAALASVDSEFGR---------TTDPVRMYMREMGSVELLTRADELKIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G+ ++ ++ S + + + Sbjct: 124 RIEEGQQQLVKAIARSCIVVEDFL 147 >gi|300718455|ref|YP_003743258.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia billingiae Eb661] gi|299064291|emb|CAX61411.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia billingiae Eb661] Length = 612 Score = 377 bits (969), Expect = e-102, Method: Compositional matrix adjust. Identities = 199/366 (54%), Positives = 253/366 (69%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L + L + D LV + + R+ E +++ + + + F+ G Sbjct: 249 QNLSDVFKQFRLVPKQFDFLVNSMRIMMDRVRTQERLIMKFCVEICKMPKKNFITLFTGN 308 Query: 378 ELDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W + A + P W + D + + ++ I ETG++I + + I + Sbjct: 309 ETSETWFKAALAMNKP---WSEKLKDVADDVQRGLMKLGQIEQETGLTIEQVKDINRRMS 365 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 366 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 425 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A++ Sbjct: 426 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 485 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T Sbjct: 486 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHD 545 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 546 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 605 Query: 676 LRSFLD 681 LRSFLD Sbjct: 606 LRSFLD 611 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 69/174 (39%), Positives = 100/174 (57%), Gaps = 13/174 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI VV D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ + A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSSDTDEDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII------DLEACIGPES 195 G + S+ E P L+ D + G L ++I + EA I P + Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDMITGFVDPNAEAEIAPTA 180 >gi|157960786|ref|YP_001500820.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella pealeana ATCC 700345] gi|157845786|gb|ABV86285.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella pealeana ATCC 700345] Length = 616 Score = 377 bits (968), Expect = e-102, Method: Compositional matrix adjust. Identities = 207/407 (50%), Positives = 275/407 (67%), Gaps = 19/407 (4%) Query: 285 DEIAEVYRELRSLQDNAV-----NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 +E E + LR +NA+ G+ +S+V + E + L + D LV Sbjct: 218 EEAKEKFTTLRLAHENALRIIADKGRGHPESTVALFEIGE----IFKEFRLMPKQFDRLV 273 Query: 340 EQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHW----VSYAKDFPEGE 394 + + + ++ E +++L + + + F++ + E W ++ K + EG Sbjct: 274 KNMRSMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNDELASGKPYVEG- 332 Query: 395 WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLR 454 E D + + R ++ +I VETG++I + I + GE +A AKKEMVEANLR Sbjct: 333 ---LQMVEFD-VQRCRAKLDAIEVETGLAIGAIKDINRRMSIGEAKARRAKKEMVEANLR 388 Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIAD Sbjct: 389 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 448 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP + +RKVLKI KEPI Sbjct: 449 QARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMLMPEDKIRKVLKIAKEPI 508 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 S+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LT RE +VLRMRFGI Sbjct: 509 SMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREAKVLRMRFGI 568 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 569 DMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 58/131 (44%), Positives = 85/131 (64%), Gaps = 3/131 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V + D ++ SE Sbjct: 13 KLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DS D +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 73 DSTD-DDAAEEAAAALATVEAELGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIEEGI 130 Query: 151 AMMMASLCESP 161 + AS+ E P Sbjct: 131 NTVQASVAEYP 141 >gi|1710688|sp|P52327|RPOD_PSEPU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|762877|dbj|BAA06281.1| principal sigma factor [Pseudomonas putida] gi|1586519|prf||2204230A sigma factor Length = 614 Score = 377 bits (968), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/365 (54%), Positives = 258/365 (70%), Gaps = 4/365 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 + L L + L + ++LVE++ D R+ E +++L + + R FL Sbjct: 251 QALADLFMPIKLVPKQFEVLVERVRDALNRLRQQERAIMQLCVRDARMPRADFLRMFPSN 310 Query: 378 ELDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E D W AK +W + + +I+ + ++ + ETG++++E + I + Sbjct: 311 ETDQTWSGDLAKR--NTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRMSI 368 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ Sbjct: 429 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 488 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+ A +L+E T V Sbjct: 489 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIYVATVESLKEATRDV 548 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA RKL+HP+RS+ L Sbjct: 549 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAWRKLRHPTRSEHL 608 Query: 677 RSFLD 681 RSFLD Sbjct: 609 RSFLD 613 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 60/154 (38%), Positives = 88/154 (57%), Gaps = 11/154 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFES------APDAD 65 Query: 92 SLDLASSASNSSVFLQKRKDSAD-----RSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +L LA + ++ + + A R T DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 66 ALLLAEADTDEAAAEEAAAALAAVETDIRRTTDPVRMYMREMGTVELLTREGEIEIAKRI 125 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 E G +M ++ P T ++ D +N G L Sbjct: 126 EEGIREVMGAIAHFPGTVDYILGEYDRVNRGCRL 159 >gi|296532040|ref|ZP_06894819.1| DNA-directed RNA polymerase sigma subunit RpoD [Roseomonas cervicalis ATCC 49957] gi|296267655|gb|EFH13501.1| DNA-directed RNA polymerase sigma subunit RpoD [Roseomonas cervicalis ATCC 49957] Length = 640 Score = 377 bits (968), Expect = e-102, Method: Compositional matrix adjust. Identities = 192/414 (46%), Positives = 276/414 (66%), Gaps = 13/414 (3%) Query: 270 SAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLS 329 + ++++++P+V+ A E + LR+L S + ++++V L G+L Sbjct: 236 ATLDEKMKPEVLAAFGAALEAHAALRALPVR----------SEAAQARRQEMVGLFGALR 285 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH-WVSYAK 388 L +R+D+LV ++ DI +R++ +G+ LRLA + ++ +V L G + V A+ Sbjct: 286 LRPARLDMLVGEVRDIQRRLLALDGKALRLAVAARVEHEVVLRLWDGSDAAVQALVEAAQ 345 Query: 389 DFPEGEWKNFVACE--VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 ++ A D++ +IR I + +G+ +E R + + V +GE + AK+ Sbjct: 346 KVRSSAARHAQAVRDLRDTLPQIRAAIVMLEQSSGLPAAELRRVCAEVGRGERDMRKAKE 405 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+ ANLRLV+ +AK+Y NRGL F DLIQEGNIGLM+A +KFDW G+KF+TYA WWV+Q Sbjct: 406 ELTRANLRLVVHIAKRYRNRGLMFGDLIQEGNIGLMRAVDKFDWRRGFKFATYATWWVRQ 465 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRS+ADQ+ TIR+PVHM + + KV R +RR + K REPTPEE+A +L M V+ VR V Sbjct: 466 AITRSLADQARTIRVPVHMTETVGKVARMSRRFAQKAGREPTPEELAGELGMSVDKVRAV 525 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 ++ +EP+SLE PIG++D LGDFIED+NAV P D+A ++ +R+ T R+L+ LTPREER Sbjct: 526 QRLAREPVSLENPIGEDDDGRLGDFIEDENAVMPFDAASRSAMRDATMRILSDLTPREER 585 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +LRMRFGIG DHTLEEVGK F VTRERIRQIEAKA++KL+ R K LRSFL Sbjct: 586 ILRMRFGIGGENDHTLEEVGKTFNVTRERIRQIEAKALKKLQVSKRGKSLRSFL 639 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 41/72 (56%), Positives = 54/72 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +DDPVRM+LREM +LLSRE EIA+A+RIEAGR M+A LCESP+TF + W+ L Sbjct: 137 SDDPVRMFLREMSGTDLLSREEEIALAQRIEAGRDAMLAGLCESPVTFTHIAAWKAALEQ 196 Query: 177 GTTLLREIIDLE 188 G LR++++LE Sbjct: 197 GQMPLRDVVELE 208 >gi|15616680|ref|NP_239892.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219681437|ref|YP_002467822.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|257471112|ref|ZP_05635111.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|11134512|sp|P57163|RPOD_BUCAI RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|25288437|pir||B84936 RNA polymerase sigma factor rpoD [imported] - Buchnera sp. (strain APS) gi|10038743|dbj|BAB12778.1| RNA polymerase sigma factor rpoD [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219624280|gb|ACL30435.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] Length = 612 Score = 377 bits (968), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 259/362 (71%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + +R+ E +++L + + + F++ +++ Sbjct: 251 LSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERIIIKLCVEICKMPKKNFIKIFPIKKI 310 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W ++ + +N + D + ++ IK I ETG++I + + I + GE Sbjct: 311 NYLWFIREQNTNQPWSENLKKVKEDVFISVKKLIK-IEEETGLTIEQVKDINKRMSIGEA 369 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 370 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 429 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P Sbjct: 430 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIP 489 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL+ Sbjct: 490 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSG 549 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 550 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 609 Query: 680 LD 681 LD Sbjct: 610 LD 611 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + SEQ++D + M+++MGI VV D DDL E Sbjct: 10 KLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 INTDTDEDAVEAATQ--VLSSVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L +II Sbjct: 127 EGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDII 164 >gi|229507128|ref|ZP_04396634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286] gi|229509009|ref|ZP_04398497.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|229512571|ref|ZP_04402042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21] gi|229519677|ref|ZP_04409120.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9] gi|229520813|ref|ZP_04410235.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80] gi|229530331|ref|ZP_04419719.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)] gi|229606193|ref|YP_002876841.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236] gi|229332104|gb|EEN97592.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)] gi|229342046|gb|EEO07042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80] gi|229344366|gb|EEO09341.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9] gi|229350464|gb|EEO15413.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21] gi|229353934|gb|EEO18868.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33] gi|229355873|gb|EEO20793.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286] gi|229368848|gb|ACQ59271.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236] Length = 642 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 213/408 (52%), Positives = 269/408 (65%), Gaps = 29/408 (7%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 248 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 299 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D P Sbjct: 300 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP----- 354 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEANL Sbjct: 355 -YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANL 413 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 414 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 473 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KEP Sbjct: 474 DQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEP 533 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRFG Sbjct: 534 ISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFG 593 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 594 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 641 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 27 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 86 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 87 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 145 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 146 INQVQSAIAEYPGTIPYIL 164 >gi|192362484|ref|YP_001981272.1| transcription initiation factor sigma 70 [Cellvibrio japonicus Ueda107] gi|190688649|gb|ACE86327.1| transcription initiation factor sigma 70 [Cellvibrio japonicus Ueda107] Length = 633 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 189/319 (59%), Positives = 238/319 (74%), Gaps = 5/319 (1%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEG--EWKNFVACEVDSILKIRNEIKSISVETGI 422 ++R F++ G E + W+ D +G E + + + ++ + ++ I E+ + Sbjct: 317 MQRKTFIKEFPGNETNADWLP---DLLKGKIEGADKLQVVLPNVQAEQQQLAQIEAESSL 373 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S++ + I + GE A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 374 SLASIKDINRRMSIGEARARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 433 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M + Sbjct: 434 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQE 493 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 + REPTPEE+ +++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED +SP++ Sbjct: 494 MGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTIISPVE 553 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SA L E T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAK Sbjct: 554 SATMEGLMEATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 613 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKL+HPSRS LRSFLD Sbjct: 614 ALRKLRHPSRSDHLRSFLD 632 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 52/134 (38%), Positives = 83/134 (61%), Gaps = 7/134 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K++I +++GY+T E+N LP D +Q+ED + M+++MGI V D D L + Sbjct: 25 KELIARGKEQGYLTYAEVNDHLPEDISDPDQVEDIIQMINDMGIRVYETAPDADTLLMTD 84 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G + ++A++ + +++ + + T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 85 GDAAADEIAAAEAAAALVAVETETG---RTTDPVRMYMREMGTVELLTREGEIVIAKRIE 141 Query: 148 AGRAMMMASLCESP 161 G +M +L P Sbjct: 142 EGVRELMHALAYWP 155 >gi|311086952|gb|ADP67032.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] Length = 612 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 259/362 (71%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + +R+ E +++L + + + F++ +++ Sbjct: 251 LSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERIIIKLCVEICKMPKKNFIKIFPIKKI 310 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W ++ + +N + D + ++ IK I ETG++I + + I + GE Sbjct: 311 NYLWFIREQNTNQPWSENLKKVKEDVFISVKKLIK-IEEETGLTIEQVKDINKRMSIGEA 369 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 370 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 429 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P Sbjct: 430 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIP 489 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL+ Sbjct: 490 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSG 549 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 550 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 609 Query: 680 LD 681 LD Sbjct: 610 LD 611 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + SEQ++D + M+++MGI VV D DDL E Sbjct: 10 KLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 INTDTDEDAVEAATQ--VLSSVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L +II Sbjct: 127 EGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDII 164 >gi|311085799|gb|ADP65881.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086374|gb|ADP66455.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] Length = 612 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 259/362 (71%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + +R+ E +++L + + + F++ +++ Sbjct: 251 LSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERIIIKLCVEICKMPKKNFIKIFPIKKI 310 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W ++ + +N + D + ++ IK I ETG++I + + I + GE Sbjct: 311 NYLWFIREQNTNQPWSENLKKVKEDVFISVKKLIK-IEEETGLTIEQVKDINKRMSIGEA 369 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 370 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 429 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P Sbjct: 430 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIP 489 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL+ Sbjct: 490 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSG 549 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 550 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 609 Query: 680 LD 681 LD Sbjct: 610 LD 611 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 66/173 (38%), Positives = 98/173 (56%), Gaps = 9/173 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + SEQ++D + M+++MGI VV D DDL E Sbjct: 10 KLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 INTDTDEDAVEAATQ--VLSSVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 G + S+ E P L+ D + G L +II + P ++ F Sbjct: 127 EGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDIIT--GFVDPNAEEIFL 177 >gi|254429850|ref|ZP_05043557.1| Sigma-70, non-essential region family [Alcanivorax sp. DG881] gi|196196019|gb|EDX90978.1| Sigma-70, non-essential region family [Alcanivorax sp. DG881] Length = 633 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 191/320 (59%), Positives = 237/320 (74%), Gaps = 1/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F++ G E + W+ +G+ + + + + + + +I +I G+ Sbjct: 312 GMDRKDFIKVFPGNETNMDWIDGQLKTKKGKAIADKLGAVKEDVQRAQRKIGTIEDIIGL 371 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 372 PVGDIKEINRRISIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 431 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R R+M + Sbjct: 432 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVQRQMLQE 491 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 + REPTPEE+ +L MP + VRKVLKI KEPIS+ETPIGD++ S LGDFIED N SP+D Sbjct: 492 MGREPTPEELGVRLEMPEDKVRKVLKIAKEPISMETPIGDDEDSSLGDFIEDGNMESPVD 551 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SA L E T VLA+LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAK Sbjct: 552 SATSLGLEEATRDVLANLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAK 611 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS+ LRSFLDG Sbjct: 612 ALRKLRHPSRSEHLRSFLDG 631 >gi|90416498|ref|ZP_01224429.1| RNA polymerase sigma factor RpoD [marine gamma proteobacterium HTCC2207] gi|90331697|gb|EAS46925.1| RNA polymerase sigma factor RpoD [marine gamma proteobacterium HTCC2207] Length = 612 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 194/364 (53%), Positives = 258/364 (70%), Gaps = 2/364 (0%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E+L +L L L + D L+ ++ +R+ E +++RL G + R F++ G Sbjct: 249 EELAELFKYLKLTPRQFDPLIAKVRLAVERVRAEERKIMRLCIRLGKMPRKDFIKMFPGN 308 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + W + E W V+ + IL+ + ++ + ++I++ + I + G Sbjct: 309 ESNMQWTAELAKSKES-WAERVSAQEVEILRSQRKLAQVEKLADMNIAQIKDINRRMTMG 367 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 368 EAMARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 427 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ Sbjct: 428 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPSPEELAERME 487 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIG+++ + +GD IED PLD A + NL E+T VL Sbjct: 488 MPEDKIRKVLKIAKEPISMETPIGEDEDASIGDLIEDTTIALPLDEATKNNLTESTRGVL 547 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +SLT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS LR Sbjct: 548 SSLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDHLR 607 Query: 678 SFLD 681 SF+D Sbjct: 608 SFID 611 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 60/163 (36%), Positives = 91/163 (55%), Gaps = 17/163 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I R++ Y+T E+N LP D EQ+ED + M+++MGI V E + D Sbjct: 13 KDLIAKGREQRYLTYAEVNDHLPEDIADPEQVEDIIQMINDMGITVF--------ETAPD 64 Query: 92 SLDLASSASNSS---------VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 + L+S AS+++ +S T DPVRMY+REMGS+ELL+REGEI I Sbjct: 65 ADTLSSLASDNTPDEVAAAEAAAALASVESEQHRTTDPVRMYMREMGSVELLTREGEIEI 124 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 AKRIE G +M+++ + P T ++ +++ G L +II Sbjct: 125 AKRIEEGTRELMSAVADWPTTVATIVAEYEKVEAGEKKLTDII 167 >gi|219681993|ref|YP_002468377.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219621726|gb|ACL29882.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] Length = 612 Score = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 198/362 (54%), Positives = 259/362 (71%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGREL 379 L ++ L + D LV + + +R+ E +++L + + + F++ +++ Sbjct: 251 LSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERIIIKLCVEICKMPKKNFIKIFPIKKI 310 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W ++ + +N + D + ++ IK I ETG++I + + I + GE Sbjct: 311 NYLWFIREQNTNQPWSENLKKVKEDVFVSVKKLIK-IEEETGLTIEQVKDINKRMSIGEA 369 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 370 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 429 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P Sbjct: 430 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIP 489 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD+D SHLGDFIED PLDSA +LR T VL+ Sbjct: 490 EDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSESLRSATHDVLSG 549 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 550 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSF 609 Query: 680 LD 681 LD Sbjct: 610 LD 611 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 66/173 (38%), Positives = 98/173 (56%), Gaps = 9/173 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D + SEQ++D + M+++MGI VV D DDL E Sbjct: 10 KLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDADDLILNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ + A A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 INTDTDEDAVEAATQ--VLSSVESELGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 G + S+ E P L+ D + G L +II + P ++ F Sbjct: 127 EGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDIIT--GFVDPNAEEIFL 177 >gi|124515193|gb|EAY56704.1| RNA polymerase, sigma 70 subunit, RpoD [Leptospirillum rubarum] Length = 598 Score = 376 bits (966), Expect = e-102, Method: Compositional matrix adjust. Identities = 199/426 (46%), Positives = 291/426 (68%), Gaps = 45/426 (10%) Query: 277 RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK-------LVKLVGSLS 329 R + + D ++E++ +L ++ + + QK+ + K K+L+E+ +V+L+ ++ Sbjct: 196 REQFVRQTDSLSELFLKLNAISEKWKDAQKN---TSKKKILREQAKKIKTEIVELIMEMN 252 Query: 330 LNQSRIDLLVEQLYDI--------------SKRIMHNEGELLRLAQSYGIKRDVFLERHQ 375 L++ +++L++ QL+D+ +R+ N+ E+L+ +D ER+Q Sbjct: 253 LHRRQVELMIRQLHDVVSVLDESERTIDHSRRRLGANKEEILKAIALLKAGKDPG-ERYQ 311 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 DP + K++ A E + V +S SE R +S++ Sbjct: 312 ----DPEKLELLKNYQ-------FALE---------RVHEAEVAALLSSSEIRDSLSLLE 351 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE + AK E+++ANLRLV+S+AK+YTNRGLQFLDLIQEGNIGLMKA +KF++ G+K Sbjct: 352 AGEQKVREAKAELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGFK 411 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT R + ++ REP PEE+AK+ Sbjct: 412 FSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTTRHLVQELGREPLPEELAKE 471 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MPVE VR+VLKI +EPISLETPIG+E+ SHLGDFIEDK ++SP+DSA++ +L + Sbjct: 472 MQMPVEKVRRVLKIAREPISLETPIGEEEDSHLGDFIEDKKSISPIDSAVRYDLVRKIGK 531 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L+SLT REE+V+R+RFG+G +TDHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK Sbjct: 532 ALSSLTEREEKVIRLRFGVGESTDHTLEEVGQDFDVTRERIRQIEAKALRKLRHPSRSKH 591 Query: 676 LRSFLD 681 L+SF+D Sbjct: 592 LKSFVD 597 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 60/165 (36%), Positives = 100/165 (60%), Gaps = 9/165 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 K +I L ++RGY+T +ELN LPP+ + S+Q+++ ++ +M I++VD + E G Sbjct: 11 KDLISLGKERGYLTYDELNNVLPPEAIGSDQLDNLMSYFGDMNIDIVDDESREAGYGEMD 70 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRS------TDDPVRMYLREMGSIELLSREGEIAI 142 SE+ + S V ++ + D + DDPVR+YL+EMG++ LL+REGEIAI Sbjct: 71 SEEEEGFSDLESVRGVDSEEEDEGIDMTPGTLSRIDDPVRLYLKEMGAVPLLTREGEIAI 130 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 A+RIE G+ + L PLT ++++ R++ G +REI+D+ Sbjct: 131 AQRIEEGQKEVSGILFGMPLTVRSILSLREKFQTGQIGIREIVDV 175 >gi|206603677|gb|EDZ40157.1| RNA polymerase, sigma 38 subunit, RpoS [Leptospirillum sp. Group II '5-way CG'] Length = 598 Score = 376 bits (965), Expect = e-102, Method: Compositional matrix adjust. Identities = 201/425 (47%), Positives = 291/425 (68%), Gaps = 43/425 (10%) Query: 277 RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEK-------LVKLVGSLS 329 R + + D ++E++ +L ++ + + QK+ + K KVL+E+ +V+L+ ++ Sbjct: 196 REQFVRQTDSLSELFLKLNAISEKWKDAQKN---TSKKKVLREQAKKIKTEIVELIMEMN 252 Query: 330 LNQSRIDLLVEQLYDI------SKRIMHNEGELLRLAQSYGIKRDVFL-------ERHQG 376 L++ +++L++ QL+D+ S+RI+ + L + +K L ER+Q Sbjct: 253 LHRKQVELMIRQLHDVVSVLDESERIIDHSRRRLGANKEDILKAIALLKAGKDPGERYQ- 311 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 DP + K++ A E + V +S SE R +S++ Sbjct: 312 ---DPEKLELLKNYQ-------FALE---------RVHEAEVAALLSSSEIRDSLSLLEA 352 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE + AK E+++ANLRLV+S+AK+YTNRGLQFLDLIQEGNIGLMKA +KF++ G+KF Sbjct: 353 GEQKVREAKAELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGFKF 412 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT R + ++ REP PEE+AK++ Sbjct: 413 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTTRHLVQELGREPLPEELAKEM 472 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MPVE VR+VLKI +EPISLETPIG+E+ SHLGDFIEDK ++SP+DSA++ +L + Sbjct: 473 QMPVEKVRRVLKIAREPISLETPIGEEEDSHLGDFIEDKKSISPIDSAVRYDLVRKIGKA 532 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+SLT REE+V+R+RFG+G +TDHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK L Sbjct: 533 LSSLTEREEKVIRLRFGVGESTDHTLEEVGQDFDVTRERIRQIEAKALRKLRHPSRSKHL 592 Query: 677 RSFLD 681 +SF+D Sbjct: 593 KSFVD 597 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 60/165 (36%), Positives = 100/165 (60%), Gaps = 9/165 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 K +I L ++RGY+T +ELN LPP+ + S+Q+++ ++ +M I++VD + E G Sbjct: 11 KDLISLGKERGYLTYDELNNVLPPEAIGSDQLDNLMSYFGDMNIDIVDDESREAGYGEMD 70 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRS------TDDPVRMYLREMGSIELLSREGEIAI 142 SE+ + S V ++ + D + DDPVR+YL+EMG++ LL+REGEIAI Sbjct: 71 SEEEEGFSDLESVRGVDSEEEDEGIDMTPGTLSRIDDPVRLYLKEMGAVPLLTREGEIAI 130 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 A+RIE G+ + L PLT ++++ R++ G +REI+D+ Sbjct: 131 AQRIEEGQKEVSGILFGMPLTVRSILSLREKFQTGQIGIREIVDV 175 >gi|325123225|gb|ADY82748.1| sigma D (sigma 70) factor of RNA polymerase , major sigma factor during exponential growth [Acinetobacter calcoaceticus PHEA-2] Length = 636 Score = 376 bits (965), Expect = e-102, Method: Compositional matrix adjust. Identities = 197/357 (55%), Positives = 252/357 (70%), Gaps = 9/357 (2%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVF---LERHQG-----RELDPHWVS 385 D++ E + ++I NE E++R A G + R F +H+ +E +P W+ Sbjct: 279 FDIISEMIRGTHEQIRANEREIMRYAVRRGRMDRTQFRTSFPKHESTSFPKQESNPAWLD 338 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 E K + +L + +I I E +S++E + I + GE +A AK Sbjct: 339 EQIAKAPAEIKAHLEKVRPDVLAFQQKIADIEKELSLSVAEIKDISKRMAIGEAKARRAK 398 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 399 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 458 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRK Sbjct: 459 QAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRK 518 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED+N SP+D+A L+E T VL +LT RE Sbjct: 519 VLKIAKEPISMETPIGDDEDSHLGDFIEDQNITSPIDAATSEGLKEATREVLENLTEREA 578 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +VL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 579 KVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 635 >gi|297539657|ref|YP_003675426.1| RNA polymerase sigma-70 subunit RpoD [Methylotenera sp. 301] gi|297259004|gb|ADI30849.1| RNA polymerase, sigma 70 subunit, RpoD [Methylotenera sp. 301] Length = 645 Score = 376 bits (965), Expect = e-102, Method: Compositional matrix adjust. Identities = 194/367 (52%), Positives = 264/367 (71%), Gaps = 3/367 (0%) Query: 316 VLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERH 374 +L E LV+L + + +++ L +Q+ D+ + I +E ++L + G+ R F++ Sbjct: 277 LLSEILVELT-AFRFSPKQVEGLCDQVRDLVETIRSHERKVLDFCVEKSGMPRLHFIKSF 335 Query: 375 QGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 G E + W++ + + + SIL + + + GI I E + I + Sbjct: 336 PGNESNLGWLAEELKADKPYIEKLIRYN-HSILDQQQRLIDLEKNVGIPIKELKEINKQM 394 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 GE A AK+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G+ Sbjct: 395 TTGEARARRAKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGF 454 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+ Sbjct: 455 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGVEPDPALLAE 514 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 K+ MP + +RK+LKI+KEPIS+ETPIGD++ SHLGDFIED ++P+D+AI A+LR+ T+ Sbjct: 515 KMEMPEDKIRKILKISKEPISMETPIGDDEDSHLGDFIEDGQTLAPVDAAIYASLRDATS 574 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ Sbjct: 575 EVLESLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSE 634 Query: 675 KLRSFLD 681 +LRSFL+ Sbjct: 635 RLRSFLE 641 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 57/164 (34%), Positives = 91/164 (55%), Gaps = 16/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---------GDD 82 K +I L ++RGY+T E+N LP D +SEQ++ + M+++MGI V + D Sbjct: 36 KSLIVLGKERGYLTYAEINDHLPDDVQNSEQIDGIIGMINDMGIQVYEEAPDAEVLLMSD 95 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 ED+++ A A + DS T DPVRMY+REMG+++LL+RE EI I Sbjct: 96 APPAVTDEDAVEEAEQALATV-------DSDFGRTTDPVRMYMREMGTVDLLTRESEIEI 148 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 A+RIE G M+ ++ P T AL+ D++ + + +++D Sbjct: 149 ARRIEDGLKHMVQAIAACPTTIAALLALVDKVENDELSVDDLVD 192 >gi|91794185|ref|YP_563836.1| RNA polymerase sigma factor RpoD-like protein [Shewanella denitrificans OS217] gi|91716187|gb|ABE56113.1| RNA polymerase, sigma 70 subunit, RpoD [Shewanella denitrificans OS217] Length = 617 Score = 375 bits (964), Expect = e-101, Method: Compositional matrix adjust. Identities = 197/362 (54%), Positives = 258/362 (71%), Gaps = 6/362 (1%) Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDP 381 +L L + D LV+ + + R+ E +L+L + + + F++ E + Sbjct: 258 ELFKEFRLVPKQFDRLVKSMRTMMDRVRVQERLILKLCVEQAKMPKKNFVKAFTSNETNL 317 Query: 382 HWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 W + + P + VA +V+ + +++ +I +ET ++IS + I + GE Sbjct: 318 DWFNKEMNSNKPYADALKAVAHDVN---RCSSKLTAIELETDLTISSIKDINRRMSIGEA 374 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 375 KARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 434 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP+PEE+A+++ MP Sbjct: 435 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPSPEELAERMMMP 494 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA Sbjct: 495 EDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKNATHEVLAG 554 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L+SF Sbjct: 555 LTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSF 614 Query: 680 LD 681 LD Sbjct: 615 LD 616 >gi|45442721|ref|NP_994260.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Microtus str. 91001] gi|45437587|gb|AAS63137.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Microtus str. 91001] Length = 631 Score = 375 bits (963), Expect = e-101, Method: Compositional matrix adjust. Identities = 197/363 (54%), Positives = 253/363 (69%), Gaps = 2/363 (0%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 269 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 328 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 329 TSDTWFNAAVAMGK-PWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 387 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 388 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 447 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ +R+M ++ REPTPEE+A+++ M Sbjct: 448 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNGISRQMLQEMGREPTPEELAERMLM 507 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA Sbjct: 508 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLA 567 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRS Sbjct: 568 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS 627 Query: 679 FLD 681 FLD Sbjct: 628 FLD 630 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 29 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 88 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 89 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 145 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 146 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 183 >gi|56461300|ref|YP_156581.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina loihiensis L2TR] gi|56180310|gb|AAV83032.1| DNA-directed RNA polymerase sigma 70 subunit [Idiomarina loihiensis L2TR] Length = 609 Score = 375 bits (963), Expect = e-101, Method: Compositional matrix adjust. Identities = 201/384 (52%), Positives = 265/384 (69%), Gaps = 16/384 (4%) Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG- 364 K + +V +KL L L + D LV+ + + +R+ E +++++ G Sbjct: 233 KHGRDGAGARVEIDKLSDLFKQFRLVPKQFDRLVKDMRAMMQRVRVQERIIMKISVEQGE 292 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK-------SIS 417 + + F++ E + WV K+ G A D++ ++R EI+ + Sbjct: 293 MPKRNFMKAFATHENNMAWVD--KEIDSG------ASYSDTLKEVRGEIERCVNKLVDVE 344 Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 345 RETGLTIGKVKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 404 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R Sbjct: 405 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 464 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +M ++ REP PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 465 QMLQEMGREPLPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTL 524 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 P+DSA +LR + VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIR Sbjct: 525 DLPIDSATSESLRNSVRDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 584 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RKL+HPSRS++L+SFLD Sbjct: 585 QIEAKALRKLRHPSRSEQLKSFLD 608 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 56/141 (39%), Positives = 80/141 (56%), Gaps = 9/141 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++G++T E+N LP + V S+Q+ED + M+++MGI V D DDL E Sbjct: 10 KVLIAKGKEQGFLTFAEVNDHLPQEIVDSDQVEDIIRMINDMGIRVFESAPDADDLMMAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D +A + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 SAADEDAAEEAAQALASV-----DGEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P L+ Sbjct: 125 EGINQVQCSVAEYPEAINFLL 145 >gi|99035119|ref|ZP_01314904.1| hypothetical protein Wendoof_01000264 [Wolbachia endosymbiont of Drosophila willistoni TSC#14030-0811.24] Length = 502 Score = 375 bits (963), Expect = e-101, Method: Compositional matrix adjust. Identities = 227/527 (43%), Positives = 329/527 (62%), Gaps = 41/527 (7%) Query: 170 WRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGD 229 WRD+L++G LLREIIDL+A + ++ + K E E+ +DV+++E Sbjct: 1 WRDDLSNGALLLREIIDLDAI----------YNSDFNVVPKEESEESEESAEDVEDSED- 49 Query: 230 IESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA----MEDQLRPKVMCALD 285 VS+D D ++ ++D+ +ED S+ L+ ME L PKV+ ALD Sbjct: 50 ------VSEDAEYCSDDKKDSKKSDDEKDGNNEDISSVNLNVSILEMESDLLPKVIVALD 103 Query: 286 EIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 EI + E L+ N+ N S + + L ++ + + L+ + + + ++LY I Sbjct: 104 EIITLTNEALILRKNSKN------FSNELENLYNQIWSIALQIKLSDAAVARITQELYKI 157 Query: 346 SKRIMHNEGELLRLAQSYGIKRDVF-------LERHQGRELDPHWVSYAKDFPEGEWKN- 397 ++ I E L+ A+ Y I R+ F L +H+ +++ ++ + GE KN Sbjct: 158 NRSITLEEANLIAEARKYDIDRESFYKVYDDVLLKHELKKISLLKINENQSSFTGELKNK 217 Query: 398 ---FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLR 454 F+ + I N IK E ++ EF+ ++ ++K E E S AK+EM++ANLR Sbjct: 218 FLRFIDDNSEHIASTLNGIKQHIQED--NVQEFKELIKRIQKHEREVSEAKQEMIKANLR 275 Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKFSTY WWV+Q+ITR+I + Sbjct: 276 LVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVRQSITRAIPE 335 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 QS +RIPVHM + I K+ R R+M++++ REPT EE++ +L MP+E +RKV+KI ++P+ Sbjct: 336 QSKVVRIPVHMVEIISKINRALRKMTHEMGREPTLEELSVELTMPLERIRKVMKIARDPV 395 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 SLE P G +D+S GD IEDK P D+AI A+LR TT VLA+LTP+EER+LRMRFG+ Sbjct: 396 SLEAPTGKDDSSTFGDCIEDKRVSRPEDAAILADLRGITTNVLATLTPKEERILRMRFGL 455 Query: 635 GMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR++KLR F Sbjct: 456 GKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRARKLRGFF 502 >gi|78486147|ref|YP_392072.1| sigma 70 (RpoD) [Thiomicrospira crunogena XCL-2] gi|78364433|gb|ABB42398.1| sigma 70 (RpoD) [Thiomicrospira crunogena XCL-2] Length = 594 Score = 375 bits (963), Expect = e-101, Method: Compositional matrix adjust. Identities = 203/411 (49%), Positives = 282/411 (68%), Gaps = 9/411 (2%) Query: 273 EDQLRPKVMCA-LDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 ED + P+ + A L ++A++ + +L+ NG D KS K + ++V L+ ++ L+ Sbjct: 191 EDGINPEELDAFLQKLAKLNAD--TLKAEEKNGYSDPKSVKK----RAEIVALLATVKLS 244 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVSYAKDF 390 ++ +++ + I E ++ + + G+ R FL+ G E D + K+ Sbjct: 245 PVFVNRMIKGIKLRVSSIREQERNVVNAVMRQVGVPRPSFLKLFVGSETDYDVLDRLKEA 304 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + D + + + + I + I++++ I + K E A IAK+EM+E Sbjct: 305 HPDKADALEEVRAD-VKRAQKRLAMIEKAEKMPINQYKTIYKDLSKAESIARIAKREMIE 363 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA EKF++ GYKFSTYA WW++QAITR Sbjct: 364 ANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYRRGYKFSTYATWWIRQAITR 423 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 SIADQ+ TIRIPVHM + I+K+ R R++ K+ REPTPEE+A+++ MP + VRKV+KI Sbjct: 424 SIADQARTIRIPVHMIETINKLNRIQRQLLQKMGREPTPEELAEEMEMPEDKVRKVMKIA 483 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEPIS+ETP+GD++ S LGDFIED N +SP DSA + ET +L++LTPRE +VLRM Sbjct: 484 KEPISMETPVGDDEDSSLGDFIEDSNILSPQDSADLEGMGETVREMLSTLTPREAKVLRM 543 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFG+GMNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+++L+SFLD Sbjct: 544 RFGLGMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAERLKSFLD 594 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 52/150 (34%), Positives = 85/150 (56%), Gaps = 13/150 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGS 89 +I+ A+ GY+T ++N LP D++ +Q+ + +L + GI + D D+L +EG Sbjct: 13 LIERAKDLGYLTFSDVNDVLP-DDIEEDQLGQVLTILRDFGIQLFESAPDADELLTKEGE 71 Query: 90 --EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +D+ A+ + + V D+ T DPVRMY+REMGS+ELL+R+GE+ IAKRIE Sbjct: 72 TFDDAAAEAAILALAEV------DAEFGRTTDPVRMYMREMGSVELLTRQGEVEIAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDG 177 G M+ ++ + P L+ + DG Sbjct: 126 YGIRDMLEAMAKYPQVAMELLASFSRIEDG 155 >gi|34499217|ref|NP_903432.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC 12472] gi|34105068|gb|AAQ61424.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC 12472] Length = 643 Score = 375 bits (962), Expect = e-101, Method: Compositional matrix adjust. Identities = 184/315 (58%), Positives = 240/315 (76%), Gaps = 1/315 (0%) Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 R F++ G E + WV D + W + +I++ + + + + +SI Sbjct: 324 RAHFIKVFPGNETNLDWVENEIDSGKA-WSEALTRFKHAIIEKQTRLSDLQDKAMLSIKA 382 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I + GE +A AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 383 LKEINRQMSAGESKARRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 442 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + RE Sbjct: 443 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQESGRE 502 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P P E+A+K+ MP E +RK++KI+KEPIS+ETPIGD+D SHLGDFIED+N ++P D+A+ Sbjct: 503 PDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAAMY 562 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 ++L++ T VL +LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RK Sbjct: 563 SSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 622 Query: 667 LKHPSRSKKLRSFLD 681 L+HP+RS++LRSFLD Sbjct: 623 LRHPTRSERLRSFLD 637 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 60/157 (38%), Positives = 86/157 (54%), Gaps = 21/157 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L ++RGY+T E+N LP D +EQ+E+ V M++ +GI V EE + Sbjct: 29 RQLIALGKERGYLTYAEINDHLPEDVSDAEQIENIVTMIAGLGIQVC-------EEAPDA 81 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 L S A+ S + DS T DPVRMY+REMGS+ELL+REGEI I Sbjct: 82 ETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPVRMYMREMGSVELLTREGEIEI 141 Query: 143 AKRIEAGRAMMMASLCESPLTFQALI-----IWRDEL 174 AKRIE G M+ ++ P T ++ + RDE+ Sbjct: 142 AKRIEDGLKYMIQAISACPGTIAEVLELMERVARDEI 178 >gi|301165749|emb|CBW25321.1| RNA polymerase sigma-70 factor [Bacteriovorax marinus SJ] Length = 582 Score = 375 bits (962), Expect = e-101, Method: Compositional matrix adjust. Identities = 200/409 (48%), Positives = 286/409 (69%), Gaps = 18/409 (4%) Query: 286 EIAEVYRELRSLQDNA---VNGQKDEKSSVKCKVLKEK-----LVKLVGSLSLNQSRIDL 337 +IA+V E+ S+ DN +N ++E ++K +EK + + L+ N+ I+ Sbjct: 177 DIAKVRDEIYSVCDNLETLLNRVENEDGTIKEYTQEEKKKMDTIALRLADLTFNRKIINS 236 Query: 338 LVEQL--YDISKRIMHNEGE-LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF--PE 392 VE + Y + R ++ + E + + + G + D + + E D AKD + Sbjct: 237 FVEPVKKYYLQFRELYEQQERIFKFLEVEG-QDDYKVLYEKVLEDDAFKRRLAKDLYTTD 295 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 + + + + D I K+R +S++ G+ ++ + +++ KGE +A +AK ++VEAN Sbjct: 296 AKIEQLIRNQEDVIRKLRR----LSLDAGMEFTDIEDVYNIILKGETKADVAKSQLVEAN 351 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+I Sbjct: 352 LRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAI 411 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+VRT+R++ ++ REPTPEEIA+++ +PV+ V+KV KI+KE Sbjct: 412 ADQARTIRIPVHMIETINKMVRTSRQLIQELGREPTPEEIAERMELPVDKVKKVQKISKE 471 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETPIG+E+ S LGDFIED +SP D+ + L E T VL++LTPREE+VLRMRF Sbjct: 472 PISLETPIGEEEDSSLGDFIEDDKIISPADAVMSVTLSEQTRSVLSTLTPREEKVLRMRF 531 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIG +DHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR+K L+S++D Sbjct: 532 GIGEKSDHTLEEVGQDFFVTRERIRQIEAKALRKLRHPSRAKMLKSYVD 580 Score = 59.7 bits (143), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 37/122 (30%), Positives = 66/122 (54%), Gaps = 5/122 (4%) Query: 23 VFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 VF S D K +IK + + ++T EE+N +P + E +++ + + M I++ D Sbjct: 6 VFINSKDFSKLLIK-GKDQSFLTAEEINDAIPASIIEPEAIDEIMLKIQEMRIDIQD--- 61 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E E +D + L + ++ + ++ DPV++YL+ MGS+ LL+REGE+ I Sbjct: 62 -ETSEEEDDGIRLDGTEIIEETLSKEERAELKSASTDPVKLYLKRMGSVALLTREGEVVI 120 Query: 143 AK 144 AK Sbjct: 121 AK 122 >gi|91776674|ref|YP_546430.1| sigma 70 (RpoD) [Methylobacillus flagellatus KT] gi|91710661|gb|ABE50589.1| RNA polymerase, sigma 70 subunit, RpoD [Methylobacillus flagellatus KT] Length = 644 Score = 374 bits (961), Expect = e-101, Method: Compositional matrix adjust. Identities = 190/368 (51%), Positives = 263/368 (71%), Gaps = 6/368 (1%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQ 375 L+ +++ + + + +++ L +++ + + I +E +++ + G+ R F++ Sbjct: 276 LQATIIEELMAFRFSAKQVEALCDRVRGMVEEIRSHERKIMDFCVEKAGMPRAHFIKSFP 335 Query: 376 GRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 G E +P W++ A + P E +D + ++ +I GI I E + I Sbjct: 336 GNEGNPEWLAAELAVNKPYVERLERFRHSIDDQ---QQQLLAIQERVGIPIRELKEINKQ 392 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + GE A AK+EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G Sbjct: 393 MSTGEARARRAKREMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG 452 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A Sbjct: 453 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLA 512 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +K+ MP + +RK+LKI+KEPIS+ETPIGD+D SHLGDFIED ++P+D+A+ A+LR+ T Sbjct: 513 EKMEMPEDKIRKILKISKEPISMETPIGDDDDSHLGDFIEDVATLAPVDAAVYASLRDAT 572 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL SLT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS Sbjct: 573 KEVLESLTAREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRS 632 Query: 674 KKLRSFLD 681 ++LRSFL+ Sbjct: 633 ERLRSFLE 640 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 16/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---------GDD 82 K +I L ++RGY+T E+N LP D SEQ++ + M+++MGI V + D Sbjct: 33 KSLIILGKERGYLTYAEINDHLPDDVQDSEQIDSIIGMINDMGIQVYEEAPDAEALLMSD 92 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 + ED+++ A A ++ DS T DPVRMY+REMG+++LL+REGEI I Sbjct: 93 VPAPVADEDAVEEAEQALSTV-------DSEFGRTTDPVRMYMREMGTVDLLTREGEIEI 145 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ P T L+ D++ G + +++D Sbjct: 146 AKRIEDGLKHMVQAIAACPSTIAELLAMVDQVEKGELGVDDLVD 189 >gi|262364690|gb|ACY61247.1| RNA polymerase sigma factor RpoD [Yersinia pestis D182038] Length = 352 Score = 374 bits (961), Expect = e-101, Method: Compositional matrix adjust. Identities = 184/271 (67%), Positives = 221/271 (81%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQF Sbjct: 81 QKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQF 140 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 141 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 200 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGD Sbjct: 201 KLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGD 260 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF Sbjct: 261 FIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFD 320 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 321 VTRERIRQIEAKALRKLRHPSRSEVLRSFLD 351 >gi|32491217|ref|NP_871471.1| hypothetical protein WGLp468 [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|25166424|dbj|BAC24614.1| rpoD [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 601 Score = 374 bits (960), Expect = e-101, Method: Compositional matrix adjust. Identities = 197/362 (54%), Positives = 255/362 (70%), Gaps = 2/362 (0%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSY-GIKRDVFLERHQGREL 379 L + L + D LV + ++I E ++R+ + + + F+ G E Sbjct: 240 LADIFKQFRLVPKQFDYLVFIIRSEIEKIRFYERRIMRICVNICKMPKKFFISLFSGNET 299 Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGEC 439 + W+ A + W + I I N++K I + +GI+I + + I + GE Sbjct: 300 NDVWLKKALSL-DKPWSRKLYKLNKPICLILNKLKIIEINSGITIEQAKDINKRMSIGEA 358 Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTY Sbjct: 359 KAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 418 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE+++K+ +P Sbjct: 419 ATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEELSEKMLIP 478 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +RKVLKI KEPIS+ETPIGD++ SHLGDF+ED + PLDSA +LR T VL+ Sbjct: 479 EDKIRKVLKIAKEPISMETPIGDDEDSHLGDFLEDTSLDLPLDSATSESLRSATHDVLSG 538 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE +VL+MRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSF Sbjct: 539 LTAREAKVLKMRFGIDMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILRSF 598 Query: 680 LD 681 LD Sbjct: 599 LD 600 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 58/155 (37%), Positives = 91/155 (58%), Gaps = 16/155 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N FLP + + S Q+ED + M+++MGI V+D E + + Sbjct: 10 KLLVTRGKEQGYLTFSEVNDFLPENIIDSHQIEDIIQMINDMGIQVMD------EAPNSE 63 Query: 92 SLDLASSASNS-------SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +L L S +NS + + +S T DPVRMY+REMGS++LL+REGEI +AK Sbjct: 64 NLLLPDSNNNSDEDVAEAAAQVLSNVESEFGKTTDPVRMYMREMGSVQLLTREGEIDLAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 RIE G + ++ E P +A+I D+ TT Sbjct: 124 RIEYGINQIQCAIVEYP---KAIIYLLDQYKKTTT 155 >gi|327479259|gb|AEA82569.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri DSM 4166] Length = 617 Score = 374 bits (959), Expect = e-101, Method: Compositional matrix adjust. Identities = 196/366 (53%), Positives = 258/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 E L L + L + D LVE++ D +I E +++L + + R FL + Sbjct: 254 EALAILFMPIKLVPKQYDALVERVRDALNQIRAQERAIMQLCVRDARMPRADFLRQFPSN 313 Query: 378 ELDPHWVSYAKDFPEGE--WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W A+ G+ + + + I + + ++ + + ++I++ + I + Sbjct: 314 ETNLDW---AEQLAAGKSKYAEAIGNRKEEIQRCQQKLIELEQQCELAIADIKDINRRMS 370 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 371 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 430 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ ++ Sbjct: 431 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGER 490 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T Sbjct: 491 MEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSAMQSPIDVATVESLKEATRE 550 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ Sbjct: 551 VLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEH 610 Query: 676 LRSFLD 681 LRSFLD Sbjct: 611 LRSFLD 616 >gi|153826548|ref|ZP_01979215.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] gi|149739640|gb|EDM53854.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] Length = 302 Score = 373 bits (958), Expect = e-101, Method: Compositional matrix adjust. Identities = 187/289 (64%), Positives = 227/289 (78%), Gaps = 3/289 (1%) Query: 396 KNFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 K +VA + +IR I+ + + ET +S+ + I + GE +A AKKEMVEAN Sbjct: 13 KPYVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEAN 72 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 73 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 132 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+ R +R+M ++ REP PEE+A+++ MP + +RKVLKI KE Sbjct: 133 ADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKE 192 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PIS+ETPIGD++ SHLGDFIED PLDSA +L+ T VLA LTPRE +VLRMRF Sbjct: 193 PISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRF 252 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 253 GIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 301 >gi|307726543|ref|YP_003909756.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] gi|307587068|gb|ADN60465.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] Length = 803 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 466 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWAD--KIVSEGHSYSA 517 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 + + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 518 ILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 577 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 578 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 637 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 638 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 697 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 698 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 757 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 758 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 802 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 190 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 249 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 250 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 309 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 310 GLKHMVMAISACPTTIADILAMAERVANEEVRIDELVD 347 >gi|296159636|ref|ZP_06842459.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295890080|gb|EFG69875.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 680 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 188/347 (54%), Positives = 245/347 (70%), Gaps = 13/347 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 V+++ + ++I+H + G+ R F+ R G E D W D GE + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWA----DKIVGEGHAY 392 Query: 399 VACEVDSILKIRNE---IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 A +I IR + + + + + + + + GE +A AK+EM EANLRL Sbjct: 393 SAILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRL 452 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 453 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 512 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS Sbjct: 513 ARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPIS 572 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 +ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI Sbjct: 573 METPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIE 632 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 633 MSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANEEIRIDELVDGLIDANAEDADGF 237 >gi|91777317|ref|YP_552525.1| RNA polymerase sigma factor RpoD [Burkholderia xenovorans LB400] gi|91689977|gb|ABE33175.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 680 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 188/347 (54%), Positives = 245/347 (70%), Gaps = 13/347 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 V+++ + ++I+H + G+ R F+ R G E D W D GE + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWA----DKIVGEGHAY 392 Query: 399 VACEVDSILKIRNE---IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 A +I IR + + + + + + + + GE +A AK+EM EANLRL Sbjct: 393 SAILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRL 452 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 453 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 512 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS Sbjct: 513 ARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPIS 572 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 +ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI Sbjct: 573 METPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIE 632 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 633 MSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANEEIRIDELVDGLIDANAEDADGF 237 >gi|146281106|ref|YP_001171259.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri A1501] gi|145569311|gb|ABP78417.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri A1501] Length = 569 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 196/366 (53%), Positives = 258/366 (70%), Gaps = 6/366 (1%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGR 377 E L L + L + D LVE++ D +I E +++L + + R FL + Sbjct: 206 EALAILFMPIKLVPKQYDALVERVRDALNQIRAQERAIMQLCVRDARMPRADFLRQFPSN 265 Query: 378 ELDPHWVSYAKDFPEGE--WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W A+ G+ + + + I + + ++ + + ++I++ + I + Sbjct: 266 ETNLDW---AEQLAAGKSKYAEAIGNRKEEIQRCQQKLIELEQQCELAIADIKDINRRMS 322 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 323 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 382 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ ++ Sbjct: 383 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGER 442 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T Sbjct: 443 MEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSAMQSPIDVATVESLKEATRE 502 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ Sbjct: 503 VLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEH 562 Query: 676 LRSFLD 681 LRSFLD Sbjct: 563 LRSFLD 568 >gi|30064415|ref|NP_838586.1| RNA polymerase sigma factor RpoD [Shigella flexneri 2a str. 2457T] gi|30042672|gb|AAP18396.1| sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 2457T] Length = 608 Score = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 199/361 (55%), Positives = 255/361 (70%), Gaps = 6/361 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 251 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 310 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 311 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 367 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 368 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 428 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 487 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T V Sbjct: 488 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDV 547 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ L Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607 Query: 677 R 677 + Sbjct: 608 Q 608 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|148653373|ref|YP_001280466.1| RNA polymerase, sigma 70 subunit, RpoD [Psychrobacter sp. PRwf-1] gi|148572457|gb|ABQ94516.1| RNA polymerase, sigma 70 subunit, RpoD [Psychrobacter sp. PRwf-1] Length = 623 Score = 372 bits (956), Expect = e-101, Method: Compositional matrix adjust. Identities = 194/356 (54%), Positives = 256/356 (71%), Gaps = 4/356 (1%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS- 385 L LN D ++ ++D+ + E +++RL G + R F + E + W++ Sbjct: 268 LKLNNRMADNVMAIMHDVYDDVRKQERQIMRLVIRRGKMPRSEFRKTFPSNETNVDWLTD 327 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 K P+ + + +A VD ++ ++ I+ + + I+E + + + GE +A AK Sbjct: 328 RLKGNPK--FADSLAKVVDDVVVLQRRIRDHEDKLDMQITEMKEVARRMAIGEAKARRAK 385 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 386 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 445 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRK Sbjct: 446 QAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRK 505 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED+ SP++ A A L+E T VL++LT RE Sbjct: 506 VLKIAKEPISMETPIGDDEDSHLGDFIEDQTISSPVEDATSAGLQEATRDVLSNLTEREA 565 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 566 KVLRMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 621 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 55/156 (35%), Positives = 91/156 (58%), Gaps = 8/156 (5%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGS 89 +I++ +++GY+T E+N LP S+Q+ED V ML+++GI + D DD+ +G+ Sbjct: 16 LIQMGKEQGYLTYAEVNDQLPASITESDQIEDIVQMLTDVGIKIFESAPDADDILMNDGA 75 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D A++ + + ++ T DPVRMY+REMG+++LL+REGEI IAKRIE G Sbjct: 76 NDD----DMATDEAAAVLAAVETEPGRTTDPVRMYMREMGTVDLLTREGEIVIAKRIEEG 131 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ P T Q ++ D + G L ++I Sbjct: 132 IRDVQHAMAYWPGTVQFILDEYDLVEAGEKKLSDVI 167 >gi|224823888|ref|ZP_03696997.1| RNA polymerase, sigma 70 subunit, RpoD [Lutiella nitroferrum 2002] gi|224604343|gb|EEG10517.1| RNA polymerase, sigma 70 subunit, RpoD [Lutiella nitroferrum 2002] Length = 640 Score = 372 bits (956), Expect = e-101, Method: Compositional matrix adjust. Identities = 180/314 (57%), Positives = 241/314 (76%), Gaps = 3/314 (0%) Query: 370 FLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 F++ G E++ WV + G+ W + +I++ + ++ + +SI + + Sbjct: 324 FIKYFPGNEINTDWVE--DEISSGKPWSEALTRFKYAIIEKQTKLAELQDRAMLSIKDLK 381 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 I + GE +A AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 382 EINRQMSAGESKARRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 441 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP Sbjct: 442 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGHEPD 501 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 P E+A+++ MP + +RK++KI+KEPIS+ETPIGD+D SHLGDFIED+N ++P D+A+ ++ Sbjct: 502 PAELAERMEMPEDKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAAMYSS 561 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++ T VL +LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+ Sbjct: 562 LKDATKEVLETLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 621 Query: 669 HPSRSKKLRSFLDG 682 HP+RS++LRSFLD Sbjct: 622 HPTRSERLRSFLDN 635 Score = 97.4 bits (241), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 58/161 (36%), Positives = 88/161 (54%), Gaps = 14/161 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I L ++RGY+T E+N LP D +EQ+E+ V M++ +GI V D E D+L Sbjct: 31 LIALGKERGYLTYAEINDHLPEDVSDTEQIENIVTMITGLGIQVYD------EAPDADTL 84 Query: 94 DLASSASNSSVFLQKRK--------DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 ++ + + + DS T DPVRMY+REMGS+ELL+REGEI IAKR Sbjct: 85 LMSDATPAVADEDAVEEAEAALSSVDSEFGRTTDPVRMYMREMGSVELLTREGEIEIAKR 144 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 IE G M+ ++ P T ++ + + G + E++D Sbjct: 145 IEDGLKHMIEAISACPGTISEVLALLERVEAGDIRVDEVVD 185 >gi|209517800|ref|ZP_03266635.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] gi|209501746|gb|EEA01767.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] Length = 680 Score = 372 bits (956), Expect = e-101, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWAD--KIVAEGHVYSA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 + + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANDEVRIDELVDGLIDADAEDADGF 237 >gi|295700835|ref|YP_003608728.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] gi|295440048|gb|ADG19217.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1002] Length = 680 Score = 372 bits (956), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWAD--KIVAEGHAYSA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 + + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANDENRIDELVDGLIDADAEDADGF 237 >gi|187921407|ref|YP_001890439.1| RNA polymerase sigma factor RpoD [Burkholderia phytofirmans PsJN] gi|187719845|gb|ACD21068.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] Length = 681 Score = 372 bits (955), Expect = e-100, Method: Compositional matrix adjust. Identities = 188/347 (54%), Positives = 245/347 (70%), Gaps = 13/347 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 V+++ + ++I+H + G+ R F+ R G E D W D GE + Sbjct: 344 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWA----DKIVGEGHAY 393 Query: 399 VACEVDSILKIRNE---IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 A +I IR + + + + + + + + GE +A AK+EM EANLRL Sbjct: 394 SAILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRL 453 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 454 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 513 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS Sbjct: 514 ARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPIS 573 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 +ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI Sbjct: 574 METPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIE 633 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 634 MSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 680 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 68 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 127 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 128 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 187 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 188 GLKHMVMAISACPTTIADILAMAERVANEEIRIDELVDGLIDANAEDADGF 238 >gi|121604510|ref|YP_981839.1| RpoD family RNA polymerase sigma factor [Polaromonas naphthalenivorans CJ2] gi|120593479|gb|ABM36918.1| RNA polymerase, sigma 70 subunit, RpoD [Polaromonas naphthalenivorans CJ2] Length = 736 Score = 372 bits (955), Expect = e-100, Method: Compositional matrix adjust. Identities = 192/348 (55%), Positives = 251/348 (72%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 DLL Q+ D+ K+ E EL R+ + G+ ++VF++ L+ WV K G+ Sbjct: 393 DLLRGQVLDVRKK----ERELRRIIVEKCGMPQEVFIKDFPPNLLNLKWVE--KQVAAGK 446 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W N +A + I +++ ++ + + + + I + +GE + AKKEM+EANL Sbjct: 447 PWSNVMARNIPPIQELQTKLGELQARVVVPLLHLKDINKRMNEGESNSRDAKKEMIEANL 506 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 507 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 566 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A+K+ +P E +RK++KI KEP Sbjct: 567 DQARTIRIPVHMIETINKMNRLSRQHLQEFGFEPDASILAEKMEIPEEKIRKIMKIAKEP 626 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED +PL++A+QA LR+ +L SLTPRE +VLRMRFG Sbjct: 627 ISMETPIGDDDDSHLGDFIEDGANTAPLEAAMQAGLRDVVKDILDSLTPREAKVLRMRFG 686 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 687 IEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 734 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 62/181 (34%), Positives = 93/181 (51%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E++ LP V +E +E + ML++MG+ V D + L Sbjct: 136 KTLIKLGKTRGYLTHGEISDHLPDKLVDAETLEVVINMLNDMGVAVYEQAPDAETLLLNN 195 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 196 TGATVATEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 254 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ ESP T ++ D++ +G ++ ++D GF + E Sbjct: 255 GGLMKMMEAISESPATIAEIMRLADDIREGKVVISTVVD-----------GFSNPNEADD 303 Query: 208 Y 208 Y Sbjct: 304 Y 304 >gi|323529251|ref|YP_004231403.1| RNA polymerase sigma-70 subunit RpoD [Burkholderia sp. CCGE1001] gi|323386253|gb|ADX58343.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1001] Length = 680 Score = 372 bits (954), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWAD--KIVAEGHSYSA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 + + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 54/171 (31%), Positives = 89/171 (52%), Gaps = 3/171 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 G M+ ++ P T ++ + + + + E++D E GF Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANEEIRIDELVDGLIDADAEDADGF 237 >gi|115358008|ref|YP_775146.1| RNA polymerase sigma factor RpoD [Burkholderia ambifaria AMMD] gi|115283296|gb|ABI88812.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria AMMD] Length = 805 Score = 372 bits (954), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KITAEGHSYSA 519 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 +A + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 520 VLARNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 579 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 580 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 639 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 640 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 699 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 700 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 759 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 760 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|262369385|ref|ZP_06062713.1| DNA-directed RNA polymerase [Acinetobacter johnsonii SH046] gi|262315453|gb|EEY96492.1| DNA-directed RNA polymerase [Acinetobacter johnsonii SH046] Length = 628 Score = 372 bits (954), Expect = e-100, Method: Compositional matrix adjust. Identities = 204/408 (50%), Positives = 271/408 (66%), Gaps = 12/408 (2%) Query: 278 PKVMCA-LDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRID 336 P++ A DE+ ++ R++ +K +SS + + E L + D Sbjct: 227 PEIAKARFDELTAAWKNTRTII------EKHGRSSKEAEDALESLATVFMMFKFTPRLFD 280 Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWV--SYAKDFPEG 393 ++ E + ++I +E E++R A G + R F G+E + W+ AK P+ Sbjct: 281 IISEMIRGTHEQIRTSEREVMRYAVRRGRMDRTQFRTSFPGQESNFAWLDEQIAKASPDQ 340 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 K ++ +L + +I I + + + + I + GE +A AKKEMVEANL Sbjct: 341 --KGYLEKVRPDVLAFQQKIADIEKDLDLDVKGIKEISKRMAVGEAKARRAKKEMVEANL 398 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 399 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 458 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRKVLKI KEP Sbjct: 459 DQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEP 518 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED N SP+D+A L+E T VL +LT RE +VL+MRFG Sbjct: 519 ISMETPIGDDEDSHLGDFIEDSNITSPVDAATSEGLKEATREVLENLTEREAKVLKMRFG 578 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 579 IDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 626 >gi|217969610|ref|YP_002354844.1| RNA polymerase sigma factor RpoD [Thauera sp. MZ1T] gi|217506937|gb|ACK53948.1| RNA polymerase, sigma 70 subunit, RpoD [Thauera sp. MZ1T] Length = 666 Score = 372 bits (954), Expect = e-100, Method: Compositional matrix adjust. Identities = 188/352 (53%), Positives = 257/352 (73%), Gaps = 10/352 (2%) Query: 335 IDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHW----VSYAKD 389 I+ L + + + +++ +E ++L+L G+ R F++ G+E++ W ++ K+ Sbjct: 317 IEKLCDSVRHMVEQVRSHERQILQLCVDRAGMPRQHFIKVFPGQEVNLDWLKDEIAAGKN 376 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + +G + A +L+ + ++ + GI + E + I + GE + AK+EM Sbjct: 377 YADGLMRIHPA-----VLEEQQKLIDLQDRIGIPLKELKDINRQMSTGEAKMRRAKREMT 431 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 432 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 491 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R++ + +EP P +A+K+ MP E +RK++KI Sbjct: 492 RSIADQARTIRIPVHMIETINKMNRISRQILQETGQEPDPATLAEKMEMPEEKIRKIMKI 551 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 +KEPIS+ETPIGD+D SHLGDFIED ++P ++A+ + LR+ T VL SLT RE +VLR Sbjct: 552 SKEPISMETPIGDDDDSHLGDFIEDTATLAPAEAAMYSGLRDATCEVLDSLTQREAKVLR 611 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+KLRSFLD Sbjct: 612 MRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLD 663 >gi|119944095|ref|YP_941775.1| RNA polymerase sigma-70 factor RpoD [Psychromonas ingrahamii 37] gi|119862699|gb|ABM02176.1| RNA polymerase sigma-70 factor RpoD [Psychromonas ingrahamii 37] Length = 617 Score = 371 bits (953), Expect = e-100, Method: Compositional matrix adjust. Identities = 193/326 (59%), Positives = 233/326 (71%), Gaps = 29/326 (8%) Query: 370 FLERHQGRELDPHWVS--------YAKDFPEGE------WKNFVACEVDSILKIRNEIKS 415 F++ +G E +P W+ YA E E + +A EV S+L I N +K Sbjct: 306 FIKLFKGNETNPAWLEVILSNGTDYATRISEFEEDLRRCLRKMLAVEVQSVLTITN-MKG 364 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS I GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 365 ISRNMSI--------------GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 410 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R Sbjct: 411 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRV 470 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R+M ++ REP PEE+A+++ MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 471 SRQMLQEMGREPQPEELAERMMMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDT 530 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 P + A +L+ T VL LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRER Sbjct: 531 TIALPANCATSESLKNATNDVLEGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 590 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 591 IRQIEAKALRKLRHPSRSEQLRSFLD 616 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 59/141 (41%), Positives = 86/141 (60%), Gaps = 6/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K++I +++G++T E+N LP D V SEQ+ED + M+ +MGI VV D DD+ Sbjct: 10 KELIIKGKEKGFLTYAEVNDHLPQDIVESEQIEDIIQMIGDMGIRVVETAPDADDMLI-- 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G++DS A ++ + +S T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 68 GADDSETPDEDAVEAAAQVLATVESEIGRTTDPVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + ++ E P T L+ Sbjct: 128 EGIKEVQTAVSEYPATISGLL 148 >gi|237748836|ref|ZP_04579316.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13] gi|229380198|gb|EEO30289.1| RNA polymerase primary sigma factor [Oxalobacter formigenes OXCC13] Length = 819 Score = 371 bits (953), Expect = e-100, Method: Compositional matrix adjust. Identities = 182/320 (56%), Positives = 234/320 (73%), Gaps = 5/320 (1%) Query: 364 GIKRDVFLERHQGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 G+ R F++ G E D W+ D P + + V + +++ ++ I G Sbjct: 501 GVPRAHFIKTFPGNETDLTWIDEEVEADHP---YSAILERNVPMVKELQQKLVDIQNRIG 557 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + +++ R I + GE A AKKEM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 558 MPLADLREINRKMVAGEMRARKAKKEMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 617 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 618 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQ 677 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP P +A K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P Sbjct: 678 ETGAEPDPATLAVKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPS 737 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+A+ A++R VL SLTPRE +VLRMRFG+ M+TDHTLEEVGKQF VTRERIRQIEA Sbjct: 738 DAALHASMRNVVKDVLDSLTPREAKVLRMRFGVEMSTDHTLEEVGKQFDVTRERIRQIEA 797 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HPSRS KL+SFL+ Sbjct: 798 KALRKLRHPSRSDKLKSFLE 817 >gi|78063051|ref|YP_372959.1| RNA polymerase sigma factor RpoD [Burkholderia sp. 383] gi|77970936|gb|ABB12315.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. 383] Length = 808 Score = 371 bits (952), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 471 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWSE--KIMAEGHSYSA 522 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 523 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 582 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 583 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 642 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 643 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 702 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 703 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 762 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 763 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 807 >gi|161521349|ref|YP_001584776.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans ATCC 17616] gi|189352484|ref|YP_001948111.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans ATCC 17616] gi|160345399|gb|ABX18484.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia multivorans ATCC 17616] gi|189336506|dbj|BAG45575.1| RNA polymerase primary sigma factor [Burkholderia multivorans ATCC 17616] Length = 804 Score = 371 bits (952), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 467 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGNETDLDWAE--KIAAEGHSYSA 518 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 519 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 578 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 579 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 638 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 639 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 698 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 699 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 758 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 759 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 803 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 188 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 247 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 248 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 307 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 308 GLRHMVMAISACPTTIADILAMAERVANDEIRVDELVD 345 >gi|116691983|ref|YP_837516.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia HI2424] gi|116649983|gb|ABK10623.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia HI2424] Length = 805 Score = 371 bits (952), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KITAEGHPYSA 519 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 520 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 579 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 580 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 639 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 640 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 699 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 700 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 759 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 760 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|172062815|ref|YP_001810466.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria MC40-6] gi|171995332|gb|ACB66250.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria MC40-6] Length = 805 Score = 371 bits (952), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSA 519 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 520 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 579 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 580 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 639 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 640 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 699 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 700 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 759 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 760 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|134292973|ref|YP_001116709.1| RNA polymerase sigma factor RpoD [Burkholderia vietnamiensis G4] gi|134136130|gb|ABO57244.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia vietnamiensis G4] Length = 809 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 472 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSA 523 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 524 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 583 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 584 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 643 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 644 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 703 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 704 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 763 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 764 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 808 >gi|221197050|ref|ZP_03570097.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD2M] gi|221203722|ref|ZP_03576740.1| sigma-70, non-essential region family [Burkholderia multivorans CGD2] gi|221175888|gb|EEE08317.1| sigma-70, non-essential region family [Burkholderia multivorans CGD2] gi|221183604|gb|EEE16004.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD2M] Length = 682 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 345 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGNETDLDWAE--KIAAEGHSYSA 396 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 397 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 456 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 457 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 516 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 517 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 576 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 577 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 636 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 637 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 681 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 66 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 125 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 126 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 185 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 186 GLRHMVMAISACPTTIADILAMAERVANDEIRVDELVD 223 >gi|126443442|ref|YP_001063518.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] gi|126222933|gb|ABN86438.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] Length = 736 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 399 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYGA 450 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 451 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 510 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 511 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 570 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 571 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 630 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 631 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 690 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 691 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 735 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 123 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 182 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 183 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 242 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 243 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 280 >gi|118594360|ref|ZP_01551707.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] gi|118440138|gb|EAV46765.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] Length = 654 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 197/410 (48%), Positives = 279/410 (68%), Gaps = 11/410 (2%) Query: 276 LRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRI 335 L +V+ +I +++L L++ +E + +LKE + + + + Sbjct: 251 LTKEVLSRFGKIKRAHKKLSELREQKKWTDDEEYKKHQDIILKELI-----NFRFSSKFV 305 Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 ++L +++ K+I +E ++ + + R F++ G E + W+ K+ + + Sbjct: 306 EVLCDKVRTFVKQIRGHERAVMEFCVEESKMPRSHFIKSFPGNETNLKWL---KEEIKSD 362 Query: 395 WKNFVACEV--DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 K + E SIL ++++ ++ GI I F+ I + GE A AK+EM+EAN Sbjct: 363 KKYVESLEKLKHSILDQQSKLIALEELAGIPIKNFKEINRHMTTGEARAKRAKREMIEAN 422 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSI Sbjct: 423 LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 482 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K+ R +R++ +EP P E+A+K+ MP E +RK+LKI+KE Sbjct: 483 ADQARTIRIPVHMIETINKMNRISRQILQSTGQEPEPSELAEKMEMPEEKIRKILKISKE 542 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PIS+ETPIGD++ SHLGDFIED ++P D+A+ +LR T+ +L LTPRE +VLRMRF Sbjct: 543 PISMETPIGDDEDSHLGDFIEDVGTLTPDDAAVYGSLRSVTSEILEGLTPREAKVLRMRF 602 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS++L+SFL+G Sbjct: 603 GIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSERLKSFLEG 652 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 55/133 (41%), Positives = 79/133 (59%), Gaps = 4/133 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVS-SEQMEDTVAMLSNMGINVVD-GDDLEDEEGS 89 K +I + ++RGY+T E+N LP DEVS SEQ+E + ++++MGI V + D E S Sbjct: 45 KALIIMGKERGYLTYAEINDHLP-DEVSESEQVEGIIGIINDMGIMVYEQAPDAESLLMS 103 Query: 90 EDSLDLASSASNSSVFLQKRK-DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +D + + DS T DPVRMY+REMG+++LL+REGEI IAKRIE Sbjct: 104 DDRAPVTDEEAAEEAEQALATVDSEFGRTTDPVRMYMREMGTVDLLTREGEIEIAKRIED 163 Query: 149 GRAMMMASLCESP 161 G M+ ++ P Sbjct: 164 GLRHMVQAISACP 176 >gi|76817579|ref|YP_335991.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710b] gi|76582052|gb|ABA51526.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710b] Length = 800 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 463 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 514 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 515 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 574 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 575 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 634 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 635 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 694 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 695 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 754 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 755 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 799 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 187 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 246 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 247 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 306 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 307 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 344 >gi|167583913|ref|ZP_02376301.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ubonensis Bu] Length = 681 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 344 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYSA 395 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 396 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 455 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 456 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 515 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 516 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 575 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 576 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 635 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 636 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 680 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 65 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 124 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 125 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 184 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 185 GLRHMVMAISACPTTIADILAMAERVANEESRIDELVD 222 >gi|121597172|ref|YP_991115.1| RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|126456327|ref|YP_001076416.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|121224970|gb|ABM48501.1| RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|126230095|gb|ABN93508.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] Length = 736 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 399 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 450 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 451 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 510 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 511 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 570 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 571 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 630 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 631 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 690 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 691 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 735 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 123 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 182 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 183 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 242 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 243 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 280 >gi|170699447|ref|ZP_02890491.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria IOP40-10] gi|170135647|gb|EDT03931.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia ambifaria IOP40-10] Length = 683 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 346 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSA 397 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 398 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 457 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 458 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 517 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 518 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 577 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 578 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 637 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 638 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 682 >gi|170736023|ref|YP_001777283.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia MC0-3] gi|169818211|gb|ACA92793.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia MC0-3] Length = 683 Score = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 346 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KITAEGHPYSA 397 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 398 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 457 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 458 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 517 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 518 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 577 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 578 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 637 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 638 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 682 >gi|83716798|ref|YP_438821.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] gi|83650623|gb|ABC34687.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] Length = 800 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 463 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 514 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 515 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 574 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 575 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 634 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 635 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 694 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 695 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 754 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 755 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 799 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 187 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 246 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 247 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 306 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 307 GLRHMVMAISACPTTIADILAMAERVANEEIRVDELVD 344 >gi|332974186|gb|EGK11120.1| DNA-directed RNA polymerase sigma subunit RpoD [Psychrobacter sp. 1501(2011)] Length = 624 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 194/356 (54%), Positives = 255/356 (71%), Gaps = 4/356 (1%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS- 385 L LN D ++ ++D+ + E +++RL G + R F + E + W++ Sbjct: 269 LKLNNRMSDNVMAIMHDVYDDVRKQERQIMRLVIRRGKMPRAEFRKTFPSNETNVDWLTD 328 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 K P+ + + +A VD ++ ++ I+ + + I E + + + GE +A AK Sbjct: 329 RLKGNPK--FADSLAKVVDDVVVLQRRIRDHEDKLDMEIGEMKEVARRMAIGEAKARRAK 386 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 KEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 387 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 446 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L M VRK Sbjct: 447 QAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRK 506 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VLKI KEPIS+ETPIGD++ SHLGDFIED+ SP++ A A L+E T VL++LT RE Sbjct: 507 VLKIAKEPISMETPIGDDEDSHLGDFIEDQTISSPVEDATSAGLQEATRDVLSNLTEREA 566 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +VLRMRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 567 KVLRMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLE 622 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 55/156 (35%), Positives = 91/156 (58%), Gaps = 8/156 (5%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGS 89 +I++ +++GY+T E+N LP S+Q+ED V ML+++GI + D DD+ +G+ Sbjct: 16 LIQMGKEQGYLTYAEVNDQLPASITESDQIEDIVQMLTDVGIKIFESAPDADDILMNDGA 75 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D A++ + + ++ T DPVRMY+REMG+++LL+REGEI IAKRIE G Sbjct: 76 NDD----EMATDEAAAVLAAVETEPGRTTDPVRMYMREMGTVDLLTREGEIVIAKRIEEG 131 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ P T Q ++ D + G L ++I Sbjct: 132 IRDVQHAMAYWPGTVQFILDEYDLVEAGEKKLSDVI 167 >gi|221212356|ref|ZP_03585333.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD1] gi|221167455|gb|EED99924.1| RNA polymerase sigma factor RpoD [Burkholderia multivorans CGD1] Length = 682 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 345 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGNETDLDWAE--KIAAEGHSYSA 396 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 397 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 456 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 457 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 516 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 517 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 576 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 577 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 636 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 637 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 681 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 66 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 125 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 126 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 185 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 186 GLRHMVMAISACPTTIADILAMAERVANDEIRVDELVD 223 >gi|325518128|gb|EGC97914.1| RNA polymerase sigma factor RpoD [Burkholderia sp. TJI49] Length = 682 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 345 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSA 396 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 397 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 456 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 457 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 516 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 517 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 576 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 577 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 636 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 637 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 681 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 66 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 125 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 126 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 185 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 186 GLRHMVMAISACPTTIADILAMAERVANEEIRVDELVD 223 >gi|94971322|ref|YP_593370.1| sigma 38, RpoS [Candidatus Koribacter versatilis Ellin345] gi|94553372|gb|ABF43296.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Koribacter versatilis Ellin345] Length = 574 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 170/274 (62%), Positives = 229/274 (83%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++ +++ + E G+SI+E + + +G+ +A AKKE++EANLRLV+S+AKKYTNRGL Sbjct: 298 LKGDLERMEQEAGVSIAELKRTQREIIQGDMDAEQAKKELIEANLRLVVSIAKKYTNRGL 357 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 358 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIET 417 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++RT+R++ ++ REP+ EEIAK++ +PV VRKVLKI +EPISLETPIG+E+ SHL Sbjct: 418 INKLIRTSRQLVQELGREPSSEEIAKRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHL 477 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++ VSP ++ I NL++ T +VL +LT REE+V++MRFG+ ++HTLEEVG+ Sbjct: 478 GDFIEDRSMVSPAEAVINVNLKDQTAQVLRTLTAREEKVIKMRFGLEDGSEHTLEEVGQS 537 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 F VTRERIRQIEAKA+RKL+HPSRS+KLR+FLDG Sbjct: 538 FAVTRERIRQIEAKALRKLRHPSRSRKLRAFLDG 571 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 61/178 (34%), Positives = 97/178 (54%), Gaps = 29/178 (16%) Query: 22 LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG- 80 + D D KK+I +++GY+T E+N +P D S + ++D + + GI+V++G Sbjct: 1 MALDDKYDDIKKLIDTGKEKGYLTYSEVNDLIPHDVHSPDDLDDLLTTIGTQGIDVLEGP 60 Query: 81 -------------DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLRE 127 DD+E E E LDL A L+K T+DPVRMYLRE Sbjct: 61 GKLPSAAVLDKRYDDVEAGE-EEMELDLTPGA------LEK--------TNDPVRMYLRE 105 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 MG++ LL+REGE+ IAKRIE G+ ++ ++ SP+ + +I ++L G ++EI+ Sbjct: 106 MGTVPLLTREGEVEIAKRIERGQLRVLKAISRSPIVIRDIIAIGEDLKRGVRSIKEIV 163 >gi|53716429|ref|YP_105146.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|53722776|ref|YP_111761.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei K96243] gi|67643221|ref|ZP_00441969.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|124381664|ref|YP_001025512.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126447609|ref|YP_001077577.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|134278673|ref|ZP_01765387.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|167000270|ref|ZP_02266089.1| RNA polymerase sigma factor RpoD [Burkholderia mallei PRL-20] gi|167743532|ref|ZP_02416306.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 14] gi|167820721|ref|ZP_02452401.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 91] gi|167850557|ref|ZP_02476065.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei B7210] gi|167899150|ref|ZP_02486551.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 7894] gi|167907493|ref|ZP_02494698.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei NCTC 13177] gi|167915832|ref|ZP_02502923.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 112] gi|167923671|ref|ZP_02510762.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei BCC215] gi|217422551|ref|ZP_03454054.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|226195650|ref|ZP_03791237.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|237508723|ref|ZP_04521438.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei MSHR346] gi|242312268|ref|ZP_04811285.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|254177429|ref|ZP_04884085.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|254186160|ref|ZP_04892678.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|254194055|ref|ZP_04900487.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|254203084|ref|ZP_04909446.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|254208417|ref|ZP_04914766.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|254265453|ref|ZP_04956318.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|254301213|ref|ZP_04968657.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|254359397|ref|ZP_04975669.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|52213190|emb|CAH39230.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei K96243] gi|52422399|gb|AAU45969.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|126240463|gb|ABO03575.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|134250457|gb|EBA50537.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|147746129|gb|EDK53207.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|147751104|gb|EDK58172.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|148028584|gb|EDK86544.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|157811356|gb|EDO88526.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|157933846|gb|EDO89516.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|160698469|gb|EDP88439.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|169650806|gb|EDS83499.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|217394782|gb|EEC34801.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|225932135|gb|EEH28135.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|235000928|gb|EEP50352.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei MSHR346] gi|238524506|gb|EEP87939.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|242135507|gb|EES21910.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|243063759|gb|EES45945.1| RNA polymerase sigma factor RpoD [Burkholderia mallei PRL-20] gi|254216455|gb|EET05840.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|261826434|gb|ABM99450.2| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] Length = 680 Score = 370 bits (950), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 187 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 224 >gi|167577173|ref|ZP_02370047.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis TXDOH] gi|167615343|ref|ZP_02383978.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis Bt4] Length = 680 Score = 370 bits (949), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 187 GLRHMVMAISACPTTIADILAMAERVANEEIRVDELVD 224 >gi|238024932|ref|YP_002909164.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia glumae BGR1] gi|237879597|gb|ACR31929.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia glumae BGR1] Length = 805 Score = 370 bits (949), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/347 (53%), Positives = 244/347 (70%), Gaps = 13/347 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 V+++ + ++I+H + G+ R F+ R G E D W E ++ Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLTWAEKVA----AESHSY 517 Query: 399 VACEVDSILKIRNE---IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 A V +I I + + + + + + + + GE +A AK+EM EANLRL Sbjct: 518 SAILVRNIPAIHEQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRL 577 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ Sbjct: 578 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 637 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS Sbjct: 638 ARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPIS 697 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 +ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI Sbjct: 698 METPIGDDDDSHLGDFIEDSNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIE 757 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 758 MSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|186472768|ref|YP_001860110.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] gi|184195100|gb|ACC73064.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] Length = 685 Score = 370 bits (949), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K E + Sbjct: 348 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGNETDLEWAD--KIVSENHAYSA 399 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 400 ILSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 459 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 460 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 519 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 520 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 579 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 580 TPIGDDDDSHLGDFIEDTNTVAPSDAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 639 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 640 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 684 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 56/177 (31%), Positives = 95/177 (53%), Gaps = 15/177 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + + Sbjct: 72 RALIKLGKERGFLTYGEINDHLPDNFTETEAIEGIISTFNDMGVAVYE------QAPDAE 125 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L +A N+S + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 126 TLLLNDNAPNASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 185 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 AKRIE G M+ ++ P T ++ + + + + E++D + E GF Sbjct: 186 AKRIEDGLKHMVMAISACPTTIADILAMAERVANEEIRIDELVDGLIDVNAEDTDGF 242 >gi|107026824|ref|YP_624335.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia AU 1054] gi|105896198|gb|ABF79362.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia cenocepacia AU 1054] Length = 805 Score = 369 bits (948), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KITAEGHPYSA 519 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 520 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 579 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 580 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 639 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 640 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 699 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 700 TPIGDDDDSHLGDFIEDTNTVAPADAAPHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 759 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 760 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|206562773|ref|YP_002233536.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia J2315] gi|198038813|emb|CAR54775.1| RNA polymerase sigma factor RpoD [Burkholderia cenocepacia J2315] Length = 621 Score = 369 bits (948), Expect = e-100, Method: Compositional matrix adjust. Identities = 186/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 284 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGNETDLDWAE--KITAEGHSYSA 335 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 336 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 395 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 396 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 455 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 456 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 515 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 516 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 575 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 576 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 620 >gi|261400701|ref|ZP_05986826.1| RNA polymerase sigma factor RpoD [Neisseria lactamica ATCC 23970] gi|269209456|gb|EEZ75911.1| RNA polymerase sigma factor RpoD [Neisseria lactamica ATCC 23970] Length = 642 Score = 369 bits (947), Expect = e-100, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 59/188 (31%), Positives = 103/188 (54%), Gaps = 17/188 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDTRPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|332704204|ref|ZP_08424292.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio africanus str. Walvis Bay] gi|332554353|gb|EGJ51397.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio africanus str. Walvis Bay] Length = 594 Score = 369 bits (947), Expect = e-99, Method: Compositional matrix adjust. Identities = 208/459 (45%), Positives = 297/459 (64%), Gaps = 38/459 (8%) Query: 238 KDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRP------KVMCALDEIAEVY 291 KD R K+ + E D+ + EDE + + + D+++ K+ LD+ A + Sbjct: 160 KDSRIKLKDVVKTIEEDDPS--EDEMNQRQRVIFLLDEIKASFKKKRKIYTKLDQCATLD 217 Query: 292 RELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 R + SLQ V+ KE++V+ + + L ++ ID ++E + D ++ MH Sbjct: 218 RRVFSLQMEIVS-------------FKEEVVQKLREIKLEKTLIDRVIETVEDYVRQ-MH 263 Query: 352 N-----EGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE---WKNFVACEV 403 N ++ ++ RD+F R R L+P + A E +K +A ++ Sbjct: 264 NCQRDLAAYIMSTGKTQSEIRDLF-RRVDDRTLNPLNAAEALGLTVEEFFSYKEMLAGKM 322 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 + +++++ + +SE ++ +R+G AS AK+E++ ANLRLV+S+AKKY Sbjct: 323 EILVRLQEKCCH-------QVSELEEVLWRIRRGNENASRAKRELIRANLRLVVSIAKKY 375 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPV Sbjct: 376 TNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPV 435 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K++RT+R + ++ R+PTPEEIA+++ P+E V+KVLKI KEPISLETPIGDE Sbjct: 436 HMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIEKVKKVLKIAKEPISLETPIGDE 495 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S LGDFIEDK AV+P + + L E +VL+ LTPREE+VLR RFGIG +DHTLE Sbjct: 496 EDSSLGDFIEDKKAVAPAEEVVNTKLSEQIGKVLSDLTPREEQVLRKRFGIGEKSDHTLE 555 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 556 EVGKLFNVTRERIRQIEAKALRKLRHPVRSQILRSYYES 594 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 16/165 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---------- 81 K +I +Q+G++T +ELN+ LP + + EQ+E+ +++ + I +VD + Sbjct: 11 KTLIAQGKQKGFLTFKELNSALPSEVNNPEQIEEIISIFDQLEIAIVDSEKEGKKLQILS 70 Query: 82 -DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 D E EE D+ + A N + D A RSTD PVRMYLREMGS+ LL REGE+ Sbjct: 71 ADSESEEVDVDAASVIEIAGND----EDAADYASRSTD-PVRMYLREMGSVPLLDREGEV 125 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAK+IE+G ++ +L E P+ + L+ +L D L++++ Sbjct: 126 VIAKKIESGELDVLYALVEVPVAVEELVQVGKDLKDSRIKLKDVV 170 >gi|113868683|ref|YP_727172.1| RNA polymerase sigma factor RpoD [Ralstonia eutropha H16] gi|113527459|emb|CAJ93804.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] Length = 827 Score = 369 bits (947), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 179/319 (56%), Positives = 236/319 (73%), Gaps = 1/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G+ R F+ R G E + WV +G + V V ++ +++ ++ + + Sbjct: 509 GMPRSEFVARFPGNETNLEWVHTIVADGKG-YSTIVERNVPAVHELQQKLIDLQSRVVLP 567 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 568 LKELKGVNRKMAEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 627 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 628 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQET 687 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P ++ Sbjct: 688 GNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEA 747 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ ++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 748 ALHGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 807 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS KL+SFL+G Sbjct: 808 LRKLRHPSRSDKLKSFLEG 826 Score = 98.2 bits (243), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 13/163 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V SE ++ VA L+++GI V E +E Sbjct: 213 KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAV-----YEQAPDAET 267 Query: 92 SL--DLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L D A SA++ ++ + DS T DPVRMY+REMG++ELL+REGEI IA Sbjct: 268 LLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIA 327 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIEAG M+ ++ P+T ++ + + + + E +D Sbjct: 328 KRIEAGLKDMVMAISACPVTISEILAHAERVANDEIKIDEFVD 370 >gi|152980761|ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] gi|151280838|gb|ABR89248.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] Length = 826 Score = 369 bits (947), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 189/356 (53%), Positives = 252/356 (70%), Gaps = 18/356 (5%) Query: 338 LVEQLYDISK----RIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +VE+L D + + H E ++L +A G+ R F++ G E + WV + Sbjct: 477 VVEKLCDTLRGQVDEVRHIEKQILDVAVNRCGMPRGHFIKVFPGNETNLDWV-------D 529 Query: 393 GE------WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 GE + +A V ++ +++ ++ + + + + R I + GE +A AK+ Sbjct: 530 GEVNGKHAYSVVLARNVPTVKELQQKLIDLQARVVLPLPDLRAINKKMAAGEMKARKAKR 589 Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ G+KFSTYA WW++Q Sbjct: 590 EMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWWIRQ 649 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A K+ MP + +RK+ Sbjct: 650 AITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKI 709 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +KI KEPIS+ETPIGD+D SHLGDFIED N ++P D+A+ A++R VL SLTPRE + Sbjct: 710 MKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAK 769 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 770 VLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 825 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 58/160 (36%), Positives = 87/160 (54%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IK ++RG++T E+N LP + + E +E + ++MGI V + D E Sbjct: 211 KTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYE--QAPDAETLLL 268 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 S ++A+ AS+ DS T DPVRMY+REMGS+ELL+REGEI IAKRI Sbjct: 269 SDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIDIAKRI 328 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G M+ ++ P T +I + ++ + EI+D Sbjct: 329 EDGLRDMIQAISACPTTIAEIIAAAERISKDEAKIDEIVD 368 >gi|4128212|gb|AAD03549.1| principal sigma factor [Burkholderia cepacia] Length = 621 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 284 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSA 335 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 336 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 395 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 396 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 455 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 456 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 515 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 516 TPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 575 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 576 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 620 >gi|261377614|ref|ZP_05982187.1| RNA polymerase sigma factor RpoD [Neisseria cinerea ATCC 14685] gi|269146367|gb|EEZ72785.1| RNA polymerase sigma factor RpoD [Neisseria cinerea ATCC 14685] Length = 642 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 238/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + WV ++ +G W + + +IL+ + E+ ++ ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWVE--EEVAKGRVWSDALDRFRHAILEKQTELANMERETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDSNNIAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 58/188 (30%), Positives = 102/188 (54%), Gaps = 4/188 (2%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 RN++ + E++D L + +++I + ++RGY+T E+N LP D ++Q+++ Sbjct: 3 RNQNHE-EYQDDTRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNI 61 Query: 67 VAMLSNMGINVVDGD-DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 V+M+S +GI V + D ED S+++ A + DS T DPVRMY+ Sbjct: 62 VSMISGLGIQVTEHTPDAEDILLSDNAAVTDDDAVEEAEAALSNADSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILGLIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|254248772|ref|ZP_04942092.1| Sigma-70 region 1.1 [Burkholderia cenocepacia PC184] gi|124875273|gb|EAY65263.1| Sigma-70 region 1.1 [Burkholderia cenocepacia PC184] Length = 805 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 185/345 (53%), Positives = 246/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KITAEGHPYSA 519 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ V +I + + + + + + + + + GE +A AK+EM EA+LRLVI Sbjct: 520 VLSRNVPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEAHLRLVI 579 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 580 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 639 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 640 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 699 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 700 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 759 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 760 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 >gi|240127996|ref|ZP_04740657.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae SK-93-1035] gi|268686384|ref|ZP_06153246.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-93-1035] gi|268626668|gb|EEZ59068.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-93-1035] Length = 642 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENTLKNMVQAISACP 157 >gi|261363710|ref|ZP_05976593.1| RNA polymerase sigma factor RpoD [Neisseria mucosa ATCC 25996] gi|288568271|gb|EFC89831.1| RNA polymerase sigma factor RpoD [Neisseria mucosa ATCC 25996] Length = 649 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 183/319 (57%), Positives = 238/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + WV ++ +G W + + +IL+ + E+ ++ ET IS Sbjct: 328 MERDYFIQNFLPEITNLKWVE--EEVAKGRVWSDALDRFRHAILEKQTELANMEKETRIS 385 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 386 IEELKDINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 445 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 446 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQET 505 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 506 GEEPDSAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 565 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 566 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 625 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 626 LRKLRHPTRSDRLRSFLDS 644 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/184 (29%), Positives = 99/184 (53%), Gaps = 4/184 (2%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D + L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S Sbjct: 9 DYQEQDDNRPLTLEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMIS 68 Query: 72 NMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRK-DSADRSTDDPVRMYLREMG 129 +GI V + D ED S+++ + + + DS T DPVRMY+REMG Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAAVTDDDAVAEAEAALSSADSEFGRTTDPVRMYMREMG 128 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ EA Sbjct: 129 QVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEQIRKDEIRVDEVV--EA 186 Query: 190 CIGP 193 I P Sbjct: 187 IIDP 190 >gi|194098357|ref|YP_002001415.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae NCCP11945] gi|239998768|ref|ZP_04718692.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|240112698|ref|ZP_04727188.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae MS11] gi|240117739|ref|ZP_04731801.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID1] gi|254493553|ref|ZP_05106724.1| RNA polymerase sigma factor rpoD [Neisseria gonorrhoeae 1291] gi|268594613|ref|ZP_06128780.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|268598759|ref|ZP_06132926.1| RNA polymerase sigma factor [Neisseria gonorrhoeae MS11] gi|268603436|ref|ZP_06137603.1| sigma 70 domain-containing protein [Neisseria gonorrhoeae PID1] gi|193933647|gb|ACF29471.1| RNA polymerase sigma factor [Neisseria gonorrhoeae NCCP11945] gi|226512593|gb|EEH61938.1| RNA polymerase sigma factor rpoD [Neisseria gonorrhoeae 1291] gi|268548002|gb|EEZ43420.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae 35/02] gi|268582890|gb|EEZ47566.1| RNA polymerase sigma factor [Neisseria gonorrhoeae MS11] gi|268587567|gb|EEZ52243.1| sigma 70 domain-containing protein [Neisseria gonorrhoeae PID1] gi|317164060|gb|ADV07601.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae TCDC-NG08107] Length = 642 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACP 157 >gi|59801382|ref|YP_208094.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA 1090] gi|240014315|ref|ZP_04721228.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI18] gi|240016750|ref|ZP_04723290.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA6140] gi|240121878|ref|ZP_04734840.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID24-1] gi|240123293|ref|ZP_04736249.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID332] gi|240125543|ref|ZP_04738429.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae SK-92-679] gi|268681916|ref|ZP_06148778.1| RNA polymerase sigma factor [Neisseria gonorrhoeae PID332] gi|268684130|ref|ZP_06150992.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-92-679] gi|293399243|ref|ZP_06643408.1| RNA polymerase primary sigma factor [Neisseria gonorrhoeae F62] gi|59718277|gb|AAW89682.1| putative RNA polymerase sigma factor [Neisseria gonorrhoeae FA 1090] gi|268622200|gb|EEZ54600.1| RNA polymerase sigma factor [Neisseria gonorrhoeae PID332] gi|268624414|gb|EEZ56814.1| RNA polymerase sigma factor [Neisseria gonorrhoeae SK-92-679] gi|291610657|gb|EFF39767.1| RNA polymerase primary sigma factor [Neisseria gonorrhoeae F62] Length = 642 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACP 157 >gi|330821204|ref|YP_004350066.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia gladioli BSR3] gi|327373199|gb|AEA64554.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Burkholderia gladioli BSR3] Length = 805 Score = 369 bits (946), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 183/344 (53%), Positives = 242/344 (70%), Gaps = 7/344 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF 398 V+++ + ++I+H + G+ R F+ R G E D W + Sbjct: 468 VDEVRQVERQILHI------VVDKCGMPRSEFISRFPGSETDLAWAEKIATESHS-YSAI 520 Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + V +I + + + + + + + + + GE +A AK+EM EANLRLVIS Sbjct: 521 LQRNVPAIHEQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVIS 580 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ T Sbjct: 581 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 640 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+ET Sbjct: 641 IRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISMET 700 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+T Sbjct: 701 PIGDDDDSHLGDFIEDSNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMST 760 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 761 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 804 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 84/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL + RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 191 RALIKLGKDRGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 250 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 251 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 310 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 311 GLRHMVMAISACPTTIADILAMAERVANDEIRIDELVD 348 >gi|240115443|ref|ZP_04729505.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae PID18] gi|260440745|ref|ZP_05794561.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] gi|268601118|ref|ZP_06135285.1| RNA polymerase, sigma 70 subunit [Neisseria gonorrhoeae PID18] gi|291044060|ref|ZP_06569776.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] gi|268585249|gb|EEZ49925.1| RNA polymerase, sigma 70 subunit [Neisseria gonorrhoeae PID18] gi|291012523|gb|EFE04512.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae DGI2] Length = 642 Score = 368 bits (945), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACP 157 >gi|93005952|ref|YP_580389.1| sigma 70 (RpoD) [Psychrobacter cryohalolentis K5] gi|92393630|gb|ABE74905.1| sigma 70 (RpoD) [Psychrobacter cryohalolentis K5] Length = 648 Score = 368 bits (945), Expect = 1e-99, Method: Compositional matrix adjust. Identities = 196/375 (52%), Positives = 256/375 (68%), Gaps = 4/375 (1%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKR 367 + S + E+L L LN D ++ ++D+ + +E +++RL G + R Sbjct: 274 RGSAQANEAYEQLASRFMMLKLNNRLSDQVMAIMHDVYDDVRKHERQIMRLVIRRGRMPR 333 Query: 368 DVFLERHQGRELDPHW-VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 + F + E + W + K P + + D ++ ++ I+ + + I + Sbjct: 334 EEFRKTFPSNETNVDWLIERIKGKPA--FAATLEKVADDVILLQRAIRDYEHKLEMEIHD 391 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 392 MKDVARRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 451 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE Sbjct: 452 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGRE 511 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A Sbjct: 512 PTPEELGERLEMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGTISSPVDDATA 571 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 A LRE T VL +LT RE RVL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RK Sbjct: 572 AGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRK 631 Query: 667 LKHPSRSKKLRSFLD 681 L+HPSRS+ LRSFL+ Sbjct: 632 LRHPSRSEHLRSFLE 646 >gi|167566502|ref|ZP_02359418.1| RNA polymerase sigma factor RpoD [Burkholderia oklahomensis EO147] gi|167573583|ref|ZP_02366457.1| RNA polymerase sigma factor RpoD [Burkholderia oklahomensis C6786] Length = 681 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 184/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R E D W K EG + Sbjct: 344 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPSNETDLDWAE--KIAAEGHSYSA 395 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 396 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 455 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 456 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 515 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 516 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 575 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 576 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 635 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 636 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 680 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 68 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 127 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 128 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 187 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 188 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 225 >gi|91777566|ref|YP_552774.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91690226|gb|ABE33424.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 665 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 243/664 (36%), Positives = 362/664 (54%), Gaps = 67/664 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ ++MG+ V D + L Sbjct: 54 RALIQLGKEQGYLTHAQINDHLPDNFAQTAAIDSIVSAFNDMGVQVYEQAPDAETLLLNS 113 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 114 NAPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 167 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHG 202 AKRIE G M+ ++ PL A++ ++ DG + E++D G Sbjct: 168 AKRIEDGLHEMVQAIAACPLAISAILASAQQVADGELRIDELVD---------------G 212 Query: 203 TEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 + EDS+ + +V +D P +++ DE L + Sbjct: 213 LNEDTIAAEEDSASAEASAEVD------ADTDGDEDEDSDDDVGPADSSAADEARLKQLT 266 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD--NAVNGQKDEKSSVKCKVLKEK 320 D C E++ ++ L D NA + + D S + +E+ Sbjct: 267 SD-----------------C-----LEIFAQVGMLSDQMNASHTRGDVTSKAYQRA-REE 303 Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS-YGIKRDVFLERHQGREL 379 + + + + ID L + ++ E +L++ S G+ R+ F+E G E Sbjct: 304 IQQHLAKIRFTARTIDRLCGDVQQQVAQVRAIERNILQIVVSKSGMPREKFIESFAGHEA 363 Query: 380 DPHWVSYAKDFPEGEWKNFVACE--VDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 D W A G A E + +I + ++ I + + + I + Sbjct: 364 DLGWTERAA---RGASAYGAALERHLPAIQSEQQKLIEIEATVSLPLKHLKEINRQMVAA 420 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + AK EM+EANLRLVIS+AKKY NRG+ FLDLIQEGNIGLMKA +KF++ G+KFS Sbjct: 421 ESKMRKAKSEMIEANLRLVISIAKKYVNRGMLFLDLIQEGNIGLMKAVDKFEYRRGWKFS 480 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WWV+QA+TRS+ADQ+ TIR+PVHM + I+K+ R +R + + +E P +A+++ Sbjct: 481 TYATWWVRQAVTRSLADQARTIRVPVHMIETINKLNRISREILQQTGQEAHPSVLAERME 540 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + E VR +LKI K+P+S+ETP+GD+ + LGD IED A SP D+A+QA+LR L Sbjct: 541 LSEEKVRGILKIAKQPVSMETPVGDDGDATLGDMIEDSAASSPADAAMQADLRAAIDDAL 600 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SL+PRE +VLRMR+GI +DHTLEEVGKQF VTRERIRQIE+KA+RKL HPSR+ +L+ Sbjct: 601 DSLSPREAKVLRMRYGINTKSDHTLEEVGKQFDVTRERIRQIESKAMRKLMHPSRADRLK 660 Query: 678 SFLD 681 SFLD Sbjct: 661 SFLD 664 >gi|254184931|ref|ZP_04891520.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] gi|184215523|gb|EDU12504.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] Length = 680 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 184/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAK +RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKTLRKLRHPSRSDKLKSFLEG 679 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 187 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 224 >gi|299135760|ref|ZP_07028944.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX8] gi|298601884|gb|EFI58038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX8] Length = 573 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 170/273 (62%), Positives = 229/273 (83%) Query: 410 RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 R +++ + ++GIS+ + + + +G+ +A AK+E++EANLRLV+S+AKKYTNRGLQ Sbjct: 297 RVDLQRVEADSGISLDDLKRTQREMIQGDMDAEKAKRELIEANLRLVVSIAKKYTNRGLQ 356 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I Sbjct: 357 FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETI 416 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +K++RT+R++ ++ RE + EEIAK++ +PV VRKVLKI +EPISLETPIG+E+ SHLG Sbjct: 417 NKLIRTSRQLVQELGREASSEEIAKRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLG 476 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIED+ AVSP D+ I NL+E T++VL +LTPREERV++MRFG+ ++HTLEEVG+ F Sbjct: 477 DFIEDRMAVSPSDAVISVNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSF 536 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRERIRQIEAKA+RKL+HPSRS+KL++F+DG Sbjct: 537 QVTRERIRQIEAKALRKLRHPSRSRKLKAFVDG 569 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 95/164 (57%), Gaps = 4/164 (2%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD- 82 D ++ ++I +++GY+T E+N LP D S ++++D + ++ GI V+ G+ Sbjct: 5 LDKYEEDVDRIIDTGKEKGYLTYGEVNDLLPGDITSPDELDDLMTTINTQGIEVLSGEGR 64 Query: 83 -LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 E +EDS D S V L + ++ T+DPVRMYLREMG++ LL+REGE+ Sbjct: 65 RAASERAAEDS-DNESGEEGDDVELDLSPGTLEK-TNDPVRMYLREMGTVPLLTREGEVE 122 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAKRIE G+ +M ++ SP+ + + ++L G ++E++ Sbjct: 123 IAKRIERGQLRVMKAISRSPIVIREITGLGEDLKRGVRNIKEVV 166 >gi|187929499|ref|YP_001899986.1| RNA polymerase sigma factor RpoD [Ralstonia pickettii 12J] gi|187726389|gb|ACD27554.1| RNA polymerase, sigma 70 subunit, RpoD [Ralstonia pickettii 12J] Length = 829 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 178/320 (55%), Positives = 237/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W+ +G+ + V V ++ +++ ++ + + Sbjct: 511 GMPRSDFVARFPGNETNLKWIETV--VADGKPYSTIVERNVPAVHELQQKLIDLQARVVL 568 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 569 PLTELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 628 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 629 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 688 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 689 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 748 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 749 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 808 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 809 ALRKLRHPSRSDKLKSFLEG 828 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/159 (36%), Positives = 87/159 (54%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V E +E VA L+++G+ V D + L + Sbjct: 217 KALIKLGKSRGYLTYAEINDHLPDDMVDVESLETLVATLNDIGVAVYEQAPDAETLLLND 276 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 277 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 335 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 336 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 374 >gi|302036356|ref|YP_003796678.1| RNA polymerase sigma factor RpoD (Sigma-70) [Candidatus Nitrospira defluvii] gi|300604420|emb|CBK40752.1| RNA polymerase sigma factor RpoD (Sigma-70) [Candidatus Nitrospira defluvii] Length = 601 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 202/418 (48%), Positives = 282/418 (67%), Gaps = 16/418 (3%) Query: 274 DQLRPKVMCALDEIAEVYRELRSLQDNA----VNGQKDEKSSVKCKVLKEKLVKLVGSLS 329 ++LR K + +L+ + +V L+ L D A + +K +K + ++ ++V + S++ Sbjct: 188 EELRVKTLDSLNAVRKVSASLKDLYDKARHVGADPEKQKKLRKQIDTVRGQVVDKMESVN 247 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD 389 L+ D + +++ D++ E E+ + G+ + G EL KD Sbjct: 248 LHGVLKDRMTQRVRDLNLLFRQAEREVTSCQRRLGVGGEA------GAELLRRLCRTHKD 301 Query: 390 FPEGEWKNFVACEVDSILK-----IRNEIKSISVETG-ISISEFRHIVSMVRKGECEASI 443 + + ++ EV +K + I+ + E IS E + V + E + Sbjct: 302 LLAVKRRTSLSEEVLQDIKKHYQAAKGRIRQLETEEALISAEEIKDAVKHLDVAEEKVKR 361 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K E+VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 362 GKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 421 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + K+ REPTPEEIA+++ +P++ V Sbjct: 422 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRHLVQKLGREPTPEEIAERMDLPLDKV 481 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RK+LKI +EPISLETPIG+E+ SHLGDFIEDK AVSPL++AI+ +L+ L +LTPR Sbjct: 482 RKILKIAREPISLETPIGEEEDSHLGDFIEDKKAVSPLEAAIRYDLQRQINGALETLTPR 541 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR RFGIG TDHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKLRSF++ Sbjct: 542 EEKVLRKRFGIGEATDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKKLRSFVE 599 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 92/159 (57%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK+I L +++G++T ++LN+ LP D VSS+Q + M M I +V+ + E + + Sbjct: 11 KKLINLGKEKGFLTYDDLNSTLPADVVSSDQFSTIMTMFGEMDIEIVESAETERAPKAAE 70 Query: 92 SLDLASSASNSSVFLQKRKD-----SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + S K+ A TDDPVR+YL+EMGS+ LLSREGEI IAKRI Sbjct: 71 GEEAIEESEESEASEDNEKEIDLTPGALSRTDDPVRLYLKEMGSVALLSREGEIEIAKRI 130 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G+ + + P+T + ++ RD+L +G +REI+ Sbjct: 131 EEGKKDIATVVYGLPMTLEFVLNLRDQLKNGKIDVREIV 169 >gi|241663618|ref|YP_002981978.1| RNA polymerase sigma factor RpoD [Ralstonia pickettii 12D] gi|240865645|gb|ACS63306.1| RNA polymerase, sigma 70 subunit, RpoD [Ralstonia pickettii 12D] Length = 821 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 178/320 (55%), Positives = 237/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W+ +G+ + V V ++ +++ ++ + + Sbjct: 503 GMPRSDFVARFPGNETNLKWIETV--VADGKPYSTIVERNVPAVHELQQKLIDLQARVVL 560 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 561 PLAELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 620 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 621 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 680 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 681 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 740 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 741 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 800 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 801 ALRKLRHPSRSDKLKSFLEG 820 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/159 (36%), Positives = 87/159 (54%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V E +E VA L+++G+ V D + L + Sbjct: 209 KALIKLGKSRGYLTYAEINDHLPDDMVDVESLETLVATLNDIGVAVYEQAPDAETLLLND 268 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 269 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 327 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 328 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 366 >gi|309781724|ref|ZP_07676457.1| RNA polymerase sigma factor RpoD [Ralstonia sp. 5_7_47FAA] gi|308919365|gb|EFP65029.1| RNA polymerase sigma factor RpoD [Ralstonia sp. 5_7_47FAA] Length = 821 Score = 368 bits (945), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 178/320 (55%), Positives = 237/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W+ +G+ + V V ++ +++ ++ + + Sbjct: 503 GMPRSDFVARFPGNETNLKWIETV--VADGKPYSTIVERNVPAVHELQQKLIDLQARVVL 560 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 561 PLTELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 620 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 621 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 680 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 681 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 740 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 741 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 800 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 801 ALRKLRHPSRSDKLKSFLEG 820 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/159 (36%), Positives = 87/159 (54%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V E +E VA L+++G+ V D + L + Sbjct: 209 KALIKLGKSRGYLTYAEINDHLPDDMVDVESLETLVATLNDIGVAVYEQAPDAETLLLND 268 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 269 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 327 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 328 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 366 >gi|225874024|ref|YP_002755483.1| RNA polymerase sigma factor rpoD [Acidobacterium capsulatum ATCC 51196] gi|83356350|gb|ABC16653.1| major sigma factor RpoD [Acidobacterium capsulatum] gi|225793569|gb|ACO33659.1| RNA polymerase sigma factor rpoD [Acidobacterium capsulatum ATCC 51196] Length = 597 Score = 368 bits (944), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 170/273 (62%), Positives = 228/273 (83%) Query: 410 RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 + +++ + E G+SI++ + + +G+ +A AK+E++EANLRLV+S+AKKYTNRGLQ Sbjct: 321 KTDLEKLEEEAGLSIADLKRTQREIIQGDMDAEQAKRELIEANLRLVVSIAKKYTNRGLQ 380 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I Sbjct: 381 FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETI 440 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +K++RT+R++ ++ REPT EEIA+++ +PV VRKVLKI +EPISLETPIG+E+ SHLG Sbjct: 441 NKLIRTSRQLVQELGREPTSEEIARRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLG 500 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIED AVSP ++ I NL+E T++VL +LTPREERV++MRFG+ ++HTLEEVG+ F Sbjct: 501 DFIEDSQAVSPSEAVISVNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSF 560 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRERIRQIEAKA+RKL+HPSRS+KLR+F+D Sbjct: 561 QVTRERIRQIEAKALRKLRHPSRSRKLRAFVDN 593 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 52/161 (32%), Positives = 92/161 (57%), Gaps = 8/161 (4%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D ++ +K+I +++GY+T E+N +P D S E ++D + + GI++++G Sbjct: 43 DKYEEDLQKLIDAGKEKGYLTYNEVNDLIPGDMTSPEDLDDLMTTIGTQGIDILEGSPKL 102 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +G +D + L+K T+DPVRMYLREMG++ LL+REGE+ IAK Sbjct: 103 GNDGFDDEDSDDVELDLTPGTLEK--------TNDPVRMYLREMGTVPLLTREGEVEIAK 154 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G+ +M ++ SP+ + +I ++L G ++E++ Sbjct: 155 RIERGQLRVMKAVSRSPIVIREIIALGEDLRRGVRSVKEVV 195 >gi|167724581|ref|ZP_02407817.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei DM98] Length = 680 Score = 367 bits (943), Expect = 2e-99, Method: Compositional matrix adjust. Identities = 184/345 (53%), Positives = 245/345 (71%), Gaps = 9/345 (2%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGSETDLDWAE--KVAAEGHSYGA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 455 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 514 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+E Sbjct: 515 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISME 574 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTP E +VLRMRFGI M+ Sbjct: 575 TPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDVLDSLTPSEAKVLRMRFGIEMS 634 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 635 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 679 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 187 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 224 >gi|90407543|ref|ZP_01215725.1| RNA polymerase sigma factor RpoD [Psychromonas sp. CNPT3] gi|90311353|gb|EAS39456.1| RNA polymerase sigma factor RpoD [Psychromonas sp. CNPT3] Length = 610 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 199/408 (48%), Positives = 269/408 (65%), Gaps = 8/408 (1%) Query: 278 PKVMCALDEIAEVYRELRSLQDNAVNG-QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRID 336 PK C +E AE + ELR L + K ++ K + + L + D Sbjct: 206 PKGPCP-EESAEKFTELRRLNTIVEDMIAKHGRAHAKTRTAINAQAEFFQQFKLIPKQFD 264 Query: 337 LLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEG 393 +V+ + + E +L++ + + + F+ +G E + W+ YA E Sbjct: 265 RMVKTIRASMNMVRTQERLVLKICVEQNKMPKKAFISLFKGNETNKAWLDAIYAT---EK 321 Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E+ + + +++ ++ + +T ++I + I + GE +A AKKEMVEANL Sbjct: 322 EYAKRIKEFDEDLVRCIRKMALVETQTALTIINLKEISRKMSIGEAKARRAKKEMVEANL 381 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 382 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 441 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+M ++ R+P P+E+A+++ MP + +RKVLKI KEP Sbjct: 442 DQARTIRIPVHMIETINKLNRISRQMLQEMGRDPHPDELAERMMMPEDKIRKVLKIAKEP 501 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD++ SHLGDFIED P+D A +L+ T VL LT RE +VLRMRFG Sbjct: 502 ISMETPIGDDEDSHLGDFIEDTTIALPVDCATSESLKNATNEVLEGLTAREAKVLRMRFG 561 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 562 IDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 609 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 58/141 (41%), Positives = 86/141 (60%), Gaps = 6/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K++I +++G++T E+N LP D +EQ+ED + M+ +MGI V D D++ E Sbjct: 10 KELIIKGKEKGFLTYAEVNDHLPQDIFEAEQIEDIIQMIGDMGIKVYETAPDADEISLGE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ D + + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 ESNDTADEDAVEAAAQV-LATVESEIGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALI 168 G + S+ E P T L+ Sbjct: 128 EGIKEVQTSVSEYPGTITGLL 148 >gi|71065817|ref|YP_264544.1| putative sigma-70 factor (RpoD) [Psychrobacter arcticus 273-4] gi|71038802|gb|AAZ19110.1| putative sigma-70 factor (RpoD) [Psychrobacter arcticus 273-4] Length = 647 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 196/375 (52%), Positives = 256/375 (68%), Gaps = 4/375 (1%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKR 367 + S + E+L L LN D ++ ++D+ + +E +++RL G + R Sbjct: 273 RGSAQANEAYEQLASRFMMLKLNNRLSDQVMAIMHDVYDDVRKHERQIMRLVIRRGRMPR 332 Query: 368 DVFLERHQGRELDPHW-VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 + F + E + W + K P + + D ++ ++ I+ + + I + Sbjct: 333 EEFRKTFPSNETNVDWLIERIKGKPA--FAATLEKVTDDVILLQRAIRDYEHKLEMEIHD 390 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA + Sbjct: 391 MKDVARRMAIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 450 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ RE Sbjct: 451 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGRE 510 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PTPEE+ ++L M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A Sbjct: 511 PTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGTISSPVDDATA 570 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 A LRE T VL +LT RE RVL+MRFGI M TDHTLEEVGKQF VTRERIRQIEAKA+RK Sbjct: 571 AGLREATRDVLGNLTEREARVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRK 630 Query: 667 LKHPSRSKKLRSFLD 681 L+HPSRS+ LRSFL+ Sbjct: 631 LRHPSRSEHLRSFLE 645 >gi|221068481|ref|ZP_03544586.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni KF-1] gi|220713504|gb|EED68872.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni KF-1] Length = 815 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 198/412 (48%), Positives = 273/412 (66%), Gaps = 14/412 (3%) Query: 274 DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQS 333 ++L+ + + D + E++ ++ + D G E K + E+L+ + + + Sbjct: 412 EELKNEALGRFDSMRELFDKMHKVYDK--EGYGTEAYMKVQKAITEELMTIRFTAKTIEK 469 Query: 334 RIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 DL+ Q+ D+ K+ E EL ++ G+ ++ F++ L+ WV K Sbjct: 470 LCDLVRAQVDDVRKK----ERELRKIIVDKCGMPQEQFIKDFPPNLLNLDWV--IKQVAA 523 Query: 393 GEWKNFVAC---EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 G KN+ A + + +++ + + + + E +HI + GE + AKKEM+ Sbjct: 524 G--KNYSAVLERNIPPVQELQQNLIDLQARVVVPLEELKHINKRMNSGERASRDAKKEMI 581 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 582 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 641 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI Sbjct: 642 RSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKI 701 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTPRE +VLR Sbjct: 702 AKEPISMETPIGDDDDSHLGDFIEDGNNTAPIDAAMQAGLRDVVKDILDGLTPREAKVLR 761 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 762 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 813 Score = 102 bits (255), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 62/181 (34%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP V +E +E ++ML++MG+ V D + L Sbjct: 215 KMLIKLGKTRGYLTHAEINDHLPDKLVDAETLEVVISMLNDMGVAVYEQTPDAETLLLNN 274 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 275 TGQSATTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 333 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 334 GGLMDMMEAISASPATIAEILNMAEEIREGKVVISTVVD-----------GFVNANENDD 382 Query: 208 Y 208 Y Sbjct: 383 Y 383 >gi|299066184|emb|CBJ37368.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CMR15] Length = 777 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 177/320 (55%), Positives = 238/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 459 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQARVVL 516 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 517 PLAELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 576 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 577 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 636 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 637 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 696 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 697 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 756 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 757 ALRKLRHPSRSDKLKSFLEG 776 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 60/164 (36%), Positives = 92/164 (56%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V + + + Sbjct: 165 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYE------QAPDAE 218 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L +A + + + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 219 TLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 278 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIEAG M+ ++ P+T ++ + + + + E ID Sbjct: 279 AKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 322 >gi|313668077|ref|YP_004048361.1| RNA polymerase sigma factor [Neisseria lactamica ST-640] gi|313005539|emb|CBN86975.1| RNA polymerase sigma factor [Neisseria lactamica 020-06] Length = 642 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 59/188 (31%), Positives = 103/188 (54%), Gaps = 17/188 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|300310204|ref|YP_003774296.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] gi|300072989|gb|ADJ62388.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 850 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 178/318 (55%), Positives = 237/318 (74%), Gaps = 1/318 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 + R F++ G E++ WV + ++ ++ V +I +++ ++ + + + Sbjct: 533 MPRAHFIKVFPGNEVNLDWVD-GEVAANHDYSAVLSRNVPAIKELQQKLIDLQARVVLPL 591 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + R I + GE +A +AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 592 QDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 651 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 652 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETG 711 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP P +A K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P D+A Sbjct: 712 AEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTLAPADAA 771 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + A++R +L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 772 LHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKAL 831 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HPSRS KL+SFL+G Sbjct: 832 RKLRHPSRSDKLKSFLEG 849 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 59/158 (37%), Positives = 89/158 (56%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +IKL ++RG++T E+N LP + V E +E + S+MGI+V + D E S+ Sbjct: 236 KTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIGTFSDMGISVYEHAPDAETLLLSD 295 Query: 91 DSLDLASSASNSSVFLQKRK--DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ++AS + DS T DPVRMY+REMGS+ELL+REGEI IAKRIE Sbjct: 296 NVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIED 355 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + ++ + EI+D Sbjct: 356 GLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIVD 393 >gi|194290318|ref|YP_002006225.1| RNA polymerase sigma factor rpod [Cupriavidus taiwanensis LMG 19424] gi|193224153|emb|CAQ70162.1| RNA POLYMERASE SIGMA D (SIGMA-70) FACTOR TRANSCRIPTION REGULATOR PROTEIN [Cupriavidus taiwanensis LMG 19424] Length = 683 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 178/319 (55%), Positives = 236/319 (73%), Gaps = 1/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G+ R F+ R G E + W+ +G + V V ++ +++ ++ + + Sbjct: 365 GMPRADFVARFPGNETNLEWIHTVVADGKG-YSTIVERNVPAVHELQQKLIDLQARVVLP 423 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 424 LKELKDVNRKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 483 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 484 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQET 543 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P ++ Sbjct: 544 GNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAEA 603 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ ++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA Sbjct: 604 ALHGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKA 663 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HPSRS KL+SFL+G Sbjct: 664 LRKLRHPSRSDKLKSFLEG 682 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 13/163 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V SE ++ VA L+++GI V E +E Sbjct: 69 KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAV-----YEQAPDAET 123 Query: 92 SL--DLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L D A SA++ ++ + DS T DPVRMY+REMG++ELL+REGEI IA Sbjct: 124 LLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIA 183 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIEAG M+ ++ P+T ++ + + + + E +D Sbjct: 184 KRIEAGLKDMVMAISACPVTISEILAHAERVANDEIKIDEFVD 226 >gi|300703499|ref|YP_003745101.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CFBP2957] gi|299071162|emb|CBJ42476.1| RNA polymerase sigma70 factor [Ralstonia solanacearum CFBP2957] Length = 873 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 177/320 (55%), Positives = 238/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 555 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQSRVVL 612 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 613 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 672 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 673 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 732 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 733 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 792 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 793 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 852 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 853 ALRKLRHPSRSDKLKSFLEG 872 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V D + L + Sbjct: 262 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLND 321 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 322 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 380 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 381 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 419 >gi|240080942|ref|ZP_04725485.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] gi|268597061|ref|ZP_06131228.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] gi|268550849|gb|EEZ45868.1| RNA polymerase sigma factor RpoD [Neisseria gonorrhoeae FA19] Length = 642 Score = 367 bits (943), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 182/319 (57%), Positives = 236/319 (73%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADV 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACP 157 >gi|298369314|ref|ZP_06980632.1| RNA polymerase sigma factor RpoD [Neisseria sp. oral taxon 014 str. F0314] gi|298283317|gb|EFI24804.1| RNA polymerase sigma factor RpoD [Neisseria sp. oral taxon 014 str. F0314] Length = 648 Score = 367 bits (942), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 186/318 (58%), Positives = 234/318 (73%), Gaps = 5/318 (1%) Query: 367 RDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 RD F+ D +W+ AK E W + +IL+ + E+ + ET ISI Sbjct: 329 RDYFIRNFLPVITDLNWLENEIAK---ENAWSGALDRFRHAILEKQTELAEMEKETRISI 385 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 386 GELKDINKNMVISEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 445 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 446 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETG 505 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+A Sbjct: 506 EEPDSAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDINNVAPADAA 565 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + ++L E T VL SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 566 MYSSLHEVTKEVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 625 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HP+RS +LRSFLD Sbjct: 626 RKLRHPTRSDRLRSFLDS 643 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 61/191 (31%), Positives = 107/191 (56%), Gaps = 20/191 (10%) Query: 14 EHEDSDDS--LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 E+ D DD+ L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S Sbjct: 7 EYHDQDDNRPLTVEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMIS 66 Query: 72 NMGINVV----DGDD--LEDEEGS---EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +GI V D +D L D + +D+++ A +A +S+ DS T DPVR Sbjct: 67 GLGIQVTEQAPDAEDILLSDNAATITDDDAVEEAEAALSSA-------DSEFGRTTDPVR 119 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + + Sbjct: 120 MYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSVAEILALIEQVRNDEIRVD 179 Query: 183 EIIDLEACIGP 193 E++ EA I P Sbjct: 180 EVV--EAIIDP 188 >gi|94311542|ref|YP_584752.1| RNA polymerase sigma factor RpoD [Cupriavidus metallidurans CH34] gi|93355394|gb|ABF09483.1| RNA polymerase sigma D factor (housekeeping sigma factor) [Cupriavidus metallidurans CH34] Length = 855 Score = 367 bits (942), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 178/320 (55%), Positives = 236/320 (73%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W+ + D + V V ++ +++ ++ + + Sbjct: 537 GMPRADFVARFPGNETNLDWIQTIVAD--NKSYSTIVERNVPAVHELQQKLIDLQSRVVL 594 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 595 PLKELKDVNRKMSEGEKRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 654 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 655 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 714 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 715 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 774 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 775 AALDGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 834 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 835 ALRKLRHPSRSDKLKSFLEG 854 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 13/163 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V SE ++ VA L+++GI V E +E Sbjct: 241 KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAV-----YEQAPDAET 295 Query: 92 SL--DLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L D A SA++ ++ + DS T DPVRMY+REMG++ELL+REGEI IA Sbjct: 296 LLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIA 355 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIEAG M+ ++ P+T ++ + + + + E +D Sbjct: 356 KRIEAGLKDMVMAISACPVTISEILASAERVANEEIKIDEFVD 398 >gi|121595443|ref|YP_987339.1| RpoD family RNA polymerase sigma factor [Acidovorax sp. JS42] gi|120607523|gb|ABM43263.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax sp. JS42] Length = 797 Score = 367 bits (942), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 188/348 (54%), Positives = 246/348 (70%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 D++ Q+ D+ K E EL R+ G+ ++ F++ L+ WV K G+ Sbjct: 454 DMVRAQVDDVRKM----ERELRRIIVDKCGMPQETFIKEFPANLLNLQWVE--KQAAAGK 507 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W + + I +++ ++ + + +SE + I + GE + AKKEM+EANL Sbjct: 508 PWSAVMQRNIPPIQELQQKLIDLQARVVVPLSELKEINKRMNAGEASSRDAKKEMIEANL 567 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 568 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 627 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI KEP Sbjct: 628 DQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKIAKEP 687 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTPRE +VLRMRFG Sbjct: 688 ISMETPIGDDDDSHLGDFIEDSNNTAPVDAAMQAGLRDVVKDILDGLTPREAKVLRMRFG 747 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 748 IEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 795 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 64/181 (35%), Positives = 94/181 (51%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 KK+I L + RGY+T E++ LP V +E ME VAML +MG+ V D + L Sbjct: 197 KKLITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVAMLGDMGVAVYEQTPDAETLFQNN 256 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG +ELL+REGEI IAKRIE Sbjct: 257 VTPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGKVELLTREGEIEIAKRIE 315 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 316 GGLMDMMEAISASPATIAEILNMGEEIREGKVVISTVVD-----------GFSNPNEADD 364 Query: 208 Y 208 Y Sbjct: 365 Y 365 >gi|73540591|ref|YP_295111.1| RNA polymerase sigma factor RpoD [Ralstonia eutropha JMP134] gi|72118004|gb|AAZ60267.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 783 Score = 367 bits (942), Expect = 3e-99, Method: Compositional matrix adjust. Identities = 180/321 (56%), Positives = 236/321 (73%), Gaps = 5/321 (1%) Query: 364 GIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 G+ R F+ R G E + WV A P + V V ++ +++ ++ + Sbjct: 465 GMPRSDFVARFPGNETNLDWVGTIVADGKP---YSTIVERNVPAVHELQQKLIDLQSRVV 521 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 522 LPLKELKGVNRKMAEGEKRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 581 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 582 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQ 641 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P Sbjct: 642 ETGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPA 701 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++A+ ++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEA Sbjct: 702 EAALHGSMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEA 761 Query: 662 KAIRKLKHPSRSKKLRSFLDG 682 KA+RKL+HPSRS KL+SFL+G Sbjct: 762 KALRKLRHPSRSDKLKSFLEG 782 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 61/145 (42%), Positives = 86/145 (59%), Gaps = 13/145 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V SE ++ VA L+++GI V E +E Sbjct: 170 KALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAV-----YEQAPDAET 224 Query: 92 SL--DLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L D A SA++ ++ + DS T DPVRMY+REMG++ELL+REGEI IA Sbjct: 225 LLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIVIA 284 Query: 144 KRIEAGRAMMMASLCESPLTFQALI 168 KRIEAG M+ ++ P+T ++ Sbjct: 285 KRIEAGLKDMVMAISACPVTISEIL 309 >gi|17546934|ref|NP_520336.1| RNA polymerase sigma factor RpoD [Ralstonia solanacearum GMI1000] gi|17429234|emb|CAD15922.1| probable rna polymerase sigma d (sigma-70) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 755 Score = 367 bits (942), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 177/320 (55%), Positives = 238/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 437 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQARVVL 494 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 495 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 554 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 555 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 614 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 615 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 674 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 675 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 734 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 735 ALRKLRHPSRSDKLKSFLEG 754 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 60/164 (36%), Positives = 92/164 (56%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V + + + Sbjct: 142 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYE------QAPDAE 195 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L +A + + + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 196 TLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 255 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIEAG M+ ++ P+T ++ + + + + E ID Sbjct: 256 AKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 299 >gi|121635207|ref|YP_975452.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis FAM18] gi|120866913|emb|CAM10672.1| RNA polymerase sigma factor [Neisseria meningitidis FAM18] Length = 658 Score = 367 bits (942), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 337 MERDYFIQNFLPEITNLEWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 394 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 395 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 454 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 455 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 514 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 515 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 574 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 575 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 634 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 635 LRKLRHPTRSDRLRSFLDS 653 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 62/200 (31%), Positives = 109/200 (54%), Gaps = 20/200 (10%) Query: 2 TIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSE 61 T+ K +N + E++D L + +++I + ++RGY+T E+N LP D ++ Sbjct: 16 TMSKNQNHE---EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDAD 72 Query: 62 QMEDTVAMLSNMGINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSA 113 Q+++ V+M+S +GI V D +D L D +D+++ A +A +S+ DS Sbjct: 73 QIDNIVSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSE 125 Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDE 173 T DPVRMY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ ++ Sbjct: 126 FGRTTDPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEK 185 Query: 174 LNDGTTLLREIIDLEACIGP 193 + + E++ EA I P Sbjct: 186 IRKDEIRVDEVV--EAIIDP 203 >gi|264677331|ref|YP_003277237.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni CNB-2] gi|262207843|gb|ACY31941.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni CNB-2] Length = 815 Score = 367 bits (942), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 198/412 (48%), Positives = 273/412 (66%), Gaps = 14/412 (3%) Query: 274 DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQS 333 ++L+ + + D + E++ ++ + D G E K + E+L+ + + + Sbjct: 412 EELKNEALGRFDSMRELFDKMHKVYDK--EGYGTEAYMKVQKAITEELMTIRFTAKTIEK 469 Query: 334 RIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 DL+ Q+ D+ K+ E EL ++ G+ ++ F++ L+ WV K Sbjct: 470 LCDLVRAQVDDVRKK----ERELRKIIVDKCGMPQEQFIKDFPPNLLNLDWV--IKQVAA 523 Query: 393 GEWKNFVAC---EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 G KN+ A + + +++ + + + + E +HI + GE + AKKEM+ Sbjct: 524 G--KNYSAVLERNIPPVQELQQNLIDLQARVVVPLEELKHINKRMNSGERASRDAKKEMI 581 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 582 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 641 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI Sbjct: 642 RSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKI 701 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTPRE +VLR Sbjct: 702 AKEPISMETPIGDDDDSHLGDFIEDGNNTAPIDAAMQAGLRDVVKDILDGLTPREAKVLR 761 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 762 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 813 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 62/181 (34%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP V +E +E ++ML++MG+ V D + L Sbjct: 215 KMLIKLGKTRGYLTHAEINDHLPDKLVDAETLEVVISMLNDMGVAVYEQTPDAETLLLNN 274 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 275 TGQSATTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 333 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 334 GGLMDMMEAISASPATIAEILNMAEEIREGKVVISTVVD-----------GFVNANENDD 382 Query: 208 Y 208 Y Sbjct: 383 Y 383 >gi|309378741|emb|CBX22691.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 642 Score = 367 bits (942), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMERETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 59/188 (31%), Positives = 103/188 (54%), Gaps = 17/188 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDAHPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|325130608|gb|EGC53353.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis OX99.30304] gi|325142722|gb|EGC65100.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis 961-5945] gi|325198658|gb|ADY94114.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis G2136] gi|325201773|gb|ADY97227.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240149] gi|325208475|gb|ADZ03927.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis NZ-05/33] Length = 642 Score = 367 bits (942), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLEWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 61/195 (31%), Positives = 108/195 (55%), Gaps = 18/195 (9%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 RN++ + E++D L + +++I + ++RGY+T E+N LP D ++Q+++ Sbjct: 3 RNQNHE-EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNI 61 Query: 67 VAMLSNMGINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTD 118 V+M+S +GI V D +D L D +D+++ A +A +S+ DS T Sbjct: 62 VSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTT 114 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPVRMY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ Sbjct: 115 DPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDE 174 Query: 179 TLLREIIDLEACIGP 193 + E++ EA I P Sbjct: 175 IRVDEVV--EAIIDP 187 >gi|299533869|ref|ZP_07047236.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni S44] gi|298718153|gb|EFI59143.1| RNA polymerase, sigma 70 subunit, RpoD [Comamonas testosteroni S44] Length = 815 Score = 367 bits (941), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 198/412 (48%), Positives = 273/412 (66%), Gaps = 14/412 (3%) Query: 274 DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQS 333 ++L+ + + D + E++ ++ + D G E K + E+L+ + + + Sbjct: 412 EELKNEALGRFDSMRELFDKMHKVYDK--EGYGTEAYMKVQKAITEELMTIRFTAKTIEK 469 Query: 334 RIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 DL+ Q+ D+ K+ E EL ++ G+ ++ F++ L+ WV K Sbjct: 470 LCDLVRAQVDDVRKK----ERELRKIIVDKCGMPQEQFIKDFPPNLLNLDWV--IKQVAA 523 Query: 393 GEWKNFVAC---EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 G KN+ A + + +++ + + + + E +HI + GE + AKKEM+ Sbjct: 524 G--KNYSAVLERNIPPVQELQQNLIDLQARVVVPLEELKHINKRMNSGERASRDAKKEMI 581 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 582 EANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 641 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 RSIADQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI Sbjct: 642 RSIADQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKI 701 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 KEPIS+ETPIGD+D SHLGDFIED N +P+D+A+QA LR+ +L LTPRE +VLR Sbjct: 702 AKEPISMETPIGDDDDSHLGDFIEDGNNTAPIDAAMQAGLRDVVKDILDGLTPREAKVLR 761 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 MRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 762 MRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 813 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 62/181 (34%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP V +E +E ++ML++MG+ V D + L Sbjct: 215 KMLIKLGKTRGYLTHAEINDHLPDKLVDAETLEVVISMLNDMGVAVYEQTPDAETLLLNN 274 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 275 TGQSATTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 333 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 334 GGLMDMMEAISASPATIAEILNMAEEIREGKVVISTVVD-----------GFVNANENDD 382 Query: 208 Y 208 Y Sbjct: 383 Y 383 >gi|161870399|ref|YP_001599571.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis 053442] gi|218768518|ref|YP_002343030.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis Z2491] gi|254805303|ref|YP_003083524.1| RNA polymerase sigma factor [Neisseria meningitidis alpha14] gi|304387052|ref|ZP_07369304.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria meningitidis ATCC 13091] gi|121052526|emb|CAM08865.1| RNA polymerase sigma factor [Neisseria meningitidis Z2491] gi|161595952|gb|ABX73612.1| RNA polymerase primary sigma factor [Neisseria meningitidis 053442] gi|254668845|emb|CBA06900.1| RNA polymerase sigma factor [Neisseria meningitidis alpha14] gi|254669783|emb|CBA04064.1| RNA polymerase sigma factor 70 [Neisseria meningitidis alpha153] gi|304338851|gb|EFM04953.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria meningitidis ATCC 13091] gi|308389681|gb|ADO32001.1| RNA polymerase sigma factor [Neisseria meningitidis alpha710] gi|319410767|emb|CBY91151.1| RNA polymerase sigma factor RpoD (Sigma-70) [Neisseria meningitidis WUE 2594] gi|325128589|gb|EGC51459.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis N1568] gi|325132679|gb|EGC55363.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M6190] gi|325134647|gb|EGC57287.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M13399] gi|325136570|gb|EGC59171.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M0579] gi|325138535|gb|EGC61098.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis ES14902] gi|325204514|gb|ADY99967.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240355] Length = 642 Score = 367 bits (941), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLEWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 59/188 (31%), Positives = 103/188 (54%), Gaps = 17/188 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|116620135|ref|YP_822291.1| RpoD family RNA polymerase sigma factor [Candidatus Solibacter usitatus Ellin6076] gi|116223297|gb|ABJ82006.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Solibacter usitatus Ellin6076] Length = 563 Score = 367 bits (941), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 191/382 (50%), Positives = 269/382 (70%), Gaps = 20/382 (5%) Query: 309 KSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA--QSYGIK 366 K +++C+ +KL+ + + Q R QL+++++ I+ L R QS I+ Sbjct: 187 KKTLQCR---QKLMAIPRGMKPKQYR-----RQLWEVARLIVRT-ARLCRAVKFQSPVIR 237 Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNE-------IKSISVE 419 + R EL P AK + + + + A ++I +R E ++ + + Sbjct: 238 HLIDRLRSAVEELRPVENDLAKT--QRKLETWPAARAEAIKDLRKEQRSYGQKLQQMEEQ 295 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G S +E R + ++ + EA AKKE++EANLRLV+S+AK+YTNRGLQFLDLIQEGNI Sbjct: 296 YGASAAELRRTLEIITQAHQEAETAKKELIEANLRLVVSIAKRYTNRGLQFLDLIQEGNI 355 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WWV+QAITR+IADQ+ TIRIPVHM + I+K++RT+R+M Sbjct: 356 GLMKAVDKFEYRRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETINKLIRTSRQM 415 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ REP+ EE+AK+L +PV VRKVL++ +EPISLETPIG+E+ SHLGDFI D+N +S Sbjct: 416 VQELGREPSNEELAKRLQLPVSKVRKVLRVAQEPISLETPIGEEEESHLGDFIVDQNGIS 475 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P D+ I NLRE T +VL +LTPREE++++MRFG+ ++HTLEEVG+ F VTRERIRQI Sbjct: 476 PSDAVINLNLREQTAQVLKTLTPREEKIIKMRFGLEDGSEHTLEEVGQNFAVTRERIRQI 535 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKL+HPSRS +LR+FL+ Sbjct: 536 EAKALRKLRHPSRSHRLRAFLE 557 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 51/166 (30%), Positives = 90/166 (54%), Gaps = 8/166 (4%) Query: 22 LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD 81 + D D ++++++ +++GYV +E++ LP D ++D +A L GI ++ Sbjct: 1 MALDDKYDGLQRLVQMGKEKGYVLYDEVSEVLPGDINGGNDLDDVLAGLDVAGIEIL--- 57 Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 E +D +S + L+ +DPVRMYLREMG++ LL+REGE+ Sbjct: 58 -----EEPKDFEKKIEESSEELIDLELPAGLGGEKINDPVRMYLREMGTVPLLTREGEVE 112 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 IA+RIE G+ ++ SL +PL Q +I +E+ + T R++I + Sbjct: 113 IARRIERGQNTVLKSLFRAPLVVQEIIGMGEEVINDTLSARDVIQI 158 >gi|15677390|ref|NP_274545.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis MC58] gi|7226783|gb|AAF41893.1| RNA polymerase sigma factor RpoD [Neisseria meningitidis MC58] gi|261392218|emb|CAX49733.1| RNA polymerase sigma factor RpoD (Sigma-70) [Neisseria meningitidis 8013] gi|316985995|gb|EFV64932.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis H44/76] gi|325140674|gb|EGC63190.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis CU385] gi|325144806|gb|EGC67096.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M01-240013] gi|325199861|gb|ADY95316.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis H44/76] gi|325205715|gb|ADZ01168.1| RNA polymerase sigma factor rpoD [Neisseria meningitidis M04-240196] Length = 642 Score = 367 bits (941), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLEWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.0 bits (214), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 61/195 (31%), Positives = 108/195 (55%), Gaps = 18/195 (9%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 RN++ + E++D L + +++I + ++RGY+T E+N LP D ++Q+++ Sbjct: 3 RNQNHE-EYQDDTRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNI 61 Query: 67 VAMLSNMGINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTD 118 V+M+S +GI V D +D L D +D+++ A +A +S+ DS T Sbjct: 62 VSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTT 114 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPVRMY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ Sbjct: 115 DPVRMYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDE 174 Query: 179 TLLREIIDLEACIGP 193 + E++ EA I P Sbjct: 175 IRVDEVV--EAIIDP 187 >gi|254672481|emb|CBA05947.1| RNA polymerase sigma factor 70 [Neisseria meningitidis alpha275] Length = 642 Score = 367 bits (941), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLEWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 59/188 (31%), Positives = 103/188 (54%), Gaps = 17/188 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDTRPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|320105405|ref|YP_004180995.1| RpoD subfamily RNA polymerase sigma-70 factor [Terriglobus saanensis SP1PR4] gi|319923926|gb|ADV81001.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Terriglobus saanensis SP1PR4] Length = 567 Score = 367 bits (941), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 184/341 (53%), Positives = 254/341 (74%), Gaps = 12/341 (3%) Query: 345 ISKRIMHNEGELLRLAQSYGIKRDVF--LERHQGRELDPHWVSYAKDFPEGEWKNFVA-C 401 I + + + GE RL D LER Q ++LD + + + + E+K C Sbjct: 232 IVRELKYTNGEKKRLLDKVNKTVDAMRTLER-QIKQLDAKFEASKSEELKKEYKRQQKNC 290 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 +VD + + V+ G+++ + + + +G+ +A AK+E++EANLRLV+S+AK Sbjct: 291 KVD--------LDRLEVDAGLTVEDLKRTQREMIQGDMDAEKAKRELIEANLRLVVSIAK 342 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRI Sbjct: 343 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRI 402 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM + I+K++RT+R++ ++ RE + EEIA+++ +PV VRKVLKI +EPISLETPIG Sbjct: 403 PVHMIETINKLIRTSRQLVQELGREASSEEIARRMDIPVAKVRKVLKIAQEPISLETPIG 462 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 +E+ SHLGDFIED+ AVSP D+ I NL+E T++VL +LTPREERV++MRFG+ ++HT Sbjct: 463 EEEDSHLGDFIEDRMAVSPSDAVISVNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHT 522 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LEEVG+ F VTRERIRQIEAKA+RKL+HPSRS+KL++F+DG Sbjct: 523 LEEVGQSFQVTRERIRQIEAKALRKLRHPSRSRKLKAFVDG 563 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 53/161 (32%), Positives = 94/161 (58%), Gaps = 22/161 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD-------LED 85 +++ +++GY+T E+N LP D + + ++D + ++ GI+V+ G+D E+ Sbjct: 14 RIVDTGKEKGYLTYGEVNDLLPGDITTPDDLDDLLTTINTQGIDVLGGEDKFDARDKYEE 73 Query: 86 EEGSED-SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +E S+D LDL L+K T+DPVRMYLREMG++ LL+REGE+ IAK Sbjct: 74 QEESDDVELDLTPGQ------LEK--------TNDPVRMYLREMGTVPLLTREGEVEIAK 119 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 RIE G+ +M ++ S + + ++ ++L G ++E++ Sbjct: 120 RIERGQLRVMKAISRSSIVIREIMGLGEDLKRGVRNVKEVV 160 >gi|225851205|ref|YP_002731439.1| RNA polymerase sigma factor RpoD (Sigma-70) [Persephonella marina EX-H1] gi|225645895|gb|ACO04081.1| RNA polymerase sigma factor RpoD (Sigma-70) [Persephonella marina EX-H1] Length = 577 Score = 367 bits (941), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 205/449 (45%), Positives = 302/449 (67%), Gaps = 14/449 (3%) Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 AKV+ D R KV N +++E + +++ D A + A+ K + +A +YRE Sbjct: 137 AKVA-DGRMKVKDII-NIDSNEYDTEDESYDEAEVMDAITKDFIQKGLT----LAHMYRE 190 Query: 294 LRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 LR L+ + D + + K+ + + SL++ +++D + ++L ++ ++ E Sbjct: 191 LRDLEQAIIENPDDVELKKEFIEKHAKVNRFIKSLNIKFTKLDKIADELKELYMKLKRKE 250 Query: 354 GEL-LRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD--FPEGEWKNFVACEVDSILKIR 410 +L R+ + I DV + +G DP + ++ F G ++ + E LK++ Sbjct: 251 KDLNKRIKRLQKIDPDV-EKLLKGDYDDPEILKKIEENGFSFGRFE-ILRTET---LKLQ 305 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 EI+ + G +EF H+++++++G E + K+++V++NLRLV+S+AKKYTNRGLQF Sbjct: 306 EEIEELKEMIGTVPTEFDHVINIIQEGRKEVNETKQKIVQSNLRLVVSIAKKYTNRGLQF 365 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+ Sbjct: 366 LDLIQEGNIGLMKAVDKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETIN 425 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+VR AR M ++ REPTPEEIAKK+ MP E VRK+L+ ++EPISLETPIGD+D SHLGD Sbjct: 426 KLVRVARSMVQELGREPTPEEIAKKVGMPPEKVRKILRTSQEPISLETPIGDDDESHLGD 485 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDK +SP ++ LR+ VL++L+ REE+VLR RFG+ +T++TLE+VGK+F Sbjct: 486 FIEDKTVMSPEQHVLRQALRQQLEEVLSTLSEREEQVLRYRFGLEDDTEYTLEQVGKKFG 545 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 VTRERIRQIEAKA+RKL+HP R+K LR F Sbjct: 546 VTRERIRQIEAKALRKLRHPHRAKYLRPF 574 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/227 (29%), Positives = 113/227 (49%), Gaps = 29/227 (12%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +K+I LA+++GYVT +EL+ + D + S+++E + L+ + I+V++ E+ G Sbjct: 6 DDVRKVIMLAKEKGYVTYKELSEIIDEDLLLSDELEQLIEYLNELNIDVIEEAKPEEFSG 65 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 D L + S D A TDDPV++YL+EMG I LL+R+ EI +AK IE Sbjct: 66 ESDYLGINFS------------DDAWAKTDDPVKLYLKEMGKIPLLTRDEEIKLAKDIER 113 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL-------------EACIGPES 195 GR + L + + L+ ++ DG +++II++ EA + Sbjct: 114 GRKKVFRGLLRTSFLAERLLDEWAKVADGRMKVKDIINIDSNEYDTEDESYDEAEVMDAI 173 Query: 196 KGGFFHG--TEGHSYQKREDSSQE--KERDDVQETEGDIESAAKVSK 238 F T H Y++ D Q + DDV+ + IE AKV++ Sbjct: 174 TKDFIQKGLTLAHMYRELRDLEQAIIENPDDVELKKEFIEKHAKVNR 220 >gi|308270755|emb|CBX27365.1| RNA polymerase sigma factor rpoD [uncultured Desulfobacterium sp.] Length = 568 Score = 367 bits (941), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 181/299 (60%), Positives = 227/299 (75%), Gaps = 14/299 (4%) Query: 397 NFVACE-------VDSILKIRNEIKSISV-------ETGISISEFRHIVSMVRKGECEAS 442 NF+ C D IL I +EI S + + ++S V +G A Sbjct: 269 NFLKCARSSCKLGKDDILSIYDEINKYSSMIDENEKKIRTDCQALKKVMSSVAEGRLNAK 328 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK E+ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 329 IAKSELTRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 388 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + + REP+PEEIA+K+ +P+E Sbjct: 389 WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEQGREPSPEEIAEKMEIPLEK 448 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VRKVLKI +EPISLETPIG+E+ SHLGDFIEDK + P D+AI NL E T +VLA+LTP Sbjct: 449 VRKVLKIAREPISLETPIGEEEDSHLGDFIEDKKFMLPSDAAINQNLAEQTRKVLATLTP 508 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLRMRFGIG DHTLEEVG+ F VTRERIRQIEAKA+RKL+HP+RS+KL++F++ Sbjct: 509 REEKVLRMRFGIGERADHTLEEVGQDFQVTRERIRQIEAKALRKLRHPTRSRKLKNFIE 567 Score = 67.4 bits (163), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 41/141 (29%), Positives = 77/141 (54%), Gaps = 20/141 (14%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG------DDLEDEE 87 +I +++GY+T ++LN + + +S +++++T +L + I ++D DD +E Sbjct: 3 LISKGKKQGYITYDDLNEEMSDNIISIDKLDETFEVLDSNDIEIIDDNGKKADDDKTADE 62 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +LA A+N + DPV+MYL EM + LLSREGE+ IAK+IE Sbjct: 63 KKANQSELA--AANFG------------TVTDPVKMYLHEMSLVTLLSREGEVDIAKKIE 108 Query: 148 AGRAMMMASLCESPLTFQALI 168 G ++ ++ +P+ + +I Sbjct: 109 DGEQEVLKAMVSTPIGMECII 129 >gi|171320298|ref|ZP_02909351.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171094445|gb|EDT39506.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 338 Score = 366 bits (940), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 182/320 (56%), Positives = 235/320 (73%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E D W K EG + ++ + +I + + + + + Sbjct: 20 GMPRSEFIARFPGSETDLDWAE--KIAAEGHSYSAVLSRNIPAIREQQQRLLDLQARVVL 77 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + + + + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 78 PLKDLKETNRQMAAGELKARQAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 137 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 138 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 197 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D Sbjct: 198 TGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTVAPAD 257 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ A++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 258 AALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 317 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 318 ALRKLRHPSRSDKLKSFLEG 337 >gi|254469018|ref|ZP_05082424.1| sigma 70 [beta proteobacterium KB13] gi|207087828|gb|EDZ65111.1| sigma 70 [beta proteobacterium KB13] Length = 658 Score = 366 bits (940), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 175/278 (62%), Positives = 223/278 (80%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 SIL + ++K + +GI I F+ I + +GE A AK+EM+EANLRLVIS+AKKYT Sbjct: 379 SILDQQAQLKELEDFSGIPIKNFKEINRQMTRGESRARRAKREMIEANLRLVISIAKKYT 438 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 439 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 498 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R++ +EP P +A+K+ MP + +RK+LKI+KEPIS+ETPIGD++ Sbjct: 499 MIETINKMNRISRQILQATGQEPEPAVLAEKMEMPEDKIRKILKISKEPISMETPIGDDE 558 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED ++P D+A+ ++LR T +L LTPRE +VLRMRFGI MNTDHTLEE Sbjct: 559 DSHLGDFIEDLGTLTPDDAAVYSSLRNVTNEILEGLTPREAKVLRMRFGIEMNTDHTLEE 618 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VGKQF VTRERIRQIEAKA+RKL+HP+RS +L+SFL+G Sbjct: 619 VGKQFDVTRERIRQIEAKALRKLRHPTRSDRLKSFLEG 656 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 57/172 (33%), Positives = 92/172 (53%), Gaps = 16/172 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVS-SEQMEDTVAMLSNMGINVVDGDDLEDEE 87 + K +I L ++RGY+T E+N LP DE+S ++Q+++ ++++ +MGI D E + Sbjct: 44 NQLKALIILGKERGYLTHAEINDHLP-DEISETDQVDEIISIIHDMGIRTYD----EAPD 98 Query: 88 GSEDSLDLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +D A + ++ + DS T DPVRMY+REMG + LL ++ EI Sbjct: 99 AENLLMDDAPAPVTDEEAAEEAEQALATVDSEFGRTTDPVRMYMREMGKVGLLDKKEEIE 158 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE----IIDLEA 189 IAKRIE G M+ ++ P L+ D++ G + E +IDLEA Sbjct: 159 IAKRIEDGLKHMVQAISACPGIIDDLMQMGDKVKAGELSVDEFVDGLIDLEA 210 >gi|251771800|gb|EES52375.1| RNA polymerase, sigma 70 subunit, RpoD [Leptospirillum ferrodiazotrophum] Length = 590 Score = 366 bits (940), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 185/369 (50%), Positives = 264/369 (71%), Gaps = 12/369 (3%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 K K ++ ++V+++ + L Q +I++L+E+L D+ + E L + + G+ D L Sbjct: 233 KVKKIRHEVVEVILEMHLQQRQINILIEKLRDVVGQFEETERTLDQCRRRIGLPVDEILA 292 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 + + + K+ ++ F K I S+ ET +S SE + + Sbjct: 293 KLSEKPKKSKLSAEKKEL----YEQFS--------KAHERILSLEAETFLSPSEAKESLQ 340 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + +GE + AK E+++ANLRLV+S+AK+YTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 341 QIIRGEEKVREAKSELIKANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYKR 400 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REP PEE+ Sbjct: 401 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRHLVQELGREPLPEEL 460 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK++ MPV+ VR+VLKI +EPISLETPIG+E+ SHLGDFIEDK +SP+++A++ +L Sbjct: 461 AKEMQMPVDKVRRVLKIAREPISLETPIGEEEDSHLGDFIEDKKTISPIEAAVRYDLVRK 520 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L++LT REE+V+R+RFGIG TDHTLEEVG+ F VTRERIRQIEAKA+RKL+HPSR Sbjct: 521 IGQSLSTLTDREEKVIRLRFGIGELTDHTLEEVGQDFDVTRERIRQIEAKALRKLRHPSR 580 Query: 673 SKKLRSFLD 681 S +L+SFLD Sbjct: 581 SNQLKSFLD 589 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 55/153 (35%), Positives = 89/153 (58%), Gaps = 9/153 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RGY+T +ELN LP + V SE+M+ ++ +M I++V+ + E + Sbjct: 11 KDLITLGKERGYLTYDELNHALPSETVDSEEMDSILSYFGDMNIDIVEDEADHVEFTEAE 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---------TDDPVRMYLREMGSIELLSREGEIAI 142 + L++ D+ D S TDDPVR+YL+EMGS+ LL+REGEI I Sbjct: 71 GEEEELFEEIEITALEEEADTEDLSDGIAAAGVRTDDPVRLYLKEMGSVPLLTREGEIKI 130 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 A+RIE G+ + + L PL+ Q+++ RD++ Sbjct: 131 AQRIEEGKTEVFSFLFGVPLSIQSILGLRDKIQ 163 >gi|222111657|ref|YP_002553921.1| RNA polymerase sigma-70 subunit RpoD [Acidovorax ebreus TPSY] gi|221731101|gb|ACM33921.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax ebreus TPSY] Length = 801 Score = 366 bits (940), Expect = 6e-99, Method: Compositional matrix adjust. Identities = 187/348 (53%), Positives = 247/348 (70%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 D++ Q+ D+ K+ E EL R+ G+ ++ F++ L+ WV K G+ Sbjct: 458 DMVRAQVDDVRKK----ERELRRIIVDKCGMPQETFIKDFPANLLNLQWVE--KQAAAGK 511 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W + + I +++ ++ + + +SE + I + GE + AKKEM+EANL Sbjct: 512 PWSAVMQRNIPPIQELQQKLMDLQARVVVPLSELKEINKRMNAGEASSRDAKKEMIEANL 571 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 572 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 631 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI KEP Sbjct: 632 DQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKIAKEP 691 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED + +P+D+A+QA LR+ +L LTPRE +VLRMRFG Sbjct: 692 ISMETPIGDDDDSHLGDFIEDSSNTAPVDAAMQAGLRDVVKDILDGLTPREAKVLRMRFG 751 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 752 IEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 799 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 64/181 (35%), Positives = 95/181 (52%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 KK+I L + RGY+T E++ LP V +E ME VAML +MG+ V D + L Sbjct: 201 KKLITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVAMLGDMGVAVYEQTPDAETLFQNN 260 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 261 VTPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 319 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ ++D GF + E Sbjct: 320 GGLMDMMEAISASPATIAEILNMGEEIREGKVVISTVVD-----------GFSNPNEADD 368 Query: 208 Y 208 Y Sbjct: 369 Y 369 >gi|322433717|ref|YP_004215929.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX9] gi|321161444|gb|ADW67149.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidobacterium sp. MP5ACTX9] Length = 566 Score = 366 bits (940), Expect = 7e-99, Method: Compositional matrix adjust. Identities = 169/271 (62%), Positives = 227/271 (83%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 +++ + + GISI + + + +G+ +A AK+E++EANLRLV+S+AKKYTNRGLQFL Sbjct: 292 DLERVEQDAGISIPDLKRTQREMIQGDMDAEKAKRELIEANLRLVVSIAKKYTNRGLQFL 351 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K Sbjct: 352 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINK 411 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 ++RT+R++ ++ RE + EEIA+++ +PV VRKVLKI +EPISLETPIG+E+ SHLGDF Sbjct: 412 LIRTSRQLVQELGREASSEEIARRMDIPVAKVRKVLKIAQEPISLETPIGEEEDSHLGDF 471 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IED+ AVSP D+ I NL+E T++VL +LTPREERV++MRFG+ ++HTLEEVG+ F V Sbjct: 472 IEDRMAVSPADAVISVNLKEYTSQVLRTLTPREERVIKMRFGLEDGSEHTLEEVGQSFQV 531 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TRERIRQIEAKA+RKL+HPSRS+KL++F+DG Sbjct: 532 TRERIRQIEAKALRKLRHPSRSRKLKAFVDG 562 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 15/157 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-----GDDLEDEEG 88 ++++ +++GY+T E+N LP D S + ++D + ++ GI + G D + E Sbjct: 12 IVEVGKEKGYLTFGEVNDLLPGDITSPDDLDDLLTTINTQGIELGGDEDRRGRDKYEPEA 71 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E+S D+ S ++ T+DPVRMYLREMG++ LL+REGE+ IAKRIE Sbjct: 72 GEESEDVELDLSPGTL----------EKTNDPVRMYLREMGTVPLLTREGEVEIAKRIER 121 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G+ +M ++ SP+ + ++ ++L G ++EI+ Sbjct: 122 GQIRVMKAISRSPIVIREIVALGEDLRRGVRNIKEIV 158 >gi|298529696|ref|ZP_07017099.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfonatronospira thiodismutans ASO3-1] gi|298511132|gb|EFI35035.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfonatronospira thiodismutans ASO3-1] Length = 588 Score = 366 bits (940), Expect = 7e-99, Method: Compositional matrix adjust. Identities = 199/420 (47%), Positives = 283/420 (67%), Gaps = 25/420 (5%) Query: 277 RPKVMCALDEIAEVYRELRSLQ---------DNAVNGQKDEKSSVKCKVL--KEKLVKLV 325 R +V+ L+EI + Y++ RS+ D V GQ+ K+L K ++V+ + Sbjct: 180 RERVIALLEEIKQCYKKRRSVYEKLNECARLDRRVYGQQK-------KILDYKYEIVEHL 232 Query: 326 GSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD---VFLERHQGRELDPH 382 + L ++ ID ++E++ D +++ + + +L S G+ +D L + RE++P Sbjct: 233 KHIKLEKTLIDSIIERVNDYVRQMHNCQRDLSAYILSLGMSQDELHSLLNKLHNREINPV 292 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 + E +F + ++I+ ++ + ++ E I+ + KG EA Sbjct: 293 AAADQLGMTVDELFSFKEL-IYGKMEIQERLQQRCMH---NVHELEEILWRINKGNEEAL 348 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 349 RAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW 408 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K+VRT+R + ++ R+P+PEEIA+++ P+E Sbjct: 409 WIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLVQELGRDPSPEEIAERMDYPLEK 468 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P D + + L E ++VLA LTP Sbjct: 469 VKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPADEVVNSKLSEQISKVLAELTP 528 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 REE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS L+++ + Sbjct: 529 REEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSSSLKTYYES 588 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 53/156 (33%), Positives = 94/156 (60%), Gaps = 4/156 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G++T +E+N LP D + EQ+E+ +++ + I +VDG + S Sbjct: 11 KALIAEGKKKGFLTFDEINKALPSDVTTPEQVEEIISIFDQLDIAIVDGK--AGKTISVS 68 Query: 92 SLDLASSASNSSVFLQKRKDSAD--RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S A ++ L + +D+A+ ++DPVR YLREMG++ LL R+GE+ IAK+IE+G Sbjct: 69 SEDTNSLAETLALNLDRLEDTAEAVSRSNDPVRTYLREMGAVGLLDRDGEVVIAKKIESG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ SL E P+ + LI ++L L++++ Sbjct: 129 EMEVLYSLVEVPVAIEELIQVGEDLKKEKIKLKDVV 164 >gi|1710686|sp|P52325|RPOD_NEIGO RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|808742|gb|AAA67115.1| sigma 70 [Neisseria gonorrhoeae] Length = 642 Score = 366 bits (939), Expect = 7e-99, Method: Compositional matrix adjust. Identities = 181/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W N + +IL+ + E+ + ET IS Sbjct: 321 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSNALDRFRHAILEKQTELADMEKETRIS 378 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E ++ AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 379 IEELKEINKNMVSSEKVSAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 438 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 439 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 498 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+ Sbjct: 499 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADA 558 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 559 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 618 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 619 LRKLRHPTRSDRLRSFLDS 637 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/156 (34%), Positives = 89/156 (57%), Gaps = 15/156 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E++D L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S + Sbjct: 9 EYQDDARPLTIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGL 68 Query: 74 GINVV----DGDD--LEDEEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 GI V D +D L D +D+++ A +A +S+ DS T DPVRMY+ Sbjct: 69 GIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSA-------DSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACP 157 >gi|74318406|ref|YP_316146.1| carbamoyl-phosphate synthase L chain, ATP-binding [Thiobacillus denitrificans ATCC 25259] gi|74057901|gb|AAZ98341.1| Carbamoyl-phosphate synthase L chain, ATP-binding [Thiobacillus denitrificans ATCC 25259] Length = 656 Score = 365 bits (938), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 195/415 (46%), Positives = 277/415 (66%), Gaps = 24/415 (5%) Query: 275 QLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSR 334 QL+ + + D I + Y++ Q+ V +K + ++ +L+ ++ + + Sbjct: 252 QLKAEALAQFDYIRKAYKKA---QNAHVKYGLGSAQHMKAQA---EVTELLMAIRFSVRQ 305 Query: 335 IDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV--------S 385 +D L EQ+ + + +E +++ G+ R F++ G E + W+ + Sbjct: 306 VDNLCEQIRSAVEEVRSHERKIMEFCVNRSGMPRAHFIKAFPGNETNLAWLDREIAAKKA 365 Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAK 445 Y + +++ V ++++ +++ + G+ I + I + GE +A AK Sbjct: 366 YCSTLSKVQYE--VKAHQEALIAMQDRV-------GLPIKNLKDINKQMSTGEAKARRAK 416 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +EM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++ Sbjct: 417 REMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 476 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A K+ MP + +RK Sbjct: 477 QAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGIEPDPATLAIKMEMPEDKIRK 536 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 ++KI KEPIS+ETPIGD++ SHLGDFIED + +SP DSAI ANLR+ T VL SLT RE Sbjct: 537 IMKIAKEPISMETPIGDDEDSHLGDFIEDASTLSPDDSAIYANLRDATREVLDSLTSREA 596 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+KL+SF+ Sbjct: 597 KVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEKLKSFV 651 Score = 97.4 bits (241), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 58/163 (35%), Positives = 95/163 (58%), Gaps = 14/163 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RG++T E+N LP + + ++Q+E ++M+++MGI V D E + Sbjct: 56 KNLIILGKERGFLTYAEINDHLPDEVLDADQIEGVISMINDMGIQVYD------EAPDAE 109 Query: 92 SL---DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +L + A + ++ V + + DS T DPVRMY+REMGS++LL+REGEI IA Sbjct: 110 TLLMQEAAPAVADEDVVAEAEQALTTVDSEFGRTTDPVRMYMREMGSVDLLTREGEIEIA 169 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIE G M+ ++ PLT Q ++ ++ + E+ID Sbjct: 170 KRIEEGLRHMVQAISSCPLTIQQILDMAAQVEKDELRIDELID 212 >gi|218780916|ref|YP_002432234.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfatibacillum alkenivorans AK-01] gi|218762300|gb|ACL04766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfatibacillum alkenivorans AK-01] Length = 595 Score = 365 bits (938), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 179/299 (59%), Positives = 228/299 (76%), Gaps = 4/299 (1%) Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEAS 442 W D E + K C +++I+ I+ + + + + + + G +A Sbjct: 300 WAGECCDLEESQLK---VCYY-QVVEIQTSIRDRELALKANSLALKRVRACIWTGRGKAK 355 Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA W Sbjct: 356 DAKAELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 415 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ REPTPEEIA+K+ P+E Sbjct: 416 WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGREPTPEEIAQKMEFPLEK 475 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+VLKI KEPISLETPIG+E+ SHLGDFIEDK + P ++AI NL E T +VLA+LTP Sbjct: 476 VRRVLKIAKEPISLETPIGEEEDSHLGDFIEDKKFMLPSEAAISLNLAEQTRKVLATLTP 535 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLRMRFGIG DHTLEEVGK F VTRERIRQIEAKA+RKL+HPSRS+KL+SF+D Sbjct: 536 REEKVLRMRFGIGEKADHTLEEVGKDFSVTRERIRQIEAKALRKLRHPSRSQKLKSFID 594 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 57/154 (37%), Positives = 92/154 (59%), Gaps = 2/154 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I +++GY+T +ELN LP D VSS+Q++DT+ M M I ++DG + + S+ Sbjct: 21 QELISKGKKQGYLTYDELNEALPEDMVSSDQIDDTLMMFDEMDIEILDGKKITVSDSSKM 80 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 D S V D+ S DPV++YLREMG + LLSR+GEI IAK+IE G Sbjct: 81 DDDSKDQDSEPEVPKPDLLDAGGSS--DPVKLYLREMGMVSLLSRDGEIEIAKKIEEGEQ 138 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ +L E+ + + LI R E+ +G L++++ Sbjct: 139 EVLKALLETTIGVEHLIDLRTEMAEGEVRLKDVL 172 >gi|156563504|dbj|BAF76047.1| Sigma70 [Ralstonia solanacearum] Length = 755 Score = 365 bits (937), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 176/320 (55%), Positives = 237/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 437 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQARVVL 494 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 495 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 554 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 555 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 614 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 615 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 674 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SL PRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 675 AALHGSMRGVVKDVLDSLAPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 734 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 735 ALRKLRHPSRSDKLKSFLEG 754 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 60/164 (36%), Positives = 92/164 (56%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V + + + Sbjct: 142 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYE------QAPDAE 195 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L +A + + + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 196 TLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 255 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIEAG M+ ++ P+T ++ + + + + E ID Sbjct: 256 AKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 299 >gi|329906288|ref|ZP_08274384.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] gi|327547308|gb|EGF32147.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] Length = 827 Score = 365 bits (937), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 187/346 (54%), Positives = 248/346 (71%), Gaps = 11/346 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV--SYAKDFPEGEWK 396 VE++ I ++I+ R+ +S+ IK VF G E + WV + + P + Sbjct: 490 VEEVRHIERQILDVAVNKCRMPRSHFIK--VF----PGNETNLDWVDGEVSGNHP---YS 540 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + V ++ +++ ++ + + + + R I + GE +A AK+EM EANLRLV Sbjct: 541 VILGRNVPTVKELQQKLLDLQSRVVLPLPDLRAINRRMAAGEMKARKAKREMTEANLRLV 600 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 601 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 660 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R++ + EP P +A K+ MP E +RK++KI KEPIS+ Sbjct: 661 RTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEEKIRKIMKIAKEPISM 720 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD+D SHLGDFIED N ++P D+A+ A++R VL SLTPRE +VLRMRFGI M Sbjct: 721 ETPIGDDDDSHLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEM 780 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS +L+SFL+G Sbjct: 781 STDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDRLKSFLEG 826 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 60/160 (37%), Positives = 89/160 (55%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RG++T E+N LP + V E +E + ++MGI V + D E Sbjct: 211 KTLIKLGKDRGFLTYAEINDHLPENIVDPEAIEGIIGTFNDMGIAVYE--HAPDAESMLL 268 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + ++A+ AS+ DS T DPVRMY+REMGS+ELL+REGEI IAKRI Sbjct: 269 TDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKRI 328 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G M+ ++ P T ++ + + +G T + EI+D Sbjct: 329 EDGLKDMIQAISACPTTISEILAAAERITNGETKIDEIVD 368 >gi|297250830|ref|ZP_06934304.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] gi|296837936|gb|EFH21874.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] Length = 322 Score = 365 bits (936), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 180/319 (56%), Positives = 237/319 (74%), Gaps = 3/319 (0%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGIS 423 ++RD F++ + W+ ++ +G W + + +IL+ + E+ + ET IS Sbjct: 1 MERDYFIQNFLPEITNLQWIE--EEIAKGRVWSDALDRFRHAILEKQTELADMEKETRIS 58 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 I E + I + E E + AK+EM++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 59 IEELKEINKNMVSSEKETAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 118 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 119 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQET 178 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P D+ Sbjct: 179 GEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNIAPADA 238 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ +L E T +L SLTPRE +VLRMRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA Sbjct: 239 AMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKA 298 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP+RS +LRSFLD Sbjct: 299 LRKLRHPTRSDRLRSFLDS 317 >gi|120610093|ref|YP_969771.1| RpoD family RNA polymerase sigma factor [Acidovorax citrulli AAC00-1] gi|120588557|gb|ABM31997.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax citrulli AAC00-1] Length = 781 Score = 365 bits (936), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 187/348 (53%), Positives = 247/348 (70%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 D++ Q+ D+ K+ E EL R+ G+ ++ F++ L+ WV K G+ Sbjct: 438 DMVRAQVDDVRKK----ERELRRIIVDKCGMPQETFIKDFPPNLLNLQWVE--KQAAAGK 491 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W +A + + +++ + + + +SE + I + +GE + AKKEM+EANL Sbjct: 492 PWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASRDAKKEMIEANL 551 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 552 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 611 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI KEP Sbjct: 612 DQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKIAKEP 671 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED +P+D+A+QA LR+ +L LTPRE +VLRMRFG Sbjct: 672 ISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTPREAKVLRMRFG 731 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 732 IEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 779 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 63/181 (34%), Positives = 94/181 (51%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I L + RGY+T E++ LP V +E ME V ML++MG+ V D + L Sbjct: 181 KALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN 240 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 241 VTPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 299 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ I+D GF + E Sbjct: 300 GGLQAMMEAISASPATIAEILAMGEEIREGKVVISTIVD-----------GFSNPNEADD 348 Query: 208 Y 208 Y Sbjct: 349 Y 349 >gi|134093713|ref|YP_001098788.1| putative sigma 70 factor of RNA polymerase [Herminiimonas arsenicoxydans] Length = 858 Score = 365 bits (936), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 180/324 (55%), Positives = 237/324 (73%), Gaps = 13/324 (4%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE------WKNFVACEVDSILKIRNEIKSISV 418 + R+ F++ G E + WV +GE + +A V ++ +++ ++ + Sbjct: 541 MPRNHFIKVFPGNETNLDWV-------DGEVEGNHPYSIVLARNVPAVKELQQKLIDLQA 593 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + + + R I + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 594 RVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN 653 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 654 IGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ 713 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + + EP P +A K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N + Sbjct: 714 ILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTL 773 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D+A+ A++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQ Sbjct: 774 APADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQ 833 Query: 659 IEAKAIRKLKHPSRSKKLRSFLDG 682 IEAKA+RKL+HPSRS KL+SFL+G Sbjct: 834 IEAKALRKLRHPSRSDKLKSFLEG 857 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 57/160 (35%), Positives = 87/160 (54%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IK ++RG++T E+N LP + + E +E + ++MGI V + D E Sbjct: 244 KTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYE--QAPDAETLLL 301 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 S ++A+ AS+ DS T DPVRMY+REMGS+ELL+REGEI IAKRI Sbjct: 302 SDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIDIAKRI 361 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G M+ ++ P T ++ + ++ + EI+D Sbjct: 362 EDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIVD 401 >gi|326316262|ref|YP_004233934.1| RNA polymerase sigma-70 subunit RpoD [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373098|gb|ADX45367.1| RNA polymerase, sigma 70 subunit, RpoD [Acidovorax avenae subsp. avenae ATCC 19860] Length = 780 Score = 365 bits (936), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 187/348 (53%), Positives = 247/348 (70%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 D++ Q+ D+ K+ E EL R+ G+ ++ F++ L+ WV K G+ Sbjct: 437 DMVRAQVDDVRKK----ERELRRIIVDKCGMPQETFIKDFPPNLLNLQWVE--KQAAAGK 490 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W +A + + +++ + + + +SE + I + +GE + AKKEM+EANL Sbjct: 491 PWSAVLARNIPPVQELQQRLMDLQSRVVVPLSELKDINKRMNEGESASRDAKKEMIEANL 550 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 551 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 610 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI KEP Sbjct: 611 DQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASILAAKMEIPEDKIRKIMKIAKEP 670 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED +P+D+A+QA LR+ +L LTPRE +VLRMRFG Sbjct: 671 ISMETPIGDDDDSHLGDFIEDGANTAPIDAAMQAGLRDVVKDILDGLTPREAKVLRMRFG 730 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M+TDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 731 IEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 778 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 63/181 (34%), Positives = 94/181 (51%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I L + RGY+T E++ LP V +E ME V ML++MG+ V D + L Sbjct: 180 KALITLGKTRGYLTQVEISDHLPDKLVDAETMEVVVTMLNDMGVAVYEQTPDAETLFQNN 239 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 240 VTPTATTVEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 298 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ +G ++ I+D GF + E Sbjct: 299 GGLQAMMEAISASPATIAEILAMGEEIREGKVVISTIVD-----------GFSNPNEADD 347 Query: 208 Y 208 Y Sbjct: 348 Y 348 >gi|193222233|emb|CAL60659.2| putative RNA polymerase sigma factor rpoD (Sigma-70) [Herminiimonas arsenicoxydans] Length = 800 Score = 364 bits (934), Expect = 3e-98, Method: Compositional matrix adjust. Identities = 180/324 (55%), Positives = 237/324 (73%), Gaps = 13/324 (4%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE------WKNFVACEVDSILKIRNEIKSISV 418 + R+ F++ G E + WV +GE + +A V ++ +++ ++ + Sbjct: 483 MPRNHFIKVFPGNETNLDWV-------DGEVEGNHPYSIVLARNVPAVKELQQKLIDLQA 535 Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + + + R I + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 536 RVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN 595 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ Sbjct: 596 IGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQ 655 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + + EP P +A K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N + Sbjct: 656 ILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDNNTL 715 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D+A+ A++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQ Sbjct: 716 APADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQ 775 Query: 659 IEAKAIRKLKHPSRSKKLRSFLDG 682 IEAKA+RKL+HPSRS KL+SFL+G Sbjct: 776 IEAKALRKLRHPSRSDKLKSFLEG 799 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 57/160 (35%), Positives = 87/160 (54%), Gaps = 7/160 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IK ++RG++T E+N LP + + E +E + ++MGI V + D E Sbjct: 186 KTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIGTFNDMGIAVYE--QAPDAETLLL 243 Query: 92 SLDLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 S ++A+ AS+ DS T DPVRMY+REMGS+ELL+REGEI IAKRI Sbjct: 244 SDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIDIAKRI 303 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 E G M+ ++ P T ++ + ++ + EI+D Sbjct: 304 EDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIVD 343 >gi|325266676|ref|ZP_08133353.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella denitrificans ATCC 33394] gi|324982119|gb|EGC17754.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella denitrificans ATCC 33394] Length = 671 Score = 364 bits (934), Expect = 3e-98, Method: Compositional matrix adjust. Identities = 181/317 (57%), Positives = 235/317 (74%), Gaps = 3/317 (0%) Query: 367 RDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISIS 425 RD F+E + W+ ++ + W +A IL+ + ++ + ISI+ Sbjct: 353 RDYFIEHFMPNATNLAWLE--EEIGKNRVWSETLARFKHDILEKQAKMAELEAHARISIA 410 Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + I + K E E + AK++M++ANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 411 ELKEISKNMVKSEKETAAAKQKMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 470 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 471 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQYLQETGE 530 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP ++A+ + MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P ++A+ Sbjct: 531 EPDSAKLAELMDMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDVNNVAPAEAAM 590 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++LRE T VL SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+R Sbjct: 591 YSSLREVTADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 650 Query: 666 KLKHPSRSKKLRSFLDG 682 KL+HP+RS KL+SFLD Sbjct: 651 KLRHPTRSDKLKSFLDS 667 >gi|254704733|ref|ZP_05166561.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] gi|261755429|ref|ZP_05999138.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] gi|261745182|gb|EEY33108.1| RNA polymerase sigma factor RpoD [Brucella suis bv. 3 str. 686] Length = 415 Score = 363 bits (933), Expect = 4e-98, Method: Compositional matrix adjust. Identities = 206/420 (49%), Positives = 277/420 (65%), Gaps = 38/420 (9%) Query: 20 DSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD 79 D + D SDD+ KKMIKLA++RGYVT++ELNA LP +EV+SEQ+EDT++MLS+MGINVV+ Sbjct: 20 DGPLLDLSDDAVKKMIKLAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVVE 79 Query: 80 GDDLED--EEGSEDSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 D+ ++ EEG++D DL + + +K+ DR TDDPVRMYLREMGS+EL Sbjct: 80 DDEQDNDREEGNDDEAEEGGDLVEAGGTAVATTTTKKEPTDR-TDDPVRMYLREMGSVEL 138 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-G 192 LSREGEIAIAKRIEAGR M+A LCESPL+FQA+IIWRD+LN+ LLREIIDLE G Sbjct: 139 LSREGEIAIAKRIEAGRETMIAGLCESPLSFQAIIIWRDQLNESNILLREIIDLETTYAG 198 Query: 193 PESK-GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENA 251 PE+K E + + ++ DD+ GD+ +D + + Sbjct: 199 PEAKQAPVIERVEEEKPRDERPQRRSRDDDDITNVGGDMPVEDDDDDEDEANL------- 251 Query: 252 ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ---KDE 308 +L+AME +LRP+VM LD IA+ Y++LR LQD V G+ E Sbjct: 252 ----------------SLAAMEAELRPQVMETLDFIADTYKKLRKLQDQQVEGRLAATGE 295 Query: 309 KSSV---KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI 365 SS + K LK++L+K V SLSLNQ+RI+ LVEQLYDI+KR++ NEG+LLRLA+S+G+ Sbjct: 296 LSSSQERRYKELKDQLIKAVKSLSLNQNRIEQLVEQLYDINKRLVQNEGKLLRLAESFGV 355 Query: 366 KRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS 425 +R+ FL+ +QG ELDP+WV P WK F A E DSI ++R+EI++++ ET ISI Sbjct: 356 RREDFLKEYQGHELDPNWVERVATLPSRGWKEFAAKEADSIGRLRSEIQNLATETAISIG 415 >gi|257092101|ref|YP_003165742.1| RNA polymerase sigma factor RpoD [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257044625|gb|ACV33813.1| RNA polymerase, sigma 70 subunit, RpoD [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 648 Score = 363 bits (933), Expect = 4e-98, Method: Compositional matrix adjust. Identities = 182/312 (58%), Positives = 231/312 (74%) Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 F++ G EL+ WV + + +I + + ++ ++ GI + E + Sbjct: 333 FIKVFPGNELNIDWVDVEIAAAGKTYGAVLLRNAPNIKEEQKKLLALQDRIGIPLRELKD 392 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 393 INKQMSTGEAKARRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 452 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E P Sbjct: 453 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGLEADP 512 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +AKK+ MP E +RK+LKI+KEPIS+ETPIGD+D SHLGDFIED ++P ++A+ ++L Sbjct: 513 ATLAKKMEMPEEKIRKILKISKEPISMETPIGDDDDSHLGDFIEDHATLAPTEAALYSSL 572 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R T VL +LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+H Sbjct: 573 RFITKDVLDTLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 632 Query: 670 PSRSKKLRSFLD 681 PSRS KLRSFLD Sbjct: 633 PSRSDKLRSFLD 644 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 62/174 (35%), Positives = 96/174 (55%), Gaps = 18/174 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL ++RG++T E+N LP D V +EQ+E + ++MGI V D E + Sbjct: 41 KTLIKLGKERGFLTYAEINDHLPDDVVDAEQIESIINTFNDMGIQVYD------EAPDAE 94 Query: 92 SLDLASSASNSSVFLQKRKDSADRS----------TDDPVRMYLREMGSIELLSREGEIA 141 +L ++ +A + ++ A+++ T DPVRMY+REMGS+ELL+REGEI Sbjct: 95 TLLMSDAAPAAGADDADVEEQAEQALSTVDSEFGRTTDPVRMYMREMGSVELLTREGEIE 154 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 IAKRIE G M+ ++ P T ++ D + + E+ID I PE+ Sbjct: 155 IAKRIEDGLKHMIQAISACPTTIAEILNCADRIARDEMRIDELID--GLIDPET 206 >gi|325983602|ref|YP_004296004.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas sp. AL212] gi|325533121|gb|ADZ27842.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas sp. AL212] Length = 740 Score = 363 bits (933), Expect = 4e-98, Method: Compositional matrix adjust. Identities = 185/321 (57%), Positives = 241/321 (75%), Gaps = 13/321 (4%) Query: 367 RDVFLERHQGRELDPHWVS----YAKDFPEG--EWKNFVACEVDSILKIRNEIKSISVET 420 R+ F++ G E + W++ K + + +K + E ++L +R++I Sbjct: 423 RNHFIKTFPGNETNLDWIAQEIKVGKPYSQALEHYKPAILEEQHNLLALRSKI------- 475 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GI I + + I + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 476 GIPIKDLKEINRKMSTGEAKARRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 535 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 536 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQIL 595 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + +EP P +A+K+ MP E +RK+LKI+KEPIS+ETPIGD++ SHLGDFIED ++P Sbjct: 596 QETGQEPEPAVLAQKMEMPEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDAATMAP 655 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D+A+ A+LR T +L SLTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 656 ADAAVYASLRGVTKDILDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIE 715 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HP+RS++LRSFLD Sbjct: 716 AKALRKLRHPARSERLRSFLD 736 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 58/163 (35%), Positives = 91/163 (55%), Gaps = 14/163 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RGY+T E+N LP D + +EQ+E ++M+++MGI+V DE + Sbjct: 129 KILIGLGKERGYLTYAEINDHLPDDMLDAEQIEGIISMINDMGISV------HDEAPDVE 182 Query: 92 SLDLASSASNSSVFLQKRK--------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +L ++ +A+ + + DS T DPVRMY+REMGS+ LL+RE EI IA Sbjct: 183 TLLMSDAATTVADEDVAEEAEAALSTVDSEFGRTTDPVRMYMREMGSVGLLTRESEIEIA 242 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIE G M+ ++ P +I E+ T + E++D Sbjct: 243 KRIEGGLRHMIQAISACPPIIAKIIDLAVEVEKETMRIDEVVD 285 >gi|301064644|ref|ZP_07205038.1| RNA polymerase sigma factor RpoD [delta proteobacterium NaphS2] gi|300441264|gb|EFK05635.1| RNA polymerase sigma factor RpoD [delta proteobacterium NaphS2] Length = 590 Score = 363 bits (932), Expect = 5e-98, Method: Compositional matrix adjust. Identities = 173/273 (63%), Positives = 218/273 (79%) Query: 410 RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 R I+ + T ++ E + + V + +AS AK E+++ANLRLV+S+AKKYTNRGL Sbjct: 317 RRVIRQVKERTNMTPRELKSELERVERSLEKASRAKSELIQANLRLVVSIAKKYTNRGLM 376 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I Sbjct: 377 FLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETI 436 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +K++RT+R + + REPT EEIA+K+ P++ VRKVLKI KEPISLETPIG+E+ SHLG Sbjct: 437 NKLMRTSRYLVQEHGREPTSEEIAEKMEFPLDKVRKVLKIAKEPISLETPIGEEEDSHLG 496 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIEDKN +SP D+ + L E T +VL +LTPREE+VLRMRFGIG DHTLEEVG+ F Sbjct: 497 DFIEDKNILSPGDAVVNFGLAEQTRKVLTTLTPREEKVLRMRFGIGEKADHTLEEVGRDF 556 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRERIRQIEAKA+RKL+HPSRS+KL+SF+D Sbjct: 557 SVTRERIRQIEAKALRKLRHPSRSRKLKSFMDN 589 >gi|312795733|ref|YP_004028655.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454] gi|312167508|emb|CBW74511.1| RNA polymerase sigma factor rpoD [Burkholderia rhizoxinica HKI 454] Length = 778 Score = 363 bits (931), Expect = 6e-98, Method: Compositional matrix adjust. Identities = 182/346 (52%), Positives = 244/346 (70%), Gaps = 11/346 (3%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 V+++ + ++I+H + G+ R F+ R E + W A+ P + Sbjct: 441 VDEVRQVERQILHI------VVDKCGMPRAEFIARFPSNETNLDWAEQIVAEGHP---YS 491 Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 + + +I + + + + + + + + + GE +A AK+EM EANLRLV Sbjct: 492 AVLERNIPAIREQQQRLIDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLV 551 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 IS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 552 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 611 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP + +RK++KI KEPIS+ Sbjct: 612 RTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISM 671 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ VL SLTPRE +VLRMRFGI M Sbjct: 672 ETPIGDDDDSHLGDFIEDNNTVAPADAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEM 731 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL+SFL+G Sbjct: 732 STDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 777 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 56/173 (32%), Positives = 93/173 (53%), Gaps = 7/173 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + D E ++ Sbjct: 165 RALIKLGKERGFLTYAEINDHLPDNFAETEAIESIISTFNDMGVAVYEQAPDAETLLLND 224 Query: 91 DSLDLASSASNSSVFLQKRK--DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 ++ ++S DS T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 225 NAPSVSSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 284 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGP--ESKGGF 199 G M+ ++ P T ++ + + + + E++D I P E GF Sbjct: 285 GLKHMVQAISACPTTIADILAMAERVANDEIRVDELVD--GLIDPNAEDADGF 335 >gi|294787697|ref|ZP_06752941.1| RNA polymerase sigma factor RpoD [Simonsiella muelleri ATCC 29453] gi|294483990|gb|EFG31673.1| RNA polymerase sigma factor RpoD [Simonsiella muelleri ATCC 29453] Length = 652 Score = 363 bits (931), Expect = 6e-98, Method: Compositional matrix adjust. Identities = 175/277 (63%), Positives = 220/277 (79%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 IL+ + E+ ++ ISI E + I + E E + AK+EM++ANLRLVIS+AKKYTN Sbjct: 372 ILEKQTEMSNLEAHARISIEELKEISKNMVVSEKETAAAKQEMIQANLRLVISIAKKYTN 431 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 432 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 491 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ R +R+ + EP ++A+ + MP + +RK++KI KEPIS+ETPIGD++ Sbjct: 492 IETINKMNRISRQYLQETGEEPDSAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDED 551 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED N V+P D+A+ ++LRE T VL SLTPRE +VLRMRFGI MNTDHTLEEV Sbjct: 552 SHLGDFIEDANNVAPSDAAMYSSLREVTKDVLESLTPREAKVLRMRFGIDMNTDHTLEEV 611 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GKQF VTRERIRQIEAKA+RKL+HP+RS KL+SFLD Sbjct: 612 GKQFDVTRERIRQIEAKALRKLRHPTRSDKLKSFLDS 648 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 61/189 (32%), Positives = 101/189 (53%), Gaps = 5/189 (2%) Query: 8 NRDSDSEHEDSDD-SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 + DSD+E + SD+ L + +++I ++RGY+T E+N LP D +EQ+++ Sbjct: 10 DHDSDNEEQLSDNRPLTPEEQRARLRQLIIFGKERGYITYAEINDTLPDDMSDAEQIDNI 69 Query: 67 VAMLSNMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQ-KRKDSADRSTDDPVRMY 124 V M+ +GI V + D E S++S +A + + + DS T DPVRMY Sbjct: 70 VNMIQGLGIQVTEEAPDAETLLMSDNSAAVADEDAVAEAEAALSQADSEFGRTTDPVRMY 129 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 +REMG +ELL+R EI IAK+IE M+ ++ P + ++ D++ + E+ Sbjct: 130 MREMGQVELLTRADEIIIAKKIENALKNMIQAISACPGSVGEILALIDQIKKDEIRVDEV 189 Query: 185 IDLEACIGP 193 + EA I P Sbjct: 190 V--EAIIDP 196 >gi|71906166|ref|YP_283753.1| RNA polymerase sigma factor RpoD [Dechloromonas aromatica RCB] gi|71845787|gb|AAZ45283.1| RNA polymerase, sigma 70 subunit, RpoD [Dechloromonas aromatica RCB] Length = 657 Score = 362 bits (930), Expect = 8e-98, Method: Compositional matrix adjust. Identities = 182/320 (56%), Positives = 234/320 (73%), Gaps = 6/320 (1%) Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIK---SISVETG 421 + R F++ G E++ W A K +VA + I+ E K ++ G Sbjct: 337 MPRPHFIQSFPGNEINLDW---ADAEVAAAPKTYVAILTRNAPDIKEEQKKLLALQDRIG 393 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I + + + I + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 394 IPLKDLKDINKQMSTGEAKARRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 453 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 454 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQ 513 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP P +AKK+ MP + +RK++KI+KEPIS+ETPIGD+D SHLGDFIED ++P Sbjct: 514 ETGAEPDPATLAKKMDMPEDKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDSGTLAPA 573 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+A+ ++LR T +L +LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEA Sbjct: 574 DAAMYSSLRGVTKEILDTLTTREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEA 633 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HP+RS KLRSF+D Sbjct: 634 KALRKLRHPTRSDKLRSFVD 653 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 60/145 (41%), Positives = 82/145 (56%), Gaps = 13/145 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL ++RGY+T E+N LP D V +E +E ++ S M I V D + +ED Sbjct: 50 KALIKLGKERGYLTYAEINDHLPDDVVDAESIEAIISTFSEMSIQVFD-----EAPAAED 104 Query: 92 SL---DLASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L A +A + V Q + DS T DPVRMY+REMGS+ELL+REGEI IA Sbjct: 105 LLMSDTAAVAADDEEVEAQAEQALSTVDSEFGRTTDPVRMYMREMGSVELLTREGEIEIA 164 Query: 144 KRIEAGRAMMMASLCESPLTFQALI 168 KRIE G M+ ++ P T ++ Sbjct: 165 KRIEEGLKHMIQAIAACPTTISDIL 189 >gi|294669659|ref|ZP_06734726.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308572|gb|EFE49815.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 496 Score = 362 bits (929), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 176/288 (61%), Positives = 225/288 (78%) Query: 395 WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLR 454 W N + +IL+ ++E+ + ISI E + I ++ E E + AK+EM++ANLR Sbjct: 205 WANALERFQHAILEKQSELAEMEKTAQISIEELKEINKNMQSSERETARAKEEMIQANLR 264 Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIAD Sbjct: 265 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 324 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIRIPVHM + I+K+ R +R+ + +P ++A+ + MP + +RK++KI KEPI Sbjct: 325 QARTIRIPVHMIETINKMNRISRQYLQETGEDPDSAKLAELMEMPEDKIRKIMKIAKEPI 384 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 S+ETPIGD+D SHLGDFIED N V+P D+A+ ++LRE T VL SLTPRE +VLRMRFGI Sbjct: 385 SMETPIGDDDDSHLGDFIEDVNNVAPADAAMYSSLREVTADVLESLTPREAKVLRMRFGI 444 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS +L+SFLD Sbjct: 445 DMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDRLKSFLDS 492 >gi|258406014|ref|YP_003198756.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfohalobium retbaense DSM 5692] gi|257798241|gb|ACV69178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfohalobium retbaense DSM 5692] Length = 587 Score = 362 bits (929), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 196/411 (47%), Positives = 279/411 (67%), Gaps = 26/411 (6%) Query: 277 RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRID 336 R + LDE A + + +R +Q+ ++ K ++V+++ + L ++ ID Sbjct: 196 RVNIYYKLDECATLDKRVRGVQNKIID-------------YKHEVVQILRDIKLEKTLID 242 Query: 337 LLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP 391 ++E L+D ++ MHN +L + ++ G ++F E + REL+P + Sbjct: 243 RVIETLHDYVRQ-MHNCRRDLSAYVLSVGKTRGEIEEIFAELDR-RELNPVIAADNLGMT 300 Query: 392 EGEWKNFVACEVDSILKIRNEI-KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 E +F +L + EI + + + S+++ I+ + +G +A AK+E++ Sbjct: 301 VEELFSF-----KEMLAGKMEILQRLEEKCCHSVTDLEEILWRINRGNYDALRAKQELIR 355 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR Sbjct: 356 SNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITR 415 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K++RT+R + ++ R+P PEEIA+++ PVE V+KVLKI Sbjct: 416 AIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPQPEEIAERMDYPVEKVKKVLKIA 475 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEPISLETPIGDE+ S LGDFIEDK AV+P + A+ + L E + VL+ LTPREE+VLR Sbjct: 476 KEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEAVNSKLAEQISTVLSELTPREEQVLRK 535 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 536 RFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQSLRSYYE 586 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 50/158 (31%), Positives = 84/158 (53%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G++T +ELN LP + EQ+E+ + + + I +VD + G Sbjct: 11 KTLIAEGKKKGFLTFDELNKALPNEVNQPEQIEEIITIFDQLDIAIVDA-----QTGKNL 65 Query: 92 SLDLASSASNSSVFLQKRKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + S +S + + + DPVRMYLREMG + LL REGE+ IAK+IE Sbjct: 66 GMVAGDSGGDSEEEEELEITETEEVETTRSSDPVRMYLREMGIVPLLDREGEVEIAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G ++ +L E P+ + L+ D+L GT L++++ Sbjct: 126 DGELEVLYALIEVPVAVEELVGVGDDLQKGTIKLKDVV 163 >gi|83746506|ref|ZP_00943557.1| RpoD [Ralstonia solanacearum UW551] gi|83726837|gb|EAP73964.1| RpoD [Ralstonia solanacearum UW551] Length = 391 Score = 362 bits (929), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 177/320 (55%), Positives = 238/320 (74%), Gaps = 3/320 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 73 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQSRVVL 130 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 131 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 190 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 191 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 250 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 251 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 310 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 311 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 370 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+RKL+HPSRS KL+SFL+G Sbjct: 371 ALRKLRHPSRSDKLKSFLEG 390 >gi|218885598|ref|YP_002434919.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756552|gb|ACL07451.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 590 Score = 362 bits (928), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 198/421 (47%), Positives = 284/421 (67%), Gaps = 17/421 (4%) Query: 273 EDQL--RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK--SSVKCKVL--KEKLVKLVG 326 ED++ R +V+ LDEI Y++ R + + E+ ++++ ++L KE +V + Sbjct: 176 EDEMNQRSRVILLLDEIKHTYKKKRKVYAKLDDCCTLERRVTAIQKEILGFKEDIVNRLR 235 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQGRELDP 381 + L ++ ID ++E + D ++ MHN +L ++ +D+F + RE++P Sbjct: 236 DIKLEKTLIDRIIETVEDYVRQ-MHNCQRDLSAYILSTGKTQVEIQDIF-RMLEAREMNP 293 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 S A E +F + I +I N ++ ++++ ++ +++G A Sbjct: 294 VAASAALGMTVEELFSFKEMIIGKI-EILNRLQDKCCH---NVTDLEEVLWRIKRGNTHA 349 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 350 MRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 409 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ P++ Sbjct: 410 WWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPID 469 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + + L E VLA LT Sbjct: 470 KVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIASVLADLT 529 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 530 PREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQMLRSYYE 589 Query: 682 G 682 Sbjct: 590 S 590 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 48/156 (30%), Positives = 86/156 (55%), Gaps = 2/156 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I + G++T +E+N LP + + EQ+E+ + + + I +VD + + Sbjct: 11 KSLIAKGKVSGFLTFDEVNKALPAEVNTPEQIEEIIGIFDQLEIAIVDTEKDGKKISVSP 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + L + ++SAD S+ DPVRMYLREMG++ LL R+GE+ IAK+IE G Sbjct: 71 GESEEEPSGEPGLDLVEDEESADYSSRSTDPVRMYLREMGAVPLLDRDGEVQIAKKIELG 130 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ +L E P+ + LI ++L L++++ Sbjct: 131 EQDVLYALVEVPVAVEELINVGEDLKQNRIKLKDVV 166 >gi|26249652|ref|NP_755692.1| RpoD protein [Escherichia coli CFT073] gi|26110080|gb|AAN82266.1|AE016767_26 RpoD protein [Escherichia coli CFT073] Length = 246 Score = 361 bits (927), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 176/244 (72%), Positives = 206/244 (84%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 2 KAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 61 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 62 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERML 121 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VL Sbjct: 122 MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVL 181 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LR Sbjct: 182 AGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR 241 Query: 678 SFLD 681 SFLD Sbjct: 242 SFLD 245 >gi|116514979|ref|YP_802608.1| RNA polymerase major s factor [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116256833|gb|ABJ90515.1| RNA polymerase major s factor [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 613 Score = 361 bits (927), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 177/267 (66%), Positives = 217/267 (81%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I +T + I++ + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQ Sbjct: 346 IEKKTKLKITQIKDINKRIILGEEKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 405 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R Sbjct: 406 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRI 465 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R+M +I REPTPEE+++K+ + E +RKVLKI KEPIS+ETPIG++D +HLGDFIED Sbjct: 466 SRQMLQEIGREPTPEELSEKMLISEEKIRKVLKIAKEPISMETPIGEDDDTHLGDFIEDT 525 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 N PL+SA +L+ T VL+ LT RE +VLRMRFGI MNTDHTLEEVG+QF VTRER Sbjct: 526 NLELPLESATSESLKTITNDVLSGLTDREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRER 585 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLDG 682 IRQIEAKA+RKL+HPSRS+ L+SFLD Sbjct: 586 IRQIEAKALRKLRHPSRSEILKSFLDN 612 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 53/159 (33%), Positives = 90/159 (56%), Gaps = 9/159 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-----DE 86 K ++ +++GY+T E++ LP D V ++Q+++ + M+ ++GI +V+ +E Sbjct: 10 KLLVSHGKEQGYLTYSEVHDHLPNDIVDADQIKNIIQMIKDLGIQIVEEVREIEELIINE 69 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 ++ D +A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRI Sbjct: 70 APTDTDEDTVEAATQ---VLSNVETEIGRTTD-PVRMYMREMGTVELLTREGEIGIAKRI 125 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G + +S+ E P + L+ + G L E+I Sbjct: 126 EEGINQVQSSVSEYPTSILYLLEQYHHVKLGNIKLSELI 164 >gi|224370025|ref|YP_002604189.1| RpoD [Desulfobacterium autotrophicum HRM2] gi|223692742|gb|ACN16025.1| RpoD [Desulfobacterium autotrophicum HRM2] Length = 618 Score = 361 bits (926), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 168/257 (65%), Positives = 214/257 (83%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I+ + KG A AK E+V ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA Sbjct: 361 ATLKKIIKGIDKGRMVAKYAKSELVRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKA 420 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ Sbjct: 421 VDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEMG 480 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP+PEEIA+K+ +P++ VR+VLKI +EPISLETPIG+E+ SHLGDFIEDK P ++A Sbjct: 481 KEPSPEEIAEKMEIPLDKVRRVLKIAREPISLETPIGEEEDSHLGDFIEDKKFSLPSEAA 540 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I NL E T +VLA+LTPREE+VLRMRFGIG DHTLEEVG+ F VTRERIRQIEAKA+ Sbjct: 541 INLNLAEQTRKVLATLTPREEKVLRMRFGIGEKADHTLEEVGRDFTVTRERIRQIEAKAL 600 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HP+RS+KL+SF++ Sbjct: 601 RKLRHPTRSRKLKSFIE 617 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 48/159 (30%), Positives = 80/159 (50%), Gaps = 17/159 (10%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S + KK+I+ ++ G ++ E+N + + SS+Q++D + +GI+++D D E Sbjct: 15 SKEVLKKLIERGKKEGSLSYAEINEAISENLKSSDQIDDIMVKFKQLGIDLIDTDKGEKP 74 Query: 87 EGSEDSLDLASSASNSSVFLQK--------------RKDSADR---STDDPVRMYLREMG 129 + + + S+ N + +AD + DPV+MYLREMG Sbjct: 75 KKKKVKKVVKSARLNDGADDGDDDSEAPPGKKSKFGKATAADMEFGTVTDPVKMYLREMG 134 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 + LLSREGEI IAK+IE G ++ L SP+ L+ Sbjct: 135 MVTLLSREGEIEIAKKIEVGEREVLKGLLASPIAVDHLL 173 >gi|291614899|ref|YP_003525056.1| RNA polymerase, sigma 70 subunit, RpoD [Sideroxydans lithotrophicus ES-1] gi|291585011|gb|ADE12669.1| RNA polymerase, sigma 70 subunit, RpoD [Sideroxydans lithotrophicus ES-1] Length = 654 Score = 360 bits (924), Expect = 4e-97, Method: Compositional matrix adjust. Identities = 172/278 (61%), Positives = 222/278 (79%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 +I+ + ++ ++ GI I + + I + GE +A AK++M+EANLRLVIS+AKKYT Sbjct: 375 AIVDQQKKMLALQQRVGIPILDLKEINKQMTNGEAKARRAKRDMIEANLRLVISIAKKYT 434 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVH Sbjct: 435 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 494 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M + I+K+ R +R++ + E +A K+ MP + +RK+LKI KEPIS+ETP+GD+D Sbjct: 495 MIETINKMNRISRQILQETGMEADAATLAIKMEMPEDKIRKILKIAKEPISMETPVGDDD 554 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED N+++P+++A+ +LR T +L SLTPRE +VLRMRFGI MNTDHTLEE Sbjct: 555 DSHLGDFIEDANSLAPIEAAVYDSLRNVTKDILDSLTPREAKVLRMRFGIEMNTDHTLEE 614 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VGKQF VTRERIRQIEAKA+RKL+HPSRS+KL+SFLDG Sbjct: 615 VGKQFDVTRERIRQIEAKALRKLRHPSRSEKLKSFLDG 652 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 58/157 (36%), Positives = 86/157 (54%), Gaps = 3/157 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +I L ++RGY+T E+N LP D + EQ+E V+M+++MGI V D D E +E Sbjct: 50 KALILLGKERGYLTFAEINDHLP-DMLEVEQVEGVVSMINDMGITVCDVAPDTESLVMNE 108 Query: 91 DSLDLASSASNSSVFLQ-KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + +A + DS T DPVRMY+REMG + LL+R+ EI IAKRIE G Sbjct: 109 TAPPVADEDAAEEAEAAISTVDSEFGRTTDPVRMYMREMGVVNLLTRQDEIEIAKRIEDG 168 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 M+ ++ P T ++ D++ + E+ID Sbjct: 169 LKHMIQAISACPATIAEILALADKVAKEELRIDELID 205 >gi|167829080|ref|ZP_02460551.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia pseudomallei 9] Length = 285 Score = 360 bits (924), Expect = 5e-97, Method: Compositional matrix adjust. Identities = 170/246 (69%), Positives = 207/246 (84%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 39 GELKARQAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 98 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + EP P +A+K+ Sbjct: 99 STYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKM 158 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P D+A+ A++R+ V Sbjct: 159 EMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTVAPADAALHASMRDVVKDV 218 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS KL Sbjct: 219 LDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKL 278 Query: 677 RSFLDG 682 +SFL+G Sbjct: 279 KSFLEG 284 >gi|256830224|ref|YP_003158952.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfomicrobium baculatum DSM 4028] gi|256579400|gb|ACU90536.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfomicrobium baculatum DSM 4028] Length = 588 Score = 360 bits (923), Expect = 6e-97, Method: Compositional matrix adjust. Identities = 198/423 (46%), Positives = 283/423 (66%), Gaps = 33/423 (7%) Query: 277 RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVL---------KEKLVKLVGS 327 R +V+ L+++ +YR+ + L DE +++ +V KE +V+ + Sbjct: 180 RERVIKLLEDVKNIYRKKKPLYTRL-----DECATLDKRVFGVQKKIMDYKEGVVQCLRD 234 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQS----YGIKRDVFLERHQGRE 378 + L ++ ID ++E + D ++ MHN +L L +S +GI ++ + R Sbjct: 235 IKLEKTLIDRIIETVGDYVRQ-MHNCRRDLSAYILSLGKSQDEIFGI-----FKQLEERT 288 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 ++P + E +F V+ ++I +++ ++ + + I+ +RKG Sbjct: 289 INPVAAADQLGMTMEELFSFKEM-VNGKIEILGKLQENAMH---DVDQLEEILWRIRKGN 344 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 345 TDALDAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFST 404 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K+VRT+R + ++ R+P+PEEIA+++ Sbjct: 405 YATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLVQELGRDPSPEEIAERMDY 464 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P D + L E +VL+ Sbjct: 465 PLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPADEVVNTKLAEQIAQVLS 524 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS++LRS Sbjct: 525 DLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQQLRS 584 Query: 679 FLD 681 + + Sbjct: 585 YYE 587 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 52/159 (32%), Positives = 91/159 (57%), Gaps = 14/159 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I +++G++T +ELN LP + + EQ+E+ + + + I++VD E + Sbjct: 13 LIAEGKKKGFLTFDELNKALPSEVNTPEQIEEIIVIFDQLDIDIVD-------EKLSRGI 65 Query: 94 DLASSASNSSVFLQKRK-----DSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRI 146 ++A +K + D AD S+ +DPVRMYLREMG++ LL R+GE+ IAK+I Sbjct: 66 EIAEDDGEEPKEEEKLELAEDEDGADYSSRSNDPVRMYLREMGAVGLLDRDGEVYIAKKI 125 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 EAG +M +L E P+ + L+ ++L G L++++ Sbjct: 126 EAGELEVMYALVEVPVAVEELVRVGEDLKKGRMKLKDVV 164 >gi|121609019|ref|YP_996826.1| RpoD family RNA polymerase sigma factor [Verminephrobacter eiseniae EF01-2] gi|121553659|gb|ABM57808.1| RNA polymerase, sigma 70 subunit, RpoD family [Verminephrobacter eiseniae EF01-2] Length = 635 Score = 360 bits (923), Expect = 6e-97, Method: Compositional matrix adjust. Identities = 184/348 (52%), Positives = 248/348 (71%), Gaps = 8/348 (2%) Query: 336 DLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE 394 D++ Q+ D+ ++ E EL R+ G+ ++ F++ L+ WV K G+ Sbjct: 292 DMVRGQVDDVRRK----ERELRRIIVDKCGMPQETFIKDFPPNLLNLQWVE--KQAAMGK 345 Query: 395 -WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W + +A + I ++ ++ + + ++E + I + +GE + AKKEM+EANL Sbjct: 346 PWSSIIARNIPPIQDLQQKLMDLQSRVVVPLTELKVINKRMNEGEATSRDAKKEMIEANL 405 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIA Sbjct: 406 RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 465 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K+ R +R+ + EP +A K+ +P + +RK++KI KEP Sbjct: 466 DQARTIRIPVHMIETINKMNRISRQHLQEFGFEPDASLLAAKMEIPEDKIRKIMKIAKEP 525 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 IS+ETPIGD+D SHLGDFIED + +P+++A+QA LR+ +L LTPRE +VLRMRFG Sbjct: 526 ISMETPIGDDDDSHLGDFIEDASNTAPIEAAMQAGLRDVVKDILDGLTPREAKVLRMRFG 585 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 I M +DHTLEEVGKQF VTRERIRQIEAKA+RKLKHPSRS KLRSF+D Sbjct: 586 IEMTSDHTLEEVGKQFDVTRERIRQIEAKALRKLKHPSRSDKLRSFID 633 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 60/181 (33%), Positives = 92/181 (50%), Gaps = 16/181 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E++ LP V +E +E + L+++G+ V D + L + Sbjct: 35 KTLIKLGKTRGYLTHVEISDHLPDKLVDAETLEAVITTLNDLGVAVYEQTPDAEALIITD 94 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 95 NAPTGASEEEAEEAAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 153 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHS 207 G MM ++ SP T ++ +E+ G ++ I+D GF + E Sbjct: 154 GGLMAMMEAISASPATIAEILNMGEEIRAGKVVISTIVD-----------GFSNPNEADD 202 Query: 208 Y 208 Y Sbjct: 203 Y 203 >gi|124267677|ref|YP_001021681.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Methylibium petroleiphilum PM1] gi|124260452|gb|ABM95446.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Methylibium petroleiphilum PM1] Length = 746 Score = 359 bits (922), Expect = 8e-97, Method: Compositional matrix adjust. Identities = 179/319 (56%), Positives = 234/319 (73%), Gaps = 3/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ +D F++ L+ W K+ + + +A + I ++ ++ + + Sbjct: 428 GMPQDHFIKTFPPNSLNLKWAE--KEIAANKSYSAVMARNLPPIQDLQQKLIDLQSRAVV 485 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 I + + I + +GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 486 PIDDLKLINKKMNQGEKASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 545 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 546 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRLSRQHLQE 605 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N +P++ Sbjct: 606 FGFEPDAPTLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNNTAPIE 665 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+QA LR+ +L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 666 AAMQAGLRDVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 725 Query: 663 AIRKLKHPSRSKKLRSFLD 681 AIRKLKHPSRS KLR++LD Sbjct: 726 AIRKLKHPSRSDKLRTYLD 744 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 66/188 (35%), Positives = 100/188 (53%), Gaps = 30/188 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IK+ + RG++T +E+N LP + +E +E V+ML++MGI V E + D Sbjct: 146 KTLIKMGKTRGFLTHQEINDHLPEKLIEAEILEAIVSMLNDMGIAVY--------EQAPD 197 Query: 92 SLDL----ASSASNSSVFLQKRK-------DSADRSTDDPVRMYLREMGSIELLSREGEI 140 + L S+A+++ ++ DS T DPVRMY+REMG++ELL+REGEI Sbjct: 198 AATLLIAGGSTATSTDEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEI 257 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 IAKRIE G MM ++ ESP T +++ D++ G + E +D GF Sbjct: 258 EIAKRIEGGLQAMMLAISESPTTIAEILVLADKIRVGEMQISEAVD-----------GFV 306 Query: 201 HGTEGHSY 208 E Y Sbjct: 307 SNEEADDY 314 >gi|332527902|ref|ZP_08403939.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] gi|332112479|gb|EGJ12272.1| putative RNA polymerase sigma(sigma-70) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] Length = 734 Score = 358 bits (918), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 177/319 (55%), Positives = 235/319 (73%), Gaps = 3/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ ++ F++ L+ W K+ G+ + + + ++ +++ ++ + + Sbjct: 416 GMPQEQFIKTFPPNVLNLKWAE--KEAAAGKPYSAVLGRNLPAVQELQQKLIDLQGRAVV 473 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + + + I + GE + AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 474 PLDDLKEINRHMNAGEKASRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 533 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+ + Sbjct: 534 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQE 593 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP +A+K+ +P + +RK++ I KEPIS+ETPIGD+D SHLGDFIED N V+P+D Sbjct: 594 FGFEPDAPTLAEKMEIPEDKIRKIMMIAKEPISMETPIGDDDDSHLGDFIEDTNNVAPVD 653 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+QA LRE +L SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 654 AAMQAGLREVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 713 Query: 663 AIRKLKHPSRSKKLRSFLD 681 AIRKLKHPSRS KLR++LD Sbjct: 714 AIRKLKHPSRSDKLRTYLD 732 Score = 105 bits (262), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 63/166 (37%), Positives = 93/166 (56%), Gaps = 19/166 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IK+ + RG++T +E+N LP V +E +E V+ML++MGI V E + D Sbjct: 134 KTLIKMGKTRGFLTHQEINDHLPEKLVDNEILEAIVSMLNDMGIAVY--------EQAPD 185 Query: 92 SLDLASSASNSSVFLQKRK-----------DSADRSTDDPVRMYLREMGSIELLSREGEI 140 + L + SN++ + DS T DPVRMY+REMGS+ELL+REGEI Sbjct: 186 AATLLINGSNTATATDEEAEEAAEAALSTVDSEFGRTTDPVRMYMREMGSVELLTREGEI 245 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 IAKRIE G MM ++ SP T ++ D++ G + E++D Sbjct: 246 EIAKRIEGGLQAMMLAISASPTTIAEILAMADKIAAGEMQISEVVD 291 >gi|239906706|ref|YP_002953447.1| RNA polymerase sigma factor SigA [Desulfovibrio magneticus RS-1] gi|239796572|dbj|BAH75561.1| RNA polymerase sigma factor SigA [Desulfovibrio magneticus RS-1] Length = 588 Score = 358 bits (918), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 197/441 (44%), Positives = 293/441 (66%), Gaps = 39/441 (8%) Query: 261 DEDDSAHTLSAMEDQL--RPKVMCALDEIAEVYRELRSLQ---------DNAVNGQKDEK 309 +EDD + ED++ R +V+ L+E+ +R+ R + D V G + E Sbjct: 168 EEDDPS------EDEMNQRQRVIFLLEEVKTSFRKKRKVYSKFDQCACVDKRVAGIQKE- 220 Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYG 364 V K+++V + + L ++ ID ++E + D ++ MHN +L + +S Sbjct: 221 ----IMVFKDEIVTRLRDIKLEKTLIDRIIEIVEDYVRQ-MHNCQRDLSAYILSVGKSQS 275 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE---WKNFVACEVDSILKIRNEIKSISVETG 421 +++F + RE++P + + E +K ++ +++ +++++++ Sbjct: 276 EIQEMFAQ-LDAREINPMIAAESLGLTVEELFSFKEMLSAKMEILVRLQDKCCH------ 328 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E ++ +++G A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 329 -NVHELEEVLWRIKRGNNAAQRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGL 387 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + Sbjct: 388 MKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQ 447 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PTPEEIA+++ P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A++P Sbjct: 448 ELGRDPTPEEIAERMDYPLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKALAPA 507 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + L E +VL+ LTPREE+VLR RFG+G +DHTLEEVGK F VTRERIRQIEA Sbjct: 508 EEVVNTKLGEQIGKVLSDLTPREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEA 567 Query: 662 KAIRKLKHPSRSKKLRSFLDG 682 KA+RKL+HP RS+ LRS+ +G Sbjct: 568 KALRKLRHPVRSQHLRSYYEG 588 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 57/156 (36%), Positives = 95/156 (60%), Gaps = 4/156 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +Q+G++T +E+N LP + + EQ+E+ +A+ + IN+VD D +D E Sbjct: 11 KSLIIKGKQKGFLTFDEVNKALPSEVNNPEQLEEVIAIFDQLDINLVDTD--KDGRKIEV 68 Query: 92 SLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + A ++ + L + +DS D S+ DPVRMYLREMG++ LL REGE+ IAK+IE G Sbjct: 69 AAAEPDDAPDADLELTESEDSLDYSSRSTDPVRMYLREMGAVPLLDREGEVVIAKKIENG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ +L E P+ + LI ++L G L++++ Sbjct: 129 EMEVLYALVEVPVAVEELIQVGEDLKIGRIKLKDVV 164 >gi|283851053|ref|ZP_06368337.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. FW1012B] gi|283573449|gb|EFC21425.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. FW1012B] Length = 588 Score = 357 bits (916), Expect = 4e-96, Method: Compositional matrix adjust. Identities = 201/439 (45%), Positives = 287/439 (65%), Gaps = 35/439 (7%) Query: 261 DEDDSAHTLSAMEDQL--RPKVMCALDEIAEVYRELRSLQ---------DNAVNGQKDEK 309 +EDD + ED++ R +V+ LDE+ +R+ R + D V G + E Sbjct: 168 EEDDPS------EDEMNQRQRVIFLLDEVKASFRKKRKIYSKLDQCACLDRRVAGIQKE- 220 Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYG 364 V KE++V + + L ++ ID ++E + D ++ MHN +L + +S Sbjct: 221 ----IMVFKEEIVVRLRDIKLEKTLIDRIIEIVEDYVRQ-MHNCQRDLSAYILSVGKSQS 275 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI-KSISVETGIS 423 +++F + R+++P + + E +F +L + EI + + Sbjct: 276 EIQEMFAQ-LDSRDINPVVAAESLGLTVEELFSF-----KEMLSAKMEILDRLQEKCCHH 329 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + E ++ +++G A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 330 VHELEEVLWRIKRGNTAAQRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMK 389 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ Sbjct: 390 AVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEL 449 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 R+PTPEEIA+++ P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A++P + Sbjct: 450 GRDPTPEEIAERMDYPLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKALAPAEE 509 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L E +VL+ LTPREE+VLR RFG+G +DHTLEEVGK F VTRERIRQIEAKA Sbjct: 510 VVNTKLGEQIGKVLSDLTPREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEAKA 569 Query: 664 IRKLKHPSRSKKLRSFLDG 682 +RKL+HP RS+ LRS+ +G Sbjct: 570 LRKLRHPVRSQHLRSYYEG 588 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 59/163 (36%), Positives = 92/163 (56%), Gaps = 18/163 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---------D 82 K +I +Q+G++T +E+N LP + + EQ+E+ +A+ + IN+VD D Sbjct: 11 KSLIVKGKQKGFLTFDEVNKALPSEVNNPEQLEEVIAIFDQLDINLVDTDKDGRKIEVAS 70 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E EE + L+L S D + RSTD PVRMYLREMG++ LL REGE+ I Sbjct: 71 TEPEETPDADLELTESEDTL--------DYSSRSTD-PVRMYLREMGAVPLLDREGEVVI 121 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 AK+IE G ++ +L E P+ + LI ++L G L++++ Sbjct: 122 AKKIENGEMDVLYALVEVPVAVEELIQVGEDLKIGRIKLKDVV 164 >gi|303245332|ref|ZP_07331616.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio fructosovorans JJ] gi|302493181|gb|EFL53043.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio fructosovorans JJ] Length = 588 Score = 357 bits (916), Expect = 4e-96, Method: Compositional matrix adjust. Identities = 196/421 (46%), Positives = 278/421 (66%), Gaps = 27/421 (6%) Query: 277 RPKVMCALDEIAEVYRELRSLQ---------DNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 R +V+ LDE+ +R+ R + D V G + E V KE++V + Sbjct: 180 RQRVIFLLDEVKVSFRKKRKIYSKLDQCACLDRRVAGIQKE-----IMVFKEEIVVRLRD 234 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQGRELDPH 382 + L ++ ID ++E + D ++ MHN +L + +S +++F + RE++P Sbjct: 235 IKLEKTLIDRIIEIVEDYVRQ-MHNCQRDLSAYILSVGKSQSEIQELFAQ-LDAREVNPM 292 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEI-KSISVETGISISEFRHIVSMVRKGECEA 441 + + E +F +L + EI + + + + ++ +++G A Sbjct: 293 VAAESLGLTVEELFSF-----KEMLTAKMEILDRLQEKCCHHVHDLEEVLWRIKRGNTAA 347 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 348 QRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYAT 407 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ P+E Sbjct: 408 WWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPLE 467 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A++P + + L E +VL+ LT Sbjct: 468 KVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKALAPAEEVVNTKLGEQIGKVLSDLT 527 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PREE+VLR RFG+G +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 528 PREEQVLRKRFGLGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQHLRSYYE 587 Query: 682 G 682 G Sbjct: 588 G 588 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 58/156 (37%), Positives = 96/156 (61%), Gaps = 4/156 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +Q+G++T +E+N LP + +S EQ+E+ +A+ + IN+VD D +D E Sbjct: 11 KSLIVKGKQKGFLTFDEVNKALPSEVISPEQLEEVIAIFDQLDINLVDTD--KDGRKVEA 68 Query: 92 SLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S A ++ + L + +D+ D S+ DPVRMYLREMG++ LL REGE+ IAK+IE G Sbjct: 69 SSAEPDDAPDADLELTESEDTLDYSSRSTDPVRMYLREMGAVPLLDREGEVVIAKKIENG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ +L E P+ + LI ++L G L++++ Sbjct: 129 EMDVLYALVEVPVAVEELIQVGEDLKIGRIKLKDVV 164 >gi|317484461|ref|ZP_07943373.1| RNA polymerase sigma factor RpoD [Bilophila wadsworthia 3_1_6] gi|316924285|gb|EFV45459.1| RNA polymerase sigma factor RpoD [Bilophila wadsworthia 3_1_6] Length = 590 Score = 357 bits (915), Expect = 4e-96, Method: Compositional matrix adjust. Identities = 194/428 (45%), Positives = 284/428 (66%), Gaps = 31/428 (7%) Query: 273 EDQL--RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV---------LKEKL 321 ED++ R +V+ L+EI + +++ R + + DE +++ +V KE++ Sbjct: 176 EDEMNQRTRVILLLEEIRQTFKKKRK-----IYAKLDECCTLERRVTAIQKEIMAFKEEI 230 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIK----RDVFLERHQGR 377 V + + L ++ ID ++E + D +++ + + +L S G +D+F + R Sbjct: 231 VTRLRDIKLEKTLIDRIIETVEDYVRQMRNCQRDLSAYLLSTGKNQEEIKDLF-RKLDSR 289 Query: 378 ELDPHWVSYAKDFPEGE---WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 ++ P + + E +K + +++ + +++ + ++S+ ++ + Sbjct: 290 DISPVLAAKELNMSVDELFSYKEMILGKIEILQRLQEKCCH-------NVSDLEEVLWRI 342 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 ++G A AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GY Sbjct: 343 KRGNNAAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGY 402 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA Sbjct: 403 KFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAD 462 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ PV+ V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + + L E Sbjct: 463 RMEYPVDKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIA 522 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VLA LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ Sbjct: 523 SVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQ 582 Query: 675 KLRSFLDG 682 LRSF D Sbjct: 583 VLRSFYDS 590 Score = 84.7 bits (208), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 54/164 (32%), Positives = 90/164 (54%), Gaps = 19/164 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----GDDL---- 83 K +I ++ G++T EE+N +P + + EQ E+ + + + I +VD G + Sbjct: 12 KSLIAKGKEMGFLTFEEVNKAVPLEMNTPEQFEEIIGIFDQLEIAIVDLEKDGKKIPVTS 71 Query: 84 --EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 D E SE+ L+L + + D + RSTD PVRMYLREMG++ LL R+GE+ Sbjct: 72 AETDGEQSEERLELVDNEDAA--------DFSSRSTD-PVRMYLREMGAVPLLDRDGEVT 122 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAK+IE G ++ +L E P+ + LI ++L L++++ Sbjct: 123 IAKKIEQGEQDVLYALVEVPVAVEELINVGEDLKLNRIKLKDVV 166 >gi|319779662|ref|YP_004130575.1| RNA polymerase sigma factor RpoD [Taylorella equigenitalis MCE9] gi|317109686|gb|ADU92432.1| RNA polymerase sigma factor RpoD [Taylorella equigenitalis MCE9] Length = 840 Score = 357 bits (915), Expect = 5e-96, Method: Compositional matrix adjust. Identities = 183/351 (52%), Positives = 249/351 (70%), Gaps = 8/351 (2%) Query: 338 LVEQLYDISKRIMHNEGELLRLAQSY-----GIKRDVFLERHQGRELDPHWVS-YAKDFP 391 +VE+L +I ++ + EL + S G+ R+ F++ G E + WV+ K P Sbjct: 491 MVEKLAEILRKQIERVRELEKAMISVCVDKVGMPREHFIDSFPGNETNLEWVNDELKKKP 550 Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 + + + + I +I+ + + E + I E + + + GE +A AK EM+EA Sbjct: 551 K--YAEKLERSIPDIHEIQQKFIDLEKEVILPIKELKDVNKRMVNGEAKAKKAKHEMIEA 608 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRS Sbjct: 609 NLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 668 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQ+ IRIPVHM + I+K+ R R++ + EP +A+K+ MP+E +RK+LKI+K Sbjct: 669 IADQARIIRIPVHMIETINKINRITRQILQETGVEPDSAMLAEKMDMPIEKIRKILKISK 728 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 +PIS+ETPIGD+D SHLGDFIED + +SP ++A+Q ++ E V+ SLT RE +VLRMR Sbjct: 729 DPISMETPIGDDDDSHLGDFIEDTSTLSPEEAALQRSMSEVFDEVINSLTQREGKVLRMR 788 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 FGIGM++D TLEEVGKQF VTRERIRQIEAKA+RKL+HPSR+ KL+SFL+ Sbjct: 789 FGIGMSSDQTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRADKLKSFLEN 839 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 62/163 (38%), Positives = 87/163 (53%), Gaps = 14/163 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IK + GY+T E+N L D V SE ME V+ L +MGI V E+ +ED Sbjct: 245 RSLIKQGKDHGYLTYAEINDVLSDDIVDSEAMESMVSTLESMGIPV-----YEEAPNAED 299 Query: 92 SLDLASSASNSSVFLQKRK--------DSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L LA ++ + + DS T DPVRMY+REMGS+ELL+R EI IA Sbjct: 300 -LILAEPSNVNDDDDVDDEAEVALTTVDSEFGRTTDPVRMYMREMGSVELLNRTKEIEIA 358 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 KRIE G M+ ++ SP T ++ ++ DG + EI+D Sbjct: 359 KRIEEGLKHMVMAIANSPTTINEILEHIQKVRDGKAQIEEIVD 401 >gi|94986960|ref|YP_594893.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] gi|94731209|emb|CAJ54571.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] Length = 590 Score = 356 bits (914), Expect = 6e-96, Method: Compositional matrix adjust. Identities = 200/441 (45%), Positives = 289/441 (65%), Gaps = 39/441 (8%) Query: 261 DEDDSAHTLSAMEDQL--RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV-- 316 +EDD + ED++ R +V+ L+EI +++++ R V + DE +++ +V Sbjct: 170 EEDDPS------EDEMSQRNRVILLLEEIRQIFKKKRK-----VYLKLDECCTLERRVAG 218 Query: 317 -------LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYG 364 KE++V + + L ++ ID ++E + D ++ MHN LL ++ Sbjct: 219 IQKEILQFKEEIVTRLRDIKLEKTLIDRIIETVEDYVRQ-MHNCQRELSAYLLSTGKTQD 277 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGE---WKNFVACEVDSILKIRNEIKSISVETG 421 +D+F + REL P + + E +K + +++ + +++ + Sbjct: 278 EIKDLF-TKLDARELSPRDAALLLNMGVDELFSYKEMILGKIEILQRLQEKCCH------ 330 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ + ++ +++G A AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGL Sbjct: 331 -NVVDLEEVLWRIKRGNNAAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGL 389 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + Sbjct: 390 MKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQ 449 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R+PTPEEIA+++ P++ V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P Sbjct: 450 EFGRDPTPEEIAERMDYPLDKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPS 509 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + L E VLA LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEA Sbjct: 510 EEVVNTKLSEQIASVLADLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEA 569 Query: 662 KAIRKLKHPSRSKKLRSFLDG 682 KA+RKL+HP RS+ LRSF D Sbjct: 570 KALRKLRHPVRSQVLRSFYDS 590 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 53/157 (33%), Positives = 89/157 (56%), Gaps = 5/157 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +I + G+VT EE+N +P D + EQ E+ + + + I +VD + E ++ + Sbjct: 12 RTLIAKGKAAGFVTFEEVNKAVPIDMNTPEQFEEIIGIFDQLEIVIVDSEK-EGKKITVT 70 Query: 92 SLDLASSASNSSVFLQKRKDSAD---RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S + S + L +D AD RSTD PVRMYLREMG++ LL R+GE+ IAK++E Sbjct: 71 SPETDGDTSENCFDLVDTEDVADFSSRSTD-PVRMYLREMGAVPLLDRDGEVVIAKKVET 129 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G ++ +L E P+ + LI ++L L++++ Sbjct: 130 GEQDVLYALVEVPVAVEELISVGEDLKLNRIKLKDVV 166 >gi|225848841|ref|YP_002729005.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Sulfurihydrogenibium azorense Az-Fu1] gi|225644391|gb|ACN99441.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Sulfurihydrogenibium azorense Az-Fu1] Length = 586 Score = 356 bits (913), Expect = 7e-96, Method: Compositional matrix adjust. Identities = 196/450 (43%), Positives = 291/450 (64%), Gaps = 34/450 (7%) Query: 250 NAENDERNLDEDEDDSAHTLSAME--DQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKD 307 N E E +DE D + L E D++ + E+A++YR+L + Sbjct: 153 NVEETEEKVDELSDGESLELENNENYDKITSDFIKKGLELAKLYRDL----------LEK 202 Query: 308 EKSSVKCKVLKEK---------LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLR 358 EK ++ K L+ K L K + SL++ +++D + ++L ++ ++ NE Sbjct: 203 EKIYLETKTLEAKREFVWQHAKLNKFIKSLNIKFTKLDKIADELKELYTKLRKNE----- 257 Query: 359 LAQSYGIKRDVFLERHQGREL--DPHWVSYAKDFPEGEWKNFVACEVDSI----LKIRNE 412 + Y + + + H +L + Y + + E F + + L+++NE Sbjct: 258 --KDYEKRIKIISKIHPDLDLMLSTEYEKYPEILKKLESNGFSYGRYEILRTETLRLKNE 315 Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ I + G EF H++ ++++G E + K+ +V+ANLRLV+S+AKKYTNRGLQFLD Sbjct: 316 IEDIKAKIGTIPEEFDHVLDIIQQGRNEINNVKQILVKANLRLVVSIAKKYTNRGLQFLD 375 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +K+D+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ Sbjct: 376 LIQEGNIGLMKAVDKYDYKRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKL 435 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR M ++ REPTPEEIAKK+ MP E V+K+L+ ++EPISLETPIG ++ +HLGDFI Sbjct: 436 IRVARSMVQELGREPTPEEIAKKVGMPAEKVKKILRTSQEPISLETPIGTDEETHLGDFI 495 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDK+ +SP ++ LR VL++L+ REE+VLR RFG+ +T+HTLE+VGK+F VT Sbjct: 496 EDKSVLSPEAHMLKNALRMQLDEVLSTLSEREEQVLRYRFGLEDDTEHTLEQVGKRFGVT 555 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RERIRQIEAKA+RKL+HP R+K L+ F++G Sbjct: 556 RERIRQIEAKALRKLRHPHRAKYLKPFIEG 585 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 49/163 (30%), Positives = 84/163 (51%), Gaps = 14/163 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGDDLEDEE 87 D + +I LAR++GYVT E++ ++ + SS E +E + L+ + I+V D + +++E+ Sbjct: 8 DDVRTLINLAREKGYVTYSEISTYVDEEFFSSDEHIESLIEYLNELNIDVRDDEKIKEED 67 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D + L D DDPV++YLREMG I LL RE EI A IE Sbjct: 68 ---DDIYLGIDFD----------DDVWSKADDPVKLYLREMGKIPLLKREEEIKYAMEIE 114 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 GR + L + + L+ ++ DG +++++++E Sbjct: 115 RGRKKVFRGLLRTSFLTERLLDEWAKVVDGKLRVQDLLNVEET 157 >gi|303327390|ref|ZP_07357831.1| RNA polymerase sigma-70 factor [Desulfovibrio sp. 3_1_syn3] gi|302862330|gb|EFL85263.1| RNA polymerase sigma-70 factor [Desulfovibrio sp. 3_1_syn3] Length = 589 Score = 356 bits (913), Expect = 8e-96, Method: Compositional matrix adjust. Identities = 194/419 (46%), Positives = 277/419 (66%), Gaps = 13/419 (3%) Query: 273 EDQL--RPKVMCALDEIAEVYRELRS----LQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 ED++ R +V+ LDEI +V+++ R L D ++ + + KE++V + Sbjct: 175 EDEMNQRSRVILLLDEIKQVFKKKRKIYKKLDDCCTLERRVTATQKEIISFKEEIVTRLR 234 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG---IKRDVFLERHQGRELDPHW 383 + L ++ ID ++E + D +++ + + +L S G ++ + + RE++P Sbjct: 235 DIKLEKTLIDRIIETVEDYVRQMHNCQRDLSAYILSTGRTQVEIQTMFDGLEKREVNPTE 294 Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 + E +F + I +K + + ++ + ++ +++G A Sbjct: 295 AARDLKLSVDELFSFKEMIIGKI----EILKRLQEKCCHNVGDLEEVLWRIKRGNTAAMR 350 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 351 AKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 410 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ PVE V Sbjct: 411 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMEYPVEKV 470 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + I L E VLA LTPR Sbjct: 471 KKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVINTKLSEQLAAVLADLTPR 530 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EE+VLR RFGI +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 531 EEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQPLRSYYEN 589 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/164 (32%), Positives = 90/164 (54%), Gaps = 19/164 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD--------- 82 + +I + G++T EE+N LP + + EQ E+ + + + I +VD + Sbjct: 11 QSLIAKGKGTGFLTFEEVNKALPVEMSTPEQFEEIIGIFEQLEIVIVDSEKDGKKISATA 70 Query: 83 -LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 D++ SED+LDL ++ D + RSTD PVRMYLREMG++ LL R+GE+ Sbjct: 71 AETDDDVSEDTLDLTEDEESA--------DYSSRSTD-PVRMYLREMGAVPLLDRDGEVV 121 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAK+IE G ++ +L E P+ + LI ++L L++++ Sbjct: 122 IAKKIEMGEQDVLYALVEVPVAVEELINVGEDLRQNRVKLKDVV 165 >gi|46580198|ref|YP_011006.1| RNA polymerase sigma-70 factor [Desulfovibrio vulgaris str. Hildenborough] gi|120602415|ref|YP_966815.1| RpoD family RNA polymerase sigma factor [Desulfovibrio vulgaris DP4] gi|46449615|gb|AAS96265.1| RNA polymerase sigma-70 factor [Desulfovibrio vulgaris str. Hildenborough] gi|120562644|gb|ABM28388.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfovibrio vulgaris DP4] gi|311233814|gb|ADP86668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio vulgaris RCH1] Length = 590 Score = 355 bits (910), Expect = 2e-95, Method: Compositional matrix adjust. Identities = 189/409 (46%), Positives = 270/409 (66%), Gaps = 26/409 (6%) Query: 279 KVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLL 338 KV LDE + R + S+Q +N KE +V + + L ++ ID + Sbjct: 201 KVYSKLDECCTLERRVASVQREIMN-------------YKEDIVSRLRDIKLEKTLIDRI 247 Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKR---DVFLERHQGRELDPHWVSYAKDFPEGE- 394 +E + D +++ + + +L S G + + RE+ P S A + E Sbjct: 248 IETVEDYVRQMHNCQRDLSAYILSTGKTQAEIQALFSGLEAREVSPVAASAALNMTVEEL 307 Query: 395 --WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 +K + +++ + +++++ ++++ ++ +++G A AK+E++ +N Sbjct: 308 FSFKEMILGKIEILSRLQDKCCH-------NVNDLEEVLWRIKRGNSIAMRAKQELIRSN 360 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+I Sbjct: 361 LRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAI 420 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ P++ V+KVLKI KE Sbjct: 421 ADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKE 480 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETPIGDE+ S LGDFIEDK AV+P + + L E VLA LTPREE+VLR RF Sbjct: 481 PISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLGEQIASVLADLTPREEQVLRKRF 540 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ + Sbjct: 541 GIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQTLRSYYE 589 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/165 (32%), Positives = 91/165 (55%), Gaps = 20/165 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---------- 81 K +I + G++T +E+N LP + + EQ+E+ + + + I +VD + Sbjct: 11 KSLIAKGKVSGFLTFDEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSEKDGKKISMSP 70 Query: 82 -DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 + E+E SE LDL+ ++ D + RSTD PVRMYLREMGS+ LL R+GE+ Sbjct: 71 GESEEEAPSEGGLDLSDD--------EETVDYSSRSTD-PVRMYLREMGSVPLLDRDGEV 121 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IAK+IE G ++ +L E P+ + L+ ++L L++++ Sbjct: 122 VIAKKIEMGEQDVLYALVEVPVAVEELVNVGEDLKQNRIKLKDVV 166 >gi|291279867|ref|YP_003496702.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290754569|dbj|BAI80946.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 598 Score = 354 bits (908), Expect = 3e-95, Method: Compositional matrix adjust. Identities = 164/261 (62%), Positives = 217/261 (83%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G + +E I + + +GE EA AK E++EANLRLV+S+AKKYTNRGLQFLDLIQEGNIG Sbjct: 338 GFTKNELEVIYNSLLEGEYEAEKAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIG 397 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA EKF++ GYKFSTYA WW++Q+ITR+IADQ+ TIRIPVHM + I+K++RT R++ Sbjct: 398 LMKAVEKFEYRRGYKFSTYATWWIRQSITRAIADQARTIRIPVHMIETINKMIRTIRQLQ 457 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ +EPTPEEIA+++ +PVE V+KVLKI KEP+SLETPIG+++ S LGDFIED++A +P Sbjct: 458 IELGKEPTPEEIAERMDIPVEKVKKVLKIAKEPVSLETPIGEDEDSSLGDFIEDQSAKNP 517 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LD + L+E T +L +LTPRE VLR+RFGI ++DHTLEEVG++F VTRERIRQIE Sbjct: 518 LDEVVYEKLKEHTRAILDTLTPREASVLRLRFGIDCDSDHTLEEVGRRFNVTRERIRQIE 577 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HP+RS+ L++FL+ Sbjct: 578 AKALRKLRHPTRSRILKTFLE 598 >gi|78357095|ref|YP_388544.1| sigma-70 factor [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78219500|gb|ABB38849.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 589 Score = 354 bits (908), Expect = 3e-95, Method: Compositional matrix adjust. Identities = 195/425 (45%), Positives = 283/425 (66%), Gaps = 27/425 (6%) Query: 273 EDQL--RPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVL---------KEKL 321 ED++ R +V+ LDEI +++ R V + DE +++ +V KE++ Sbjct: 175 EDEMNQRQRVILLLDEIQSTFKKKRK-----VYQRLDECCTLERRVYGIQKEIIAYKEEI 229 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQG 376 V + + L ++ ID ++E + D ++ MHN +L ++ R++F + Sbjct: 230 VSRLRDIKLEKTLIDRIIETVEDYVRQ-MHNCQRDLSAYILSTGKTQTEMRELF-RQLDD 287 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 RE++P + + + E +F + ++I N ++ ++++ ++ +++ Sbjct: 288 REINPVVAADSLNLTVEELFSFKEM-IMGKMEILNRLQEKCCH---NVTDLEEVLWRIKR 343 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G A AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 344 GNSHAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKF 403 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ Sbjct: 404 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERM 463 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 P++ V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + + L E V Sbjct: 464 DYPIDKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAV 523 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LTPREE+VLR RFGI +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ L Sbjct: 524 LADLTPREEQVLRKRFGINEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQTL 583 Query: 677 RSFLD 681 RS+ + Sbjct: 584 RSYYE 588 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 52/159 (32%), Positives = 91/159 (57%), Gaps = 9/159 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I + G++T EE+N LP + + EQ+E+ + + + I +VD + ++G + Sbjct: 11 KTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSE----KDGKKI 66 Query: 92 SLDLASS---ASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRI 146 S+ A + + + L D AD S+ DPVRMYLREMG++ LL R+GE+ IAK+I Sbjct: 67 SVSPAEADDEGGDGGLELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEVNIAKKI 126 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G ++ +L E P+ + LI ++L + L++++ Sbjct: 127 ETGEQDVLYALVEVPIAVEELISVGEDLKENRIKLKDVV 165 >gi|212702263|ref|ZP_03310391.1| hypothetical protein DESPIG_00274 [Desulfovibrio piger ATCC 29098] gi|212674326|gb|EEB34809.1| hypothetical protein DESPIG_00274 [Desulfovibrio piger ATCC 29098] Length = 589 Score = 353 bits (907), Expect = 4e-95, Method: Compositional matrix adjust. Identities = 197/422 (46%), Positives = 285/422 (67%), Gaps = 19/422 (4%) Query: 273 EDQL--RPKVMCALDEIAEVYRELRSLQD--NAVNGQKDEKSSVKCKVL--KEKLVKLVG 326 ED+L R +V+ LDEI +++++ R + + N + ++++ +++ KE++V + Sbjct: 175 EDELNQRSRVILLLDEIKQIFKKKRKIYKKLDDCNTLDRKVTAIQKEIISYKEEIVTRLR 234 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQGRELDP 381 + L ++ ID ++E + D ++ MHN +L ++ +++F Q R ++P Sbjct: 235 DIKLEKTLIDRIIETVEDYVRQ-MHNCQRDLSAYILSTGRTQAEIQEMFTGLEQ-RTINP 292 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS-ISVETGISISEFRHIVSMVRKGECE 440 + + E +F + I EI S + + ++++ ++ +++G Sbjct: 293 NDAARDLKLSVDELFSFKEMIIGKI-----EILSRLQEKCCHNVNDLEEVLWRIKRGNTA 347 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 348 AMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 407 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ PV Sbjct: 408 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMEYPV 467 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + I L E VLA L Sbjct: 468 EKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVINTKLSEQLAAVLADL 527 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TPREE+VLR RFGI +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ LRS+ Sbjct: 528 TPREEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQPLRSYY 587 Query: 681 DG 682 + Sbjct: 588 EN 589 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 51/156 (32%), Positives = 91/156 (58%), Gaps = 3/156 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +I + GY+T +E+N LP + + EQ E+ + + + I +VD + + ++ S Sbjct: 11 QSLIAKGKGMGYLTFDEVNKALPVEMNTPEQFEEIIGIFEQLEIAIVDSEK-DGKKISAT 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + A + S+ L + ++SAD S+ DPVRMYLREMG++ LL R+GE+ IAK+IE G Sbjct: 70 PTETDDDAMDGSLELAEDEESADYSSRSTDPVRMYLREMGAVPLLDRDGEVVIAKKIEMG 129 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ +L E P+ + LI ++L L++++ Sbjct: 130 EQDVLYALVEVPVAVEELINVGEDLRQNRIKLKDVV 165 >gi|297181479|gb|ADI17666.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured gamma proteobacterium HF0130_23I23] Length = 602 Score = 353 bits (907), Expect = 5e-95, Method: Compositional matrix adjust. Identities = 168/237 (70%), Positives = 205/237 (86%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 364 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 423 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE++K+L +P + + Sbjct: 424 IRQAITRSIADQARTIRIPVHMIETINKLNRLSRQMMQEIGREPTPEEMSKRLDIPEDKM 483 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKV+KI KEPIS+ETPIGD++ S+LGDF+ED + SP+D A +L+++T +LASLT R Sbjct: 484 RKVMKIAKEPISMETPIGDDEDSNLGDFLEDSSINSPIDDASIRSLKDSTDEILASLTAR 543 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +VLRMRFGIGMN DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS L+SFL Sbjct: 544 EAKVLRMRFGIGMNNDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDVLKSFL 600 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 52/146 (35%), Positives = 86/146 (58%), Gaps = 2/146 (1%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG-SED 91 ++I+LA+ +GY+T ++ LP ++ E+ V +L +MGI V + EDE ED Sbjct: 19 QLIQLAKDQGYLTHADITDTLPDGSTDADNFEEIVQVLKDMGIKVFEDTPDEDELMLGED 78 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +A ++ L + + + R+TD PVRMY+REMGS++LL++ GEI IAKRIE+ Sbjct: 79 EETDDVAAEDAVAALSQTEIESGRTTD-PVRMYMREMGSVDLLTKTGEIDIAKRIESAMK 137 Query: 152 MMMASLCESPLTFQALIIWRDELNDG 177 ++A E PL + ++ + D + G Sbjct: 138 EVLALCAEYPLCIEYVLDFFDRIKIG 163 >gi|158522162|ref|YP_001530032.1| RpoD family RNA polymerase sigma factor [Desulfococcus oleovorans Hxd3] gi|158510988|gb|ABW67955.1| RNA polymerase, sigma 70 subunit, RpoD family [Desulfococcus oleovorans Hxd3] Length = 738 Score = 353 bits (906), Expect = 5e-95, Method: Compositional matrix adjust. Identities = 163/255 (63%), Positives = 208/255 (81%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R + + G A +K E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGN+GLMKA + Sbjct: 483 LRKTMKKIDDGYLRAKASKSELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNVGLMKAVD 542 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + + E Sbjct: 543 KFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQERGYE 602 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P+PEEIA+K+ +P+E VR+VLKI +EPISLETPIG+E+ SHLGDFIEDK + P ++A+ Sbjct: 603 PSPEEIAEKMEIPLEKVRRVLKIAREPISLETPIGEEEDSHLGDFIEDKKFMIPSEAAVS 662 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 NL E T +VLA+LTPREE+VLRMRFGIG DHTLEEVG+ F VTRERIRQIEAKA+RK Sbjct: 663 MNLSEQTRKVLATLTPREEKVLRMRFGIGEKADHTLEEVGRDFAVTRERIRQIEAKALRK 722 Query: 667 LKHPSRSKKLRSFLD 681 L+HP+RSK L+ F++ Sbjct: 723 LRHPTRSKMLKHFIE 737 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 46/144 (31%), Positives = 82/144 (56%), Gaps = 6/144 (4%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I +++G +T EE+ + +++ ++QM+D + L ++ I+VV D D+ G ED Sbjct: 170 LIAKGKKQGELTYEEIAKAIEANDIPTDQMDDLLVHLDDLDISVVKKADQADDSG-EDGA 228 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 + + + DS S D V+MYLREMG + LLSREGE+ IAK+IEAG Sbjct: 229 KSTTRGDSPVTY-----DSDPGSVTDTVKMYLREMGLVTLLSREGEVEIAKKIEAGEQEA 283 Query: 154 MASLCESPLTFQALIIWRDELNDG 177 + + ++ + +++I + D ++ G Sbjct: 284 LRGMLDTAVGVESIIAYGDNIDVG 307 >gi|220904357|ref|YP_002479669.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219868656|gb|ACL48991.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 589 Score = 353 bits (905), Expect = 7e-95, Method: Compositional matrix adjust. Identities = 197/426 (46%), Positives = 280/426 (65%), Gaps = 27/426 (6%) Query: 273 EDQL--RPKVMCALDEIAEVYR---------ELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 ED++ R +V+ LDEI + ++ ++ + D V + E + C KE++ Sbjct: 175 EDEMNQRSRVILLLDEIKQTFKKKRKIYKKLDVCTCMDRRVTAVQKE---IIC--FKEEI 229 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQG 376 V + + L ++ ID ++E + D ++ MHN +L ++ + +F + + Sbjct: 230 VTRLRDIKLEKTLIDRIIETVEDYVRQ-MHNCQRDLSAYILATGRTQAEIQAMF-DGLEQ 287 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 RE++P + E +F + I +I N ++ ++++ ++ +++ Sbjct: 288 REINPMDAARDLKLSVDELFSFKEMIIGKI-EILNRLQEKCCH---NVTDLEEVLWRIKR 343 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G A AK+E++ +NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 344 GNTAAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKF 403 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+PTPEEIA+++ Sbjct: 404 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERM 463 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 PVE V+KVLKI KEPISLETPIGDE+ S LGDFIEDK AV+P + I L E V Sbjct: 464 EYPVEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAVAPAEEVINTKLSEQLAAV 523 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA LTPREE+VLR RFGI +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS+ L Sbjct: 524 LADLTPREEQVLRKRFGIAEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQPL 583 Query: 677 RSFLDG 682 RS+ + Sbjct: 584 RSYYEN 589 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 53/159 (33%), Positives = 94/159 (59%), Gaps = 9/159 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +I + G++T EE+N LP + + EQ E+ + + + I +VD + ++G + Sbjct: 11 QSLIAKGKGAGFLTFEEVNKALPVEMSTPEQFEEIIGIFEQLEIVIVDSE----KDGKKI 66 Query: 92 SLDLASS---ASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRI 146 S + S ++SS+ L + +D+AD S+ DPVRMYLREMG++ LL R+GE+ IAK+I Sbjct: 67 SATASESDEEITDSSLDLSEDEDTADYSSRSTDPVRMYLREMGAVPLLDRDGEVVIAKKI 126 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E G ++ +L E P+ + LI ++L L++++ Sbjct: 127 EMGEQDVLYALVEVPVAVEELINVGEDLRQNRIKLKDVV 165 >gi|242279084|ref|YP_002991213.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio salexigens DSM 2638] gi|242121978|gb|ACS79674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio salexigens DSM 2638] Length = 585 Score = 352 bits (904), Expect = 9e-95, Method: Compositional matrix adjust. Identities = 194/424 (45%), Positives = 283/424 (66%), Gaps = 23/424 (5%) Query: 273 EDQL--RPKVMCALDEIAEVYRELR----SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVG 326 ED++ R +V+ LDE+ ++Y + R L D A +K K + K ++V+ + Sbjct: 171 EDEMNQRQRVIFLLDEVKKLYDKKRDLYYKLDDCATLEKKVAKQQNEIVNYKTEIVERLR 230 Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQGRELDP 381 + + ++ ID ++E + D ++ MHN +L ++ +D+F ++ RE++P Sbjct: 231 DIKIEKTLIDQIIETVGDYVRQ-MHNCQRDLSAYILSTGKTQQEIKDLF-KQIDDREINP 288 Query: 382 HWVSYAKDFPEGE---WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 S E +K ++ +++ +++++++ ++ E ++ ++ G Sbjct: 289 VAASDELGMTVDELFSFKEMISGKMEILVRLQDKCCH-------NVHELEEVLWRIKHGN 341 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 342 RSAMRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFST 401 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+P+PEEIA+++ Sbjct: 402 YATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPSPEEIAERMDY 461 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A +P + + L E VL+ Sbjct: 462 PLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKAAAPAEEVVSTKLGEQIATVLS 521 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS LRS Sbjct: 522 DLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSALLRS 581 Query: 679 FLDG 682 + + Sbjct: 582 YYEN 585 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 55/161 (34%), Positives = 92/161 (57%), Gaps = 13/161 (8%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLED 85 + K +I +++G++T E+L LP + S+Q++D + + + I +V DG + D Sbjct: 9 AIKTLISEGKKQGFLTFEQLGKALPAEFNKSDQLDDVIKIFDQLNIAIVNTPEDGKKIMD 68 Query: 86 EE-GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 ++D +DL S S D RSTD PVRMYLREMG++ LL REGE+ IAK Sbjct: 69 AGVDNDDDIDLTESEEESV-------DYVSRSTD-PVRMYLREMGAVGLLDREGEVVIAK 120 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 +IE G ++ +L E P+ + LI ++L++ L++++ Sbjct: 121 KIENGEMDVLYALVEIPVAIEELISVGEDLDESRIKLKDVV 161 >gi|297180571|gb|ADI16783.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured gamma proteobacterium HF0010_11B23] Length = 605 Score = 352 bits (904), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 167/237 (70%), Positives = 203/237 (85%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 367 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 426 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M +I REPTPEE++K+L +P + + Sbjct: 427 IRQAITRSIADQARTIRIPVHMIETINKLNRLSRQMMQEIGREPTPEEMSKRLDIPEDKM 486 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 RKV+KI KEPIS+ETPIGD++ S+LGDF+ED + SP+D A L++ T +LASLT R Sbjct: 487 RKVMKIAKEPISMETPIGDDEDSNLGDFLEDTSINSPIDDASIRGLKDATDEILASLTAR 546 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +VLRMRFGIGMN DHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS L+SFL Sbjct: 547 EAKVLRMRFGIGMNNDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDVLKSFL 603 >gi|317153216|ref|YP_004121264.1| RNA polymerase sigma factor RpoD [Desulfovibrio aespoeensis Aspo-2] gi|316943467|gb|ADU62518.1| RNA polymerase sigma factor RpoD [Desulfovibrio aespoeensis Aspo-2] Length = 581 Score = 349 bits (896), Expect = 8e-94, Method: Compositional matrix adjust. Identities = 198/427 (46%), Positives = 279/427 (65%), Gaps = 29/427 (6%) Query: 273 EDQL--RPKVMCALDEIAE-------VYRELR--SLQDNAVNG-QKDEKSSVKCKVLKEK 320 ED++ R +V+ LDE+ + +Y +L + D V G QKD V K++ Sbjct: 167 EDEMNQRQRVIFLLDEVKKLFKKKRKIYEKLDYCAQTDKRVYGVQKD------ILVYKDE 220 Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHN-----EGELLRLAQSYGIKRDVFLERHQ 375 +V + + L ++ ID ++E + D ++ MHN +L + Q+ ++F + Sbjct: 221 VVTRLRDIKLEKTLIDRIIETVNDYVRQ-MHNCQRDLSAYVLSVGQTKAEIEELF-RQVD 278 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 R ++P + E+ +F + L+I N ++ S+ + ++ ++ Sbjct: 279 ARTVNPVVAADTLGLTVEEFFSFKEM-LAGKLEIMNRLQDKCCH---SVHDLEEVLWRIK 334 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 335 RGNLSAMRAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYK 394 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+P+PEEIA++ Sbjct: 395 FSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPSPEEIAER 454 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A +P + + L E Sbjct: 455 MDYPLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKATAPAEEVVSTKLGEQIAS 514 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL+ LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP RS Sbjct: 515 VLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSAL 574 Query: 676 LRSFLDG 682 LRS+ + Sbjct: 575 LRSYFEN 581 Score = 110 bits (274), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 65/155 (41%), Positives = 94/155 (60%), Gaps = 9/155 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD-DLEDEEGSE 90 K +I +QRG++T EEL+ LP D + EQ+E+ A+ MGI +VD D D + E + Sbjct: 11 KTLIAEGKQRGFLTYEELSKALPSDYNTPEQLEEIHAIFDQMGIALVDSDEDDKKLETDD 70 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L+L +S+ D A RSTD PVRMYLREMG++ LL REGE+ IAK+IE G Sbjct: 71 KELELTEKDDDSA-------DYASRSTD-PVRMYLREMGAVPLLDREGEVVIAKKIENGE 122 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ SL E P+ + LI ++L DG L++++ Sbjct: 123 LEVLYSLIEVPVAVEELISVGEDLKDGRVKLKDVV 157 >gi|296161690|ref|ZP_06844493.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295888004|gb|EFG67819.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 628 Score = 348 bits (893), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 224/660 (33%), Positives = 357/660 (54%), Gaps = 61/660 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----GDDLEDEE 87 + ++KL ++RG++T E+ LP ++ +E V +++GI V D GD L + Sbjct: 19 RALMKLGKERGFLTHTEIVDHLPDCVAQADAIEGIVKAFNDVGIAVRDFAPTGDALLLGD 78 Query: 88 GSEDSL--DLAS--SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 ++ S D+A +A+ ++ + + +AD P+R YLREMG+ LL+REGEIA+A Sbjct: 79 AAQQSAPDDVAEDETATALTIAISEPGPAAD-----PMRAYLREMGATPLLTREGEIAVA 133 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 +RIEA M+ + P T A++ D + G + +++D GF Sbjct: 134 RRIEACLREMLEVIALRPATVDAILARADRVAAGELDIDDLVD-----------GFL--- 179 Query: 204 EGHSYQKREDSSQEKERDD-VQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E++ D+ + +G A SK D D P NA Sbjct: 180 -------------EQQPDEMLPAMQGATAEGAAGSKVD----DGVPSNA----------- 211 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 +DSA + A E ++ ++ + I RE + AV G + + ++ + Sbjct: 212 NDSAGAIEADEARI-ARLTAGCNAIFLQVREQLASWRAAVAGTTGRREDAQSTLVL--IA 268 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDP 381 +G + + I L + + I E +LRLA G+ RD+F+E G E DP Sbjct: 269 STLGQIRFSARTIGELSADVRRAVEEIRGIERNVLRLAVNQGGMVRDMFVETFVGSETDP 328 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W++ A + C SI + ++ I G+S+ E + I + + E Sbjct: 329 EWLARAAAAAPACSAALMRC-APSIHGQQEKLAQIEAREGLSLQELKRISRKMNVADREL 387 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A++ M+EANLRLV+SVAKKY G+ LDL+QEGNIGLMKA ++F++ G+KFSTYA Sbjct: 388 QDARRAMIEANLRLVVSVAKKYVQSGMPLLDLVQEGNIGLMKAVDRFEYRRGFKFSTYAT 447 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++Q+++R+IAD TIR+PVHM D +H+V R A M + R+ E+A +L M E Sbjct: 448 WWIRQSVSRAIADYGRTIRVPVHMADAMHRVKRVAGEMRQETGRQARSSELAARLGMSEE 507 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR V ++T++P+SL+ PIG++ + LG+ +ED +A++PLD+ +QA+LR L LT Sbjct: 508 KVRSVQRVTRQPVSLDVPIGEDADTTLGEMVEDPSALAPLDALLQADLRVAIDAALGVLT 567 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE +V+++RFG+ ++HTLEE+G QF VTRER+RQI+ KA++KL+H L+S+LD Sbjct: 568 PREAKVIKLRFGVDAVSEHTLEELGDQFDVTRERVRQIQNKALQKLRHSDGISTLKSYLD 627 >gi|323697926|ref|ZP_08109838.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio sp. ND132] gi|323457858|gb|EGB13723.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfovibrio desulfuricans ND132] Length = 583 Score = 347 bits (890), Expect = 4e-93, Method: Compositional matrix adjust. Identities = 181/371 (48%), Positives = 255/371 (68%), Gaps = 13/371 (3%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQ-- 375 KE++V + + L ++ ID ++E + D +++ + + +L S G + E Q Sbjct: 220 KEEIVTRLRDIKLEKTLIDRIIETVNDYVRQMHNCQRDLSAYVLSVGKTKAEIEELFQQV 279 Query: 376 -GRELDPHWVSYAKDFPEGEWKNF---VACEVDSILKIRNEIKSISVETGISISEFRHIV 431 R ++P S E+ +F +A +++ + +++++ S+ + ++ Sbjct: 280 DARSINPVAASTQLGMTVEEFFSFKEMLAGKLEIMHRLQDKCCH-------SVHDLEEVL 332 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++ G A AK+E++ ANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 333 WRIKSGNQTAMQAKQELIRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQ 392 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ R+P+PEE Sbjct: 393 RGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPSPEE 452 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 IA+++ P+E V+KVLKI KEPISLETPIGDE+ S LGDFIEDK A +P + + L E Sbjct: 453 IAERMDYPLEKVKKVLKIAKEPISLETPIGDEEDSSLGDFIEDKKATAPAEEVVSTKLSE 512 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 VL+ LTPREE+VLR RFGIG +DHTLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 513 QIASVLSDLTPREEQVLRKRFGIGEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPV 572 Query: 672 RSKKLRSFLDG 682 RS LRS+ + Sbjct: 573 RSALLRSYFEN 583 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 60/156 (38%), Positives = 91/156 (58%), Gaps = 9/156 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G++T EEL+ LP D S +Q+E+ A+ M I +VD DD + + +D Sbjct: 11 KALIAEGKKKGFLTYEELSKALPSDYNSPDQLEEIHAIFDQMDIALVDSDDSDKKLTDDD 70 Query: 92 SLDLASS--ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 A + S + A RSTD PVRMYLREMG++ LL REGE+ IAK+IE G Sbjct: 71 DDKELEFDDADDDS------SEYASRSTD-PVRMYLREMGAVPLLDREGEVVIAKKIENG 123 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 ++ SL E P+ + LI ++L DG L++++ Sbjct: 124 EMDVLYSLVEVPVAVEELISVGEDLEDGRIKLKDVV 159 >gi|326566650|gb|EGE16791.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 12P80B1] Length = 585 Score = 346 bits (888), Expect = 6e-93, Method: Compositional matrix adjust. Identities = 229/613 (37%), Positives = 337/613 (54%), Gaps = 60/613 (9%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-----D 79 D S +I+L +++GY+T E+N LP S+Q+ED + ML+++GI V D Sbjct: 12 DTSSSQLGALIRLGKEQGYLTYAEVNDQLPESVTESDQIEDIIQMLTDVGIQVFEVAPDD 71 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 D L + GS+D + + ++ L + R+TD PVRMY+REMG+++LL+REGE Sbjct: 72 DDILLSDTGSDDDI----ATDEAAAVLASVETEPGRTTD-PVRMYMREMGTVDLLTREGE 126 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 I IAKRIE G + + P T + ++ ++ G + +I+ GF Sbjct: 127 IGIAKRIEEGTREVQYIMAYWPGTVKFVLDEYQQVLLGEKKISDIV-----------SGF 175 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 +G +G E E E D+ S KDD AE D Sbjct: 176 LNGDDGDFILNEE------------EIELDLGSPKTTDKDD----------AEED----- 208 Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG-QKDEKSSVKCKVLK 318 E D + L P +E+ + E++ L D A K + S KV Sbjct: 209 -GESDGTELDDTDDSSLDP------EEVRVRFEEIQRLYDVAQEALAKHGRGSEAVKVAY 261 Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 ++L + LN D ++ + ++ + + NE +++L +G + D F + Sbjct: 262 DELANHFMLIKLNNRLSDQVMSLMREVYEDVRSNERRIMKLVIRHGKMPMDEFKKTFPSN 321 Query: 378 ELDPHWVSY-AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 E + W+S+ K P + +A ++ ++ ++ + + I + + + + Sbjct: 322 ETNVEWLSHRIKGGPA--FAETLAKIEPEVVALQQKLLAHEQALQMDIRDMKAVARQMAI 379 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKK+MVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 380 GEAKARRAKKDMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 439 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ ++ REPTPEE+ ++L Sbjct: 440 STYATWWIRQAITRSIADQARTIRIPVHMIETINKINRVSRQLLQEMGREPTPEELGERL 499 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 M VRKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+++A LRE T V Sbjct: 500 DMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTISSPIENATAEGLREATREV 559 Query: 617 LASLTPREERVLR 629 L +LT RE +VL+ Sbjct: 560 LDNLTEREAKVLK 572 >gi|145589878|ref|YP_001156475.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145048284|gb|ABP34911.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 678 Score = 343 bits (880), Expect = 5e-92, Method: Compositional matrix adjust. Identities = 164/279 (58%), Positives = 216/279 (77%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 V +I +++ ++ I I + E + + + GE A AK+EM ANLRLVIS+AKK Sbjct: 398 VPAIQELQQKLIDIQTRVVIPLPELKEVNKQMIAGEKRAREAKREMTVANLRLVISIAKK 457 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 458 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 517 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R++ + EP +A K+ +P + +RK++KI KEPIS+ETPIGD Sbjct: 518 VHMIETINKMNRISRQILQETGHEPDAATLALKMEIPEDKIRKIMKIAKEPISMETPIGD 577 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N ++P ++A+ ++R+ VL SLTPRE +VLRMRFG+ M+TDHTL Sbjct: 578 DEDSHLGDFIEDGNTLAPAEAALHDSMRDVVKDVLDSLTPREAKVLRMRFGVEMSTDHTL 637 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RK++HPSRS KL++FL+ Sbjct: 638 EEVGKQFDVTRERIRQIEAKALRKMRHPSRSDKLKTFLE 676 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 50/159 (31%), Positives = 89/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IK+ +GY+T E+N + + ++ +E +++L+++GI V D + L + Sbjct: 68 KTLIKMGMSKGYLTHGEMNDVMSDELSDADALETLISLLNDIGITVYEQAPDAETLILSD 127 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +E + + + L R+TD PVRMY+REMG+++LL+REGEI IAK+IE Sbjct: 128 NTEAAASEEEAEEKAEAALSTVDSEFGRTTD-PVRMYMREMGTVDLLTREGEIVIAKKIE 186 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ +L P+T ++ D++ G + + +D Sbjct: 187 AGLKDMVMALAACPVTIAEIMSNVDKIASGEMEIDQFVD 225 >gi|171464016|ref|YP_001798129.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193554|gb|ACB44515.1| RNA polymerase, sigma 70 subunit, RpoD [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 900 Score = 343 bits (879), Expect = 7e-92, Method: Compositional matrix adjust. Identities = 163/279 (58%), Positives = 216/279 (77%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 V +I +++ ++ I I + E + + + GE A AK+EM ANLRLVIS+AKK Sbjct: 620 VPAIQELQQKLIDIQKNVVIPLPELKEVNKQMIAGEKRAREAKREMTVANLRLVISIAKK 679 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 680 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 739 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R++ + EP +A K+ +P + +RK++KI KEP+S+ETPIGD Sbjct: 740 VHMIETINKMNRISRQILQETGHEPDAATLALKMEIPEDKIRKIMKIAKEPVSMETPIGD 799 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N ++P ++A+ ++R+ VL SLTPRE +VLRMRFG+ M+TDHTL Sbjct: 800 DEDSHLGDFIEDGNTLAPAEAALHNSMRDVVKDVLDSLTPREAKVLRMRFGVEMSTDHTL 859 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RK++HPSRS KL++FL+ Sbjct: 860 EEVGKQFDVTRERIRQIEAKALRKMRHPSRSDKLKTFLE 898 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 55/157 (35%), Positives = 92/157 (58%), Gaps = 5/157 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVS-SEQMEDTVAMLSNMGINVVD-GDDLEDEEGS 89 K +IK+ +GY+T E+N + DE+S ++ +E +++L+++GI V + D E S Sbjct: 297 KTLIKMGMSKGYLTQGEMNDVMS-DELSDADALETLISLLNDIGITVYEQAPDAETLILS 355 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +++ AS + DS T DPVRMY+REMG+++LL+REGEI IAK+IEAG Sbjct: 356 DNTAAAASEEEAEAAL--STVDSEFGRTTDPVRMYMREMGTVDLLTREGEIVIAKKIEAG 413 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 M+ +L P+T ++ D++ G + + +D Sbjct: 414 LKDMVMALAACPVTIAEILSNVDKIASGEIEIDQFVD 450 >gi|148244277|ref|YP_001218971.1| DNA-directed RNA polymerase sigma-70 factor [Candidatus Vesicomyosocius okutanii HA] gi|146326104|dbj|BAF61247.1| DNA-directed RNA polymerase sigma-70 factor [Candidatus Vesicomyosocius okutanii HA] Length = 603 Score = 342 bits (877), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 180/364 (49%), Positives = 252/364 (69%), Gaps = 2/364 (0%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 +++L K + L L ++ ++E + + ++ E + + GI R F E Sbjct: 242 RQQLSKGLSDLRLAPKLVNTMIEVICNRVSQVKEQEKIIKNICLDAGINRLHFFELFSNN 301 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + +W+ K E KN + D I + ++ E ++I E + + M R+G Sbjct: 302 ETNFNWLDTVK-LDEKIEKNLKDSK-DKIYYAQKNLQQFEEEMQLTIVELKKLNKMYRRG 359 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + A AK +M+EANLRLVIS+AKKY NRGLQFLDLIQEGN+GLMKA +KF++ GYKFS Sbjct: 360 DRRAKKAKSQMIEANLRLVISIAKKYANRGLQFLDLIQEGNVGLMKAVDKFEYRRGYKFS 419 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R R++ K RE + EE+A ++ Sbjct: 420 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVRRQLLQKFGREASSEELATEME 479 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P + K+LKI KEP+S+ETP+GD++ S++GDFIED N SP++ + +LRETT +L Sbjct: 480 LPEYKIIKILKIAKEPLSMETPVGDDEDSNIGDFIEDTNLSSPVEITTKESLRETTGDLL 539 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++L+PRE +VL+MRFGI MNTDHTLEEVG+QF VTRERIRQIEAKA+RKL+HPSR+ KL+ Sbjct: 540 SNLSPREAKVLKMRFGINMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPSRAHKLQ 599 Query: 678 SFLD 681 SFL+ Sbjct: 600 SFLE 603 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/160 (33%), Positives = 87/160 (54%), Gaps = 8/160 (5%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----GDDLED 85 + +K+I + +++GY+T E+N LP D ++ EQ+E V +L + I V D D L Sbjct: 11 ALQKLIMVGKEKGYLTYSEINDILPEDLLTQEQVEPIVTILEELDITVSDTVPDADTLVV 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E G++ S+++ +++ DS T DPVRMY+REMG ++LL +E EI IAK Sbjct: 71 ESGAKAQ----STSAEAAIAALAALDSEFGRTTDPVRMYMREMGVVDLLEQEDEIRIAKE 126 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 IEAG +M S+ P+ L +G + ++I Sbjct: 127 IEAGVFEIMQSITLYPVITDFFFKAHTRLEEGKCKMTDVI 166 >gi|91779694|ref|YP_554902.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91692354|gb|ABE35552.1| Sigma 70 (RpoD) [Burkholderia xenovorans LB400] Length = 628 Score = 341 bits (875), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 219/660 (33%), Positives = 352/660 (53%), Gaps = 61/660 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD----GDDLEDEE 87 + ++KL ++RG++T E+ LP ++ +E V +++GI V D GD L + Sbjct: 19 RALMKLGKERGFLTHTEIVDHLPDCVAQADAIEGIVKAFNDVGIAVRDFAPTGDALLLGD 78 Query: 88 GSEDSL--DLAS--SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 ++ S D+A +A+ ++ + + +AD P+R YLREMG+ LL+REGEIA+A Sbjct: 79 AAQQSAPDDVAEDETATALTIAISEPGPAAD-----PMRAYLREMGATPLLTREGEIAVA 133 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 +RIEA M+ + P T A++ D + G + +++D GF Sbjct: 134 RRIEACLREMLEVIALRPATVDAILSRADRVAAGELDIDDLVD-----------GFL--- 179 Query: 204 EGHSYQKREDSSQEKERDD-VQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDE 262 E++ D+ + +G A SK D P +A ++ DE Sbjct: 180 -------------EQQPDEMLPAMQGATAEGAAGSKAD----SGVPTSASESAGAIEADE 222 Query: 263 DDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLV 322 A ++ + I RE + AV G+ ++ + ++ + Sbjct: 223 ARIA------------RLTAGCNAIFSQVREQLASWRAAVAGRTGQREEAQSTLVL--IA 268 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRELDP 381 +G + + I L + + I E +LRLA G+ RD+F+E G E DP Sbjct: 269 STLGQIRFSARTIGELSADVRRAVEEIRGIERNVLRLAVNQGGMARDMFVETFVGSETDP 328 Query: 382 HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 W++ A + C SI + ++ I G+S+ E + I + + E Sbjct: 329 EWLARAAAAAPACSAALMRC-APSIHSQQEKLAQIEAREGLSLQELKWISRKMNVADREL 387 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A++ M+EANLRLV+SVAKKY G+ LDL+QEGNIGLMKA ++F++ G+KFSTYA Sbjct: 388 QDARRAMIEANLRLVVSVAKKYVQSGMPLLDLVQEGNIGLMKAVDRFEYRRGFKFSTYAT 447 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++Q+++R+IAD TIR+PVHM D +H+V R A M + R E+A +L M E Sbjct: 448 WWIRQSVSRAIADYGRTIRVPVHMADAMHRVKRVAGEMRQETGRPARSSELAARLGMSEE 507 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR V ++T++P+SL+ PIG+E + LG+ +ED + ++PLD+ +QA+LR L LT Sbjct: 508 KVRSVQRVTRQPVSLDVPIGEEADTTLGEMVEDSSTLAPLDALLQADLRVAIDAALGVLT 567 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE +V+++RFG+ ++HTLEE+G QF VTRER+RQI+ KA++KL+H L+++LD Sbjct: 568 PREAKVIKLRFGVDAVSEHTLEELGDQFDVTRERVRQIQNKALQKLRHSDGISTLKNYLD 627 >gi|149921032|ref|ZP_01909492.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149818164|gb|EDM77620.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 547 Score = 341 bits (874), Expect = 3e-91, Method: Compositional matrix adjust. Identities = 161/269 (59%), Positives = 209/269 (77%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ + ETG+S + + K E AK E+VEANLRLV+S+AKKYTNRGLQFLD Sbjct: 278 IRQVEQETGVSADNLVALYDSLTKARREREAAKAELVEANLRLVVSIAKKYTNRGLQFLD 337 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+I+DQ+ TIR+PVHM + I+K+ Sbjct: 338 LIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAISDQARTIRVPVHMIESINKL 397 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +RT R++ + REPT +EIA+K+ MPVE VR +L+I KEPISLETP+G++ S LGD I Sbjct: 398 IRTTRQLVQEFGREPTHQEIAEKMNMPVEKVRSILRIAKEPISLETPLGEDGDSSLGDLI 457 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDKNA+ P ++ +L + T R LASLTPREE++LR+RFGIG +DHTLEEVG+ F VT Sbjct: 458 EDKNALDPGSGVVERHLGDETRRALASLTPREEKILRLRFGIGEASDHTLEEVGRDFSVT 517 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+ KL+ R+K+LR F++ Sbjct: 518 RERIRQIEAKALSKLRKADRAKQLREFVE 546 >gi|9082209|gb|AAF82776.1|AF273254_1 RNA polymerase sigma factor [Coxiella burnetii] Length = 410 Score = 340 bits (872), Expect = 5e-91, Method: Compositional matrix adjust. Identities = 184/366 (50%), Positives = 242/366 (66%), Gaps = 10/366 (2%) Query: 321 LVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGI-----KRDVFLERHQ 375 L +L + L+ + + L QL +R++ RL SY + R F+ Sbjct: 47 LAELFSTFKLSIKQFNRLTGQL----RRMLRAARAQERLIMSYCVVKAKTPRKKFIASFP 102 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W+ K+ + + K + I + + + + + ++I E + I V Sbjct: 103 HNETNMKWLEQYKNENKEQAKRLEKYSKE-IYRAQRNLAQLEEQNNLNIQEIKEINRRVA 161 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 GE ++ AKKEM+EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYK Sbjct: 162 IGEAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 221 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + E TPEE+ ++ Sbjct: 222 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRR 281 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP E VRKVLKI KEPIS+ETPIG+++ S+LGDFIED N SP+D A A L E T R Sbjct: 282 MDMPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATRR 341 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 P +VLRMRFGI MNTDHTLEEVG VTRERIRQIEAKA+RKL+HPSR++K Sbjct: 342 NFVYAYPARSQVLRMRFGIDMNTDHTLEEVGNNSDVTRERIRQIEAKALRKLRHPSRAEK 401 Query: 676 LRSFLD 681 L SF++ Sbjct: 402 LHSFIE 407 >gi|193884351|dbj|BAG54997.1| Sigma70 [Ralstonia solanacearum] Length = 758 Score = 340 bits (872), Expect = 5e-91, Method: Compositional matrix adjust. Identities = 169/314 (53%), Positives = 227/314 (72%), Gaps = 3/314 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 437 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQARVVL 494 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 495 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 554 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 555 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 614 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 EP P +A+K+ MP + +RK+ KI KEPIS+ETPIGD+D SHLGDFIED N ++P + Sbjct: 615 TGNEPDPATLAEKMEMPEDKIRKIRKIAKEPISMETPIGDDDDSHLGDFIEDTNTLAPAE 674 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A+ ++R VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEAK Sbjct: 675 AALHGSMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEAK 734 Query: 663 AIRKLKHPSRSKKL 676 A+RKL RS +L Sbjct: 735 ALRKLCLLIRSGRL 748 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 60/164 (36%), Positives = 92/164 (56%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V + + + Sbjct: 142 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYE------QAPDAE 195 Query: 92 SLDLASSASNSSVFLQKRK---------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +L L +A + + + + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 196 TLLLNDNAPSVTTEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 255 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIEAG M+ ++ P+T ++ + + + + E ID Sbjct: 256 AKRIEAGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 299 >gi|319941927|ref|ZP_08016248.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] gi|319804580|gb|EFW01450.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] Length = 917 Score = 338 bits (866), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 160/263 (60%), Positives = 205/263 (77%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E+ ++++E + GE +A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 651 ESHMTVAELLDTYKQMATGESKARNAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGN 710 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+++ R R+ Sbjct: 711 VGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINRMNRITRQ 770 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + EP +A+ + MP + + K++KI KEPIS+ETPIGD+D SHLGDF+ED V Sbjct: 771 ELQETGVEPDSRRLAELMEMPEDKILKIMKIAKEPISMETPIGDDDDSHLGDFLEDTQTV 830 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P ++ A+L +T +VL SL+PRE +VLRMRFGI M +DHTLEEVGKQF VTRERIRQ Sbjct: 831 APAEAVQNASLSDTVKQVLDSLSPREAKVLRMRFGIEMQSDHTLEEVGKQFDVTRERIRQ 890 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IE KA+RKL+HPSR+ KL+SFLD Sbjct: 891 IETKALRKLRHPSRADKLKSFLD 913 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 52/157 (33%), Positives = 89/157 (56%), Gaps = 4/157 (2%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE---EGS 89 K+I L ++RGYVT E+N +P + + +E V +L N+ I V + E++ +G Sbjct: 325 KLISLGKERGYVTYSEINDNIPNTLLDEDAIETIVNILGNLNIAVHEVAPDEEQLLIQGG 384 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + + + + L + R+TD PVR+Y+REMGS+ELLSR+ EI I+KRIE G Sbjct: 385 AEGVSDEDAEAEAEAALSTVESEFGRTTD-PVRIYMREMGSVELLSRQDEIEISKRIEDG 443 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 M+ ++ P+T ++ + + G T + E++D Sbjct: 444 LKHMVLAIARCPVTVHEILESAERIRSGETPIDEVVD 480 >gi|313673328|ref|YP_004051439.1| RNA polymerase, sigma 70 subunit, rpod [Calditerrivibrio nitroreducens DSM 19672] gi|312940084|gb|ADR19276.1| RNA polymerase, sigma 70 subunit, RpoD [Calditerrivibrio nitroreducens DSM 19672] Length = 601 Score = 337 bits (865), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 169/303 (55%), Positives = 227/303 (74%), Gaps = 12/303 (3%) Query: 389 DFPEGEWKNFVACEVDSILK--IRNEI---KSISVET-------GISISEFRHIVSMVRK 436 D+ + K ACEV + + I+N I KSI ++ G S SE + M+ Sbjct: 297 DYIHLDPKKLEACEVKHLSQRDIQNLIAKFKSIQLKAQKNIKLLGYSRSEVDLLHEMLTN 356 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 + K +++++NLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA EKF++ GYKF Sbjct: 357 NMTKTERYKTKLIQSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYQRGYKF 416 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K+++ +R++ + REPTPEEIA+K+ Sbjct: 417 STYATWWIRQAITRAIADQARTIRIPVHMIETINKMMKISRQLQVDLGREPTPEEIAEKM 476 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +PVE V+KVL+I KEP+SLETPIG+++ S LGDFIEDK + +PLD + L E T ++ Sbjct: 477 DVPVEKVKKVLRIAKEPVSLETPIGEDEDSSLGDFIEDKKSKNPLDEVVYLKLSEHTKQI 536 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +L+PRE VLR+RFGI ++DHTLEEVGK+F VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 537 LDTLSPREASVLRLRFGIDCSSDHTLEEVGKKFNVTRERIRQIEAKALRKLRHPTRSRIL 596 Query: 677 RSF 679 ++F Sbjct: 597 KTF 599 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 74/279 (26%), Positives = 134/279 (48%), Gaps = 28/279 (10%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD-------- 82 K +I L +++G++T +E+N +P D + E +E+ + L + I+V+D + Sbjct: 10 LKPLIALGKEKGFLTFDEINEMIPEDVLLPEILEEILVRLKQLKIDVIDNRNSAAPVIAA 69 Query: 83 --LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +E+EE D ++ S + S DDPV++YLREMG+I LLSRE E Sbjct: 70 PIIEEEEMELDDVE-------SEEIIMDENLEEGLSFDDPVKLYLREMGNIPLLSREEET 122 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 +AK IE G+ ++ + + + +++ +G L++++D E I E + Sbjct: 123 EVAKEIENGQREVIINTLSFIYAAEKFLTIVEDIKNGNFKLKDLVDFED-INVEDEIDID 181 Query: 201 HGTEGHSYQKREDSSQEKERDD----VQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 E ++ +D K RD+ + +T I A K+ K R+ E E ++ Sbjct: 182 EVDE-EELKRLKDERDLKIRDEYLSILDDTCLKISEAIKICKKIRTM--KKQERIEATKK 238 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCAL-DEIAEVYREL 294 ++E DD A L ++ ++ ++C L EI+ Y EL Sbjct: 239 QMNEILDDVARQL--LKIKVNYSLICNLAKEISTTYEEL 275 >gi|157826499|ref|YP_001495563.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] gi|157801803|gb|ABV78526.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] Length = 514 Score = 337 bits (864), Expect = 4e-90, Method: Compositional matrix adjust. Identities = 199/539 (36%), Positives = 312/539 (57%), Gaps = 66/539 (12%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--------DDLEDEEGSEDSL 93 G VT ++N LP D S E+++ + S ++++D DD+E EEG + S Sbjct: 24 GSVTYNDINRALP-DGTSVEEIDKVMFRFSEAEVDILDTNEDDAIKIDDIEMEEGFKIST 82 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 ++ + + +TDDPVR+YL++MG ++LL+RE E+ IAKRIE GR + Sbjct: 83 NIDHEPEDETEEENIG------TTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTL 136 Query: 154 MASLCESPLTFQALIIWR-DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 +A+LC SP+ W D +N+ LLR++IDLE+ H Sbjct: 137 IAALCRSPIAMDKFRKWYADLVNENNMLLRDLIDLES--------NMMHD---------- 178 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAM 272 D+ E+E D S + E +E++ D D +++ ++S + Sbjct: 179 --------DETSESEDDHNS-----------------DHEEEEQDHDHDHEENILSMSKV 213 Query: 273 EDQLRPKVMCALDEIAEVYREL-----RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGS 327 E Q+ P ++ + +IA + EL +S + +A G K ++S K E L+ V Sbjct: 214 ETQILPNIIERMKKIAFICEELLIETKKSFEKSA--GPKILQNSKKYNDNLELLISEVSE 271 Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYA 387 + N R + ++ ++Y I++ +++ E L+LA+ YGI R FL+ + G ++ W Sbjct: 272 IHFNSKRTEEILSEMYGINRDLINKETAFLKLAEKYGITRQNFLDEYIGAVINAAWKEKM 331 Query: 388 KDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + WK + E D I ++ E+ +I + TG+ +++F+ +V+ ++K E + AKK+ Sbjct: 332 LKNKKAGWKELLTKESDYIDQMIAELSAIEINTGLLVNDFKKLVNTIQKSERQTLQAKKD 391 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+EANLRLVIS+AKKY NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QA Sbjct: 392 MIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 451 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 ITR+IADQ+ TIRIPVHM + I+K++RT+R+M N++ EPTP EIA +L+MP++ VRKV Sbjct: 452 ITRAIADQARTIRIPVHMIETINKIIRTSRQMLNELGYEPTPAEIAARLSMPIDKVRKV 510 >gi|241896072|ref|ZP_04783368.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella paramesenteroides ATCC 33313] gi|241870672|gb|EER74423.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella paramesenteroides ATCC 33313] Length = 378 Score = 335 bits (859), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 184/358 (51%), Positives = 232/358 (64%), Gaps = 23/358 (6%) Query: 324 LVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHW 383 +V +SLN +ID L +Q+ ++ GE A LE + + L Sbjct: 44 VVKPMSLNADQIDDLYDQIESAGISVVDENGEPTARA----------LENKKTK-LSAKE 92 Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 + A D P G N D + EI +S+ TG VS+ + E Sbjct: 93 LKQAADAPTGMKIN------DPVRMYLKEIGRVSLLTG------DEEVSLAERIEAGDET 140 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 141 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 200 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R + + REPTPEEI ++ + E V Sbjct: 201 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDVATEKV 260 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIED AVSP DSA L+E VL +LT R Sbjct: 261 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLESVLDTLTDR 320 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+LR FLD Sbjct: 321 EENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLRDFLD 378 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 38/116 (32%), Positives = 65/116 (56%), Gaps = 12/116 (10%) Query: 51 AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRK 110 A + P ++++Q++D + + GI+VVD E G + L + + S ++ K Sbjct: 43 AVVKPMSLNADQIDDLYDQIESAGISVVD------ENGEPTARALENKKTKLSA--KELK 94 Query: 111 DSADRST----DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +AD T +DPVRMYL+E+G + LL+ + E+++A+RIEAG L E+ L Sbjct: 95 QAADAPTGMKINDPVRMYLKEIGRVSLLTGDEEVSLAERIEAGDETAKQELAEANL 150 >gi|213162104|ref|ZP_03347814.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] Length = 225 Score = 335 bits (858), Expect = 2e-89, Method: Compositional matrix adjust. Identities = 161/224 (71%), Positives = 189/224 (84%) Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 1 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 60 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+E Sbjct: 61 TIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISME 120 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD++ SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MN Sbjct: 121 TPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMN 180 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 181 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 224 >gi|325263837|ref|ZP_08130570.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030875|gb|EGB92157.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 369 Score = 333 bits (855), Expect = 4e-89, Method: Compositional matrix adjust. Identities = 155/238 (65%), Positives = 198/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 132 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK+L MPVE V Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKELDMPVERV 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 252 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 311 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 312 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 369 Score = 54.7 bits (130), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 45/140 (32%), Positives = 74/140 (52%), Gaps = 12/140 (8%) Query: 28 DDSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDD 82 D+ K+++ L +++ + ++E+N F E+ +EQME L + I+V+ D DD Sbjct: 9 DERLKELVVLGKKKKSILELQEINDFFNDMELDAEQMEKVFDHLESNNIDVLRISGDEDD 68 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 ++ E D ++ + SV D S +DPVRMYL+E+G + LLS E EI + Sbjct: 69 VDVEVIITDEEEVDMENIDLSV-----PDGI--SIEDPVRMYLKEIGKVPLLSAEREIEL 121 Query: 143 AKRIEAGRAMMMASLCESPL 162 A+R+E G L E+ L Sbjct: 122 AQRMEDGDEDAKKELAEANL 141 >gi|291287657|ref|YP_003504473.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] gi|290884817|gb|ADD68517.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] Length = 626 Score = 333 bits (854), Expect = 5e-89, Method: Compositional matrix adjust. Identities = 154/243 (63%), Positives = 201/243 (82%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE E AK +++EANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA EKF++ GYKF Sbjct: 382 GENETEKAKSKLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYKRGYKF 441 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K+++ R++ + REPTPEEI+ K+ Sbjct: 442 STYATWWIRQAITRAIADQARTIRIPVHMIETINKMMKITRQLQQDMGREPTPEEISSKM 501 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +PVE ++KV+KI KEP+SLETPIG+++ S LGDFIEDK+A +P + L+E T ++ Sbjct: 502 DIPVEKIKKVMKIAKEPVSLETPIGEDEDSSLGDFIEDKSAKNPSEEVTYLKLKEHTKQI 561 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +L+ RE VL++RFGI ++DHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ L Sbjct: 562 LETLSHREASVLKLRFGIECDSDHTLEEVGKQFNVTRERIRQIEAKALRKLRHPTRSRIL 621 Query: 677 RSF 679 ++F Sbjct: 622 KTF 624 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 53/150 (35%), Positives = 92/150 (61%), Gaps = 6/150 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L +++G++T +E+N LP D +S+E +++ + +L+ + I+V+D D+ G Sbjct: 13 KSIIALGKEKGFLTFDEINENLPDDILSTELIDEIMMLLAQLKIDVIDSK--VDKPGLYS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + D + S L++ ++S STDDPVR+YL+EMG+I LL+RE EI +AK IE G+ Sbjct: 71 ADDDDDDEDSIS-LLKEVEESI--STDDPVRLYLKEMGNIALLNREEEIEVAKEIEEGQR 127 Query: 152 MMMASLCESPLTFQALI-IWRDELNDGTTL 180 ++ ++ P T ++ I R+ ND L Sbjct: 128 KVVRAVLLYPNTAMKIMDIARNIRNDSMRL 157 >gi|331701385|ref|YP_004398344.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lactobacillus buchneri NRRL B-30929] gi|329128728|gb|AEB73281.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lactobacillus buchneri NRRL B-30929] Length = 414 Score = 332 bits (851), Expect = 1e-88, Method: Compositional matrix adjust. Identities = 167/303 (55%), Positives = 218/303 (71%), Gaps = 4/303 (1%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGE 438 DP + AK + E + A + +KI + ++ E G +S+ +S+ ++ E Sbjct: 115 DPRAIGAAKKVTKKELSDVSAP---TGVKINDPVRMYLKEIGRVSLLSADQEISLAKRIE 171 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFST Sbjct: 172 AGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFST 231 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ M Sbjct: 232 YATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDM 291 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+E VL Sbjct: 292 PTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLESVLD 351 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ Sbjct: 352 TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKD 411 Query: 679 FLD 681 FLD Sbjct: 412 FLD 414 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 47/149 (31%), Positives = 73/149 (48%), Gaps = 11/149 (7%) Query: 28 DDSWKK----MIKLARQRGYVTIEELNAFL-PPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 D +KK ++K + G++T +EL + P +S + ME + + + GI+VVD Sbjct: 53 DKPYKKEFDAIVKANKPIGHITYDELEKKIEKPYSLSEKDMEGLLESIEDSGISVVD--- 109 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E G D + ++ + L +DPVRMYL+E+G + LLS + EI++ Sbjct: 110 ---ENGDPDPRAIGAAKKVTKKELSDVSAPTGVKINDPVRMYLKEIGRVSLLSADQEISL 166 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWR 171 AKRIEAG L E+ L I R Sbjct: 167 AKRIEAGDEEAKQELAEANLRLVVSIAKR 195 >gi|116619924|ref|YP_822080.1| RpoD family RNA polymerase sigma factor [Candidatus Solibacter usitatus Ellin6076] gi|116223086|gb|ABJ81795.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Solibacter usitatus Ellin6076] Length = 518 Score = 331 bits (849), Expect = 2e-88, Method: Compositional matrix adjust. Identities = 150/272 (55%), Positives = 215/272 (79%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++ EIK + G ++ E +H ++++R GE EA AKK++VEANLRLV+SVAKKY NRGL Sbjct: 244 LKREIKKREIAAGATLPELKHSLTVIRHGEAEAERAKKDLVEANLRLVVSVAKKYVNRGL 303 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLIQEGNIGLM+AA+KF++ GYKFSTYA WW++QAITR+IADQS TIRIPVHM + Sbjct: 304 HLLDLIQEGNIGLMRAADKFEYRRGYKFSTYATWWIRQAITRAIADQSRTIRIPVHMNES 363 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++K +R R + ++ R PT +EI +++ +PVE V+K+ I+++P+SLETP+G + S L Sbjct: 364 MNKFLRATRELEKELGRTPTNDEIGRRMDIPVEKVQKLKTISRDPVSLETPVGRDGESAL 423 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GD IED+ SP+D+ I++N+R+ T +L +L+P+EE+V+RMRFGIG +HTLEE+G++ Sbjct: 424 GDLIEDRWVGSPVDAVIESNVRDETAGILKTLSPKEEKVIRMRFGIGCEREHTLEEIGQE 483 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKA+R+L+ P R+++LR+ + Sbjct: 484 FDVTRERIRQIEAKALRQLRAPERARRLRALM 515 Score = 66.2 bits (160), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 43/140 (30%), Positives = 73/140 (52%), Gaps = 17/140 (12%) Query: 53 LPPDEVS--SEQMEDTVAMLSN---MGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQ 107 +P EVS +Q ED + N +G++ D D E + ++ L + S++ Sbjct: 1 MPVGEVSLKVDQFEDQF-LAENPEALGLSFEDDPKFFDPEAAHEADFLHPAPVEESIY-- 57 Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 TDDPVR+YLREMG++ LL+REGE+ +A+R+E G+ M ++ S L + + Sbjct: 58 ---------TDDPVRVYLREMGAVPLLTREGEVDLARRMERGKLRMQKAISRSALVQRVV 108 Query: 168 IIWRDELNDGTTLLREIIDL 187 + D+L + ++DL Sbjct: 109 VDVADQLKRANIEIESVVDL 128 >gi|332653408|ref|ZP_08419153.1| RNA polymerase sigma factor RpoD [Ruminococcaceae bacterium D16] gi|332518554|gb|EGJ48157.1| RNA polymerase sigma factor RpoD [Ruminococcaceae bacterium D16] Length = 446 Score = 331 bits (849), Expect = 2e-88, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 199/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 209 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 268 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+KV+R +R++ ++ +P+PEEIA++++MPVE V Sbjct: 269 IRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGHDPSPEEIAEEMSMPVERV 328 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D++A P ++A L+E VL++LTPR Sbjct: 329 REILKIAQEPVSLETPIGEEEDSHLGDFIPDEDASEPAEAASFTLLKEQLVEVLSTLTPR 388 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VL++RFGI TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 389 EEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLN 446 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 39/117 (33%), Positives = 63/117 (53%), Gaps = 2/117 (1%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I+ +++G ++ EL L ++ SEQM+ +L N+GI+ V G+D E + Sbjct: 59 LIERGKKKGNLSSTELMDVLEDMDLESEQMDKIYDVLENLGIDTV-GEDYIPELPDDAEP 117 Query: 94 DLASSASNSSVFLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 L + S + D TDDPVRMYL+E+G + LLS + EI +A+ + AG Sbjct: 118 PLEAMEEISEEEMVDPNSMVDSFGTDDPVRMYLKEIGKVNLLSSDEEIELAQAMGAG 174 >gi|154502790|ref|ZP_02039850.1| hypothetical protein RUMGNA_00604 [Ruminococcus gnavus ATCC 29149] gi|153796673|gb|EDN79093.1| hypothetical protein RUMGNA_00604 [Ruminococcus gnavus ATCC 29149] Length = 371 Score = 331 bits (848), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 154/238 (64%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 134 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK+L MPVE V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 254 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 314 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 371 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 38/124 (30%), Positives = 63/124 (50%), Gaps = 1/124 (0%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASS 98 +++ + I+E+N F E+ +EQME L I+V+ +D + D + +A Sbjct: 21 KKKSILEIQEINDFFADMELEAEQMEKVFEYLEANNIDVLRISSDDDLDVDMDVI-MAEE 79 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLC 158 A + + S +DPVRMYL+E+G + LLS + EI +A+R+E G L Sbjct: 80 ADDVDMENIDLSVPDGVSIEDPVRMYLKEIGKVPLLSADREIELAQRMEEGDEDAKKELA 139 Query: 159 ESPL 162 E+ L Sbjct: 140 EANL 143 >gi|317500513|ref|ZP_07958736.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089388|ref|ZP_08338287.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 3_1_46FAA] gi|316898102|gb|EFV20150.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330404756|gb|EGG84294.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 3_1_46FAA] Length = 370 Score = 331 bits (848), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 154/238 (64%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 133 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK+L MPVE V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 253 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 313 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 370 Score = 53.9 bits (128), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 41/136 (30%), Positives = 64/136 (47%), Gaps = 26/136 (19%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL------------EDE 86 +++ + ++E+N F E+S+EQME L I+V+ E+E Sbjct: 21 KKKSILDVQEINDFFADMELSAEQMEKVFEYLEGHNIDVLRITADTDDDVDIDNMIAEEE 80 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E +++DL+ S +DPVRMYL+E+G + LLS E EI +AKR+ Sbjct: 81 EVDMENIDLSVPEGVS--------------IEDPVRMYLKEIGKVPLLSAEREIELAKRM 126 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 127 EEGDEDAKKELAEANL 142 >gi|153816193|ref|ZP_01968861.1| hypothetical protein RUMTOR_02441 [Ruminococcus torques ATCC 27756] gi|145846528|gb|EDK23446.1| hypothetical protein RUMTOR_02441 [Ruminococcus torques ATCC 27756] Length = 383 Score = 330 bits (845), Expect = 6e-88, Method: Compositional matrix adjust. Identities = 154/238 (64%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 146 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 205 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK+L MPVE V Sbjct: 206 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 265 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 266 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 325 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 326 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 383 Score = 54.3 bits (129), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 26/123 (21%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL------------EDE 86 +++ + ++E+N F E+S+EQME L I+V+ E+E Sbjct: 34 KKKSILDVQEINDFFADMELSAEQMEKVFEYLEGHNIDVLRITADTDDDVDIDNMIAEEE 93 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E +++DL+ S +DPVRMYL+E+G + LLS E EI +AKR+ Sbjct: 94 EVDMENIDLSVPEGVS--------------IEDPVRMYLKEIGKVPLLSAEREIELAKRM 139 Query: 147 EAG 149 E G Sbjct: 140 EEG 142 >gi|332678201|gb|AEE87330.1| RNA polymerase sigma factor RpoD [Francisella cf. novicida Fx1] Length = 577 Score = 330 bits (845), Expect = 7e-88, Method: Compositional matrix adjust. Identities = 182/369 (49%), Positives = 246/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK + +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKELDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 59.7 bits (143), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|332638574|ref|ZP_08417437.1| RNA polymerase sigma factor [Weissella cibaria KACC 11862] Length = 377 Score = 329 bits (844), Expect = 7e-88, Method: Compositional matrix adjust. Identities = 185/370 (50%), Positives = 238/370 (64%), Gaps = 26/370 (7%) Query: 312 VKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFL 371 +K L++ LVK + LN +ID L E++ I+ +GE A L Sbjct: 34 IKENALQDALVK---PMRLNADQIDELYEKIESAGISIVDEKGEPTARA----------L 80 Query: 372 ERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 E + + L + A D P G N D + EI +S+ TG V Sbjct: 81 ENKKTK-LSEKELKQAADAPTGMKIN------DPVRMYLKEIGRVSLLTG------DEEV 127 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++ + E AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ Sbjct: 128 ALAERIEQGDDTAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYR 187 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + REPTPEE Sbjct: 188 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEE 247 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 I ++ + + VR +LKI +EP+SLETPIG+ED SHLGDFIED A+SP DSA L+E Sbjct: 248 IGAEMDIVTDKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSAAYQMLKE 307 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPS Sbjct: 308 QLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPS 367 Query: 672 RSKKLRSFLD 681 RSK+LR FLD Sbjct: 368 RSKQLRDFLD 377 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 36/117 (30%), Positives = 66/117 (56%), Gaps = 12/117 (10%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 +A + P ++++Q+++ + + GI++VD E+G + L + + S ++ Sbjct: 41 DALVKPMRLNADQIDELYEKIESAGISIVD------EKGEPTARALENKKTKLSE--KEL 92 Query: 110 KDSADRST----DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 K +AD T +DPVRMYL+E+G + LL+ + E+A+A+RIE G L E+ L Sbjct: 93 KQAADAPTGMKINDPVRMYLKEIGRVSLLTGDEEVALAERIEQGDDTAKQELAEANL 149 >gi|134301933|ref|YP_001121902.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis WY96-3418] gi|254369360|ref|ZP_04985372.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FSC022] gi|254372870|ref|ZP_04988359.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. novicida GA99-3549] gi|134049710|gb|ABO46781.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis WY96-3418] gi|151570597|gb|EDN36251.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella novicida GA99-3549] gi|157122310|gb|EDO66450.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FSC022] Length = 577 Score = 329 bits (844), Expect = 8e-88, Method: Compositional matrix adjust. Identities = 182/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|118497505|ref|YP_898555.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. novicida U112] gi|195536199|ref|ZP_03079206.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. novicida FTE] gi|208779304|ref|ZP_03246650.1| RNA polymerase sigma factor RpoD [Francisella novicida FTG] gi|118423411|gb|ABK89801.1| RNA polymerase sigma-70 factor [Francisella novicida U112] gi|194372676|gb|EDX27387.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. novicida FTE] gi|208745104|gb|EDZ91402.1| RNA polymerase sigma factor RpoD [Francisella novicida FTG] Length = 577 Score = 329 bits (844), Expect = 8e-88, Method: Compositional matrix adjust. Identities = 182/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|157273328|gb|ABV27227.1| sigma 38 RpoS [Candidatus Chloracidobacterium thermophilum] Length = 549 Score = 329 bits (844), Expect = 9e-88, Method: Compositional matrix adjust. Identities = 155/245 (63%), Positives = 199/245 (81%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNR--GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 EA A++EM+EANLRLV+S+AK Y NR GLQF DLIQEGNIGLM+A EKFD+ GYKFS Sbjct: 302 EAEKARREMIEANLRLVVSIAKNYINRSRGLQFSDLIQEGNIGLMRAVEKFDYRRGYKFS 361 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QA+TR+IADQ TIR+PVHM + I+K+VRTAR M ++ REPT EE+A++ Sbjct: 362 TYATWWIRQAVTRAIADQGRTIRVPVHMVETINKIVRTARLMVQELGREPTHEELAQRTD 421 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +PV VR+ LKI +EPISLETPIGD+ S+LG FIED+N+++P + + LRE T VL Sbjct: 422 LPVAKVRQALKIAQEPISLETPIGDDGESNLGSFIEDRNSLNPAEMIVGKGLREATLEVL 481 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++LTPREE++L+MRFG+ G + TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS+KL Sbjct: 482 STLTPREEQILKMRFGLDGDGQERTLEEVGRYFHVTRERIRQIEAKALRKLRHPSRSRKL 541 Query: 677 RSFLD 681 ++F D Sbjct: 542 KTFYD 546 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 1/74 (1%) Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRD 172 +DRS D + +YLREM ++ LL+RE E+ IAKRIE GR + + S + + L + Sbjct: 69 SDRSLD-AMTLYLREMSNVALLTREDEVNIAKRIERGRRRLYKAHSRSLIVAEQLEELAE 127 Query: 173 ELNDGTTLLREIID 186 +L + +R++ID Sbjct: 128 QLKERKISIRQVID 141 >gi|254374325|ref|ZP_04989807.1| RNA polymerase sigma-70 factor [Francisella novicida GA99-3548] gi|151572045|gb|EDN37699.1| RNA polymerase sigma-70 factor [Francisella novicida GA99-3548] Length = 577 Score = 329 bits (844), Expect = 9e-88, Method: Compositional matrix adjust. Identities = 182/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKI 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|58698250|ref|ZP_00373169.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] gi|58535222|gb|EAL59302.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] Length = 270 Score = 329 bits (844), Expect = 9e-88, Method: Compositional matrix adjust. Identities = 157/259 (60%), Positives = 206/259 (79%), Gaps = 1/259 (0%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++ EF+ ++ ++K E E S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLM Sbjct: 12 NVQEFKELIKRIQKHEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLM 71 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KFD+ GYKFSTY WWV+Q+ITR+I +QS +RIPVHM + I K+ R R+M+++ Sbjct: 72 KAVDKFDYKRGYKFSTYGTWWVRQSITRAIPEQSKVVRIPVHMVEIISKINRALRKMTHE 131 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 + REPT EE++ +L MP+E +RKV+KI ++P+SLE P G +D+S GD IEDK P D Sbjct: 132 MGREPTLEELSVELTMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPED 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEA 661 +AI A+LR TT VLA+LTP+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEA Sbjct: 192 AAILADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEA 251 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKLKHPSR++KLR F Sbjct: 252 KALRKLKHPSRARKLRGFF 270 >gi|89256388|ref|YP_513750.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica LVS] gi|115314834|ref|YP_763557.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica OSU18] gi|156502477|ref|YP_001428542.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FTNF002-00] gi|167010407|ref|ZP_02275338.1| RNA polymerase sigma factor RpoD [Francisella tularensis subsp. holarctica FSC200] gi|254367725|ref|ZP_04983746.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica 257] gi|290953811|ref|ZP_06558432.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica URFT1] gi|295312822|ref|ZP_06803554.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica URFT1] gi|89144219|emb|CAJ79489.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica LVS] gi|115129733|gb|ABI82920.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. holarctica OSU18] gi|134253536|gb|EBA52630.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica 257] gi|156253080|gb|ABU61586.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. holarctica FTNF002-00] Length = 577 Score = 329 bits (843), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 182/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMSKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 59.7 bits (143), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|291550178|emb|CBL26440.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus torques L2-14] Length = 373 Score = 329 bits (843), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 136 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK++ MPVE V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKEMDMPVERV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 256 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 316 EQKVLRLRFGMNDGRARTLEEVGREFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 373 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 46/144 (31%), Positives = 73/144 (50%), Gaps = 18/144 (12%) Query: 29 DSWKKMIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--VDGD---- 81 D K ++ L +++ + ++E+N F E++++QME L I+V + GD Sbjct: 10 DRLKDLVALGKKKKSILDVQEINDFFNDMELNADQMEKVFDYLEANNIDVLRISGDTPDE 69 Query: 82 ---DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 DL+D SE+ D+ + SV S +DPVRMYL+E+G + LLS E Sbjct: 70 VDVDLDDIIISEED-DVDMENIDLSV-------PEGVSIEDPVRMYLKEIGKVPLLSAER 121 Query: 139 EIAIAKRIEAGRAMMMASLCESPL 162 EI +A+R+E G L E+ L Sbjct: 122 EIELAQRMEEGDEEAKKELAEANL 145 >gi|28378605|ref|NP_785497.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum WCFS1] gi|300768133|ref|ZP_07078038.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180761|ref|YP_003924889.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp. plantarum ST-III] gi|28271441|emb|CAD64346.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus plantarum WCFS1] gi|300494197|gb|EFK29360.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308046252|gb|ADN98795.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp. plantarum ST-III] Length = 368 Score = 329 bits (843), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 154/238 (64%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 131 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP E V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D+A L+E VL +LT R Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEGVLDTLTDR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 40/136 (29%), Positives = 71/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K +IK ++ G + +EL + P ++ + ++ + + + GI+VVD E Sbjct: 11 DKAVKALIKEYKKTGSIQYDELSDKLAAPYKLDASGIDKLLQKVEDAGISVVD------E 64 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +G D+ + S S L ++ +DPVRMYL+E+G ++LL+ + E+A+A RI Sbjct: 65 KGDPDARAVKSVKKVSKKELSDAGSASGIKINDPVRMYLKEIGRVDLLTADEEVALALRI 124 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 125 EQGDESAKQELAEANL 140 >gi|254556820|ref|YP_003063237.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1] gi|254045747|gb|ACT62540.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1] Length = 368 Score = 329 bits (843), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 154/238 (64%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 131 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP E V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D+A L+E VL +LT R Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEGVLDTLTNR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 40/136 (29%), Positives = 71/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K +IK ++ G + +EL + P ++ + ++ + + + GI+VVD E Sbjct: 11 DKAVKALIKEYKKTGSIQYDELSDKLAAPYKLDASGIDKLLQKVEDAGISVVD------E 64 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +G D+ + S S L ++ +DPVRMYL+E+G ++LL+ + E+A+A RI Sbjct: 65 KGDPDARAVKSVKKVSKKELSDAGSASGIKINDPVRMYLKEIGRVDLLTADEEVALALRI 124 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 125 EQGDESAKQELAEANL 140 >gi|197301814|ref|ZP_03166884.1| hypothetical protein RUMLAC_00540 [Ruminococcus lactaris ATCC 29176] gi|197299254|gb|EDY33784.1| hypothetical protein RUMLAC_00540 [Ruminococcus lactaris ATCC 29176] Length = 372 Score = 328 bits (842), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 135 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK++ MPVE V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKEMDMPVERV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 255 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 315 EQKVLRLRFGMNDGRARTLEEVGREFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 372 Score = 45.8 bits (107), Expect = 0.026, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +A+R+E G L E+ L Sbjct: 98 SIEDPVRMYLKEIGKVPLLSAEREIELAQRMEEGDEEAKKELAEANL 144 >gi|295110289|emb|CBL24242.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus obeum A2-162] Length = 376 Score = 328 bits (842), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 139 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA+++ MPVE V Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMKMPVERV 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 259 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLIEVLGTLTER 318 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 319 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 376 Score = 53.9 bits (128), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 42/135 (31%), Positives = 70/135 (51%), Gaps = 5/135 (3%) Query: 33 KMIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--VDGDDLEDEEGS 89 ++++LA+++ V +E++ F + EQME + L G++V + G+D E Sbjct: 14 ELLELAKKKKNVLEYQEISDFFKDQPLEVEQMEKVLDFLEASGVDVLRISGNDEELILDV 73 Query: 90 EDSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +D D+ + L K S S +DPVRMYL+E+G + LL+ + EI +AKR+E Sbjct: 74 DDDADIEKMDDEEEIELDKIDLSVPEGVSIEDPVRMYLKEIGKVSLLTADEEIELAKRME 133 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 134 QGDEEAKKRLAEANL 148 >gi|328465879|gb|EGF37062.1| RNA polymerase sigma factor RpoD [Lactobacillus helveticus MTCC 5463] Length = 370 Score = 328 bits (842), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 153/238 (64%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+CLG+KFSTYA WW Sbjct: 133 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYCLGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMNMPTNKV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E +VL +LT R Sbjct: 253 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEQVLETLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +LR F+D Sbjct: 313 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFMD 370 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 41/151 (27%), Positives = 66/151 (43%), Gaps = 16/151 (10%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVERAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 + +DPVRMYL+E+G + L++ + EIA+AKRIE G L E+ L I R Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLITADQEIALAKRIEEGDEEAKQELAEANLRLVVSIAKR 151 Query: 172 ---------DELNDGTTLLREIID-LEACIG 192 D + +G L + +D + C+G Sbjct: 152 YVGRGMSFLDLIQEGNMGLMKAVDKFDYCLG 182 >gi|227510293|ref|ZP_03940342.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227524444|ref|ZP_03954493.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus hilgardii ATCC 8290] gi|227088403|gb|EEI23715.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus hilgardii ATCC 8290] gi|227189945|gb|EEI70012.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 389 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 165/303 (54%), Positives = 218/303 (71%), Gaps = 4/303 (1%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGE 438 DP + AK + E + A + +KI + ++ E G +S+ +++ ++ E Sbjct: 90 DPRAIDAAKKVTKKELSDVSAP---TGVKINDPVRMYLKEIGRVSLLSADEEINLAKRIE 146 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFST Sbjct: 147 SGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFST 206 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ M Sbjct: 207 YATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDM 266 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+E VL Sbjct: 267 PTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLESVLD 326 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ Sbjct: 327 TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKD 386 Query: 679 FLD 681 FL+ Sbjct: 387 FLE 389 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 41/142 (28%), Positives = 71/142 (50%), Gaps = 7/142 (4%) Query: 31 WKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 + +++K + G++T +EL + P + ++ME+ + + + GI+VVD + G Sbjct: 35 FDQIVKDNKPIGHITYDELQKKIEEPFSLDKKEMEELLENIEDSGISVVD------DNGD 88 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D + ++ + L +DPVRMYL+E+G + LLS + EI +AKRIE+G Sbjct: 89 PDPRAIDAAKKVTKKELSDVSAPTGVKINDPVRMYLKEIGRVSLLSADEEINLAKRIESG 148 Query: 150 RAMMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 149 DEEAKQELAEANLRLVVSIAKR 170 >gi|187931644|ref|YP_001891628.1| RNA polymerase sigma 70 factor RpoD [Francisella tularensis subsp. mediasiatica FSC147] gi|187712553|gb|ACD30850.1| RNA polymerase sigma 70 factor RpoD [Francisella tularensis subsp. mediasiatica FSC147] Length = 577 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 181/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LR+ + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRVCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 45/136 (33%), Positives = 69/136 (50%), Gaps = 22/136 (16%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDL--EDEEG--SEDS 92 R+RGY+T ++ LP D ++ E+ A+L + GI+V D ED+E SED+ Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTPQIEEDDERKVSEDN 76 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 LD T DP+RMY+REMG ++LL ++GE IA RIE G Sbjct: 77 LD-----------------DLKGKTSDPIRMYMREMGIVDLLDKKGETDIAVRIEEGTTE 119 Query: 153 MMASLCESPLTFQALI 168 + +++ P+ + I Sbjct: 120 VFSTILSYPIVIKTYI 135 >gi|260893571|ref|YP_003239668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex degensii KC4] gi|260865712|gb|ACX52818.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex degensii KC4] Length = 369 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFDW GYKFSTYA WW Sbjct: 132 AKRRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDWRKGYKFSTYATWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REPTPEEIA+K+ + E V Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLVQELGREPTPEEIAEKMGISPEKV 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++K+ +EP+SLETPIG+E+ SHLGDFIED+ A +P + A A LRE VL SLTPR Sbjct: 252 REIMKVAQEPVSLETPIGEEEDSHLGDFIEDQEAQAPAEEASYALLREQLNEVLQSLTPR 311 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG++F VTRERIRQIEAK +RKL+HPSRSKKL+ +L+ Sbjct: 312 EQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYLE 369 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 42/140 (30%), Positives = 68/140 (48%), Gaps = 21/140 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-------DGDDLE 84 +++I+ R+ G +T E+ L +++ EQ+++ L+ GI+VV +G+ E Sbjct: 18 EQLIEKGRKTGVLTYAEIMDDLQGMDLTPEQIDEIYERLAAEGIDVVPEAQDLGEGELKE 77 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + G E+ +L DDPVRMYL+E+G I LL+ E EI +AK Sbjct: 78 ERLGGEEETELGIPEGVE--------------IDDPVRMYLKEIGRIPLLTPEEEIELAK 123 Query: 145 RIEAGRAMMMASLCESPLTF 164 R+E G L E+ L Sbjct: 124 RMEQGDEEAKRRLIEANLRL 143 >gi|260101316|ref|ZP_05751553.1| RNA polymerase sigma factor rpoD [Lactobacillus helveticus DSM 20075] gi|260084901|gb|EEW69021.1| RNA polymerase sigma factor rpoD [Lactobacillus helveticus DSM 20075] Length = 370 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 153/238 (64%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+CLG+KFSTYA WW Sbjct: 133 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYCLGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMNMPTNKV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E +VL +LT R Sbjct: 253 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEQVLETLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +LR F+D Sbjct: 313 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFMD 370 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 41/151 (27%), Positives = 66/151 (43%), Gaps = 16/151 (10%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVERAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 + +DPVRMYL+E+G + L++ + EIA+AKRIE G L E+ L I R Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLITADQEIALAKRIEEGDEEAKQELAEANLRLVVSIAKR 151 Query: 172 ---------DELNDGTTLLREIID-LEACIG 192 D + +G L + +D + C+G Sbjct: 152 YVGRGMSFLDLIQEGNMGLMKAVDKFDYCLG 182 >gi|116629751|ref|YP_814923.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri ATCC 33323] gi|238853400|ref|ZP_04643779.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 202-4] gi|282851794|ref|ZP_06261157.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 224-1] gi|300361838|ref|ZP_07058015.1| RNA polymerase sigma factor rpoD [Lactobacillus gasseri JV-V03] gi|311110607|ref|ZP_07712004.1| RNA polymerase sigma-43 factor [Lactobacillus gasseri MV-22] gi|116095333|gb|ABJ60485.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus gasseri ATCC 33323] gi|238833972|gb|EEQ26230.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 202-4] gi|282557036|gb|EFB62635.1| RNA polymerase sigma factor RpoD [Lactobacillus gasseri 224-1] gi|300354457|gb|EFJ70328.1| RNA polymerase sigma factor rpoD [Lactobacillus gasseri JV-V03] gi|311065761|gb|EFQ46101.1| RNA polymerase sigma-43 factor [Lactobacillus gasseri MV-22] Length = 373 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 175/365 (47%), Positives = 238/365 (65%), Gaps = 27/365 (7%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 KE +L+ +L +D LV++ D I+ +GE +LA Sbjct: 35 KEFTAQLIKPYNLQGKAVDQLVQEFEDNGISIVDEKGEPSKLA----------------- 77 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRK 436 + KD + E K+ A S +++ + ++ E G +S+ +++ ++ Sbjct: 78 ------LKKQKDVEKAELKDMSAP---SSVRMNDPVRMYLKEIGRVSLLNADQEIALAKR 128 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KF Sbjct: 129 IEAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKF 188 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ Sbjct: 189 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 248 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E V Sbjct: 249 DMPTDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEV 308 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L Sbjct: 309 LDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQL 368 Query: 677 RSFLD 681 + FLD Sbjct: 369 KDFLD 373 Score = 53.9 bits (128), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 38/120 (31%), Positives = 59/120 (49%), Gaps = 7/120 (5%) Query: 44 VTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNS 102 +T +E A + P + + ++ V + GI++VD E+G L L Sbjct: 32 ITEKEFTAQLIKPYNLQGKAVDQLVQEFEDNGISIVD------EKGEPSKLALKKQKDVE 85 Query: 103 SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+ + +DPVRMYL+E+G + LL+ + EIA+AKRIEAG L E+ L Sbjct: 86 KAELKDMSAPSSVRMNDPVRMYLKEIGRVSLLNADQEIALAKRIEAGDEEAKQELAEANL 145 >gi|326803636|ref|YP_004321454.1| RNA polymerase sigma factor RpoD [Aerococcus urinae ACS-120-V-Col10a] gi|326651510|gb|AEA01693.1| RNA polymerase sigma factor RpoD [Aerococcus urinae ACS-120-V-Col10a] Length = 401 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E +AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 150 VALAKRIEAGDPVAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDY 209 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR R++ ++ REPTPE Sbjct: 210 TKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPE 269 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +P E VR ++KI++EP+SLETPIG+ED SHLGDFIED +A+ P + Q L+ Sbjct: 270 EIGAEMDLPTEKVRNIMKISQEPVSLETPIGEEDDSHLGDFIEDNDAMQPDEYTNQELLK 329 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLE+VG+QF VTRERIRQIEAKA+RKL+HP Sbjct: 330 EQLNEVLDTLTDREENVLRLRFGLEDGQTKTLEQVGQQFGVTRERIRQIEAKALRKLRHP 389 Query: 671 SRSKKLRSFLD 681 SR K+L+ FL+ Sbjct: 390 SRLKQLKDFLE 400 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 41/132 (31%), Positives = 64/132 (48%), Gaps = 24/132 (18%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDD--------------LEDEEGSEDSLD------ 94 P ++ EQM+ + + G+ VVD D ED+E SE +D Sbjct: 41 PYSLNDEQMDQLIEKFEDGGVAVVDEDGGPTNRQLQNEALKMQEDDEESEKDIDQILDEE 100 Query: 95 LASSASNSSVFLQKRKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + + K ++ S T+DPVRMYL+E+G ++LL+ + E+A+AKRIEAG Sbjct: 101 EKTKKKDKKDKKDTNKSASSTSSKVKTNDPVRMYLKEIGRVDLLTADEEVALAKRIEAGD 160 Query: 151 AMMMASLCESPL 162 + L E+ L Sbjct: 161 PVAKQELAEANL 172 >gi|260583936|ref|ZP_05851684.1| RNA polymerase sigma-43 factor [Granulicatella elegans ATCC 700633] gi|260158562|gb|EEW93630.1| RNA polymerase sigma-43 factor [Granulicatella elegans ATCC 700633] Length = 374 Score = 328 bits (841), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 161/274 (58%), Positives = 207/274 (75%), Gaps = 4/274 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E ++ +++G+ EA K+E+ EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVPLLSADEEVNLALRIQQGDQEA---KQELAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 QFLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGK 647 GDFIED NA SP + A L+E VL LT REE VLR+RFG+ N + TLE+VG+ Sbjct: 281 GDFIEDDNATSPAEHTAYALLKEQLDEVLEQLTDREENVLRLRFGLDKNGEIRTLEQVGQ 340 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 341 VFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLD 374 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 10/125 (8%) Query: 42 GYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS-SA 99 G + ++L+A + P E+ +E M+ + + G++VVD D G S L+S SA Sbjct: 27 GQILYDDLSAQIAIPYELDAEGMDKLIQQFEDAGVSVVDAD------GGPTSRQLSSESA 80 Query: 100 SNSSVFLQKRKD--SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 V + + + S++ +D VRMYL+E+G + LLS + E+ +A RI+ G L Sbjct: 81 KEPEVEMTEDETALSSNVKINDSVRMYLKEIGRVPLLSADEEVNLALRIQQGDQEAKQEL 140 Query: 158 CESPL 162 E+ L Sbjct: 141 AEANL 145 >gi|161507646|ref|YP_001577600.1| RNA polymerase sigma factor RpoD [Lactobacillus helveticus DPC 4571] gi|160348635|gb|ABX27309.1| RNA polymerase sigma factor [Lactobacillus helveticus DPC 4571] Length = 356 Score = 328 bits (840), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 153/238 (64%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+CLG+KFSTYA WW Sbjct: 119 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYCLGFKFSTYATWW 178 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP V Sbjct: 179 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMNMPTNKV 238 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E +VL +LT R Sbjct: 239 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEQVLETLTDR 298 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +LR F+D Sbjct: 299 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFMD 356 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 41/151 (27%), Positives = 66/151 (43%), Gaps = 16/151 (10%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 24 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVERAELKDMSA 77 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 + +DPVRMYL+E+G + L++ + EIA+AKRIE G L E+ L I R Sbjct: 78 PSSVRMNDPVRMYLKEIGRVPLITADQEIALAKRIEEGDEEAKQELAEANLRLVVSIAKR 137 Query: 172 ---------DELNDGTTLLREIID-LEACIG 192 D + +G L + +D + C+G Sbjct: 138 YVGRGMSFLDLIQEGNMGLMKAVDKFDYCLG 168 >gi|259046798|ref|ZP_05737199.1| RNA polymerase sigma-43 factor [Granulicatella adiacens ATCC 49175] gi|259036566|gb|EEW37821.1| RNA polymerase sigma-43 factor [Granulicatella adiacens ATCC 49175] Length = 374 Score = 328 bits (840), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 161/274 (58%), Positives = 205/274 (74%), Gaps = 4/274 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + +++G+ EA K+E+ EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVPLLSADEEVALALRIQEGDTEA---KQELAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMK EKFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 QFLDLIQEGNMGLMKTVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLVRVQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGK 647 GDFIED NA SP D A L+E VL LT REE VLR+RFG+ N + TLE+VG+ Sbjct: 281 GDFIEDDNATSPADHTAYALLKEQLDEVLEQLTDREENVLRLRFGLDKNGEIRTLEQVGQ 340 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 341 VFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLD 374 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 37/125 (29%), Positives = 63/125 (50%), Gaps = 10/125 (8%) Query: 42 GYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSAS 100 G + ++L+A + P E+ +E M+ + + G++VVD + G S L+ + Sbjct: 27 GQILYDDLSAQIAIPFELDAEGMDKLIQKFEDAGVSVVDAN------GEPTSHQLSVESQ 80 Query: 101 NSSVFLQKRKDSADRST---DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + D+A S +D VRMYL+E+G + LLS + E+A+A RI+ G L Sbjct: 81 REAEVGTVEDDTALSSNTKINDSVRMYLKEIGRVPLLSADEEVALALRIQEGDTEAKQEL 140 Query: 158 CESPL 162 E+ L Sbjct: 141 AEANL 145 >gi|227513300|ref|ZP_03943349.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus buchneri ATCC 11577] gi|227083501|gb|EEI18813.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus buchneri ATCC 11577] Length = 389 Score = 328 bits (840), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 165/303 (54%), Positives = 218/303 (71%), Gaps = 4/303 (1%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGE 438 DP + AK + E + A + +KI + ++ E G +S+ +++ ++ E Sbjct: 90 DPRAIDAAKKVTKKELSDVSAP---TGVKINDPVRMYLKEIGRVSLLSADEEINLAKRIE 146 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFST Sbjct: 147 SGDEEAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFST 206 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ M Sbjct: 207 YATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDM 266 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+E VL Sbjct: 267 PTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLESVLD 326 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ Sbjct: 327 TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKD 386 Query: 679 FLD 681 FL+ Sbjct: 387 FLE 389 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 41/142 (28%), Positives = 71/142 (50%), Gaps = 7/142 (4%) Query: 31 WKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 + +++K + G++T +EL + P + ++ME+ + + + GI+VVD + G Sbjct: 35 FDQIVKDNKPIGHITYDELQKKIEEPFSLDKKEMEELLENIEDSGISVVD------DNGD 88 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D + ++ + L +DPVRMYL+E+G + LLS + EI +AKRIE+G Sbjct: 89 PDPRAIDAAKKVTKKELSDVSAPTGVKINDPVRMYLKEIGRVSLLSADEEINLAKRIESG 148 Query: 150 RAMMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 149 DEEAKQELAEANLRLVVSIAKR 170 >gi|328676046|gb|AEB28721.1| RNA polymerase sigma factor RpoD [Francisella cf. novicida 3523] Length = 577 Score = 328 bits (840), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 181/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYSKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKI 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ ++ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSVE--WLE-----PLTKKYKFTENTIREINNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 41/132 (31%), Positives = 66/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 ++RGY+T ++ LP D ++ E+ A+L + GI+V D + ED Sbjct: 17 GKERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYD----RTPQLEEDDERKV 72 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 S A+ D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 73 SEAN---------LDDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|167758408|ref|ZP_02430535.1| hypothetical protein CLOSCI_00748 [Clostridium scindens ATCC 35704] gi|167664305|gb|EDS08435.1| hypothetical protein CLOSCI_00748 [Clostridium scindens ATCC 35704] Length = 371 Score = 328 bits (840), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA +L MPVE V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAQLDMPVERV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 254 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 314 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 371 Score = 47.0 bits (110), Expect = 0.011, Method: Compositional matrix adjust. Identities = 39/138 (28%), Positives = 70/138 (50%), Gaps = 6/138 (4%) Query: 28 DDSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 ++ K+++ L +++ + ++E+N F E+ +EQME L + I+V+ + + Sbjct: 9 EEKLKELVSLGKKKKSILELQEINDFFSDMELEAEQMERVFEHLESNNIDVLR---ISGD 65 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAK 144 E + A V ++K S S +DPVRMYL+E+G + LL+ E E+ +AK Sbjct: 66 EDDDIDDVDIVIAEEDDVDMEKIDLSVPDGISIEDPVRMYLKEIGKVPLLTAEEEVDLAK 125 Query: 145 RIEAGRAMMMASLCESPL 162 R+ G L E+ L Sbjct: 126 RMADGDEEAKKRLAEANL 143 >gi|225570457|ref|ZP_03779482.1| hypothetical protein CLOHYLEM_06558 [Clostridium hylemonae DSM 15053] gi|225160654|gb|EEG73273.1| hypothetical protein CLOHYLEM_06558 [Clostridium hylemonae DSM 15053] Length = 370 Score = 327 bits (839), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA +L MPVE V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 253 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 313 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 370 Score = 44.3 bits (103), Expect = 0.063, Method: Compositional matrix adjust. Identities = 41/148 (27%), Positives = 71/148 (47%), Gaps = 27/148 (18%) Query: 28 DDSWKKMIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--VDGDDL- 83 ++ K+++ L +++ + ++E+N F E+ SEQME L I+V + GDD Sbjct: 9 EEKLKELVSLGKKKKSILELQEINDFFSDMELESEQMERVFEHLEANNIDVLRISGDDDD 68 Query: 84 ---------EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 E++E + +DL+ S +DPVRMYL+E+G + LL Sbjct: 69 IDDADIIISEEDEVDVEKIDLSVPDGIS--------------IEDPVRMYLKEIGKVPLL 114 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPL 162 + + E+ +AKR+ G L E+ L Sbjct: 115 TADEEVDLAKRMADGDEEAKKRLAEANL 142 >gi|291546785|emb|CBL19893.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus sp. SR1/5] Length = 375 Score = 327 bits (839), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + +S E + + KG+ AKK + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGKVSLLSADEEIELAKRMEKGD---EAAKKRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REPTPEEIA+++ MPV+ VR++LKI++EP+SLETPIG+E+ SHL Sbjct: 223 INKLIRVSRQLLQELGREPTPEEIAEEMDMPVDRVREILKISQEPVSLETPIGEEEDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI+D N P D+A L+E VL++LT RE++VLR+RFG+ TLEEVGK+ Sbjct: 283 GDFIQDDNVPVPADAAAFTLLKEQLVEVLSTLTDREQKVLRLRFGLDDGRARTLEEVGKE 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 343 FNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 375 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 42/134 (31%), Positives = 70/134 (52%), Gaps = 4/134 (2%) Query: 33 KMIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 ++++LA+++ V +E++ F + +QME L G++V+ D+ DE + Sbjct: 14 ELLELAKKKKNVLEYQEISDFFKDSPLEVDQMEKVFDFLEASGVDVLRITDNSGDELLLD 73 Query: 91 DSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + +D+ V L K S S +DPVRMYL+E+G + LLS + EI +AKR+E Sbjct: 74 NDMDMDGMEDEEEVELDKIDLSVPEGVSIEDPVRMYLKEIGKVSLLSADEEIELAKRMEK 133 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 134 GDEAAKKRLAEANL 147 >gi|153853334|ref|ZP_01994743.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] gi|149754120|gb|EDM64051.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814] Length = 369 Score = 327 bits (839), Expect = 3e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 132 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA +L MPVE V Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 252 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 311 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 312 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 369 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 44/128 (34%), Positives = 66/128 (51%), Gaps = 11/128 (8%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGSEDSLD 94 +++G + I+E+N F E+ S+QME L ++V+ D DD+ DE D D Sbjct: 21 KKKGILEIQEINDFFSDMELDSDQMEKVFDYLEANNVDVLRISNDDDDIPDEIVMSDEDD 80 Query: 95 LASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMM 154 + + SV D S +DPVRMYL+E+G + LLS E E+ +AKR+ G Sbjct: 81 IDVEKIDLSV-----PDGI--SIEDPVRMYLKEIGKVPLLSAEEEVELAKRMADGDEEAK 133 Query: 155 ASLCESPL 162 L E+ L Sbjct: 134 KRLAEANL 141 >gi|226324578|ref|ZP_03800096.1| hypothetical protein COPCOM_02362 [Coprococcus comes ATCC 27758] gi|225207026|gb|EEG89380.1| hypothetical protein COPCOM_02362 [Coprococcus comes ATCC 27758] Length = 371 Score = 327 bits (838), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA +L MPV+ V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVDRV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL++LT R Sbjct: 254 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLSTLTER 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 314 EQKVLRLRFGMSDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 371 Score = 45.4 bits (106), Expect = 0.034, Method: Compositional matrix adjust. Identities = 56/191 (29%), Positives = 82/191 (42%), Gaps = 27/191 (14%) Query: 29 DSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-------- 79 + K ++ LA+++ + I+E+N E+ QM+ L GI+V+ Sbjct: 10 EKLKNLVALAKKKKNILEIQEINDAFRDMELEPTQMDKVFEYLEANGIDVLQMNDDSNVD 69 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 DDLE ED +D+ + SV D S +DPVRMYL+E+G + LLS E E Sbjct: 70 DDDLEIMLSDEDEVDM--EKIDLSV-----PDGI--SIEDPVRMYLKEIGKVPLLSAEEE 120 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 I +AKR+ G L E+ L + I + + G L I E G Sbjct: 121 IELAKRMADGDEEAKKRLAEANLRL-VVSIAKRYVGRGMLFLDLI--------QEGNLGL 171 Query: 200 FHGTEGHSYQK 210 E YQK Sbjct: 172 IKAVEKFDYQK 182 >gi|166030947|ref|ZP_02233776.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] gi|166029214|gb|EDR47971.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC 27755] Length = 382 Score = 327 bits (838), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 145 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA +L MPVE V Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A Q L+E VL +LT R Sbjct: 265 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDEVLDTLTER 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 325 EQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 382 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 8/139 (5%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEEGSEDSLD 94 + + + ++E+N F E+ +EQME L I+V+ DGD +E+ + +DS D Sbjct: 27 KNKSILELQEINDFFSDMELDAEQMEKVYEYLEANHIDVLRVSGDGDGIEELDDVDDS-D 85 Query: 95 LASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + + + V ++K S S +DPVRMYL+E+G + LLS + E+ +AKR+ G Sbjct: 86 IVLTDEDD-VDMEKIDLSVPDGISIEDPVRMYLKEIGKVPLLSADEEVELAKRMAEGDED 144 Query: 153 MMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 145 AKKRLAEANLRLVVSIAKR 163 >gi|42519241|ref|NP_965171.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii NCC 533] gi|41583529|gb|AAS09137.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii NCC 533] gi|329667249|gb|AEB93197.1| RNA polymerase sigma factor RpoD [Lactobacillus johnsonii DPC 6026] Length = 372 Score = 327 bits (838), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 175/365 (47%), Positives = 236/365 (64%), Gaps = 27/365 (7%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 KE +L+ L +D LV++ D I+ GE +LA Sbjct: 34 KEFTAQLIKPYDLQGKAVDQLVQEFEDNGISIVDENGEPSKLA----------------- 76 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRK 436 + KD + E K+ A S +++ + ++ E G +S+ +++ ++ Sbjct: 77 ------LKKQKDVEKAELKDMSAP---SSVRMNDPVRMYLKEIGRVSLLNADQEIALAKR 127 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KF Sbjct: 128 IESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKF 187 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ Sbjct: 188 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 247 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E V Sbjct: 248 DMPTDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEV 307 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L Sbjct: 308 LDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQL 367 Query: 677 RSFLD 681 + FLD Sbjct: 368 KDFLD 372 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 59/120 (49%), Gaps = 7/120 (5%) Query: 44 VTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNS 102 +T +E A + P ++ + ++ V + GI++VD E G L L Sbjct: 31 ITEKEFTAQLIKPYDLQGKAVDQLVQEFEDNGISIVD------ENGEPSKLALKKQKDVE 84 Query: 103 SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+ + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 85 KAELKDMSAPSSVRMNDPVRMYLKEIGRVSLLNADQEIALAKRIESGDEEAKQELAEANL 144 >gi|268319377|ref|YP_003293033.1| DNA-directed RNA polymerase sigma factor RpoD (Sigma-70) [Lactobacillus johnsonii FI9785] gi|262397752|emb|CAX66766.1| DNA-directed RNA polymerase sigma factor RpoD (Sigma-70) [Lactobacillus johnsonii FI9785] Length = 372 Score = 327 bits (838), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 175/365 (47%), Positives = 236/365 (64%), Gaps = 27/365 (7%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 KE +L+ L +D LV++ D I+ GE +LA Sbjct: 34 KEFTAQLIKPYDLQGKAVDQLVQEFEDNGISIVDENGEPSKLA----------------- 76 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRK 436 + KD + E K+ A S +++ + ++ E G +S+ +++ ++ Sbjct: 77 ------LKKQKDVEKAELKDMSAP---SSVRMNDPVRMYLKEIGRVSLLNADQEIALAKR 127 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KF Sbjct: 128 IESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKF 187 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ Sbjct: 188 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 247 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 MP + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E V Sbjct: 248 DMPTDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEV 307 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L Sbjct: 308 LDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQL 367 Query: 677 RSFLD 681 + FLD Sbjct: 368 KDFLD 372 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 59/120 (49%), Gaps = 7/120 (5%) Query: 44 VTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNS 102 +T +E A + P ++ + ++ V + GI++VD E G L L Sbjct: 31 ITEKEFTAQLIKPYDLQGKAVDQLVQEFEDNGISIVD------ENGEPSKLALKKQKDVE 84 Query: 103 SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+ + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 85 KAELKDMSAPSSVRMNDPVRMYLKEIGRVSLLNADQEIALAKRIESGDEEAKQELAEANL 144 >gi|56708122|ref|YP_170018.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110670593|ref|YP_667150.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis FSC198] gi|224457213|ref|ZP_03665686.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|254370608|ref|ZP_04986613.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. tularensis FSC033] gi|254874922|ref|ZP_05247632.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|56604614|emb|CAG45668.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110320926|emb|CAL09051.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis FSC198] gi|151568851|gb|EDN34505.1| DNA-directed RNA polymerase sigma subunit RpoD [Francisella tularensis subsp. tularensis FSC033] gi|254840921|gb|EET19357.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis MA00-2987] gi|282159323|gb|ADA78714.1| RNA polymerase sigma-70 factor [Francisella tularensis subsp. tularensis NE061598] Length = 577 Score = 327 bits (838), Expect = 4e-87, Method: Compositional matrix adjust. Identities = 181/369 (49%), Positives = 245/369 (66%), Gaps = 10/369 (2%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK +L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 216 KKLYTKIVKEFDNLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 275 Query: 374 HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSM 433 ++ L+ W+ P + F + I + +I + + I E + + Sbjct: 276 YKVGSLE--WLE-----PLTKKYKFTENTIREIKNLTKQINQFQILMMMDIEELKQVNLE 328 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + + E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ G Sbjct: 329 ISRSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRKG 388 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 FKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEII 448 Query: 554 KKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + M E ++K+L I+ PIS+E+PIGD++ S +GDFIEDK+ SP+++A NLRE Sbjct: 449 EHTPNMTKEKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKSNYSPIEAANLENLREA 508 Query: 613 TTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 ++ + LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHPS Sbjct: 509 IKELIETGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHPS 568 Query: 672 RSKKLRSFL 680 RS L++FL Sbjct: 569 RSAFLKTFL 577 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 14/132 (10%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA 96 R+RGY+T ++ LP D ++ E+ A+L + GI+V D + EE E + A Sbjct: 17 GRERGYLTRADILDALPGDVSEDPKIYEEIEAILIDAGIDVYDRTP-QIEEDDERKVSEA 75 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 + D T DP+RMY+REMG ++LL ++GE IA RIE G + ++ Sbjct: 76 NL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFST 123 Query: 157 LCESPLTFQALI 168 + P+ + I Sbjct: 124 ILSYPIVIKTYI 135 >gi|302670285|ref|YP_003830245.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus B316] gi|302394758|gb|ADL33663.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus B316] Length = 521 Score = 327 bits (838), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 155/256 (60%), Positives = 202/256 (78%), Gaps = 5/256 (1%) Query: 431 VSMVRKGECEASI-----AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +S RK E A I AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA Sbjct: 266 LSDARKKELNAIIYEGEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAV 325 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R Sbjct: 326 EKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGR 385 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP PEE+AK++ MPVE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A Sbjct: 386 EPLPEEVAKEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAA 445 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L+E VL +LT RE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+R Sbjct: 446 FTLLKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALR 505 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HPSRS+KL+ +LD Sbjct: 506 KLRHPSRSRKLKDYLD 521 Score = 45.4 bits (106), Expect = 0.029, Method: Compositional matrix adjust. Identities = 41/168 (24%), Positives = 83/168 (49%), Gaps = 34/168 (20%) Query: 2 TIGKKRNRDSDSEHEDSDDSLVFDFSDDSW----KKMIKLARQRGYVT-IEELNAFLPPD 56 T G+K D ++ ++S+D + + + + + K+++ LA+++ V E++ F Sbjct: 97 TKGRKSKADKEAPSQNSEDGEIDEATRELFSQKVKEILALAKKKKNVLEYAEISDFFAEL 156 Query: 57 EVSSEQMEDTVAMLSNMGINVVDGDDLED---------------EEGSEDSLDLASSASN 101 ++ EQ ++ + +L N GI+V+ + + EE +++DL+ Sbjct: 157 NLNEEQFDNVLEVLENSGIDVLRVSEDDVDDIPDDDDMLLVDDDEEVDMENIDLSVPDGI 216 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S +DPVRMYL+E+G + LL+ + EI +A+ +EAG Sbjct: 217 S--------------IEDPVRMYLKEIGKVPLLTADQEIDLAQAMEAG 250 >gi|302871329|ref|YP_003839965.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574188|gb|ADL41979.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 417 Score = 327 bits (837), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 180 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + REPTPEEIAK++ MPVE V Sbjct: 240 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+E VL SL R Sbjct: 300 REILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLEVLDSLNER 359 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 360 EKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 417 Score = 68.6 bits (166), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 48/140 (34%), Positives = 71/140 (50%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E L +MGI+VVD D + +EE +D Sbjct: 75 RELISLGQSKGFLTYSEIQEILDKVELDASQVESIYDTLESMGIDVVD-DRVSEEELLKD 133 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 134 DLENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 178 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 179 EAKKRLAEANLRLVVSIAKR 198 >gi|312128161|ref|YP_003993035.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor hydrothermalis 108] gi|312134621|ref|YP_004001959.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor owensensis OL] gi|312792985|ref|YP_004025908.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|311774672|gb|ADQ04159.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor owensensis OL] gi|311778180|gb|ADQ07666.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor hydrothermalis 108] gi|312180125|gb|ADQ40295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 417 Score = 327 bits (837), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 194/437 (44%), Positives = 287/437 (65%), Gaps = 27/437 (6%) Query: 249 ENAENDE-RNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKD 307 +N EN+E +NL+ D++ + T S + ++ +++ + + + + +N G+K Sbjct: 4 QNMENNEVKNLN-DQNINKETGSEQQQEVEKQLLASQKNENQEKQPAKKSTENKSEGKK- 61 Query: 308 EKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA---QSYG 364 S K +++EK+ +L+ SL QS+ L ++ +I ++ + ++ + +S G Sbjct: 62 -MSEEKKSLIREKVRELI---SLGQSKGFLTYSEIQEILDKVELDASQVENIYDTLESMG 117 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 I DV +R EL ++ PEG +A + D + EI I + ++ Sbjct: 118 I--DVVDDRVSEEEL---LKDDLENLPEG-----IAID-DPVRMYLKEIGKIPL---LTP 163 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 E + + +G+ EA KK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA Sbjct: 164 EEEIELAKRIEQGDEEA---KKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKA 220 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + Sbjct: 221 VEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKG 280 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPTPEEIAK++ MPVE VR++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A Sbjct: 281 REPTPEEIAKEMNMPVEKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAA 340 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + L+E VL SL RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+ Sbjct: 341 AYSMLKEQLLEVLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKAL 400 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRSKKL+ FL+ Sbjct: 401 RKLRHPSRSKKLKDFLE 417 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E+ L +MGI+VVD D + +EE +D Sbjct: 75 RELISLGQSKGFLTYSEIQEILDKVELDASQVENIYDTLESMGIDVVD-DRVSEEELLKD 133 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 134 DLENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 178 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 179 EAKKRLAEANLRLVVSIAKR 198 >gi|154498377|ref|ZP_02036755.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC 29799] gi|150272688|gb|EDM99866.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC 29799] Length = 441 Score = 327 bits (837), Expect = 5e-87, Method: Compositional matrix adjust. Identities = 152/248 (61%), Positives = 201/248 (81%), Gaps = 4/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+GE AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G Sbjct: 198 IRRGEA----AKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKG 253 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV+R +R++ ++ +P+PEEIA Sbjct: 254 YKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGHDPSPEEIA 313 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ MPV+ VR++LKI +EP+SLETPIG+E+ SHLGDFI D++A P ++A L+E Sbjct: 314 EEMNMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDEDASEPSEAASFTLLKEQL 373 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +LTPREE+VL++RFGI TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS Sbjct: 374 VDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 433 Query: 674 KKLRSFLD 681 KKL+ FL+ Sbjct: 434 KKLKDFLN 441 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 40/126 (31%), Positives = 65/126 (51%), Gaps = 16/126 (12%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV--------DGDDLED 85 +++ A+++G ++ EL L E+ SEQM+ +L N+GI V D D + Sbjct: 49 LVERAKKKGSLSTNELMDVLEGMELESEQMDKIYDVLENLGIETVSEYYLPELDADIMPP 108 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E E+ + N+ V DS DDPVRMYL+E+G + LL+ + E+ +A+ Sbjct: 109 MEELEEIPEEKIVDPNTLV------DSF--GIDDPVRMYLKEIGKVNLLNPDEEVQLAQD 160 Query: 146 IEAGRA 151 + AG A Sbjct: 161 MGAGDA 166 >gi|296133798|ref|YP_003641045.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola sp. JR] gi|296032376|gb|ADG83144.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola potens JR] Length = 366 Score = 327 bits (837), Expect = 6e-87, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+ + EANLRLV+S+AK+Y RGL FLDLIQEGN+GL+KA EKFD+ Sbjct: 116 VELAKRMETGDEEAKRRLAEANLRLVVSIAKRYVGRGLLFLDLIQEGNLGLIKAVEKFDY 175 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 176 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 235 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PV+ VR+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A LR Sbjct: 236 EIAAEMDIPVDRVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFILLR 295 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 296 EQLEEVLETLTPREEKVLRLRFGLDDGRSRTLEEVGQEFGVTRERIRQIEAKALRKLRHP 355 Query: 671 SRSKKLRSFLD 681 SRSKKL+ FL+ Sbjct: 356 SRSKKLKDFLE 366 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 39/119 (32%), Positives = 67/119 (56%), Gaps = 6/119 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 +++I+ ++RG +T E+ L +++ EQ+++ L+NMGI+VV + DLE + Sbjct: 12 QELIENGKKRGILTYTEIMNTLQNVDLNPEQIDEIYEKLANMGIDVVPEVPDLEPLDSEA 71 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D + + + D DDPVRMYL+E+G + LL+ E E+ +AKR+E G Sbjct: 72 IEADAEEAEIEVDLTV---PDGI--GIDDPVRMYLKEIGRVPLLTAEEEVELAKRMETG 125 >gi|222528719|ref|YP_002572601.1| RpoD subfamily RNA polymerase sigma-70 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455566|gb|ACM59828.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 417 Score = 327 bits (837), Expect = 6e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 180 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + REPTPEEIAK++ MPVE V Sbjct: 240 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+E VL SL R Sbjct: 300 REILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLEVLDSLNER 359 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 360 EKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 417 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/140 (34%), Positives = 72/140 (51%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E+ L +MGI+VVD D + +EE +D Sbjct: 75 RELISLGQSKGFLTYSEIQEILDKVELDASQVENIYDTLESMGIDVVD-DRVSEEELLKD 133 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 134 DLENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 178 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 179 EAKKRLAEANLRLVVSIAKR 198 >gi|294055048|ref|YP_003548706.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] gi|293614381|gb|ADE54536.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] Length = 639 Score = 326 bits (836), Expect = 7e-87, Method: Compositional matrix adjust. Identities = 168/339 (49%), Positives = 233/339 (68%), Gaps = 7/339 (2%) Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVAC----EV 403 R+ E EL + + Y +K +F + ++L P ++ + + + E + V +V Sbjct: 284 RMKKYEAELSGVLKKYCLKLKIFEDFL--KDLTPTYMELKELYDDLETADKVTARRRKQV 341 Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D + I ++ I +E I E I+ VR G EA AK EMVEANLRLVIS+AKKY Sbjct: 342 D-VKAIERRLEEIKLEFKIESKELLDIIREVRIGTREAHKAKTEMVEANLRLVISIAKKY 400 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 401 TNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 460 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + ++KV++ +++ ++ EPT EE+A ++ +P+E V+ ++K+ ++PISL++P+GD Sbjct: 461 HMIETLNKVMQVQKQLLQELGHEPTAEEVADEMNLPIERVQSIMKMAQQPISLQSPVGDS 520 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ GDFIEDK A +P D + LRE T VL SLT RE RVL +RFG+ TLE Sbjct: 521 DDTNFGDFIEDKGAENPYDMTAYSLLREKITDVLDSLTERERRVLSLRFGLADGYSRTLE 580 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EVG+QF VTRERIRQIEAKA+RK++HP+R ++L F +G Sbjct: 581 EVGRQFKVTRERIRQIEAKALRKMRHPTRIRQLHGFFEG 619 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/132 (31%), Positives = 76/132 (57%), Gaps = 11/132 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I++++++G++T +++N LP + E++E+ +++L N+ I V+D +E Sbjct: 90 LIRMSKEQGFLTYKDINKGLPESVNNPEEIENVISILQNLEIEVLDDSQVE--------- 140 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 A A ++ + S + DDPVRMYL++MG + LL+RE E+AI+KRIE Sbjct: 141 --AYKARQEETEEKEVRTSQNDILDDPVRMYLKQMGQVPLLTREEEVAISKRIEKAELRA 198 Query: 154 MASLCESPLTFQ 165 +L + LT + Sbjct: 199 QDALFSTALTLE 210 >gi|312876451|ref|ZP_07736435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796809|gb|EFR13154.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 419 Score = 326 bits (836), Expect = 8e-87, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 182 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 241 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + REPTPEEIAK++ MPVE V Sbjct: 242 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 301 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+E VL SL R Sbjct: 302 REILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLEVLDSLNER 361 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 362 EKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 419 Score = 68.9 bits (167), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 47/140 (33%), Positives = 72/140 (51%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E+ L +MGI++VD D + +EE +D Sbjct: 77 RELISLGQSKGFLTYSEIQEILDKVELDASQVENIYDTLESMGIDIVD-DRVSEEELLKD 135 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 136 DLENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 180 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 181 EAKKRLAEANLRLVVSIAKR 200 >gi|153813734|ref|ZP_01966402.1| hypothetical protein RUMOBE_04167 [Ruminococcus obeum ATCC 29174] gi|149830174|gb|EDM85267.1| hypothetical protein RUMOBE_04167 [Ruminococcus obeum ATCC 29174] Length = 330 Score = 326 bits (835), Expect = 9e-87, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 93 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 152 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA+++ MPV+ V Sbjct: 153 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMKMPVDRV 212 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 213 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLIEVLGTLTER 272 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 273 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 330 Score = 44.7 bits (104), Expect = 0.055, Method: Compositional matrix adjust. Identities = 22/47 (46%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LL+ + EI +AKR+E G L E+ L Sbjct: 56 SIEDPVRMYLKEIGKVSLLTADEEIELAKRMEQGDEEAKKRLAEANL 102 >gi|303238871|ref|ZP_07325402.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetivibrio cellulolyticus CD2] gi|302593504|gb|EFL63221.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetivibrio cellulolyticus CD2] Length = 359 Score = 326 bits (835), Expect = 9e-87, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + KG+ E+ K+ + EANLRLV+S+AK+Y RG+ Sbjct: 90 VRMYLKEIGKVPLLSADEEIQLAQKMEKGDSES---KRRLAEANLRLVVSIAKRYVGRGM 146 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 147 LFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 206 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ +EP PEEIAK++ MPVE VR+++KI++EP+SLETPIG+E+ SHL Sbjct: 207 INKLIRVSRQLLQELGKEPQPEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHL 266 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 267 GDFIPDDDAPAPSEAAAFTLLKEQLIDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 326 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 327 FNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 359 Score = 52.0 bits (123), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 70/132 (53%), Gaps = 18/132 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEGSE 90 +I +Q+G +T +E+ E+ E +E L NMGI++V GD ++E+ + +E Sbjct: 15 LIDKGKQKGMLTYKEIMDAFEEIEIEPEHIEKVYETLENMGIDIV-GDIEAEMEEIQLTE 73 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + LD++ S DDPVRMYL+E+G + LLS + EI +A+++E G Sbjct: 74 EDLDISIPEGIS--------------IDDPVRMYLKEIGKVPLLSADEEIQLAQKMEKGD 119 Query: 151 AMMMASLCESPL 162 + L E+ L Sbjct: 120 SESKRRLAEANL 131 >gi|295397565|ref|ZP_06807644.1| RNA polymerase sigma factor rpoD [Aerococcus viridans ATCC 11563] gi|294974189|gb|EFG49937.1| RNA polymerase sigma factor rpoD [Aerococcus viridans ATCC 11563] Length = 374 Score = 326 bits (835), Expect = 9e-87, Method: Compositional matrix adjust. Identities = 154/251 (61%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 VS+ ++ E +AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 VSLAQRIEQGDPVAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDY 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + REPTPE Sbjct: 184 HKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +P E VR +LKI +EP+SLETPIG+ED SHLGDFIED +A SP D L+ Sbjct: 244 EIGAEMDLPTEKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDHDATSPDDYTSAELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLE+VG+QF VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLNEVLDTLTDREENVLRLRFGLEDGQSKTLEQVGQQFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 49.7 bits (117), Expect = 0.001, Method: Compositional matrix adjust. Identities = 22/51 (43%), Positives = 36/51 (70%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 ++D +DPVRMYL+E+G +ELL+ + E+++A+RIE G + L E+ L Sbjct: 96 ASDVKINDPVRMYLKEIGRVELLTADEEVSLAQRIEQGDPVAKQELAEANL 146 >gi|146295919|ref|YP_001179690.1| RpoD family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409495|gb|ABP66499.1| RNA polymerase, sigma 70 subunit, RpoD [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 411 Score = 326 bits (835), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 174 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 233 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + REPTPEEIAK++ MPVE V Sbjct: 234 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 293 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+E VL SL R Sbjct: 294 REILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLEVLDSLNER 353 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 354 EKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 411 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 49/140 (35%), Positives = 72/140 (51%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E+ L NMGI+VVD D + +EE +D Sbjct: 69 RELISLGQSKGFLTYSEIQEILDKVELDANQIENIYDTLENMGIDVVD-DRVSEEELLKD 127 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 128 DLENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 172 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 173 EAKKRLAEANLRLVVSIAKR 192 >gi|281417615|ref|ZP_06248635.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] gi|281409017|gb|EFB39275.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum JW20] Length = 358 Score = 326 bits (835), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 89 VRMYLKEIGKVPLLTAEEEIELAHRIEQGDAEA---KRRLAEANLRLVVSIAKRYVGRGM 145 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 146 LFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 205 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP PEEIAK++ MPVE VR+++KI++EP+SLETPIG+E+ SHL Sbjct: 206 INKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHL 265 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 266 GDFIPDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 325 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 326 FNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 358 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 49/133 (36%), Positives = 72/133 (54%), Gaps = 18/133 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEGS 89 ++I+ +Q+G +T +E+ ++ EQ+E L NMGI+VV GD ++ED + + Sbjct: 13 ELIEKGKQKGMLTYQEIMDAFEEVDIDPEQIEKIYETLENMGIDVV-GDIEAEMEDIQLT 71 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ED LDL+ S DDPVRMYL+E+G + LL+ E EI +A RIE G Sbjct: 72 EDDLDLSIPEGIS--------------IDDPVRMYLKEIGKVPLLTAEEEIELAHRIEQG 117 Query: 150 RAMMMASLCESPL 162 A L E+ L Sbjct: 118 DAEAKRRLAEANL 130 >gi|315029422|gb|EFT41354.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4000] Length = 368 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 165/306 (53%), Positives = 217/306 (70%), Gaps = 7/306 (2%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP S KD E E + +KI + ++ E G ++ +E + + Sbjct: 66 DPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIE 125 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA K+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 126 EGDQEA---KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFK 182 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI + Sbjct: 183 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAE 242 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E Sbjct: 243 MDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED 302 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 303 VLDTLTDREENVLRLRFGLDNGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 362 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 363 LKDFLE 368 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 66/132 (50%), Gaps = 10/132 (7%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK + +G V ++L N P + +E ME + + + GI+VVD E+ + SE S Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVD----ENGDPSEHS 71 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + + Q SA +DPVRMYL+E+G ++LL+ E+ +A +IE G Sbjct: 72 LKKDEKEAEKA---QAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGD 128 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 129 QEAKQRLAEANL 140 >gi|227890104|ref|ZP_04007909.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus johnsonii ATCC 33200] gi|227849548|gb|EEJ59634.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus johnsonii ATCC 33200] Length = 372 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 173/360 (48%), Positives = 234/360 (65%), Gaps = 27/360 (7%) Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ L +D LV++ D I+ GE +LA Sbjct: 39 QLIKPYDLQGKAVDQLVQEFEDNGISIVDENGEPSKLA---------------------- 76 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEA 441 + KD + E K+ A S +++ + ++ E G +S+ +++ ++ E Sbjct: 77 -LKKQKDVEKAELKDMSAP---SSVRMNDPVRMYLKEIGRVSLLNADQEIALAKRIESGD 132 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA Sbjct: 133 EEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYAT 192 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP + Sbjct: 193 WWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTD 252 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT Sbjct: 253 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLT 312 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 313 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 372 Score = 52.0 bits (123), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 54/111 (48%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E G L L L+ Sbjct: 40 LIKPYDLQGKAVDQLVQEFEDNGISIVD------ENGEPSKLALKKQKDVEKAELKDMSA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 94 PSSVRMNDPVRMYLKEIGRVSLLNADQEIALAKRIESGDEEAKQELAEANL 144 >gi|125973412|ref|YP_001037322.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum ATCC 27405] gi|125713637|gb|ABN52129.1| RNA polymerase, sigma 38 subunit, RpoS [Clostridium thermocellum ATCC 27405] Length = 358 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 89 VRMYLKEIGKVPLLTAEEEIELAHRIEQGDAEA---KRRLAEANLRLVVSIAKRYVGRGM 145 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 146 LFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 205 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP PEEIAK++ MPVE VR+++KI++EP+SLETPIG+E+ SHL Sbjct: 206 INKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHL 265 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 266 GDFIPDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 325 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 326 FNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 358 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 49/133 (36%), Positives = 73/133 (54%), Gaps = 18/133 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEGS 89 ++I+ +Q+G +T +E+ ++ EQ+E L NMGI+VV GD ++ED + + Sbjct: 13 ELIEKGKQKGMLTYQEIMDAFEEVDIDPEQIEKIYETLENMGIDVV-GDIEAEMEDIQLT 71 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ED+LDL+ S DDPVRMYL+E+G + LL+ E EI +A RIE G Sbjct: 72 EDNLDLSIPEGIS--------------IDDPVRMYLKEIGKVPLLTAEEEIELAHRIEQG 117 Query: 150 RAMMMASLCESPL 162 A L E+ L Sbjct: 118 DAEAKRRLAEANL 130 >gi|323484375|ref|ZP_08089742.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692387|ref|ZP_08106623.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323402369|gb|EGA94700.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503527|gb|EGB19353.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 372 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 202/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EK+D+ Sbjct: 122 IELAKQMEMGNEYAKKRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKYDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I++++RT+R++ ++ REP PE Sbjct: 182 SKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINRLIRTSRQLLQELGREPHPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+++ MPVE VR+++KI+++P+SLETPIG+E+ SHLGDFI+D + PLD+A L Sbjct: 242 EVAERMDMPVERVREIMKISQDPVSLETPIGEEEDSHLGDFIQDDHVQVPLDAATFTLLH 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLMEVLDTLTDREQKVLRLRFGLDDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 362 SRSKKLKDYLD 372 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPVRMYL+E+G + LLS E EI +AK++E G L E+ L Sbjct: 98 NIDDPVRMYLKEIGKVPLLSPEEEIELAKQMEMGNEYAKKRLAEANL 144 >gi|227544906|ref|ZP_03974955.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri CF48-3A] gi|300910067|ref|ZP_07127527.1| RNA polymerase sigma factor rpoD [Lactobacillus reuteri SD2112] gi|227185118|gb|EEI65189.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri CF48-3A] gi|300892715|gb|EFK86075.1| RNA polymerase sigma factor rpoD [Lactobacillus reuteri SD2112] Length = 380 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 163/306 (53%), Positives = 217/306 (70%), Gaps = 10/306 (3%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP + + F + K+ A + +KI + ++ E G ++ E + + Sbjct: 81 DPRALKATEKFSQSAMKDTSAP---TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIE 137 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ +AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 138 KGD---EVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFK 194 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI + Sbjct: 195 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAE 254 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP E VR +LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A +++ Sbjct: 255 MDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLEN 314 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 315 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 374 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 375 LKDFLE 380 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 37/136 (27%), Positives = 71/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K+I+ +++ + +EL + P E++++ +++ + + + GI+VVD E Sbjct: 23 DTAVGKLIRNYKKQKQIEYDELTTKIAKPFELNADGIDNLLQNIEDAGISVVD------E 76 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G D L ++ S ++ +DPVRMYL+E+G + LL+ + E+ +A RI Sbjct: 77 NGDPDPRALKATEKFSQSAMKDTSAPTGVKINDPVRMYLKEIGRVNLLTADEEVQLALRI 136 Query: 147 EAGRAMMMASLCESPL 162 E G + L E+ L Sbjct: 137 EKGDEVAKQELAEANL 152 >gi|253580849|ref|ZP_04858112.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251847919|gb|EES75886.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 375 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 125 IELAKRMENGDEAAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 184 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 185 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 244 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ M VE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+ Sbjct: 245 EIAKEMDMSVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLK 304 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL++LT RE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 305 EQLVEVLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 364 Query: 671 SRSKKLRSFLD 681 SRS+KL+ +LD Sbjct: 365 SRSRKLKDYLD 375 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 44/147 (29%), Positives = 67/147 (45%), Gaps = 32/147 (21%) Query: 34 MIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD---------- 82 +++LA+++ V +E+N F + EQME L G++V+ D Sbjct: 15 LLELAKKKKNVLEYQEINDFFKDQPLGVEQMEKVFDFLEASGVDVLRITDSNADDMILDD 74 Query: 83 -------LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 L++EE D +DL+ S +DPVRMYL+E+G + LLS Sbjct: 75 DDADIDKLDEEEIELDKIDLSVPEGVS--------------IEDPVRMYLKEIGKVPLLS 120 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPL 162 E EI +AKR+E G L E+ L Sbjct: 121 AEEEIELAKRMENGDEAAKKRLAEANL 147 >gi|312622967|ref|YP_004024580.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203434|gb|ADQ46761.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 417 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 180 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ + REPTPEEIAK++ MPVE V Sbjct: 240 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+E VL SL R Sbjct: 300 REILKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLEVLDSLNER 359 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 360 EKKVLKLRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 417 Score = 68.2 bits (165), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 47/140 (33%), Positives = 72/140 (51%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I L + +G++T E+ L E+ + Q+E+ L +MGI+VVD D + +EE +D Sbjct: 75 RELISLGQSKGFLTYSEIQEILDKVELDASQVENIYDTLESMGIDVVD-DRVSEEELLKD 133 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 ++ + DDPVRMYL+E+G I LL+ E EI +AKRIE G Sbjct: 134 DIENLPEGI---------------AIDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQGDE 178 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 179 EAKKRLAEANLRLVVSIAKR 198 >gi|148543974|ref|YP_001271344.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri DSM 20016] gi|184153369|ref|YP_001841710.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri JCM 1112] gi|227364887|ref|ZP_03848933.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM2-3] gi|325682488|ref|ZP_08162005.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM4-1A] gi|148531008|gb|ABQ83007.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus reuteri DSM 20016] gi|183224713|dbj|BAG25230.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri JCM 1112] gi|227070091|gb|EEI08468.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM2-3] gi|324978327|gb|EGC15277.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus reuteri MM4-1A] Length = 380 Score = 325 bits (834), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 163/306 (53%), Positives = 217/306 (70%), Gaps = 10/306 (3%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP + + F + K+ A + +KI + ++ E G ++ E + + Sbjct: 81 DPRALKATEKFSQSAMKDTSAP---TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIE 137 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ +AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 138 KGD---EVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFK 194 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI + Sbjct: 195 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAE 254 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP E VR +LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A +++ Sbjct: 255 MDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLEN 314 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 315 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 374 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 375 LKDFLE 380 Score = 54.3 bits (129), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 37/136 (27%), Positives = 71/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K+I+ +++ + +EL + P E++++ +++ + + + GI+VVD E Sbjct: 23 DTAVGKLIRNYKKQKQIEYDELTTKIAKPFELNADGIDNLLQNIEDAGISVVD------E 76 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G D L ++ S ++ +DPVRMYL+E+G + LL+ + E+ +A RI Sbjct: 77 NGDPDPRALKATEKFSQSAMKDTSAPTGVKINDPVRMYLKEIGRVNLLTADEEVQLALRI 136 Query: 147 EAGRAMMMASLCESPL 162 E G + L E+ L Sbjct: 137 EKGDEVAKQELAEANL 152 >gi|29376087|ref|NP_815241.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis V583] gi|227518714|ref|ZP_03948763.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104] gi|227553323|ref|ZP_03983372.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22] gi|229545861|ref|ZP_04434586.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322] gi|229550053|ref|ZP_04438778.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200] gi|255975889|ref|ZP_05426475.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2] gi|256619027|ref|ZP_05475873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200] gi|256762453|ref|ZP_05503033.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3] gi|256853088|ref|ZP_05558458.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8] gi|256958944|ref|ZP_05563115.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5] gi|256961963|ref|ZP_05566134.1| sigma 42 [Enterococcus faecalis Merz96] gi|256965161|ref|ZP_05569332.1| sigma 42 [Enterococcus faecalis HIP11704] gi|257078975|ref|ZP_05573336.1| sigma 42 [Enterococcus faecalis JH1] gi|257082587|ref|ZP_05576948.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol] gi|257085220|ref|ZP_05579581.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1] gi|257086781|ref|ZP_05581142.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6] gi|257089848|ref|ZP_05584209.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188] gi|257416057|ref|ZP_05593051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis AR01/DG] gi|257419260|ref|ZP_05596254.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11] gi|257422656|ref|ZP_05599646.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98] gi|293383032|ref|ZP_06628950.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712] gi|293389479|ref|ZP_06633936.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613] gi|294779115|ref|ZP_06744526.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1] gi|300860473|ref|ZP_07106560.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11] gi|307271055|ref|ZP_07552338.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248] gi|307273262|ref|ZP_07554508.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855] gi|307274998|ref|ZP_07556161.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134] gi|307278111|ref|ZP_07559195.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860] gi|307289068|ref|ZP_07569024.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109] gi|307292033|ref|ZP_07571902.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411] gi|312900723|ref|ZP_07760020.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470] gi|312903270|ref|ZP_07762450.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635] gi|312907497|ref|ZP_07766488.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512] gi|312910115|ref|ZP_07768962.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516] gi|312951455|ref|ZP_07770352.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102] gi|30179886|sp|P52329|RPOD_ENTFA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 gi|29343549|gb|AAO81311.1| RNA polymerase sigma-43 factor [Enterococcus faecalis V583] gi|227073834|gb|EEI11797.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104] gi|227177552|gb|EEI58524.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22] gi|229304757|gb|EEN70753.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200] gi|229309016|gb|EEN75003.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322] gi|255968761|gb|EET99383.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2] gi|256598554|gb|EEU17730.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200] gi|256683704|gb|EEU23399.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3] gi|256711547|gb|EEU26585.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8] gi|256949440|gb|EEU66072.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5] gi|256952459|gb|EEU69091.1| sigma 42 [Enterococcus faecalis Merz96] gi|256955657|gb|EEU72289.1| sigma 42 [Enterococcus faecalis HIP11704] gi|256987005|gb|EEU74307.1| sigma 42 [Enterococcus faecalis JH1] gi|256990617|gb|EEU77919.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol] gi|256993250|gb|EEU80552.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1] gi|256994811|gb|EEU82113.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6] gi|256998660|gb|EEU85180.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188] gi|257157885|gb|EEU87845.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ARO1/DG] gi|257161088|gb|EEU91048.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11] gi|257164480|gb|EEU94440.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98] gi|291079697|gb|EFE17061.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712] gi|291081096|gb|EFE18059.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613] gi|294453840|gb|EFG22231.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1] gi|295112959|emb|CBL31596.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Enterococcus sp. 7L76] gi|300849512|gb|EFK77262.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11] gi|306497031|gb|EFM66579.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411] gi|306499777|gb|EFM69138.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109] gi|306505508|gb|EFM74694.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860] gi|306508446|gb|EFM77553.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134] gi|306510247|gb|EFM79271.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855] gi|306512553|gb|EFM81202.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248] gi|310626525|gb|EFQ09808.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512] gi|310630611|gb|EFQ13894.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102] gi|310633146|gb|EFQ16429.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635] gi|311289388|gb|EFQ67944.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516] gi|311292204|gb|EFQ70760.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470] gi|315027303|gb|EFT39235.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2137] gi|315033932|gb|EFT45864.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0017] gi|315036941|gb|EFT48873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0027] gi|315144454|gb|EFT88470.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2141] gi|315147227|gb|EFT91243.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4244] gi|315150574|gb|EFT94590.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0012] gi|315152521|gb|EFT96537.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0031] gi|315155799|gb|EFT99815.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0043] gi|315158034|gb|EFU02051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0312] gi|315160483|gb|EFU04500.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0645] gi|315163977|gb|EFU07994.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1302] gi|315169073|gb|EFU13090.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1341] gi|315169690|gb|EFU13707.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1342] gi|315172348|gb|EFU16365.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1346] gi|315575904|gb|EFU88095.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309B] gi|315577570|gb|EFU89761.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0630] gi|315580556|gb|EFU92747.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309A] gi|327535095|gb|AEA93929.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis OG1RF] gi|329571347|gb|EGG53034.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1467] Length = 368 Score = 325 bits (833), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 165/306 (53%), Positives = 217/306 (70%), Gaps = 7/306 (2%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP S KD E E + +KI + ++ E G ++ +E + + Sbjct: 66 DPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIE 125 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA K+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 126 EGDQEA---KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFK 182 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI + Sbjct: 183 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAE 242 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E Sbjct: 243 MDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED 302 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 303 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 362 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 363 LKDFLE 368 Score = 50.8 bits (120), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 66/132 (50%), Gaps = 10/132 (7%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK + +G V ++L N P + +E ME + + + GI+VVD E+ + SE S Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVD----ENGDPSEHS 71 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + + Q SA +DPVRMYL+E+G ++LL+ E+ +A +IE G Sbjct: 72 LKKDEKEAEKA---QAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGD 128 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 129 QEAKQRLAEANL 140 >gi|225575013|ref|ZP_03783623.1| hypothetical protein RUMHYD_03093 [Blautia hydrogenotrophica DSM 10507] gi|225037764|gb|EEG48010.1| hypothetical protein RUMHYD_03093 [Blautia hydrogenotrophica DSM 10507] Length = 374 Score = 325 bits (833), Expect = 1e-86, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 137 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ M V+ V Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMEMSVDRV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL++LT R Sbjct: 257 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVEVLSTLTDR 316 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 317 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 374 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/126 (33%), Positives = 63/126 (50%), Gaps = 2/126 (1%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASS 98 +++ + +E+N F + +EQ+E L GI+V+ D + +E DL Sbjct: 21 KKKNVLEYQEINDFFKDTPLDTEQLEKVFDFLEASGIDVLRISDSDVDEALLLDEDLDKI 80 Query: 99 ASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMAS 156 A V L K S S +DPVRMYL+E+G + LL+ E EI +AKR+E G Sbjct: 81 AEEEDVELDKIDLSVPEGVSIEDPVRMYLKEIGKVNLLTAEEEIELAKRMEEGDEDAKKR 140 Query: 157 LCESPL 162 L E+ L Sbjct: 141 LAEANL 146 >gi|323480687|gb|ADX80126.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis 62] Length = 356 Score = 325 bits (833), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 165/306 (53%), Positives = 217/306 (70%), Gaps = 7/306 (2%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP S KD E E + +KI + ++ E G ++ +E + + Sbjct: 54 DPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIE 113 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA K+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 114 EGDQEA---KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFK 170 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI + Sbjct: 171 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAE 230 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E Sbjct: 231 MDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED 290 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 291 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 350 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 351 LKDFLE 356 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 66/132 (50%), Gaps = 10/132 (7%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK + +G V ++L N P + +E ME + + + GI+VVD E+ + SE S Sbjct: 4 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVD----ENGDPSEHS 59 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + + Q SA +DPVRMYL+E+G ++LL+ E+ +A +IE G Sbjct: 60 LKKDEKEAEKA---QAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGD 116 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 117 QEAKQRLAEANL 128 >gi|313903914|ref|ZP_07837294.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eubacterium cellulosolvens 6] gi|313471063|gb|EFR66385.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eubacterium cellulosolvens 6] Length = 373 Score = 325 bits (833), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E +AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 123 IELAKRMEEGDEVAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REPTPE Sbjct: 183 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPE 242 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK + M VE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D+N P D+A L+ Sbjct: 243 EIAKNMNMSVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDENVPVPADAAAFTMLK 302 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L RE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 303 EQLEEVLGTLAEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 362 Query: 671 SRSKKLRSFLD 681 SRS+KL+ +LD Sbjct: 363 SRSRKLKDYLD 373 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 42/145 (28%), Positives = 76/145 (52%), Gaps = 8/145 (5%) Query: 32 KKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K++I++A+++ + I E+ + ++ +Q++ V+ L I+V+ + D +G + Sbjct: 13 KELIEVAKKKKNALEISEIADYFKELNLNDKQLKSVVSYLEEHDIDVLR---INDNDGPD 69 Query: 91 DSLDLASSAS--NSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRI 146 D + L S + N ++ S S +DPVRMYL+E+G + LLS + EI +AKR+ Sbjct: 70 DEMLLISESDEDNEDNDMENIDLSVPEGVSIEDPVRMYLKEIGKVPLLSADEEIELAKRM 129 Query: 147 EAGRAMMMASLCESPLTFQALIIWR 171 E G + L E+ L I R Sbjct: 130 EEGDEVAKKRLAEANLRLVVSIAKR 154 >gi|116494985|ref|YP_806719.1| RNA polymerase sigma factor RpoD [Lactobacillus casei ATCC 334] gi|191638497|ref|YP_001987663.1| RNA polymerase sigma factor RpoD [Lactobacillus casei BL23] gi|227535009|ref|ZP_03965058.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|301066553|ref|YP_003788576.1| DNA-directed RNA polymerase sigma70/sigma32 subunit [Lactobacillus casei str. Zhang] gi|116105135|gb|ABJ70277.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei ATCC 334] gi|190712799|emb|CAQ66805.1| RNA polymerase sigma factor [Lactobacillus casei BL23] gi|227187324|gb|EEI67391.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|300438960|gb|ADK18726.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus casei str. Zhang] gi|327382532|gb|AEA54008.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei LC2W] gi|327385729|gb|AEA57203.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei BD-II] Length = 422 Score = 325 bits (833), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 162/278 (58%), Positives = 208/278 (74%), Gaps = 1/278 (0%) Query: 405 SILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 S +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 145 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQEAKQRLAEANLRLVVSIAKRY 204 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPV Sbjct: 205 VGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPV 264 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+E Sbjct: 265 HMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEE 324 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D SHLGDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLE Sbjct: 325 DDSHLGDFIEDQDATSPEDHASYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLE 384 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 385 EVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 422 Score = 54.7 bits (130), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 70/136 (51%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 DD+ K +IK +++ +T ++L + + P E+ S ++D + + + GI +VD E Sbjct: 65 DDAVKAVIKDYKKKKQITEDDLTDKLVKPFELKSGAIDDLMQKIEDNGIAIVD------E 118 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G ++ L S + + +DPVRMYL+E+G + LL+ + E+A+A +I Sbjct: 119 NGEPAAISLKKQKKVSKKEMSDMSAPSGVKINDPVRMYLKEIGRVSLLTADEEVALALKI 178 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 179 EQGDQEAKQRLAEANL 194 >gi|194467797|ref|ZP_03073783.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus reuteri 100-23] gi|194452650|gb|EDX41548.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus reuteri 100-23] Length = 380 Score = 325 bits (833), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + KG+ +AK+E+ EANLRLV+S+AK+Y RG+ Sbjct: 111 VRMYLKEIGRVNLLTADEEVQLALRIEKGD---EVAKQELAEANLRLVVSIAKRYVGRGM 167 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 168 QFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 227 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP PEEI ++ MP E VR +LKI +EP+SLETPIG+ED SHL Sbjct: 228 INKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHL 287 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A +++ VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 288 GDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 347 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 348 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 380 Score = 53.9 bits (128), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 37/136 (27%), Positives = 71/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K+I+ +++ + +EL + P E++++ +++ + + + GI+VVD E Sbjct: 23 DTAVGKLIRNYKKQKQIEYDELTTKIAKPFELNADGIDNLLQNIEDAGISVVD------E 76 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G D L ++ S ++ +DPVRMYL+E+G + LL+ + E+ +A RI Sbjct: 77 NGDPDPRALKATEKLSQSAMKDTSAPTGVKINDPVRMYLKEIGRVNLLTADEEVQLALRI 136 Query: 147 EAGRAMMMASLCESPL 162 E G + L E+ L Sbjct: 137 EKGDEVAKQELAEANL 152 >gi|255972833|ref|ZP_05423419.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1] gi|255963851|gb|EET96327.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1] Length = 368 Score = 325 bits (833), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 165/306 (53%), Positives = 217/306 (70%), Gaps = 7/306 (2%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP S KD E E + +KI + ++ E G ++ +E + + Sbjct: 66 DPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIE 125 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA K+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 126 EGDQEA---KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFK 182 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI + Sbjct: 183 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAE 242 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E Sbjct: 243 MDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED 302 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 303 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 362 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 363 LKDFLE 368 Score = 51.6 bits (122), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 67/132 (50%), Gaps = 10/132 (7%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK + +G V ++L N P + +E ME + + ++GI+VVD E+ + SE S Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDVGISVVD----ENGDPSEHS 71 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + + Q SA +DPVRMYL+E+G ++LL+ E+ +A +IE G Sbjct: 72 LKKDEKEAEKA---QAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGD 128 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 129 QEAKQRLAEANL 140 >gi|256004390|ref|ZP_05429371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|255991674|gb|EEU01775.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 2360] gi|316940353|gb|ADU74387.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium thermocellum DSM 1313] Length = 358 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 89 VRMYLKEIGKVPLLTAEEEIELAHRMEQGDAEA---KRRLAEANLRLVVSIAKRYVGRGM 145 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 146 LFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 205 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP PEEIAK++ MPVE VR+++KI++EP+SLETPIG+E+ SHL Sbjct: 206 INKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHL 265 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 266 GDFIPDDDAPAPSEAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 325 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 326 FNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 358 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/133 (36%), Positives = 72/133 (54%), Gaps = 18/133 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEGS 89 ++I+ +Q+G +T +E+ ++ EQ+E L NMGI+VV GD ++ED + + Sbjct: 13 ELIEKGKQKGMLTYQEIMDAFEEVDIDPEQIEKIYETLENMGIDVV-GDIEAEMEDIQLT 71 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ED LDL+ S DDPVRMYL+E+G + LL+ E EI +A R+E G Sbjct: 72 EDDLDLSIPEGIS--------------IDDPVRMYLKEIGKVPLLTAEEEIELAHRMEQG 117 Query: 150 RAMMMASLCESPL 162 A L E+ L Sbjct: 118 DAEAKRRLAEANL 130 >gi|258539717|ref|YP_003174216.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus Lc 705] gi|257151393|emb|CAR90365.1| RNA polymerase sigma factor [Lactobacillus rhamnosus Lc 705] Length = 416 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 159/273 (58%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 147 VRMYLKEIGRVSLLTTDEEVALALKIEQGDQEA---KQRLAEANLRLVVSIAKRYVGRGM 203 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 204 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 263 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 264 INKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHL 323 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 324 GDFIEDQDATSPEDHASYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 383 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 384 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 416 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 70/136 (51%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 DD+ K +IK +++ +T ++L + + P E+ S ++D + + + GI +VD E Sbjct: 59 DDAVKAVIKDYKKKKQITEDDLTSKLIKPFELKSTAIDDLMQKIEDNGIAIVD------E 112 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G ++ L S + + +DPVRMYL+E+G + LL+ + E+A+A +I Sbjct: 113 NGEPATISLKKQKKVSKKEMSDMSAPSGVKINDPVRMYLKEIGRVSLLTTDEEVALALKI 172 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 173 EQGDQEAKQRLAEANL 188 >gi|51891726|ref|YP_074417.1| RNA polymerase sigma factor RpoD [Symbiobacterium thermophilum IAM 14863] gi|51855415|dbj|BAD39573.1| RNA polymerase major sigma factor [Symbiobacterium thermophilum IAM 14863] Length = 388 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 153/248 (61%), Positives = 201/248 (81%), Gaps = 3/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + KG+ EA K+++ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ G Sbjct: 144 IEKGDEEA---KRKLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRKG 200 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEEIA Sbjct: 201 FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVTRQLVQELGREPTPEEIA 260 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + +PVE VR++ KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A L+E Sbjct: 261 AVMDIPVERVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFTLLKEQL 320 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL SLTPREE+VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS Sbjct: 321 EEVLESLTPREEKVLRLRFGLDDGRARTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRS 380 Query: 674 KKLRSFLD 681 KKL+ +L+ Sbjct: 381 KKLKDYLE 388 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 42/146 (28%), Positives = 69/146 (47%), Gaps = 16/146 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++G ++ +E+ L E+ +EQME L+ GI + GD+ ++ E D Sbjct: 16 KQLIAKGKRKGSLSYDEVADSLQELELDAEQMEAIFDTLTEAGIKL-QGDEPDEAEEPVD 74 Query: 92 ------SLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSR 136 +LD+ + + + DDPVRMYL+E+G + LL+ Sbjct: 75 GDADVEALDVVEPPPVDDAEPDDDAAAGEDDDLSVPEGIAIDDPVRMYLKEIGRVPLLTA 134 Query: 137 EGEIAIAKRIEAGRAMMMASLCESPL 162 E EI A+RIE G L E+ L Sbjct: 135 EEEIMYAERIEKGDEEAKRKLAEANL 160 >gi|270291312|ref|ZP_06197534.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4] gi|304385062|ref|ZP_07367408.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM 20284] gi|270280158|gb|EFA25994.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4] gi|304329256|gb|EFL96476.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM 20284] Length = 379 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 153/238 (64%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 142 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYQKGFKFSTYATWW 201 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ MP + V Sbjct: 202 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPMPEEIGAEMDMPSDKV 261 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 262 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPADHAAYELLKEQLEGVLDTLTDR 321 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 322 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLD 379 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 47/153 (30%), Positives = 69/153 (45%), Gaps = 16/153 (10%) Query: 58 VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 ++ E ++D + + + GI+VVD E+ + SE +L + S L K A Sbjct: 54 LTDEDVDDLIQRIEDAGISVVD----ENGDPSEKAL---KAQEISKEELDDTKAPAGVKI 106 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +DPVRMYL+E+G + LL+ + E+A+A RIE G L E+ L I R + G Sbjct: 107 NDPVRMYLKEIGRVSLLTADEEVALALRIEKGDERAKQELAEANLRLVVSIAKR-YVGRG 165 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 L I E G E YQK Sbjct: 166 MQFLDLI--------QEGNMGLMKAVEKFDYQK 190 >gi|241668482|ref|ZP_04756060.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254877016|ref|ZP_05249726.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254843037|gb|EET21451.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 578 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 182/370 (49%), Positives = 251/370 (67%), Gaps = 12/370 (3%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 217 KKLYSKIVKEFECLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 276 Query: 374 HQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ ++ W+ S K + ++ + E+ ++ K N+ +++ + + I E + + Sbjct: 277 YEIGSIE--WLPSLTKKY---KFTDNTVKEIHNLTKQINQFQNLMM---MKIEELKKVNV 328 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + K E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ Sbjct: 329 EISKSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRK 388 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 GFKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEI 448 Query: 553 AKKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + M + ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 IEYTPNMTKDKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLRE 508 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++ LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHP Sbjct: 509 AIKELIDTGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHP 568 Query: 671 SRSKKLRSFL 680 SRS L++FL Sbjct: 569 SRSAFLKTFL 578 Score = 62.4 bits (150), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/133 (32%), Positives = 69/133 (51%), Gaps = 15/133 (11%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSE--QMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 ++RGY+T ++ LP D VS + + E+ A+L + GI+V D DE+ E + Sbjct: 17 GKERGYLTRADILDALPGD-VSEDPKKYEEIEAILIDAGIDVYDRTPELDEDDDERKVSE 75 Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 A+ D T DP+RMY+REMG ++LL ++GE IA RIE G + + Sbjct: 76 ANL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFS 123 Query: 156 SLCESPLTFQALI 168 ++ P+ + I Sbjct: 124 TILSYPIVVKTYI 136 >gi|199598416|ref|ZP_03211835.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|258508506|ref|YP_003171257.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] gi|199590735|gb|EDY98822.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001] gi|257148433|emb|CAR87406.1| RNA polymerase sigma factor [Lactobacillus rhamnosus GG] gi|259649816|dbj|BAI41978.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG] Length = 416 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 159/273 (58%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 147 VRMYLKEIGRVSLLTADEEVALALKIEQGDQEA---KQRLAEANLRLVVSIAKRYVGRGM 203 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 204 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 263 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 264 INKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHL 323 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 324 GDFIEDQDATSPEDHASYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 383 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 384 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 416 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 70/136 (51%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 DD+ K +IK +++ +T ++L + + P E+ S ++D + + + GI +VD E Sbjct: 59 DDAVKAVIKDYKKKKQITEDDLTSKLIKPFELKSTAIDDLMQKIEDNGIAIVD------E 112 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G ++ L S + + +DPVRMYL+E+G + LL+ + E+A+A +I Sbjct: 113 NGEPATISLKKQKKVSKKEMSDMSAPSGVKINDPVRMYLKEIGRVSLLTADEEVALALKI 172 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 173 EQGDQEAKQRLAEANL 188 >gi|227878689|ref|ZP_03996603.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus JV-V01] gi|256843283|ref|ZP_05548771.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 125-2-CHN] gi|256850360|ref|ZP_05555788.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-1A-US] gi|262046492|ref|ZP_06019454.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-3A-US] gi|293380134|ref|ZP_06626221.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 214-1] gi|295693058|ref|YP_003601668.1| RNA polymerase sigma factor [Lactobacillus crispatus ST1] gi|312978174|ref|ZP_07789918.1| RNA polymerase sigma-43 factor [Lactobacillus crispatus CTV-05] gi|227861704|gb|EEJ69309.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus JV-V01] gi|256614703|gb|EEU19904.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 125-2-CHN] gi|256712757|gb|EEU27750.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-1A-US] gi|260573363|gb|EEX29921.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus MV-3A-US] gi|290923304|gb|EFE00220.1| RNA polymerase sigma factor RpoD [Lactobacillus crispatus 214-1] gi|295031164|emb|CBL50643.1| RNA polymerase sigma factor [Lactobacillus crispatus ST1] gi|310894892|gb|EFQ43962.1| RNA polymerase sigma-43 factor [Lactobacillus crispatus CTV-05] Length = 370 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 120 IALAKRIESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 180 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ MP VR +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 240 EIGAEMNMPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEQVLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS +LR F+D Sbjct: 360 SRSNQLRDFMD 370 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 58/120 (48%), Gaps = 7/120 (5%) Query: 44 VTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNS 102 +T E+ A + P + + ++ V + GI++VD E G L L Sbjct: 29 ITEEDFTARLIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVE 82 Query: 103 SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+ + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 83 KAELKDMSAPSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIESGDEEAKQELAEANL 142 >gi|160937106|ref|ZP_02084469.1| hypothetical protein CLOBOL_01996 [Clostridium bolteae ATCC BAA-613] gi|158440007|gb|EDP17755.1| hypothetical protein CLOBOL_01996 [Clostridium bolteae ATCC BAA-613] Length = 378 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 200/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K E A+K + E+NLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ Sbjct: 127 VELAKKMELGDPEARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDY 186 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VRT+R++ ++ REPT E Sbjct: 187 TKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTE 246 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA +L +PVE V +++K+++EP+SLETPIG+E+ SHLGDFI+D N + P D+A L Sbjct: 247 EIAARLDLPVERVSEIMKMSQEPVSLETPIGEEEDSHLGDFIQDDNVLVPQDAAAFTLLH 306 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VLR+RFG+ TLEEVGKQF VTRERIRQIEAKA+RKL+HP Sbjct: 307 EQLMEVLLTLTEREQKVLRLRFGLDDGRPRTLEEVGKQFNVTRERIRQIEAKALRKLRHP 366 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 367 SRSKKLKDYLD 377 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G I LL E E+ +AK++E G L ES L Sbjct: 103 SLEDPVRMYLKEIGKIPLLGMEDEVELAKKMELGDPEARKRLAESNL 149 >gi|227904114|ref|ZP_04021919.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus ATCC 4796] gi|227868133|gb|EEJ75554.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus ATCC 4796] Length = 370 Score = 325 bits (832), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 120 IALAKRIESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 180 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ MP VR +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 240 EIGAEMNMPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEQVLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS +LR F+D Sbjct: 360 SRSNQLRDFMD 370 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVEKAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIESGDEEAKQELAEANL 142 >gi|167627930|ref|YP_001678430.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597931|gb|ABZ87929.1| RNA polymerase sigma-70 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 578 Score = 324 bits (831), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 182/370 (49%), Positives = 251/370 (67%), Gaps = 12/370 (3%) Query: 315 KVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLER 373 K L K+VK L L+ S + LV+ + R+ E ++LRL + R F++ Sbjct: 217 KKLYSKIVKEFECLRLSTSHLQKLVDYIRLPYARVKEFERKILRLCVERSKTPRQEFIKV 276 Query: 374 HQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ ++ W+ S K + ++ + E+ ++ K N+ +++ + + I E + + Sbjct: 277 YEIGSIE--WLPSLTKKY---KFTDNTVKEIHNLTKQINQFQNLMM---MKIEELKKVNV 328 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + K E + + AKKEM+EANLRLV+S AKKYTNRGL FLD+IQEGNIGLMKA +KFD+ Sbjct: 329 EISKSEAKITQAKKEMIEANLRLVVSEAKKYTNRGLHFLDIIQEGNIGLMKAVDKFDYRK 388 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+KV R R++ + RE T EEI Sbjct: 389 GFKFSTYATWWIRQAITRSIADQARTIRVPVHMIETINKVNRIKRQILQEKGREATEEEI 448 Query: 553 AKKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + M + ++K+L I+ PIS+E+PIGD++ S +GDFIEDKN SP+++A NLRE Sbjct: 449 IEYTPNMTKDKLKKILNISHTPISMESPIGDDEDSTVGDFIEDKNNYSPIEAANLENLRE 508 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++ LT RE +VL MRFGIGMNTDHTLEEVGKQF VTRERIRQIEAKA+RKLKHP Sbjct: 509 AIKELIDTGLTEREAKVLMMRFGIGMNTDHTLEEVGKQFNVTRERIRQIEAKALRKLKHP 568 Query: 671 SRSKKLRSFL 680 SRS L++FL Sbjct: 569 SRSAFLKTFL 578 Score = 62.4 bits (150), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/133 (32%), Positives = 69/133 (51%), Gaps = 15/133 (11%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSE--QMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 ++RGY+T ++ LP D VS + + E+ A+L + GI+V D DE+ E + Sbjct: 17 GKERGYLTRADILDALPGD-VSEDPKKYEEIEAILIDAGIDVYDRTPELDEDDDERKVSE 75 Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 A+ D T DP+RMY+REMG ++LL ++GE IA RIE G + + Sbjct: 76 ANL------------DDLKGKTSDPIRMYMREMGIVDLLDKKGETDIAIRIEEGTTEVFS 123 Query: 156 SLCESPLTFQALI 168 ++ P+ + I Sbjct: 124 TILSYPIVVKTYI 136 >gi|83589488|ref|YP_429497.1| RNA polymerase sigma factor RpoD [Moorella thermoacetica ATCC 39073] gi|83572402|gb|ABC18954.1| RNA polymerase, sigma 70 subunit, RpoD [Moorella thermoacetica ATCC 39073] Length = 361 Score = 324 bits (831), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 111 IELAKRMEAGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPE Sbjct: 171 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PVE VR++ KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A LR Sbjct: 231 EIAHEMDIPVERVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDEDAQAPAEAASFMLLR 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL SLTPRE+RVLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 291 EQLEEVLNSLTPREKRVLRLRFGLDDGRARTLEEVGQEFGVTRERIRQIEAKALRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +L+ Sbjct: 351 SRSKKLKDYLE 361 Score = 67.8 bits (164), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 47/124 (37%), Positives = 68/124 (54%), Gaps = 20/124 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV------DGDDLED 85 K++I+ + +G +T E+ L E+S EQ++D L +MGI VV + + ED Sbjct: 11 KELIEKGKSQGSLTYSEIMDALQGIELSPEQIDDIYEQLGHMGIEVVPEAAELEALEKED 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E E LDL S N ++ DDPVRMYL+E+G + LL+ E EI +AKR Sbjct: 71 SEAGETDLDL-SIPENVAI-------------DDPVRMYLKEIGRVPLLTPEEEIELAKR 116 Query: 146 IEAG 149 +EAG Sbjct: 117 MEAG 120 >gi|229552308|ref|ZP_04441033.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus rhamnosus LMS2-1] gi|229314290|gb|EEN80263.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus rhamnosus LMS2-1] Length = 416 Score = 324 bits (831), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 159/273 (58%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + ++ E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 147 VRMYLKEIGRVSLLTADEEVALALKIEQGDQEA---KQRLAEANLRLVVSIAKRYVGRGM 203 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 204 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 263 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 264 INKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHL 323 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 324 GDFIEDQDATSPEDHASYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 383 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 384 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 416 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 70/136 (51%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 DD+ K +IK +++ +T ++L + + P E+ S ++D + + + GI +VD E Sbjct: 59 DDAVKAVIKDYKKKKQITEDDLTSKLIKPFELKSTAIDDLMQKIEDNGIAIVD------E 112 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G ++ L S + + +DPVRMYL+E+G + LL+ + E+A+A +I Sbjct: 113 NGEPATISLKKQKKVSKKEMSDMSAPSGVKINDPVRMYLKEIGRVSLLTADEEVALALKI 172 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 173 EQGDQEAKQRLAEANL 188 >gi|769798|emb|CAA60113.1| sigma 42 [Enterococcus faecalis] Length = 368 Score = 324 bits (831), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 165/306 (53%), Positives = 216/306 (70%), Gaps = 7/306 (2%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVR 435 DP S KD E E + +KI + ++ E G ++ +E + + Sbjct: 66 DPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIE 125 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA K+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+K Sbjct: 126 EGDQEA---KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFK 182 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + REPTPEEI + Sbjct: 183 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRMQRNLLQDLGREPTPEEIGAE 242 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E Sbjct: 243 MDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED 302 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+ Sbjct: 303 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQ 362 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 363 LKDFLE 368 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 42/132 (31%), Positives = 66/132 (50%), Gaps = 10/132 (7%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK + +G V ++L N P + +E ME + + + GI+VVD E+ + SE S Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVD----ENGDPSEHS 71 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + + Q SA +DPVRMYL+E+G ++LL+ E+ +A +IE G Sbjct: 72 LKKDEKEAEKA---QAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGD 128 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 129 QEAKQRLAEANL 140 >gi|315038507|ref|YP_004032075.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1112] gi|325956923|ref|YP_004292335.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus 30SC] gi|312276640|gb|ADQ59280.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1112] gi|325333488|gb|ADZ07396.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus 30SC] gi|327183703|gb|AEA32150.1| RNA polymerase sigma factor RpoD [Lactobacillus amylovorus GRL 1118] Length = 370 Score = 324 bits (831), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 120 IALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 180 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ MP VR +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 240 EIGAEMNMPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEQVLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS +LR F+D Sbjct: 360 SRSNQLRDFMD 370 Score = 53.1 bits (126), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVEKAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIEAG L E+ L Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIEAGDEEAKQELAEANL 142 >gi|239631415|ref|ZP_04674446.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei 8700:2] gi|239525880|gb|EEQ64881.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei 8700:2] Length = 352 Score = 324 bits (831), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 162/278 (58%), Positives = 208/278 (74%), Gaps = 1/278 (0%) Query: 405 SILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 S +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 75 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQEAKQRLAEANLRLVVSIAKRY 134 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPV Sbjct: 135 VGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPV 194 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+E Sbjct: 195 HMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEE 254 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D SHLGDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLE Sbjct: 255 DDSHLGDFIEDQDATSPEDHASYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLE 314 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 315 EVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 352 Score = 50.8 bits (120), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 37/130 (28%), Positives = 66/130 (50%), Gaps = 7/130 (5%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 MIK +++ +T ++L + + P E+ S ++D + + + GI +VD E G + Sbjct: 1 MIKDYKKKKQITEDDLTDKLVKPFELKSGAIDDLMQKIEDNGIAIVD------ENGEPAA 54 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + L S + + +DPVRMYL+E+G + LL+ + E+A+A +IE G Sbjct: 55 ISLKKQKKVSKKEMSDMSAPSGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE 114 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 115 AKQRLAEANL 124 >gi|58337478|ref|YP_194063.1| RNA polymerase sigma factor RpoD [Lactobacillus acidophilus NCFM] gi|58254795|gb|AAV43032.1| RNA polymerase sigma factor [Lactobacillus acidophilus NCFM] Length = 356 Score = 324 bits (831), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 106 IALAKRIESGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 165 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 166 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 225 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ MP VR +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 226 EIGAEMNMPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLK 285 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 286 EQLEQVLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 345 Query: 671 SRSKKLRSFLD 681 SRS +LR F+D Sbjct: 346 SRSNQLRDFMD 356 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 24 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVEKAELKDMSA 77 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIE+G L E+ L Sbjct: 78 PSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIESGDEEAKQELAEANL 128 >gi|167768032|ref|ZP_02440085.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|317498375|ref|ZP_07956670.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] gi|167710361|gb|EDS20940.1| hypothetical protein CLOSS21_02575 [Clostridium sp. SS2/1] gi|291561030|emb|CBL39830.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SSC/2] gi|316894269|gb|EFV16456.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium 5_1_63FAA] Length = 363 Score = 324 bits (831), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 199/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA+++ +PVE V Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEMDIPVERV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D+N P D+A L+E VL +LT R Sbjct: 246 REILKISQEPVSLETPIGEEEDSHLGDFIQDENVPVPADAAAFTLLKEQLDEVLGTLTER 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ + TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 306 EQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 363 Score = 44.7 bits (104), Expect = 0.049, Method: Compositional matrix adjust. Identities = 22/47 (46%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS + EI +A+R+E G L E+ L Sbjct: 89 SIEDPVRMYLKEIGKVPLLSADEEIKLAQRMEEGDEAAKKKLAEANL 135 >gi|323466388|gb|ADX70075.1| RNA polymerase sigma factor [Lactobacillus helveticus H10] Length = 370 Score = 324 bits (830), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW Sbjct: 133 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMNMPTNKV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E +VL +LT R Sbjct: 253 RNILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEQVLETLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +LR F+D Sbjct: 313 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFMD 370 Score = 50.4 bits (119), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 52/111 (46%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAVDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVEKAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIE G L E+ L Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIEEGDEEAKQELAEANL 142 >gi|116618341|ref|YP_818712.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116097188|gb|ABJ62339.1| RNA polymerase, sigma 70 subunit, RpoD [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 432 Score = 324 bits (830), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 154/252 (61%), Positives = 195/252 (77%), Gaps = 3/252 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KFD Sbjct: 180 IAKRIENGDVEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFD 236 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP P Sbjct: 237 YTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLP 296 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED AVSP DSA L Sbjct: 297 EEIGAEMDLTADKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSAAYEML 356 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+H Sbjct: 357 REQLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRH 416 Query: 670 PSRSKKLRSFLD 681 PSRSK+L+ F+D Sbjct: 417 PSRSKQLKDFMD 428 Score = 46.6 bits (109), Expect = 0.014, Method: Compositional matrix adjust. Identities = 40/138 (28%), Positives = 64/138 (46%), Gaps = 9/138 (6%) Query: 28 DDSWKKMI---KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D + K +I K A+Q Y + + A P + E +E + + + GI +VD + Sbjct: 69 DKATKALIAEYKAAKQITYAALSKRLA--EPFNLDEENIERLMEKVEDAGIAIVD----D 122 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + + + + L + + + A +DPVRMYL+E+G + LL EI IAK Sbjct: 123 NGDPAPEVLKAKQNKPTDQELAEAEETPAGIKINDPVRMYLKEIGRVNLLKGNEEIDIAK 182 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 183 RIENGDVEAKQELAEANL 200 >gi|266623970|ref|ZP_06116905.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] gi|288864209|gb|EFC96507.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] Length = 345 Score = 324 bits (830), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 148/251 (58%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E +AK+++ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ Sbjct: 94 IELAKKIELGDELAKEKLTEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDY 153 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VR +R++ ++ REP+PE Sbjct: 154 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRVSRQLLQELGREPSPE 213 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A ++ MPVE VR+++K+++EP+SLETPIG+E+ SHLGDFI+D P D+A L Sbjct: 214 EVASRVDMPVERVREIMKVSQEPVSLETPIGEEEDSHLGDFIQDDQVAVPADAATFTMLH 273 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 274 EQLMEVLDTLTEREQKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHP 333 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 334 SRSKKLKDYLD 344 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 32/47 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS + EI +AK+IE G + L E+ L Sbjct: 70 SVEDPVRMYLKEIGKVPLLSSDDEIELAKKIELGDELAKEKLTEANL 116 >gi|259503187|ref|ZP_05746089.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041] gi|259168844|gb|EEW53339.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041] Length = 380 Score = 324 bits (830), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 159/288 (55%), Positives = 208/288 (72%), Gaps = 16/288 (5%) Query: 410 RNEIKSISVETGISISE-----FRHI-----------VSMVRKGECEASIAKKEMVEANL 453 +N +K S TG+ I++ + I V + + E +AK+++ EANL Sbjct: 93 QNAMKDTSAPTGVKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGDEVAKQQLAEANL 152 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IA Sbjct: 153 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIA 212 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ MP E VR +LKI +EP Sbjct: 213 DQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNILKIAQEP 272 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLETPIG+ED SHLGDFIED++A SP D A +++ VL +LT REE VLR+RFG Sbjct: 273 VSLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENVLRLRFG 332 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 + TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 333 LDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 380 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 32/108 (29%), Positives = 57/108 (52%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P E+++E +++ + + + GI+VVD + G D L ++ S ++ Sbjct: 51 PYELNAEGIDNLLQNVEDAGISVVDAN------GDPDPRALKATEKLSQNAMKDTSAPTG 104 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E+ +A RIE G + L E+ L Sbjct: 105 VKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGDEVAKQQLAEANL 152 >gi|227431669|ref|ZP_03913702.1| DNA-directed RNA polymerase sigma subunit RpoD [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352572|gb|EEJ42765.1| DNA-directed RNA polymerase sigma subunit RpoD [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 432 Score = 324 bits (830), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 154/252 (61%), Positives = 195/252 (77%), Gaps = 3/252 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KFD Sbjct: 180 IAKRIENGDVEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFD 236 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP P Sbjct: 237 YTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLP 296 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED AVSP DSA L Sbjct: 297 EEIGAEIDLTADKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSAAYEML 356 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+H Sbjct: 357 REQLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRH 416 Query: 670 PSRSKKLRSFLD 681 PSRSK+L+ F+D Sbjct: 417 PSRSKQLKDFMD 428 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 40/138 (28%), Positives = 64/138 (46%), Gaps = 9/138 (6%) Query: 28 DDSWKKMI---KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D + K +I K A+Q Y + + A P + E +E + + + GI +VD + Sbjct: 69 DKATKALIAEYKAAKQITYAALSKRLA--EPFNLDEENIERLMEKVEDAGIAIVD----D 122 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + + + + L + + + A +DPVRMYL+E+G + LL EI IAK Sbjct: 123 NGDPAPEVLKAKQNKPTDQELAEAEETPAGIKINDPVRMYLKEIGRVNLLKGNEEIDIAK 182 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 183 RIENGDVEAKQELAEANL 200 >gi|313884259|ref|ZP_07818025.1| RNA polymerase sigma factor RpoD [Eremococcus coleocola ACS-139-V-Col8] gi|312620706|gb|EFR32129.1| RNA polymerase sigma factor RpoD [Eremococcus coleocola ACS-139-V-Col8] Length = 376 Score = 324 bits (830), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ ++ E +AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 126 ISLAKRIEDGDELAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDY 185 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R + + REPTPE Sbjct: 186 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRNLLQDLGREPTPE 245 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +P E VR++LKI++EP+SLETPIG+ED SHLGDFIED+ A+SP + LR Sbjct: 246 EIGAEMDLPTEKVREILKISQEPVSLETPIGEEDDSHLGDFIEDEGAMSPESFTSSSLLR 305 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLE+VGK F VTRERIRQIEAKA+RKL+HP Sbjct: 306 EQLEDVLDTLTDREENVLRLRFGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKLRHP 365 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 366 SRSKQLKDFLE 376 Score = 58.2 bits (139), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 44/152 (28%), Positives = 81/152 (53%), Gaps = 10/152 (6%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSN 72 E++++ + L + D + +++I + G + +EL + P ++ +E M+ + + + Sbjct: 4 ENKNTKNELTLSY-DQARQQLIAEKKLIGQIHYDELTDKIAGPYKLDAEAMDKLIQKVED 62 Query: 73 MGINVV--DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 GI VV DG + + + + +S + +S K K S DPVRMYL+E+G Sbjct: 63 AGIAVVGDDGGPTKQQMVRAQEVKVDTSTTGNSATASKIKVS------DPVRMYLKEIGR 116 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 ++LLS + EI++AKRIE G + L E+ L Sbjct: 117 VDLLSADAEISLAKRIEDGDELAKQELAEANL 148 >gi|312869100|ref|ZP_07729274.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3] gi|311095346|gb|EFQ53616.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3] Length = 380 Score = 323 bits (829), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 158/288 (54%), Positives = 208/288 (72%), Gaps = 16/288 (5%) Query: 410 RNEIKSISVETGISISE-----FRHI-----------VSMVRKGECEASIAKKEMVEANL 453 +N +K S TG+ I++ + I V + + E +AK+++ EANL Sbjct: 93 QNAMKDTSAPTGVKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGDEVAKQQLAEANL 152 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IA Sbjct: 153 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIA 212 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ MP E +R +LKI +EP Sbjct: 213 DQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKIRNILKIAQEP 272 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLETPIG+ED SHLGDFIED++A SP D A +++ VL +LT REE VLR+RFG Sbjct: 273 VSLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENVLRLRFG 332 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 + TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 333 LDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 380 Score = 50.8 bits (120), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 31/108 (28%), Positives = 57/108 (52%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P E++++ +++ + + + GI+VVD + G D L ++ S ++ Sbjct: 51 PYELNADGIDNLLQNVEDAGISVVDAN------GDPDPRALKATEKLSQNAMKDTSAPTG 104 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E+ +A RIE G + L E+ L Sbjct: 105 VKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGDEVAKQQLAEANL 152 >gi|291563082|emb|CBL41898.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing bacterium SS3/4] Length = 374 Score = 323 bits (829), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 200/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E AKK++ E+NLRLV+S+AK+Y RG+Q LDLIQEGN+GL+KA EKFD+ Sbjct: 123 IELAKKIELGDEEAKKKLAESNLRLVVSIAKRYAGRGMQLLDLIQEGNLGLIKAVEKFDY 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VRT R++ K+ RE TPE Sbjct: 183 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRTQRQLVQKLGREATPE 242 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK+L MPVE VR+++KI+++P+SLETPIG+E+ SHLGDFI+D N P D+A L Sbjct: 243 ELAKELDMPVERVREIMKISQDPVSLETPIGEEEDSHLGDFIQDNNVEVPADAATYTLLH 302 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL++LT RE++VLR+RFG+ TLEEVG+QF VTRERIRQIEAKA+RKL+HP Sbjct: 303 EQLMDVLSTLTEREQKVLRLRFGLDDGRPRTLEEVGRQFNVTRERIRQIEAKALRKLRHP 362 Query: 671 SRSKKLRSFLD 681 SRSK L+ +LD Sbjct: 363 SRSKILKDYLD 373 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DDPVRMYL+E+G + LLS + EI +AK+IE G L ES L Sbjct: 99 GVDDPVRMYLKEIGKVPLLSPDEEIELAKKIELGDEEAKKKLAESNL 145 >gi|172056869|ref|YP_001813329.1| RpoD family RNA polymerase sigma factor [Exiguobacterium sibiricum 255-15] gi|171989390|gb|ACB60312.1| RNA polymerase, sigma 70 subunit, RpoD family [Exiguobacterium sibiricum 255-15] Length = 361 Score = 323 bits (829), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 154/251 (61%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 111 VELAKRIEQNDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 171 TKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI+K++ + E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A +P D+A L+ Sbjct: 231 EISKEMEITPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATAPQDAAAYELLK 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 291 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FLD Sbjct: 351 SRSKRLKDFLD 361 Score = 44.7 bits (104), Expect = 0.049, Method: Compositional matrix adjust. Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 18/132 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDE-VSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 ++I L + G ++ +++ L E + ++Q E+ + +L GI V DG + EE Sbjct: 18 ELIALGHKNGELSHQKIEDKLSSFESMDAQQFEEFLQLLETEGIKVNNDGTGDDKEEADL 77 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + L + +DPVRMYL+E+G ++LL+ E E+ +AKRIE Sbjct: 78 NDLSVPPGVK----------------INDPVRMYLKEIGRVDLLNAEDEVELAKRIEQND 121 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 122 EEAKKRLAEANL 133 >gi|229824058|ref|ZP_04450127.1| hypothetical protein GCWU000282_01362 [Catonella morbi ATCC 51271] gi|229786412|gb|EEP22526.1| hypothetical protein GCWU000282_01362 [Catonella morbi ATCC 51271] Length = 379 Score = 323 bits (829), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 154/239 (64%), Positives = 191/239 (79%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD G+KFSTYA W Sbjct: 141 IAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATW 200 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + REPTPEEI ++ +P E Sbjct: 201 WIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGREPTPEEIGAEMDLPTEK 260 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++LKI +EP+SLETPIG+ED SHLGDFIED+ A+SP A LRE VL +LT Sbjct: 261 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDEGAMSPEVFTSSALLREQLEDVLDTLTD 320 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE VLR+RFG+ TLE+VGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 321 REENVLRLRFGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 379 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 69/137 (50%), Gaps = 9/137 (6%) Query: 29 DSWKKMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVV--DGDDLED 85 ++ + +I + G V +EL P + ++ ++ + ++ + G++VV DG + Sbjct: 21 EAVQALILAKKSEGQVHYDELTEKIASPYGLDADGIDTLIQIVEDNGVSVVGDDGGPTKQ 80 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 + E+ A A+ S K K S DPVRMYL+E+G++ LLS E EI +A R Sbjct: 81 QMVREEEQLQADLAAESKTATSKLKVS------DPVRMYLKEIGNVPLLSAEEEINLAVR 134 Query: 146 IEAGRAMMMASLCESPL 162 I+ G + L E+ L Sbjct: 135 IQGGDDIAKQELAEANL 151 >gi|300173322|ref|YP_003772488.1| RNA polymerase sigma factor RpoD [Leuconostoc gasicomitatum LMG 18811] gi|299887701|emb|CBL91669.1| RNA polymerase sigma factor RpoD [Leuconostoc gasicomitatum LMG 18811] Length = 432 Score = 323 bits (829), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 154/253 (60%), Positives = 196/253 (77%), Gaps = 3/253 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 +I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF Sbjct: 179 NIAKRIEDGDIEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKF 235 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP Sbjct: 236 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPL 295 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED AVSP DSA Sbjct: 296 PEEIGAEMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSAAYEM 355 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ Sbjct: 356 LREQLESVLETLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 Query: 669 HPSRSKKLRSFLD 681 HPSRSK+L+ F+D Sbjct: 416 HPSRSKQLKDFMD 428 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 42/145 (28%), Positives = 66/145 (45%), Gaps = 5/145 (3%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K +I + +T +L L P + E +E + + + G+ +VD E Sbjct: 69 DKAVKALIAEYKAAKAITYADLAKRLAEPFNLDGENIERLMEKVEDSGVAIVD----EKG 124 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E + + L + + Q ++ A +DPVRMYL+E+G + LL + EI IAKRI Sbjct: 125 EPAPEVLKAKQNKPSKEELDQAQETPAGIKINDPVRMYLKEIGRVNLLKGDEEINIAKRI 184 Query: 147 EAGRAMMMASLCESPLTFQALIIWR 171 E G L E+ L I R Sbjct: 185 EDGDIEAKQELAEANLRLVVSIAKR 209 >gi|260886856|ref|ZP_05898119.1| RNA polymerase sigma factor RpoD [Selenomonas sputigena ATCC 35185] gi|330839344|ref|YP_004413924.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Selenomonas sputigena ATCC 35185] gi|260863455|gb|EEX77955.1| RNA polymerase sigma factor RpoD [Selenomonas sputigena ATCC 35185] gi|329747108|gb|AEC00465.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Selenomonas sputigena ATCC 35185] Length = 375 Score = 323 bits (829), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 202/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E A+KE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 125 IALAKRMEAGDEEAQKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 184 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PE Sbjct: 185 NKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPE 244 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+ + + VE VR+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A L+ Sbjct: 245 EIAEAMEISVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLK 304 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REERVLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 305 EQLEEVLDTLTEREERVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHP 364 Query: 671 SRSKKLRSFLD 681 SRS+KL+ FLD Sbjct: 365 SRSRKLKDFLD 375 Score = 63.9 bits (154), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 65/125 (52%), Gaps = 16/125 (12%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE----DEEGSEDSLDLAS 97 G +T EL L E++ ++++D SN GI +VD + DE+ +E+ +D+ Sbjct: 35 GVLTYGELMTALQEQELTPDEIDDLYETFSNKGIEIVDDSNRAQAEMDEDKAEEEVDIDL 94 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 S S DDPVRMYL+E+G + LLS + EIA+AKR+EAG L Sbjct: 95 SIPEGI------------SIDDPVRMYLKEIGRVPLLSADEEIALAKRMEAGDEEAQKEL 142 Query: 158 CESPL 162 E+ L Sbjct: 143 AEANL 147 >gi|227529171|ref|ZP_03959220.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus vaginalis ATCC 49540] gi|227350896|gb|EEJ41187.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus vaginalis ATCC 49540] Length = 380 Score = 323 bits (828), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 158/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+E+ EANLRLV+S+AK+Y RG+ Sbjct: 111 VRMYLKEIGRVNLLSADEEVALALRIEQGDEEA---KQELAEANLRLVVSIAKRYVGRGM 167 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 168 QFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 227 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP PEEI ++ MP E VR +LKI +EP+SLETPIG+ED SHL Sbjct: 228 INKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHL 287 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A +++ VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 288 GDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 347 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 348 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 380 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 72/136 (52%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K+I+ ++R ++ ++L + P E++++ +++ + + + GI+VVD E Sbjct: 23 DTAVGKLIRTYKKRKHIKYDDLTELVAKPFELNADGIDNLLQNVEDSGISVVD------E 76 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G D L ++ S ++ +DPVRMYL+E+G + LLS + E+A+A RI Sbjct: 77 NGDPDPRALMATEKLSQKAMKDTSAPTGVKINDPVRMYLKEIGRVNLLSADEEVALALRI 136 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 137 EQGDEEAKQELAEANL 152 >gi|116492861|ref|YP_804596.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Pediococcus pentosaceus ATCC 25745] gi|116103011|gb|ABJ68154.1| RNA polymerase, sigma 70 subunit, RpoD [Pediococcus pentosaceus ATCC 25745] Length = 379 Score = 323 bits (828), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 142 ARQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYQKGFKFSTYATWW 201 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ MP + V Sbjct: 202 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPMPEEIGAEMDMPSDKV 261 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 262 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPADHAAYELLKEQLEGVLDTLTDR 321 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 322 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLD 379 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 46/153 (30%), Positives = 68/153 (44%), Gaps = 16/153 (10%) Query: 58 VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 ++ E ++D + + + GI+VVD E+ + SE +L + S L K A Sbjct: 54 LTDEDVDDLIQRIEDAGISVVD----ENGDPSEKAL---KAQEISKEELDDTKAPAGVKI 106 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +DPVRMYL+E+G + LL+ + E+ +A RIE G L E+ L I R + G Sbjct: 107 NDPVRMYLKEIGRVSLLTADQEVELALRIEKGDPRARQELAEANLRLVVSIAKR-YVGRG 165 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 L I E G E YQK Sbjct: 166 MQFLDLI--------QEGNMGLMKAVEKFDYQK 190 >gi|257869538|ref|ZP_05649191.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] gi|257803702|gb|EEV32524.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2] Length = 368 Score = 323 bits (828), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 191/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ +P E V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFGI TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 311 EENVLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 12/139 (8%) Query: 28 DDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + + IK + +G V +EL N P + ++ M+ + L + GI+VVD E Sbjct: 10 DKAVAEFIKENKPKGQVVYDELTNHLATPYSLDADAMDKLIQKLEDSGISVVD------E 63 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIA 143 G L S+ + Q ++D + + +DPVRMYL+E+G + LL+ E E+A+A Sbjct: 64 NGEPSVHSLKSNEKQQAT--QPQEDLSAPTGVKINDPVRMYLKEIGRVPLLTAEEEVALA 121 Query: 144 KRIEAGRAMMMASLCESPL 162 +IE G L E+ L Sbjct: 122 LKIEEGDQEAKQRLAEANL 140 >gi|257867642|ref|ZP_05647295.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257873971|ref|ZP_05653624.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257876550|ref|ZP_05656203.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325571155|ref|ZP_08146727.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] gi|257801725|gb|EEV30628.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC30] gi|257808135|gb|EEV36957.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC10] gi|257810716|gb|EEV39536.1| RNA polymerase sigma-43 factor [Enterococcus casseliflavus EC20] gi|325156240|gb|EGC68426.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus casseliflavus ATCC 12755] Length = 368 Score = 323 bits (828), Expect = 7e-86, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 191/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ +P E V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFGI TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 311 EENVLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 40/139 (28%), Positives = 69/139 (49%), Gaps = 12/139 (8%) Query: 28 DDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + + I+ + +G V +++ N P + ++ M+ + L + GI+VVD E Sbjct: 10 DKAVAEYIRENKTKGQVVYDDITNRLATPYTLDADAMDKLIQKLEDSGISVVD------E 63 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIA 143 G L S+ Q ++D + + +DPVRMYL+E+G + LL+ E E+A+A Sbjct: 64 NGEPSVHSLKSNEKRQET--QPQEDLSAPTGVKINDPVRMYLKEIGRVPLLTAEEEVALA 121 Query: 144 KRIEAGRAMMMASLCESPL 162 +IE G L E+ L Sbjct: 122 LKIEEGDQEAKQRLAEANL 140 >gi|296112139|ref|YP_003622521.1| RNA polymerase sigma factor [Leuconostoc kimchii IMSNU 11154] gi|295833671|gb|ADG41552.1| RNA polymerase sigma factor [Leuconostoc kimchii IMSNU 11154] Length = 432 Score = 323 bits (827), Expect = 8e-86, Method: Compositional matrix adjust. Identities = 153/253 (60%), Positives = 196/253 (77%), Gaps = 3/253 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 +I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF Sbjct: 179 NIAKRIEDGDVEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKF 235 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP Sbjct: 236 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPL 295 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED A+SP DSA Sbjct: 296 PEEIGAEMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSAAYEM 355 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ Sbjct: 356 LREQLESVLETLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 Query: 669 HPSRSKKLRSFLD 681 HPSRSK+L+ F+D Sbjct: 416 HPSRSKQLKDFMD 428 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 45/169 (26%), Positives = 76/169 (44%), Gaps = 15/169 (8%) Query: 3 IGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 + KK + E++ + +L+ ++ K A+ YV + + A P + E Sbjct: 56 VAKKSGIIKNPEYDKAVKALIAEY---------KAAKAITYVALSQRLA--EPFNLDGEN 104 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +E + + + G+ +VD E E + + L + + Q ++ A +DPVR Sbjct: 105 IERLMEKIEDAGVAIVD----EKGEPAPEVLKAKQNKPSKEELEQAQETPAGIKINDPVR 160 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 MYL+E+G + LL + EI IAKRIE G L E+ L I R Sbjct: 161 MYLKEIGRVNLLKGDEEINIAKRIEDGDVEAKQELAEANLRLVVSIAKR 209 >gi|291526136|emb|CBK91723.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale DSM 17629] gi|291527130|emb|CBK92716.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale M104/1] Length = 418 Score = 322 bits (826), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 181 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWW 240 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIAK++ MPVE V Sbjct: 241 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVERV 300 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 301 REILKISQEPVSLETPIGEEEDSHLGDFIKDDNVPVPADAAAFTLLKEQLEEVLGTLTER 360 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +L+ Sbjct: 361 EQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLE 418 Score = 41.2 bits (95), Expect = 0.55, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S +DPVRMYL+E+G + LLS + EI +A+ +E G Sbjct: 106 SVEDPVRMYLKEIGKVPLLSADEEIELAQNMEDG 139 >gi|317122932|ref|YP_004102935.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] gi|315592912|gb|ADU52208.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis DSM 12885] Length = 433 Score = 322 bits (826), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 199/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++++ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KAAEKFD+ G+KFSTYA WW Sbjct: 196 AKRKLIQANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWW 255 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEEIAK++ + E V Sbjct: 256 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLVQELGREPTPEEIAKEMGIEPEKV 315 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED++A++P ++A Q LRE VL +LT R Sbjct: 316 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDEDALAPAEAASQLLLREQLEDVLHTLTDR 375 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 376 EQKVLRLRFGLDDGRQRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 433 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 25/47 (53%), Positives = 33/47 (70%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-----RAMMMASL 157 + DDPVRMYL+E+G I LL+ E EI +AKRIE G R ++ A+L Sbjct: 159 ALDDPVRMYLKEIGRIPLLTPEQEIELAKRIEQGDEEAKRKLIQANL 205 >gi|238924709|ref|YP_002938225.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656] gi|238876384|gb|ACR76091.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656] Length = 434 Score = 322 bits (826), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 197 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWW 256 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIAK++ MPVE V Sbjct: 257 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVERV 316 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 317 REILKISQEPVSLETPIGEEEDSHLGDFIKDDNVPVPADAAAFTLLKEQLEEVLGTLTER 376 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +L+ Sbjct: 377 EQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLE 434 Score = 41.6 bits (96), Expect = 0.46, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S +DPVRMYL+E+G + LLS + EI +A+ +E G Sbjct: 122 SVEDPVRMYLKEIGKVPLLSADEEIELAQNMEDG 155 >gi|317473637|ref|ZP_07932926.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] gi|316898927|gb|EFV20952.1| RNA polymerase sigma factor RpoD [Anaerostipes sp. 3_2_56FAA] Length = 364 Score = 322 bits (826), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 198/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 127 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 186 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA+++ +PV+ V Sbjct: 187 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEEMDIPVDRV 246 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E + VL +LT R Sbjct: 247 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLSEVLGTLTER 306 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ + TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 307 EQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 364 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 40/147 (27%), Positives = 73/147 (49%), Gaps = 16/147 (10%) Query: 20 DSLVFDFSDDSWKKMIKLARQ-RGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 D + FS+ +++L ++ + ++ ++ + +++S+ ME L G++V+ Sbjct: 2 DETMLQFSE-KLAGLVELGKKNKNFLEYAQIETYFKDFKLTSDMMEAIFDYLEQNGVDVL 60 Query: 79 ---DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 +G+D ED E E+ + A V S +DPVRMYL+E+G + LLS Sbjct: 61 TIPEGEDDEDLEIKEEIEEEADLTIPDGV-----------SIEDPVRMYLKEIGKVPLLS 109 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPL 162 + EI +A+R+E G L E+ L Sbjct: 110 ADEEIRLAQRMEEGDEEAKKKLAEANL 136 >gi|225377779|ref|ZP_03755000.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM 16841] gi|225210363|gb|EEG92717.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM 16841] Length = 426 Score = 322 bits (825), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 189 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 248 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA ++ MPVE V Sbjct: 249 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAAEMNMPVERV 308 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 309 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLEEVLGTLTER 368 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +L+ Sbjct: 369 EQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLE 426 Score = 46.6 bits (109), Expect = 0.012, Method: Compositional matrix adjust. Identities = 21/34 (61%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S +DPVRMYL+E+G + LLS E EI +AK +EAG Sbjct: 114 SIEDPVRMYLKEIGKVPLLSAEEEIELAKNMEAG 147 >gi|167747159|ref|ZP_02419286.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] gi|167654119|gb|EDR98248.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662] Length = 370 Score = 322 bits (825), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 198/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 133 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA+++ +PV+ V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEEMDIPVDRV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E + VL +LT R Sbjct: 253 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLSEVLGTLTER 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ + TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 313 EQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 370 Score = 46.6 bits (109), Expect = 0.015, Method: Compositional matrix adjust. Identities = 41/149 (27%), Positives = 74/149 (49%), Gaps = 16/149 (10%) Query: 18 SDDSLVFDFSDDSWKKMIKLARQ-RGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 S D + FS+ +++L ++ + ++ ++ + +++S+ ME L G++ Sbjct: 6 SMDETMLQFSE-KLAGLVELGKKNKNFLEYAQIETYFKDFKLTSDMMEAIFDYLEQNGVD 64 Query: 77 VV---DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 V+ +G+D ED E E+ + A V S +DPVRMYL+E+G + L Sbjct: 65 VLTIPEGEDDEDLEIKEEIEEEADLTIPDGV-----------SIEDPVRMYLKEIGKVPL 113 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPL 162 LS + EI +A+R+E G L E+ L Sbjct: 114 LSADEEIRLAQRMEEGDEEAKKKLAEANL 142 >gi|229916320|ref|YP_002884966.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium sp. AT1b] gi|229467749|gb|ACQ69521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium sp. AT1b] Length = 364 Score = 322 bits (825), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S + + + +G+ EA KK + EANLRLV+S+AK+Y RG+ Sbjct: 95 VRMYLKEIGRVDLLSAKDETELAKRIEQGDEEA---KKRLAEANLRLVVSIAKRYVGRGM 151 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 152 LFLDLIQEGNMGLIKAVEKFDYMKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 211 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEIAK++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 212 INKLIRVQRQLLQDLGREPSPEEIAKEMELTPEKVREILKIAQEPVSLETPIGEEDDSHL 271 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 272 GDFIEDQDAMAPQDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 331 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 332 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLD 364 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 37/127 (29%), Positives = 62/127 (48%), Gaps = 8/127 (6%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 KL +++G V+++ + L EV S+ +++ + L I V E + D+ + Sbjct: 18 KLGKKKGVVSMQAIQDRLSHFEVDSDFIDNFIEDLEAKDIRVT--------EDAADAEET 69 Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 + + V L +DPVRMYL+E+G ++LLS + E +AKRIE G Sbjct: 70 PAKKEDEEVDLNDLSVPPGIKINDPVRMYLKEIGRVDLLSAKDETELAKRIEQGDEEAKK 129 Query: 156 SLCESPL 162 L E+ L Sbjct: 130 RLAEANL 136 >gi|69249285|ref|ZP_00604924.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257877975|ref|ZP_05657628.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257881238|ref|ZP_05660891.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257884904|ref|ZP_05664557.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257889826|ref|ZP_05669479.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|258616539|ref|ZP_05714309.1| RNA polymerase sigma factor RpoD [Enterococcus faecium DO] gi|260559026|ref|ZP_05831212.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|261207559|ref|ZP_05922244.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289565071|ref|ZP_06445524.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|293556716|ref|ZP_06675279.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|293563374|ref|ZP_06677823.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|293568034|ref|ZP_06679372.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|294614871|ref|ZP_06694766.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|294618226|ref|ZP_06697809.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|314939477|ref|ZP_07846711.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|314941108|ref|ZP_07848006.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|314949892|ref|ZP_07853194.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] gi|314951693|ref|ZP_07854736.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|314993960|ref|ZP_07859287.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|314996911|ref|ZP_07861912.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|68194219|gb|EAN08744.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Enterococcus faecium DO] gi|257812203|gb|EEV40961.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933] gi|257816896|gb|EEV44224.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502] gi|257820742|gb|EEV47890.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501] gi|257826186|gb|EEV52812.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410] gi|260074783|gb|EEW63099.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68] gi|260077942|gb|EEW65648.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6] gi|289163078|gb|EFD10925.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF] gi|291589255|gb|EFF21065.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071] gi|291592333|gb|EFF23947.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636] gi|291595506|gb|EFF26816.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679] gi|291601048|gb|EFF31337.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039] gi|291604635|gb|EFF34120.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162] gi|313588970|gb|EFR67815.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01] gi|313591562|gb|EFR70407.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B] gi|313596157|gb|EFR75002.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A] gi|313600109|gb|EFR78952.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C] gi|313641279|gb|EFS05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04] gi|313643734|gb|EFS08314.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082] Length = 369 Score = 322 bits (825), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 159/276 (57%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 94 VKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANLRLVVSIAKRYVG 153 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 154 RGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 213 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 214 VETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDD 273 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 274 SHLGDFIEDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 333 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 334 GKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 369 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 35/115 (30%), Positives = 58/115 (50%), Gaps = 9/115 (7%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 N P +++++M+ + + + GI+VVD E + S+ SA + + Sbjct: 34 NQLATPFTLNADEMDKLIQKIEDAGISVVD-------ENGDPSIHSLKSAEKKAEQAKTE 86 Query: 110 KDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 SA +DPVRMYL+E+G + LL+ E E+A+A +IE G L E+ L Sbjct: 87 DLSAPTGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANL 141 >gi|227551146|ref|ZP_03981195.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus faecium TX1330] gi|257887737|ref|ZP_05667390.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733] gi|257896230|ref|ZP_05675883.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12] gi|257898868|ref|ZP_05678521.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15] gi|293379528|ref|ZP_06625670.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1] gi|293570226|ref|ZP_06681295.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980] gi|227179708|gb|EEI60680.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus faecium TX1330] gi|257823791|gb|EEV50723.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733] gi|257832795|gb|EEV59216.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12] gi|257836780|gb|EEV61854.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15] gi|291609633|gb|EFF38894.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980] gi|292641837|gb|EFF60005.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1] Length = 369 Score = 322 bits (825), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 159/276 (57%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 94 VKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANLRLVVSIAKRYVG 153 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 154 RGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 213 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 214 VETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDD 273 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 274 SHLGDFIEDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 333 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 334 GKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 369 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 35/115 (30%), Positives = 58/115 (50%), Gaps = 9/115 (7%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 N P +++++M+ + + + GI+VVD E + S+ SA + + Sbjct: 34 NQLATPFTLNADEMDKLIQKIEDAGISVVD-------ENGDPSIHSLKSAEKKAEQAKTE 86 Query: 110 KDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 SA +DPVRMYL+E+G + LL+ E E+A+A +IE G L E+ L Sbjct: 87 DLSAPTGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANL 141 >gi|332686632|ref|YP_004456406.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC 35311] gi|332370641|dbj|BAK21597.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC 35311] Length = 369 Score = 322 bits (824), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ +P E V Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP + A L+E VL +LT R Sbjct: 252 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLEDVLDTLTDR 311 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 312 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 369 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/130 (32%), Positives = 67/130 (51%), Gaps = 6/130 (4%) Query: 34 MIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 IK +Q+G V ++L N P +S+ +ME + + + GI++VD E E SE S Sbjct: 17 FIKENKQKGVVVYDDLANKLATPFTLSAGEMEKLIQQIEDNGISIVD----ETGEPSEHS 72 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 L + + L+ +DPVRMYL+E+G ++LL+ E E+ +A +IE G Sbjct: 73 LKKDEKEAKKAE-LEDLSAPTGIKINDPVRMYLKEIGRVQLLTAEEEVELALKIEEGDQE 131 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 132 AKQRLAEANL 141 >gi|294622679|ref|ZP_06701641.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] gi|291597877|gb|EFF29007.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317] Length = 369 Score = 322 bits (824), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 159/276 (57%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 94 VKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANLRLVVSIAKRYVG 153 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 154 RGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 213 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 214 VETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDD 273 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 274 SHLGDFIEDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 333 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 334 GKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 369 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 35/115 (30%), Positives = 58/115 (50%), Gaps = 9/115 (7%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 N P +++++M+ + + + GI+VVD E + S+ SA + + Sbjct: 34 NQLATPFTLNADEMDKLIQKIDDAGISVVD-------ENGDPSIHSLKSAEKKAEQAKTE 86 Query: 110 KDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 SA +DPVRMYL+E+G + LL+ E E+A+A +IE G L E+ L Sbjct: 87 DLSAPTGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANL 141 >gi|326693497|ref|ZP_08230502.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc argentinum KCTC 3773] Length = 432 Score = 322 bits (824), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 152/253 (60%), Positives = 196/253 (77%), Gaps = 3/253 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 +I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF Sbjct: 179 NIAKRIEAGDVEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKF 235 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP Sbjct: 236 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPL 295 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED A+SP DSA Sbjct: 296 PEEIGAEMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSAAYEM 355 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ Sbjct: 356 LRDQLESVLETLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 Query: 669 HPSRSKKLRSFLD 681 HPSRSK+L+ F+D Sbjct: 416 HPSRSKQLKDFMD 428 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 46/147 (31%), Positives = 68/147 (46%), Gaps = 9/147 (6%) Query: 28 DDSWKKMI---KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D + K +I K A++ Y T+ E A P + E +E + + + G+ +VD E Sbjct: 69 DKAVKALIAEYKPAKEVTYATLSERLA--EPFHLDGENIERLMEKVEDAGVAIVD----E 122 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 E + + L + + Q A +DPVRMYL+E+G + LL + EI IAK Sbjct: 123 KGEPAPEVLQAKQNKPSKEELDQAEDTPAGIKINDPVRMYLKEIGRVNLLKGDEEINIAK 182 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 RIEAG L E+ L I R Sbjct: 183 RIEAGDVEAKQELAEANLRLVVSIAKR 209 >gi|240147091|ref|ZP_04745692.1| RNA polymerase sigma factor RpoD [Roseburia intestinalis L1-82] gi|257200737|gb|EEU99021.1| RNA polymerase sigma factor RpoD [Roseburia intestinalis L1-82] gi|291536629|emb|CBL09741.1| RNA polymerase, sigma 70 subunit, RpoD [Roseburia intestinalis M50/1] Length = 397 Score = 322 bits (824), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 147 IELAKRMELGDQEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 206 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 207 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 266 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ MPVE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+ Sbjct: 267 EIAAEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLK 326 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL +RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 327 EQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHP 386 Query: 671 SRSKKLRSFLD 681 SRS+KL+ +L+ Sbjct: 387 SRSRKLKDYLE 397 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +AKR+E G L E+ L Sbjct: 123 SIEDPVRMYLKEIGKVPLLSAEEEIELAKRMELGDQEAKKRLAEANL 169 >gi|325662013|ref|ZP_08150632.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 4_1_37FAA] gi|331085863|ref|ZP_08334946.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 9_1_43BFAA] gi|325471676|gb|EGC74895.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 4_1_37FAA] gi|330406786|gb|EGG86291.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 9_1_43BFAA] Length = 370 Score = 322 bits (824), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ E AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 120 IELARRMEEGDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 180 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L MPV+ VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+ Sbjct: 240 EIAKELDMPVDRVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL++LT RE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLDEVLSTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS+KLR +LD Sbjct: 360 SRSRKLRDYLD 370 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 38/131 (29%), Positives = 64/131 (48%), Gaps = 27/131 (20%) Query: 32 KKMIKLARQRGYVT-IEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL------- 83 K++I L +++ + ++E+N F E+ SEQM+ L I+V+ + Sbjct: 13 KELIALGKKKKSILELQEINDFFSDMELDSEQMDKVFEALEASNIDVLRIGEGDEDDDDI 72 Query: 84 -----EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 E++E + +DL+ S +DPVRMYL+E+G + LLS E Sbjct: 73 EIMLTEEDEVDMEKIDLSVPDGIS--------------IEDPVRMYLKEIGKVPLLSAEE 118 Query: 139 EIAIAKRIEAG 149 EI +A+R+E G Sbjct: 119 EIELARRMEEG 129 >gi|329766845|ref|ZP_08258374.1| hypothetical protein HMPREF0428_00071 [Gemella haemolysans M341] gi|328838571|gb|EGF88177.1| hypothetical protein HMPREF0428_00071 [Gemella haemolysans M341] Length = 361 Score = 321 bits (823), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 151/244 (61%), Positives = 192/244 (78%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFS Sbjct: 118 EAEKEQAKKDLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFS 177 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I++++R R++ + REP PEEIAKK+ Sbjct: 178 TYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRIQRQLLQDLGREPKPEEIAKKMN 237 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M E VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP++ A L+E +L Sbjct: 238 MTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDAQSPVEHAANELLKEQLEEIL 297 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT REE VL++RFG+ HTLEEVG F VTRERIRQIEAKAIRKLKHPS+ KL+ Sbjct: 298 ETLTDREENVLKLRFGLKDGKTHTLEEVGSAFGVTRERIRQIEAKAIRKLKHPSKLNKLK 357 Query: 678 SFLD 681 F++ Sbjct: 358 GFME 361 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 34/89 (38%), Positives = 49/89 (55%), Gaps = 3/89 (3%) Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL-ASSASNSSVFLQKRKDS--ADRSTDDP 120 E+ V LS + I+ DD +E SED + + A+ L S A T+DP Sbjct: 28 EEIVDALSKLDISSEAMDDFYEELNSEDIILINANHVEEEEEELDLEDLSVPAGIRTNDP 87 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAG 149 VRMYL+E+G + LLS+E E+ ++K IE G Sbjct: 88 VRMYLKEIGKVPLLSKEKELELSKIIETG 116 >gi|291541030|emb|CBL14141.1| RNA polymerase, sigma 70 subunit, RpoD [Roseburia intestinalis XB6B4] Length = 397 Score = 321 bits (823), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 147 IELAKRMELGDQEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 206 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 207 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 266 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ MPVE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+ Sbjct: 267 EIAAEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLK 326 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL +RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 327 EQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHP 386 Query: 671 SRSKKLRSFLD 681 SRS+KL+ +L+ Sbjct: 387 SRSRKLKDYLE 397 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +AKR+E G L E+ L Sbjct: 123 SIEDPVRMYLKEIGKVPLLSAEEEIELAKRMELGDQEAKKRLAEANL 169 >gi|331082069|ref|ZP_08331197.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 6_1_63FAA] gi|330405664|gb|EGG85194.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 6_1_63FAA] Length = 374 Score = 321 bits (823), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 137 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA+++ M VE V Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 257 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVEVLGTLTER 316 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 317 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 374 Score = 46.2 bits (108), Expect = 0.016, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +A+R+E G L E+ L Sbjct: 100 SIEDPVRMYLKEIGKVPLLSAEEEITLAQRMEEGDESAKKRLAEANL 146 >gi|300813859|ref|ZP_07094164.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 836 str. F0141] gi|300512046|gb|EFK39241.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 361 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 200/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E + AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 111 VEIAKRMENGDNSAKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+P PE Sbjct: 171 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELGRDPLPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++++ VE VR++ KI +EP+SLETPIG+E+ SHLGDFI D+ +SP D+A LR Sbjct: 231 EIAKEMSIDVEKVREIQKIAQEPVSLETPIGEEEDSHLGDFIPDEEILSPQDAATFTLLR 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +LT RE++VL +RFG+ TLEEVGK+F VTRERIRQIEAKAIRKL+HP Sbjct: 291 EQLSTVLETLTDREKKVLTLRFGLDDGRARTLEEVGKEFAVTRERIRQIEAKAIRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSKKL+ FL+ Sbjct: 351 SRSKKLKDFLE 361 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 12/135 (8%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 D + + K +++G++T +E++ L + S++++ N GI + L DE Sbjct: 11 DTTINNLKKEGKEKGHLTYDEISFALEDIPMDSQEIDSIYKDFENDGIEL-----LNDER 65 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + ++ + SV S DDPVRMYL+E+G I LL+ + E+ IAKR+E Sbjct: 66 DKDFKEEIDVEKEDLSV-------PKGISVDDPVRMYLKEIGKIPLLTGDEEVEIAKRME 118 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 119 NGDNSAKKELAEANL 133 >gi|104774139|ref|YP_619119.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|103423220|emb|CAI98048.1| RNA polymerase sigma factor RpoD (Sigma-A) [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] Length = 372 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 182 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PV+ VR+ LK+ +EP+SLETPIG+ED SHLGDFIEDK+ SP A LR Sbjct: 242 EIAAEMDLPVKKVREALKVAQEPVSLETPIGEEDDSHLGDFIEDKDTTSPEQHAASEMLR 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 DQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS KLR FL+ Sbjct: 362 SRSNKLRDFLE 372 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E+G L L + L Sbjct: 40 LIKPYKLEGKAVDQLVQEFEDNGISIVD------EDGKPSKLALTKQKNVEKAELNNMAA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G LL+ E E+A+AKRIEAG L E+ L Sbjct: 94 PTGMKMNDPVRMYLKEIGRFNLLTSEEEVALAKRIEAGDEEAKQELAEANL 144 >gi|170017101|ref|YP_001728020.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc citreum KM20] gi|169803958|gb|ACA82576.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leuconostoc citreum KM20] Length = 432 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 152/253 (60%), Positives = 196/253 (77%), Gaps = 3/253 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 +I + G+ EA K+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF Sbjct: 179 NIAKRIEDGDVEA---KQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKF 235 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP Sbjct: 236 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPL 295 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEI ++ + + VR++LKI +EP+SLETPIG+ED SHLGDFIED A+SP DSA Sbjct: 296 PEEIGAEMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSAAYEM 355 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ Sbjct: 356 LRDQLESVLETLTDREENVLRLRFGLEDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 415 Query: 669 HPSRSKKLRSFLD 681 HPSRSK+L+ F+D Sbjct: 416 HPSRSKQLKDFMD 428 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 36/117 (30%), Positives = 54/117 (46%), Gaps = 4/117 (3%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + E +E + + + G+ +VD E E + + L + + Q + A Sbjct: 97 PFNLDGENIERLMEKVEDAGVAIVD----EKGEPAPEVLQAKQNKPSKEELAQAEETPAG 152 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +DPVRMYL+E+G + LL + EI IAKRIE G L E+ L I R Sbjct: 153 IKINDPVRMYLKEIGRVNLLKGDEEINIAKRIEDGDVEAKQELAEANLRLVVSIAKR 209 >gi|238916620|ref|YP_002930137.1| RNA polymerase primary sigma factor [Eubacterium eligens ATCC 27750] gi|238871980|gb|ACR71690.1| RNA polymerase primary sigma factor [Eubacterium eligens ATCC 27750] Length = 434 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EK+D+ G+KFSTYA WW Sbjct: 197 AKKRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKYDYRKGFKFSTYATWW 256 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ REP+PEEIA+ + +PVE V Sbjct: 257 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQELGREPSPEEIAENMDIPVERV 316 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+E VL +LT R Sbjct: 317 REIQKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAASTLLKEQLVEVLGTLTER 376 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 377 EQKVLRLRFGMDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 434 Score = 45.1 bits (105), Expect = 0.036, Method: Compositional matrix adjust. Identities = 32/93 (34%), Positives = 43/93 (46%), Gaps = 9/93 (9%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 DDPVRMYL+E+G + LLS + EI AKR+E G L E+ L + I + + G Sbjct: 162 DDPVRMYLKEIGKVPLLSADEEIEYAKRMEEGDEEAKKRLAEANLRL-VVSIAKRYVGRG 220 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 L I E G E + Y+K Sbjct: 221 MQFLDLI--------QEGNLGLIKAVEKYDYRK 245 >gi|323340800|ref|ZP_08081052.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus ruminis ATCC 25644] gi|323091923|gb|EFZ34543.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus ruminis ATCC 25644] Length = 373 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 202/273 (73%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVNLLTAEEEKKLALRIEEGDEEA---KQRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 SFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R+M + REP PEEI ++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQMLQDLGREPIPEEIGAEMNLPTEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDHAATSPADHAAYELLKEQIESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 373 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 47/144 (32%), Positives = 74/144 (51%), Gaps = 9/144 (6%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 + +++++ +Q G V EL + P +++SEQ+ D +A + GI+VVD E+ + + Sbjct: 18 ALREVVQEFKQAGEVRYSELTKHVSPLDLTSEQINDLIADVEKRGISVVD----ENGDPT 73 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +SL+ A L K SA +DPVRMYL+E+G + LL+ E E +A RIE Sbjct: 74 AESLNQAKEEEKE---LSKSDVSAPSGVKINDPVRMYLKEIGRVNLLTAEEEKKLALRIE 130 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G L E+ L I R Sbjct: 131 EGDEEAKQRLAEANLRLVVSIAKR 154 >gi|313903305|ref|ZP_07836697.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] gi|313466393|gb|EFR61915.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter subterraneus DSM 13965] Length = 432 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 199/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++++ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KAAEKFD+ G+KFSTYA WW Sbjct: 195 AKRKLIQANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWW 254 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEEIAK++ + E V Sbjct: 255 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLVQELGREPTPEEIAKEMGIEPEKV 314 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED++A++P ++A Q LRE VL +LT R Sbjct: 315 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDEDALAPAEAASQLLLREQLEDVLHTLTDR 374 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 375 EQKVLRLRFGLDDGRQRTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 432 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 25/47 (53%), Positives = 33/47 (70%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-----RAMMMASL 157 + DDPVRMYL+E+G I LL+ E EI +AKRIE G R ++ A+L Sbjct: 158 ALDDPVRMYLKEIGRIPLLTPEQEIELAKRIEQGDEEAKRKLIQANL 204 >gi|301301338|ref|ZP_07207482.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ACS-116-V-Col5a] gi|300851066|gb|EFK78806.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ACS-116-V-Col5a] Length = 372 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 135 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R+M + REP PEEI ++ MP E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 255 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 315 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 372 Score = 53.1 bits (126), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 37/114 (32%), Positives = 63/114 (55%), Gaps = 10/114 (8%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ ++QM+ + + + GI+VVD E+ E S SL A+ + + + KD Sbjct: 38 LVTPFKLDADQMDQLIGSIEDRGISVVD----ENGEPSAHSLKAATKEAEKA---ENDKD 90 Query: 112 SADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + S +DPVRMYL+E+G + LL+ + E+A+A +IE G L E+ L Sbjct: 91 VSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEEGDQEAKQRLAEANL 144 >gi|283797719|ref|ZP_06346872.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|291074616|gb|EFE11980.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|295092057|emb|CBK78164.1| RNA polymerase, sigma 70 subunit, RpoD [Clostridium cf. saccharolyticum K10] Length = 372 Score = 321 bits (822), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 168/342 (49%), Positives = 237/342 (69%), Gaps = 12/342 (3%) Query: 340 EQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFV 399 +QL I + +N+ ++L + I+ D+FLE E D + PEG V Sbjct: 43 DQLDQIDDFLENNKVDVLTPEEDLDIEPDLFLEEEMTEEEDIDVDNLELSMPEG-----V 97 Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 + E D + EI + + T + + ++ E AKK + EANLRLV+S+ Sbjct: 98 SIE-DPVRMYLKEIGKVPLLTP------EEEIDLAKRMEMGDESAKKRLAEANLRLVVSI 150 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AK+Y RG+QFLDLIQEGN+GL+KA EK+D+ G+KFSTYA WW++QAITRSIADQ+ TI Sbjct: 151 AKRYVGRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTI 210 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I++++RT+R++ ++ REP+ EE+A+KL MPVE VR+++KI+++P+SLETP Sbjct: 211 RIPVHMVETINRLIRTSRQLLQELGREPSAEELAEKLDMPVERVREIMKISQDPVSLETP 270 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IG+E+ SHLGDFI+D + P+D+A L E VL +LT RE++VLR+RFG+ Sbjct: 271 IGEEEDSHLGDFIQDDHVQVPVDAATYTLLHEQLMEVLDTLTDREQKVLRLRFGLDDGRP 330 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVG++F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 331 RTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 372 Score = 46.2 bits (108), Expect = 0.020, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LL+ E EI +AKR+E G L E+ L Sbjct: 98 SIEDPVRMYLKEIGKVPLLTPEEEIDLAKRMEMGDESAKKRLAEANL 144 >gi|116514229|ref|YP_813135.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|116093544|gb|ABJ58697.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] Length = 372 Score = 320 bits (821), Expect = 3e-85, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R+ + R+P PE Sbjct: 182 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQFLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PV+ VR+ LK+ +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 242 EIAAEMDLPVKKVREALKVAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHAASEMLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 DQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS KLR FL+ Sbjct: 362 SRSNKLRDFLE 372 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E+G L L + L Sbjct: 40 LIKPYKLEGKAVDQLVQEFEDNGISIVD------EDGKPSKLALTKQKNVEKAELNNMAA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G LL+ E E+A+AKRIEAG L E+ L Sbjct: 94 PTGMKMNDPVRMYLKEIGRFNLLTSEEEVALAKRIEAGDEEAKQELAEANL 144 >gi|256847131|ref|ZP_05552577.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis 101-4-CHN] gi|256715795|gb|EEU30770.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis 101-4-CHN] Length = 381 Score = 320 bits (821), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 144 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 203 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ MP + V Sbjct: 204 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTKKV 263 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIED +A SP D A +++ VL +LT R Sbjct: 264 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDHDATSPADHAAYEMMKKQLENVLDTLTDR 323 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 324 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 381 Score = 54.3 bits (129), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 40/138 (28%), Positives = 72/138 (52%), Gaps = 9/138 (6%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K+I+ ++ + +EL+ L P +++++ +++ + + + GI+VVD E Sbjct: 22 DQAVGKLIRQYKKAKTIQYDELSKQLAAPFDLNADGLDNLMQNIEDAGISVVD------E 75 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAK 144 G D L ++ S + R SA +DPVRMYL+E+G + LL+ + E+ +A Sbjct: 76 NGDPDPRALKATEKLSQKAVNDRDTSAPTGVKINDPVRMYLKEIGRVNLLTADQEVELAL 135 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 136 RIEKGDETAKQELAEANL 153 >gi|329910007|ref|ZP_08275189.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] gi|327546317|gb|EGF31339.1| RNA polymerase sigma factor RpoD [Oxalobacteraceae bacterium IMCC9480] Length = 452 Score = 320 bits (821), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 148/319 (46%), Positives = 224/319 (70%), Gaps = 1/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGIS 423 G+ R +F+ G E+D W+ + + +A ++ +I +++ + ++ G+ Sbjct: 134 GMPRSLFIATFPGNEIDLGWIDLVVAGQQA-YCVTLARQIPAIKELQTRLVALQERVGLP 192 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + + R + + GE A AK++M EANLRLV+S+AKKY NRG+QFLDLIQEGNIGL+K Sbjct: 193 LPQLRRVSKQMSTGELRARQAKRDMTEANLRLVVSIAKKYINRGMQFLDLIQEGNIGLLK 252 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QA++R+IADQ+ TIR+PVHM + ++K+ R ARR+ + Sbjct: 253 AVDKFEYRRGYKFSTYATWWIRQAVSRAIADQARTIRVPVHMLETVNKLNRIARRILQET 312 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 E +A + + + VR+++KI +EPIS+E+P+GD+ S LGDFI+D +PL++ Sbjct: 313 GVEADLPTLALHMELTEQKVREIMKIAREPISMESPVGDDGDSQLGDFIQDSTTTAPLEA 372 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ A++R VL +L PRE ++LRMR+G+ +DHTLEEVGKQF VTRERIRQIE+KA Sbjct: 373 AVDASMRTAIKEVLDALPPREAKILRMRYGLDTQSDHTLEEVGKQFEVTRERIRQIESKA 432 Query: 664 IRKLKHPSRSKKLRSFLDG 682 + KL+HPSR+ KL+ F++G Sbjct: 433 LVKLRHPSRADKLKIFVEG 451 >gi|300214611|gb|ADJ79027.1| RNA polymerase sigma factor [Lactobacillus salivarius CECT 5713] Length = 372 Score = 320 bits (821), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 135 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R+M + REP PEEI ++ MP E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 255 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 315 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 372 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 37/114 (32%), Positives = 63/114 (55%), Gaps = 10/114 (8%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ ++QM+ + + + GI+VVD E+ E S SL A+ + + + KD Sbjct: 38 LVTPFKLDADQMDQLIGSIEDRGISVVD----ENGEPSAHSLKAATKEAEKA---ENDKD 90 Query: 112 SADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + S +DPVRMYL+E+G + LL+ + E+A+A +IE G L E+ L Sbjct: 91 VSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEEGDQEAKQRLAEANL 144 >gi|325125919|gb|ADY85249.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 372 Score = 320 bits (821), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 182 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PV+ VR++LKI +EP+SLETPIG+ED S+LGDFIEDK+A+SP A L+ Sbjct: 242 EIAAEMDLPVKKVREILKICQEPVSLETPIGEEDDSNLGDFIEDKDAMSPEQHAANEMLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L+ REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLAEVLDTLSDREEEVLRLRFGLDDGKSRTLEEVGQHFEVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS +LR FLD Sbjct: 362 SRSSQLRDFLD 372 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E+G L L + L Sbjct: 40 LIKPYKLEDKAVDQLVQEFEDNGISIVD------EDGKPSKLALTKQKNVEKAELNNMAA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G LL+ E E+A+AKRIEAG L E+ L Sbjct: 94 PTGMKMNDPVRMYLKEIGRFNLLTSEEEVALAKRIEAGDEEAKQELAEANL 144 >gi|254796694|ref|YP_003081530.1| RNA polymerase sigma-70 factor (RpoD) [Neorickettsia risticii str. Illinois] gi|254589929|gb|ACT69291.1| RNA polymerase sigma-70 factor (RpoD) [Neorickettsia risticii str. Illinois] Length = 620 Score = 320 bits (821), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 238/678 (35%), Positives = 348/678 (51%), Gaps = 102/678 (15%) Query: 32 KKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K +I +RG+VT EL ++F D + +E+ ++ L GI +++ D+ EDE E Sbjct: 14 KALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGILEKDE-EDELSEE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + + + TDDPVR+YLREM ++LLSR+ E+ IAK I A + Sbjct: 73 VKEEDEEEDEAADIL---------GHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIVAEK 123 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE-----SKGG-FFHGTE 204 ++++ P + ++ +L +GT LRE+I+ ++ + E SKG F G + Sbjct: 124 FESLSAVLLFPSVMKGIVDLGTKLREGTISLREVIESDSGLKSELTEETSKGDDLFEGMD 183 Query: 205 GHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDD 264 G + + S +E + V E G++E+ + LD+ ++ Sbjct: 184 GKPEEGNQMSDEEL-MEKVLEIFGELETIITSA--------------------LDKAKEG 222 Query: 265 SAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKL 324 + E L P+ YREL +L N +N K Sbjct: 223 QMVKIVDGEVILDPE-----------YRELHTLAVNHLNQVK------------------ 253 Query: 325 VGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWV 384 LN + E ++ I+ + LL + G+ R V + + + LD + Sbjct: 254 -----LNPKLLAEFFENTRKKNELILEKKKVLLTFLEERGLDRTVLI-KGKVHILDAGVL 307 Query: 385 SYAKDFPEGEWKNFVACEVD-SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 S K C+ S+ + + I+ + G+ + V A+ Sbjct: 308 SEL-------LKKHNICDTHFSLEEFLSPIRELEKNEGMDYESISFLTRKVATHLDNANA 360 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK MVEANLRLVIS+AKKYTNRG+ F DLIQEGNIGLMKA +KFD G+KFSTYA WW Sbjct: 361 AKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFSTYATWW 420 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +QAITR+IAD +R PVH+ + +KV+RT RR+ N REPT EEIA L + + V Sbjct: 421 CRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKV 480 Query: 564 RKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +K LK+ ++PISLE+P+GD+ S GDFIEDKNAVS +D + NLR+ LA L+P Sbjct: 481 KKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSP 540 Query: 623 REERVLRMRFG------------------IGMN--TDHTLEEVGKQFCVTRERIRQIEAK 662 REE++LR RFG I +N T+ TLE+VG + VTRERIRQIE+K Sbjct: 541 REEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESK 600 Query: 663 AIRKLKHPSRSKKLRSFL 680 ++RK++ PSRS KLR+FL Sbjct: 601 SLRKMRSPSRSIKLRTFL 618 >gi|282882556|ref|ZP_06291177.1| RNA polymerase sigma factor RpoD [Peptoniphilus lacrimalis 315-B] gi|281297698|gb|EFA90173.1| RNA polymerase sigma factor RpoD [Peptoniphilus lacrimalis 315-B] Length = 361 Score = 320 bits (820), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E + AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 111 VEIAKRMENGDNSAKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+P PE Sbjct: 171 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELGRDPLPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + VE VR++ KI +EP+SLETPIG+E+ SHLGDFI D+ +SP D+A LR Sbjct: 231 EIAKEMNIEVEKVREIQKIAQEPVSLETPIGEEEDSHLGDFIPDEEILSPQDAATFTLLR 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +LT RE++VL +RFG+ TLEEVGK+F VTRERIRQIEAKAIRKL+HP Sbjct: 291 EQLSTVLETLTDREKKVLTLRFGLDDGRARTLEEVGKEFAVTRERIRQIEAKAIRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSKKL+ FL+ Sbjct: 351 SRSKKLKDFLE 361 Score = 51.6 bits (122), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 68/137 (49%), Gaps = 16/137 (11%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED-- 85 D + + K +++G++T +E++ L + S++++ N GI +++ D +D Sbjct: 11 DTTINNLKKEGKEKGHLTYDEISFALEDIPMDSQEIDSIYKDFENDGIELLNDDRDKDYK 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE + DL+ S DDPVRMYL+E+G I LL+ + E+ IAKR Sbjct: 71 EEIDVEKEDLSVPKGIS--------------VDDPVRMYLKEIGKIPLLTGDEEVEIAKR 116 Query: 146 IEAGRAMMMASLCESPL 162 +E G L E+ L Sbjct: 117 MENGDNSAKKELAEANL 133 >gi|218133123|ref|ZP_03461927.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] gi|217991996|gb|EEC58000.1| hypothetical protein BACPEC_00985 [Bacteroides pectinophilus ATCC 43243] Length = 448 Score = 320 bits (820), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + G+ EA K + EANLRLV+S+AK+Y RG+ Sbjct: 179 VRMYLKEIGKVPLLSAEEEIELAKRMENGDVEA---KNRLAEANLRLVVSIAKRYVGRGM 235 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 236 LFLDLIQEGNLGLIKAVDKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 295 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REPTPEEIAK++ +PVE VR++ KI++EP+SLETPIG+E+ SHL Sbjct: 296 INKLLRVSRQLLQELGREPTPEEIAKEMDIPVERVREIQKISQEPVSLETPIGEEEDSHL 355 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI+D N P + A L+E VL +LT RE++VLR+RFG+ TLEEVG++ Sbjct: 356 GDFIQDDNVPVPAEEAASTILKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGRE 415 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS+KLR FLD Sbjct: 416 FNVTRERIRQIEAKALRKLRHPSRSRKLRDFLD 448 Score = 48.1 bits (113), Expect = 0.004, Method: Compositional matrix adjust. Identities = 38/110 (34%), Positives = 56/110 (50%), Gaps = 13/110 (11%) Query: 57 EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG----SEDSLDLASSASNSSVFLQKRKDS 112 E ++++E L ++V DD+E+EE ED +D+ + SV Sbjct: 120 EFDADKVEKVFDFLEANNVDVKISDDVEEEEDIILDPEDDIDI--EKIDLSV-------P 170 Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +AKR+E G L E+ L Sbjct: 171 EGVSIEDPVRMYLKEIGKVPLLSAEEEIELAKRMENGDVEAKNRLAEANL 220 >gi|328957491|ref|YP_004374877.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. 17-4] gi|328673815|gb|AEB29861.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. 17-4] Length = 373 Score = 320 bits (820), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ +E + + +G+ EA ++ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVNLLTAAEEVELAIKIEEGDQEA---RQRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 QFLDLIQEGNMGLMKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED +A SP ++A L+E VL +LT REE VLR+RFG+ + TLE+VGK Sbjct: 281 GDFIEDHDATSPAENAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRNRTLEDVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 373 Score = 39.3 bits (90), Expect = 2.4, Method: Compositional matrix adjust. Identities = 19/45 (42%), Positives = 28/45 (62%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E+ +A +IE G L E+ L Sbjct: 101 NDPVRMYLKEIGRVNLLTAAEEVELAIKIEEGDQEARQRLAEANL 145 >gi|227890913|ref|ZP_04008718.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC 11741] gi|227867322|gb|EEJ74743.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC 11741] Length = 372 Score = 320 bits (820), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 135 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R+M + REP PEEI ++ MP E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 255 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 315 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 372 Score = 53.9 bits (128), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 37/114 (32%), Positives = 64/114 (56%), Gaps = 10/114 (8%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P +++++QM+ + + + GI+VVD E+ E S SL A+ + + + KD Sbjct: 38 LVTPFKLNADQMDQLIGSIEDRGISVVD----ENGEPSAHSLKAATKEAEKA---ENDKD 90 Query: 112 SADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + S +DPVRMYL+E+G + LL+ + E+A+A +IE G L E+ L Sbjct: 91 VSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEEGDQEAKQRLAEANL 144 >gi|90961886|ref|YP_535802.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius UCC118] gi|90821080|gb|ABD99719.1| RNA polymerase sigma factor [Lactobacillus salivarius UCC118] Length = 372 Score = 320 bits (820), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 135 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R+M + REP PEEI ++ MP E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A SP + A L+E VL +LT R Sbjct: 255 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 315 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 372 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 60/111 (54%), Gaps = 4/111 (3%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ ++QM+ + + + GI+VVD E+ E S SL A+ + + + Sbjct: 38 LVTPFKLDADQMDQLIGSIEDRGISVVD----ENGEPSAHSLKAAAKEAEKAENDKDVSA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + E+A+A +IE G L E+ L Sbjct: 94 PSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEEGDQEAKQRLAEANL 144 >gi|331090835|ref|ZP_08339681.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 2_1_46FAA] gi|330399694|gb|EGG79356.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium 2_1_46FAA] Length = 370 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYEKGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA++L MPVE V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEELDMPVERV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+E VL +LT R Sbjct: 253 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLKEQLGEVLNTLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 313 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 370 Score = 47.8 bits (112), Expect = 0.007, Method: Compositional matrix adjust. Identities = 43/130 (33%), Positives = 67/130 (51%), Gaps = 17/130 (13%) Query: 28 DDSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--VDGDD-- 82 ++ K+++ L +++ + I+E+N E+ EQME L I+V ++GD Sbjct: 9 EEKLKELLALGKKKKNILEIQEINEIFADMELEPEQMEKVFEYLEGQNIDVLRINGDVDD 68 Query: 83 ---LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 LE ED +D+ + SV D S +DPVRMYL+E+G + LLS E E Sbjct: 69 DDDLEVVITEEDEVDV--EKIDLSV-----PDGI--SIEDPVRMYLKEIGKVPLLSAEEE 119 Query: 140 IAIAKRIEAG 149 I +AKR+ G Sbjct: 120 IELAKRMAEG 129 >gi|302391478|ref|YP_003827298.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] gi|302203555|gb|ADL12233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] Length = 358 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +VEANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 121 AKRMLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+KV+R +R + ++ REPTPEEIA+++ + E V Sbjct: 181 IRQAITRSIADQARTIRIPVHMVETINKVIRVSRHLLQELGREPTPEEIAEEMDLSEEKV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VLKI++EP+SLETPIG+E+ SHLGDFIED +A +P +A L+E VL +L+ R Sbjct: 241 REVLKISQEPVSLETPIGEEEDSHLGDFIEDDDAPAPSVAASHMMLQEQLDEVLDTLSDR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+RVL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 301 EKRVLELRFGVEDGRSRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 358 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 44/140 (31%), Positives = 73/140 (52%), Gaps = 14/140 (10%) Query: 23 VFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 V + ++ +K+I+ Q G +T +E+ L E++ EQ++D + + I VVD D+ Sbjct: 5 VRNIVEEKVEKLIEKGNQEGQITYKEVMDTLAKVELTPEQIDDIYQRFAELDIEVVDEDE 64 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E + +E+ LDL+ DDPVRMYL+E+G ++LL+ E E+ + Sbjct: 65 DEVSKDTEEDLDLSVPDGVG--------------IDDPVRMYLKEIGKVDLLTAEEEVEL 110 Query: 143 AKRIEAGRAMMMASLCESPL 162 AKR+E G L E+ L Sbjct: 111 AKRMEEGDMEAKRMLVEANL 130 >gi|256851182|ref|ZP_05556571.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 27-2-CHN] gi|260660606|ref|ZP_05861521.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 115-3-CHN] gi|282934648|ref|ZP_06339891.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|297206047|ref|ZP_06923442.1| RNA polymerase sigma factor rpoD [Lactobacillus jensenii JV-V16] gi|256616244|gb|EEU21432.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 27-2-CHN] gi|260548328|gb|EEX24303.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii 115-3-CHN] gi|281301223|gb|EFA93524.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|297149173|gb|EFH29471.1| RNA polymerase sigma factor rpoD [Lactobacillus jensenii JV-V16] Length = 364 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF++ LG+KFSTYA WW Sbjct: 127 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFNYKLGFKFSTYATWW 186 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + V Sbjct: 187 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMGTDKV 246 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT R Sbjct: 247 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEEVLDTLTDR 306 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 307 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 364 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 37/136 (27%), Positives = 65/136 (47%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D K+++K ++ +T + + P ++ + ++ V + GI++VD + Sbjct: 7 DKKVKELVKEVKKSKEITETDFTEKLIKPYKLEGKAVDQLVQEFEDNGISIVDAN----- 61 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G +L L L+ A +DPVRMYL+E+G + LL+ + EIA+AKRI Sbjct: 62 -GEPSNLALKKQKDVEKEELKDLSAPASVRMNDPVRMYLKEIGRVPLLNADEEIALAKRI 120 Query: 147 EAGRAMMMASLCESPL 162 + G L E+ L Sbjct: 121 QDGDEEAKQELAEANL 136 >gi|260588574|ref|ZP_05854487.1| RNA polymerase sigma factor RpoD [Blautia hansenii DSM 20583] gi|260541049|gb|EEX21618.1| RNA polymerase sigma factor RpoD [Blautia hansenii DSM 20583] Length = 330 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 93 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 152 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA+++ M VE V Sbjct: 153 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 212 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P D+A L+E VL +LT R Sbjct: 213 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVEVLGTLTER 272 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 273 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 330 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +A+R+E G L E+ L Sbjct: 56 SIEDPVRMYLKEIGKVPLLSAEEEITLAQRMEEGDESAKKRLAEANL 102 >gi|307721137|ref|YP_003892277.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfurimonas autotrophica DSM 16294] gi|306979230|gb|ADN09265.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfurimonas autotrophica DSM 16294] Length = 615 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 208/567 (36%), Positives = 321/567 (56%), Gaps = 57/567 (10%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I LL++E EI I+K+IEAG ++++ ++C P ++ +++ L + Sbjct: 103 SDSPVRMYLREMGQIPLLTKEEEIEISKKIEAGESIIIDAICSVPYLIDFILDYKEPLIN 162 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 ++E+ E + + E + K++ V + ++ K Sbjct: 163 RERRVKELFK-----SFEDEKDDGDDNDDSDDDSAEKTLSVKDKSRVDKVSTSFKALEKA 217 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 KD + PEN ++ L E T++ + L+ K++ L +++ EL Sbjct: 218 KKDWVKAAEKVPENLGDE---LSEGTVQYYLTVTFKKAVLKEKLL-DLGPTSKLINELVK 273 Query: 297 LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGEL 356 + A+ DE + K L+ KL +L N +LVE++ D++K + N Sbjct: 274 AMETALKS--DEGYDKELKRLEYKLPLFNATLKANHK---ILVEKIQDLTKEDIANMVPE 328 Query: 357 LRLAQSY-GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 + +Y IK+ V Q +E KN E + + I +IK Sbjct: 329 ATMVSTYMEIKKLV-----QTKEAS---------------KNSFDMEPEKLADILEQIKR 368 Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 G +ISE I+K +M ++NLRLV+S+AK+YTNRGL FLDLIQ Sbjct: 369 -----GKNISE----------------ISKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQ 407 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + Sbjct: 408 EGNIGLMKAVDKFEYQKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKI 467 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R+ + +EP + IAK++ + VE V+ V+KITKEPISLE PIG ED GDFIEDK Sbjct: 468 MRKHLQENGKEPDVDTIAKEVGLSVEKVKNVIKITKEPISLEAPIGSEDDGRFGDFIEDK 527 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRE 654 ++SP D+ ++ +LR +VL L RE+ V+++RFGI + +D TLEE+GK+ VTRE Sbjct: 528 TSLSPSDAILKDDLRIQIEQVLEQLNEREKAVIKLRFGIMDDESDRTLEEIGKELSVTRE 587 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 R+RQIE+ AI+KLKHP +KL+++++ Sbjct: 588 RVRQIESSAIKKLKHPKVGRKLKNYIE 614 >gi|238854653|ref|ZP_04644983.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 269-3] gi|260664404|ref|ZP_05865256.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii SJ-7A-US] gi|282932956|ref|ZP_06338353.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] gi|238832443|gb|EEQ24750.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 269-3] gi|260561469|gb|EEX27441.1| RNA polymerase sigma factor RpoS [Lactobacillus jensenii SJ-7A-US] gi|281302991|gb|EFA95196.1| RNA polymerase sigma factor RpoD [Lactobacillus jensenii 208-1] Length = 364 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA +KF++ LG+KFSTYA WW Sbjct: 127 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFNYKLGFKFSTYATWW 186 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + V Sbjct: 187 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMGTDKV 246 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT R Sbjct: 247 RDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEEVLDTLTDR 306 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 307 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 364 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 36/136 (26%), Positives = 64/136 (47%), Gaps = 7/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D K+++K ++ +T + + P ++ + ++ V + GI++VD + Sbjct: 7 DKKVKELVKEVKKSKEITETDFTEKLIKPYKLEGKAVDQLVQEFEDNGISIVDAN----- 61 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G +L L L+ A +DPVRMYL+E+G + LL+ + EI +AKRI Sbjct: 62 -GDPSNLALKKQKDVEKEELKDLSAPASVRMNDPVRMYLKEIGRVPLLNADEEITLAKRI 120 Query: 147 EAGRAMMMASLCESPL 162 + G L E+ L Sbjct: 121 QDGDEEAKQELAEANL 136 >gi|210615118|ref|ZP_03290449.1| hypothetical protein CLONEX_02663 [Clostridium nexile DSM 1787] gi|210150426|gb|EEA81435.1| hypothetical protein CLONEX_02663 [Clostridium nexile DSM 1787] Length = 370 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA++L MPVE V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEELDMPVERV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+E VL +LT R Sbjct: 253 REILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLKEQLGEVLDTLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +LD Sbjct: 313 EQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSRKLRDYLD 370 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 57/191 (29%), Positives = 84/191 (43%), Gaps = 26/191 (13%) Query: 28 DDSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-------D 79 ++ K ++ L +++ + I+E+N E+ +EQME L + I+V+ D Sbjct: 9 EEKLKNLVALGKKKKSILEIQEINEVFSDMELEAEQMEKIFEYLESQNIDVLRISPDTDD 68 Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 DD+E ED +D+ + SV D S +DPVRMYL+E+G + LLS E E Sbjct: 69 ADDVEILLTDEDEVDM--EKIDLSV-----PDGI--SIEDPVRMYLKEIGKVPLLSAEEE 119 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 I +AKR+ G L E+ L I R + G L I E G Sbjct: 120 IELAKRMAEGDEDAKKRLAEANLRLVVSIAKR-YVGRGMLFLDLI--------QEGNLGL 170 Query: 200 FHGTEGHSYQK 210 E YQK Sbjct: 171 IKAVEKFDYQK 181 >gi|315640587|ref|ZP_07895693.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] gi|315483615|gb|EFU74105.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952] Length = 368 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ +E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGRVPLLTAAEEVELALKIEEGDQEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLIRIQRQLLQDLGREPTPEEIGAEMDLSTEKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP + A L+E VL +LT REE VLR+RFGI TLEEVGK Sbjct: 276 GDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGIDDGRTRTLEEVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 336 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 41/134 (30%), Positives = 67/134 (50%), Gaps = 10/134 (7%) Query: 32 KKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K+ I+ + G V ++L N P + ++QM+ + + + GI+VVD E E Sbjct: 14 KEFIRKNKPNGQVVYDQLTNQLATPHNLDADQMDQLIQKIEDAGISVVD-------ENGE 66 Query: 91 DSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S+ +AS +Q+ SA +DPVRMYL+E+G + LL+ E+ +A +IE Sbjct: 67 PSVHSLKNASKQEKTVQQEDLSAPTGVKINDPVRMYLKEIGRVPLLTAAEEVELALKIEE 126 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 127 GDQEAKQRLAEANL 140 >gi|163790450|ref|ZP_02184881.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. AT7] gi|159874354|gb|EDP68427.1| RNA polymerase sigma factor RpoD [Carnobacterium sp. AT7] Length = 373 Score = 320 bits (819), Expect = 6e-85, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ +E + + +G+ EA ++ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVNLLTAAEEVELAIKIEEGDQEA---RQRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 QFLDLIQEGNMGLMKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED +A SP ++A L+E VL +LT REE VLR+RFG+ + TLE+VGK Sbjct: 281 GDFIEDHDATSPAENAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRNRTLEDVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 373 Score = 39.3 bits (90), Expect = 2.3, Method: Compositional matrix adjust. Identities = 19/45 (42%), Positives = 28/45 (62%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E+ +A +IE G L E+ L Sbjct: 101 NDPVRMYLKEIGRVNLLTAAEEVELAIKIEEGDQEARQRLAEANL 145 >gi|317495391|ref|ZP_07953760.1| RNA polymerase sigma factor RpoD [Gemella moribillum M424] gi|316914450|gb|EFV35927.1| RNA polymerase sigma factor RpoD [Gemella moribillum M424] Length = 361 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 150/244 (61%), Positives = 192/244 (78%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFS Sbjct: 118 ESEKEQAKKDLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFS 177 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I++++R R++ + REP PEEIAKK+ Sbjct: 178 TYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRVQRQLLQDLGREPKPEEIAKKMN 237 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP++ A L+E +L Sbjct: 238 MTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDAQSPVEHAANELLKEQLEEIL 297 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT REE VL++RFG+ HTLEEVG F VTRERIRQIEAKAIRKLKHPS+ KL+ Sbjct: 298 ETLTDREENVLKLRFGLKDGKTHTLEEVGSAFGVTRERIRQIEAKAIRKLKHPSKLNKLK 357 Query: 678 SFLD 681 F++ Sbjct: 358 GFME 361 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 36/118 (30%), Positives = 65/118 (55%), Gaps = 15/118 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++++ +++G +T EE+ L ++SSE M+D L+N I +++ + + Sbjct: 14 KELLEKGKKQGELTQEEIIEALSKLDISSETMDDFYEELNNEDIILINEN--------HE 65 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + SV A T+DPVRMYL+E+G + LLS+E E+ ++K IE+G Sbjct: 66 EEEEELDLEDLSV-------PAGIRTNDPVRMYLKEIGKVPLLSKEKELELSKIIESG 116 >gi|322384625|ref|ZP_08058303.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321150510|gb|EFX43991.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 371 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+A++Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 134 AKQRLAEANLRLVVSIARRYVGRGMLFLDLIQEGNMGLMKAVEKFDYTKGYKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ + + V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLLELGREPTPEEIAKEMELSTDKV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI++EP+SLETPIG+E+ S+LGDFIED++A++P D+A L+E VL +LT R Sbjct: 254 REIMKISQEPVSLETPIGEENDSNLGDFIEDQDALAPADAASYELLKEQLEHVLDTLTER 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 314 EENVLRLRFGLEDGRSRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLD 371 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 42/147 (28%), Positives = 68/147 (46%), Gaps = 24/147 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-- 89 +++I+ +Q +T +E+ L P + EQ+++ +L+ +GI V + D E G+ Sbjct: 23 EQLIESGKQHSSLTYKEIIEKLAPFDQEPEQIDEFFELLAELGIEVENETDDNPEPGNQT 82 Query: 90 -----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 ED L L + + N D VRMYL+E+G + LL+ + EI +AK Sbjct: 83 KGSLDEDDLTLPAGSLN-----------------DSVRMYLKEIGRVHLLTADDEIELAK 125 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 RI G L E+ L I R Sbjct: 126 RIMEGDEEAKQRLAEANLRLVVSIARR 152 >gi|183220954|ref|YP_001838950.1| RNA polymerase sigma factor RpoD [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189911049|ref|YP_001962604.1| DNA-directed RNA polymerase sigma sigma70/sigma32 subunit [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167775725|gb|ABZ94026.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167779376|gb|ABZ97674.1| RNA polymerase sigma factor rpoD (Sigma-70) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 590 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 171/391 (43%), Positives = 251/391 (64%), Gaps = 23/391 (5%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSL-------SLNQSRIDLLVEQLYDISKRIMHNEGELL 357 +K ++S K K LKEK+ G + ++Q I + +++ + R+ E L Sbjct: 209 RKYSENSKKFKELKEKIDLSTGKIDEAIRKIGVSQKEIQKISQKIKSMVFRVKEIEKHFL 268 Query: 358 RLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILK----IRN-- 411 ++ YG H RE+ K+ E + + C++D + + IRN Sbjct: 269 KIKAKYG---------HDVREIKALNRFIEKNENLDEIEKMMGCDIDEVREVIKDIRNNE 319 Query: 412 -EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +++ + E G + E + + KGE E + AK+E+V ANLRLV+S+AK+Y NRG+ F Sbjct: 320 RKLRRMEQEAGSPVGEIKDWGEKIIKGEREIAQAKRELVRANLRLVVSIAKRYANRGMHF 379 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 DLIQEGNIGL++A +KF++ GYKFSTYA WW++QAITR+I+DQ+ TIR+PVHM ++++ Sbjct: 380 FDLIQEGNIGLIRAVDKFEYKKGYKFSTYATWWIRQAITRAISDQARTIRVPVHMIEQVN 439 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 KV+R R + R+P+ +EIA++L PV+ V+ V + +EPISLE P+G E+ S LGD Sbjct: 440 KVIRETRLFVQEFGRDPSNDEIAERLGWPVQKVKAVKNVAREPISLEIPVGSEEDSELGD 499 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FIEDK +SPL+SA + L E +VL +L RE++V+RMRFG+ TLEEVG QF Sbjct: 500 FIEDKEVISPLNSAASSILSEQIRQVLQTLPAREQKVIRMRFGLDDGYAQTLEEVGYQFK 559 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+R+L+HPSRSKKL+ ++D Sbjct: 560 VTRERIRQIEAKALRRLRHPSRSKKLKDYID 590 Score = 61.6 bits (148), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 40/137 (29%), Positives = 75/137 (54%), Gaps = 3/137 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +K+I + + V+ +E+N LP ++SE+++D +L MGI +V+ + E S Sbjct: 11 QKIISIGKANREVSYDEINEILPDKILNSEKIDDVFTLLHEMGIEIVEEYSKKSLEESSS 70 Query: 92 SLDLASSASNSSVFL---QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + + +KR+ S S++DP+R+YL+E+G + L+S E E+ +AKRIE Sbjct: 71 LTTTKEETTKETKEKPARKKRESSVSSSSEDPIRLYLKEIGKVSLISGETEVFLAKRIEK 130 Query: 149 GRAMMMASLCESPLTFQ 165 G ++ ++ S + Q Sbjct: 131 GEKIIEETILSSSILRQ 147 >gi|229543825|ref|ZP_04432884.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus coagulans 36D1] gi|229324964|gb|EEN90640.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus coagulans 36D1] Length = 377 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 108 VRMYLKEIGRVDLLSADEEIELAKRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 164 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 165 QFLDLIQEGNMGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 224 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + + REPTPEEIA+++ + + VR+++KI +EP+SLETPIG+ED SHL Sbjct: 225 INKLIRVQRSLLQDLGREPTPEEIAEEMDISPDKVREIIKIAQEPVSLETPIGEEDDSHL 284 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 285 GDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 344 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 345 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/147 (29%), Positives = 75/147 (51%), Gaps = 18/147 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED------ 85 +++++ ++RG++T + ++ L +++S+QM++ L GI+V D ED Sbjct: 23 EQLVERGKKRGFLTYDTISEKLGHFDLTSDQMDEFYESLGEQGIDVTDDTSDEDAPSHLE 82 Query: 86 -EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 E+ +++ DL + V +DPVRMYL+E+G ++LLS + EI +AK Sbjct: 83 LEKENDEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSADEEIELAK 131 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 RIE G L E+ L I R Sbjct: 132 RIEQGDEEAKRRLAEANLRLVVSIAKR 158 >gi|300812183|ref|ZP_07092625.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496819|gb|EFK31899.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 372 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LGYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 182 RLGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +PV+ VR++LKI +EP+SLETPIG+ED S+LGDFIEDK+A+SP A L+ Sbjct: 242 EIGAEMDLPVKKVREILKICQEPVSLETPIGEEDDSNLGDFIEDKDAMSPEQHAANEMLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L+ REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLAEVLDTLSDREEEVLRLRFGLDDGKARTLEEVGQHFEVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS +LR FLD Sbjct: 362 SRSSQLRDFLD 372 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 55/120 (45%), Gaps = 6/120 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E G L L + L Sbjct: 40 LIKPYKLEGKAVDQLVQEFEDNGISIVD------EGGKPSKLALTKQKNVEKAELNNMDA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +DPVRMYL+E+G + LL+ E E+A+AKRIEAG L E+ L I R Sbjct: 94 PTGMKMNDPVRMYLKEIGRVNLLTSEEEVALAKRIEAGDEEAKQELAEANLRLVVSIAKR 153 >gi|121534199|ref|ZP_01666024.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] gi|121307302|gb|EAX48219.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus carboxydivorans Nor1] Length = 368 Score = 320 bits (819), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 131 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REPTPEEIA+++ + VE V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIAREMDISVERV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A L+E VL +LTPR Sbjct: 251 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 311 EEKVLRLRFGLDDGRARTLEEVGQYFGVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 368 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 64/121 (52%), Gaps = 3/121 (2%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T E+ L ++++ ++++D + ++ GI +VD ++ D E ED A+ Sbjct: 23 GVLTYSEIMDTLQGEDLTPDEIDDMYEVFNSKGIEIVD--EIPDVETLEDPDITEIEAAP 80 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 V + S DDPVRMYL+E+G + LL+ E EI +AKR+E G L E+ Sbjct: 81 EEVDIDLSIPEGI-SIDDPVRMYLKEIGRVPLLTAEEEIQLAKRMEQGDEEAKRRLAEAN 139 Query: 162 L 162 L Sbjct: 140 L 140 >gi|167462413|ref|ZP_02327502.1| RNA polymerase sigma factor RpoD [Paenibacillus larvae subsp. larvae BRL-230010] Length = 367 Score = 319 bits (818), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+A++Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 130 AKQRLAEANLRLVVSIARRYVGRGMLFLDLIQEGNMGLMKAVEKFDYTKGYKFSTYATWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ + + V Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLLELGREPTPEEIAKEMELSTDKV 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI++EP+SLETPIG+E+ S+LGDFIED++A++P D+A L+E VL +LT R Sbjct: 250 REIMKISQEPVSLETPIGEENDSNLGDFIEDQDALAPADAASYELLKEQLEHVLDTLTER 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 310 EENVLRLRFGLEDGRSRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLD 367 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 42/147 (28%), Positives = 68/147 (46%), Gaps = 24/147 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-- 89 +++I+ +Q +T +E+ L P + EQ+++ +L+ +GI V + D E G+ Sbjct: 19 EQLIESGKQHSSLTYKEIIEKLAPFDQEPEQIDEFFELLAELGIEVENETDDNPEPGNQT 78 Query: 90 -----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 ED L L + + N D VRMYL+E+G + LL+ + EI +AK Sbjct: 79 KGSLDEDDLTLPAGSLN-----------------DSVRMYLKEIGRVHLLTADDEIELAK 121 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 RI G L E+ L I R Sbjct: 122 RIMEGDEEAKQRLAEANLRLVVSIARR 148 >gi|18202317|sp|P58290|RPOD_LACLC RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 Length = 364 Score = 319 bits (818), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 93 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 152 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 153 QFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 212 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 213 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 272 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 273 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 332 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 333 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 364 Score = 40.4 bits (93), Expect = 0.95, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 34 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 89 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 90 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 121 >gi|312874241|ref|ZP_07734275.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2052A-d] gi|311090311|gb|EFQ48721.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2052A-d] Length = 382 Score = 319 bits (818), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 194/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 132 IDLAKRIENNDDDAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 191 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 192 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 251 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ M + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 252 EIGAEMDMSTDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLK 311 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 312 EQLEEVLDTLTDREENVLRLRFGLNDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 371 Query: 671 SRSKKLRSFLD 681 SRS +L+ FLD Sbjct: 372 SRSNQLKDFLD 382 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 6/96 (6%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD D G+ +L L L Sbjct: 50 MVKPYQLEGKAIDQLVQEFEDNGISIVDND------GNPSNLSLKKQKDVEKAELNDMTA 103 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +DPVRMYL+E+G + LL+ + EI +AKRIE Sbjct: 104 PSSVRMNDPVRMYLKEIGRVPLLNADQEIDLAKRIE 139 >gi|227892546|ref|ZP_04010351.1| RNA polymerase sigma factor RpoD [Lactobacillus ultunensis DSM 16047] gi|227865667|gb|EEJ73088.1| RNA polymerase sigma factor RpoD [Lactobacillus ultunensis DSM 16047] Length = 370 Score = 319 bits (818), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 120 IALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+++ R++ + REPTPE Sbjct: 180 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIKIQRQLLQDLGREPTPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +P VR +LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+ Sbjct: 240 EIGAEMNVPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYEMLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEQVLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS +L+ F+D Sbjct: 360 SRSNQLKDFMD 370 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD E G L L L+ Sbjct: 38 LIKPYNLQGKAIDQLVQEFEDNGISIVD------ENGDPSKLALKKQKDVEKAELKDMSA 91 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIEAG L E+ L Sbjct: 92 PSSVRMNDPVRMYLKEIGRVPLLTADQEIALAKRIEAGDEEAKQELAEANL 142 >gi|313123888|ref|YP_004034147.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280451|gb|ADQ61170.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 373 Score = 319 bits (818), Expect = 8e-85, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + +S E + + G+ EA K E+ ANLRLV+S+AK+Y RG+ Sbjct: 104 VRQYLKRIGRVSLLSGDEEVQLAKRIEAGDQEA---KDELTSANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 SFLDLIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P PEEIA ++ +PV+ VR+VLK+ +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+A SP A L++ VL +LT REE VLR+RFG+ TLEEVG+ Sbjct: 281 GDFIEDKDATSPEQHAASEMLKDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS +LR FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSNQLRDFLE 373 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 7/98 (7%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 L P ++ ++ V + GI++VD ++G L LA + L+ Sbjct: 42 LLKPYQIEGRAVDQLVQEFEDNGISIVD------DKGEPSKLALAKQKNVEKAELEHLSA 95 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R +DPVR YL+ +G + LLS + E+ +AKRIEAG Sbjct: 96 PGSR-MNDPVRQYLKRIGRVSLLSGDEEVQLAKRIEAG 132 >gi|259500591|ref|ZP_05743493.1| RNA polymerase sigma factor rpoD [Lactobacillus iners DSM 13335] gi|302191282|ref|ZP_07267536.1| RNA polymerase sigma factor RpoD [Lactobacillus iners AB-1] gi|309805231|ref|ZP_07699283.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 09V1-c] gi|309807583|ref|ZP_07701535.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 01V1-a] gi|312871770|ref|ZP_07731858.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 3008A-a] gi|312875648|ref|ZP_07735649.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2053A-b] gi|325912054|ref|ZP_08174452.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 143-D] gi|259167975|gb|EEW52470.1| RNA polymerase sigma factor rpoD [Lactobacillus iners DSM 13335] gi|308165465|gb|EFO67696.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 09V1-c] gi|308169189|gb|EFO71255.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 01V1-a] gi|311088902|gb|EFQ47345.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2053A-b] gi|311092712|gb|EFQ51068.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 3008A-a] gi|325476004|gb|EGC79172.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 143-D] Length = 382 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW Sbjct: 145 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + V Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMSTDKV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT R Sbjct: 265 REILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDR 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 325 EENVLRLRFGLNDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 382 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 6/96 (6%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD D G+ +L L L Sbjct: 50 MVKPYQLEGKAIDQLVQEFEDNGISIVDND------GNPSNLSLKKQKDVEKAELNDMTA 103 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +DPVRMYL+E+G + LL+ + EI +AKRIE Sbjct: 104 PSSVRMNDPVRMYLKEIGRVPLLNADQEIDLAKRIE 139 >gi|300812189|ref|ZP_07092631.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496825|gb|EFK31905.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 373 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + +S E + + G+ EA K E+ ANLRLV+S+AK+Y RG+ Sbjct: 104 VRQYLKRIGRVSLLSGDEEVQLAKRIEAGDQEA---KDELTSANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 SFLDLIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P PEEIA ++ +PV+ VR+VLK+ +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+A SP A L++ VL +LT REE VLR+RFG+ TLEEVG+ Sbjct: 281 GDFIEDKDATSPEQHAASEMLKDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS +LR FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSNQLRDFLE 373 Score = 48.1 bits (113), Expect = 0.006, Method: Compositional matrix adjust. Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 7/98 (7%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 L P ++ ++ V + GI++VD ++G L LA + L+ Sbjct: 42 LLKPYQIEGRAVDQLVQEFEDNGISIVD------DKGEPSKLALAKQKNVEKAELEHLSA 95 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R +DPVR YL+ +G + LLS + E+ +AKRIEAG Sbjct: 96 PGSR-MNDPVRQYLKRIGRVSLLSGDEEVQLAKRIEAG 132 >gi|309810147|ref|ZP_07703992.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 2503V10-D] gi|308169419|gb|EFO71467.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 2503V10-D] Length = 382 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW Sbjct: 145 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + V Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMSTDKV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT R Sbjct: 265 REILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDR 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 325 EENVLRLRFGLNDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 382 Score = 46.2 bits (108), Expect = 0.018, Method: Compositional matrix adjust. Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 6/96 (6%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ ++ V + GI++VD D G+ +L L L Sbjct: 50 MVKPYQLEGRAIDQLVQEFEDNGISIVDND------GNPSNLSLKKQKDIEKAELNDMTA 103 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +DPVRMYL+E+G + LL+ + EI +AKRIE Sbjct: 104 PSSVRMNDPVRMYLKEIGRVPLLNADQEIDLAKRIE 139 >gi|309803186|ref|ZP_07697283.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 11V1-d] gi|309806578|ref|ZP_07700575.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 03V1-b] gi|312872984|ref|ZP_07733044.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2062A-h1] gi|315653573|ref|ZP_07906493.1| RNA polymerase sigma factor rpoD [Lactobacillus iners ATCC 55195] gi|325912624|ref|ZP_08175007.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 60-B] gi|329920166|ref|ZP_08276997.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 1401G] gi|308164694|gb|EFO66944.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 11V1-d] gi|308166998|gb|EFO69180.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LactinV 03V1-b] gi|311091506|gb|EFQ49890.1| RNA polymerase sigma factor RpoD [Lactobacillus iners LEAF 2062A-h1] gi|315488935|gb|EFU78577.1| RNA polymerase sigma factor rpoD [Lactobacillus iners ATCC 55195] gi|325478045|gb|EGC81174.1| RNA polymerase sigma factor RpoD [Lactobacillus iners UPII 60-B] gi|328936620|gb|EGG33064.1| RNA polymerase sigma factor RpoD [Lactobacillus iners SPIN 1401G] Length = 382 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW Sbjct: 145 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + V Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMSTDKV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIEDK+A SP A L+E VL +LT R Sbjct: 265 REILKIAQEPVSLETPIGEEDDSHLGDFIEDKDATSPEQHASYELLKEQLEEVLDTLTDR 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS +L+ FLD Sbjct: 325 EENVLRLRFGLNDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSNQLKDFLD 382 Score = 46.6 bits (109), Expect = 0.016, Method: Compositional matrix adjust. Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 6/96 (6%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ ++ V + GI++VD D G+ +L L L Sbjct: 50 MVKPYQLEGRAIDQLVQEFEDNGISIVDND------GNPSNLSLKKQKDVEKAELNDMTA 103 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +DPVRMYL+E+G + LL+ + EI +AKRIE Sbjct: 104 PSSVRMNDPVRMYLKEIGRVPLLNADQEIDLAKRIE 139 >gi|327473233|gb|EGF18653.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK408] Length = 370 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V KG+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEKGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 45.4 bits (106), Expect = 0.032, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNTEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEKGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|15672535|ref|NP_266709.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis Il1403] gi|281491019|ref|YP_003352999.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis KF147] gi|12723439|gb|AAK04651.1|AE006289_2 major RNA polymerase sigma factor [Lactococcus lactis subsp. lactis Il1403] gi|281374777|gb|ADA64297.1| RNA polymerase sigma factor RpoD (Sigma-42) [Lactococcus lactis subsp. lactis KF147] gi|326406054|gb|ADZ63125.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis CV56] Length = 447 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 176 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 235 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 236 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 295 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 296 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 355 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 356 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 415 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 416 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 117 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 172 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 173 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 204 >gi|403013|emb|CAA50594.1| major sigma factor [Lactococcus lactis] Length = 340 Score = 319 bits (818), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 69 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 128 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 129 QFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 188 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 189 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 248 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 249 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 308 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 309 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 340 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 10 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 65 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 66 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 97 >gi|19862496|sp|Q04506|RPOD_LACLA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 Length = 386 Score = 319 bits (818), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 115 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 174 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 175 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 234 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 235 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 294 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 295 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 354 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 355 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 386 Score = 40.4 bits (93), Expect = 0.95, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 56 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 111 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 112 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 143 >gi|325686026|gb|EGD28084.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 372 Score = 319 bits (818), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LGYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 182 RLGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +PV+ VR++LK+ +EP+SLETPIG+ED S+LGDFIEDK+A+SP A L+ Sbjct: 242 EIGAEMDLPVKKVREILKLCQEPVSLETPIGEEDDSNLGDFIEDKDAMSPEQHAANEMLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L+ REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLAEVLDTLSDREEEVLRLRFGLDDGKARTLEEVGQHFEVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS +LR FLD Sbjct: 362 SRSSQLRDFLD 372 Score = 55.8 bits (133), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 56/120 (46%), Gaps = 6/120 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E+G L L + L Sbjct: 40 LIKPYKLEGKAVDQLVQEFEDNGISIVD------EDGKPSKLALTKQKNVEKAELNNMDA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +DPVRMYL+E+G + LL+ E E+A+AKRIEAG L E+ L I R Sbjct: 94 PTGMKMNDPVRMYLKEIGRVNLLTSEEEVALAKRIEAGDEEAKQELAEANLRLVVSIAKR 153 >gi|216733|dbj|BAA01038.1| RNA polymerase sigma factor [Lactococcus lactis] Length = 340 Score = 319 bits (818), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 69 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 128 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 129 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 188 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 189 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 248 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 249 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 308 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 309 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 340 Score = 40.4 bits (93), Expect = 1.00, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 10 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 65 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 66 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 97 >gi|257425686|ref|ZP_05602110.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus 55/2053] gi|257271380|gb|EEV03526.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus 55/2053] Length = 368 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REP PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGREPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|239626722|ref|ZP_04669753.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239516868|gb|EEQ56734.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 374 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + + E + A+K + E+NLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ Sbjct: 123 IELAKSMELGSEDARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDY 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VRT+R++ ++ REPT E Sbjct: 183 TKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTE 242 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + +PVE V +++K+ +EP+SLETPIG+E+ SHLGDFI+D N + P D+A L Sbjct: 243 EIAARADLPVERVSEIMKMAQEPVSLETPIGEEEDSHLGDFIQDDNVMVPQDAAAFTLLH 302 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL++RFG+ TLEEVG+QF VTRERIRQIEAKA+RKL+HP Sbjct: 303 EQLMEVLLTLTEREQKVLKLRFGLDDGRPRTLEEVGRQFNVTRERIRQIEAKALRKLRHP 362 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 363 SRSKKLKDYLD 373 Score = 45.4 bits (106), Expect = 0.028, Method: Compositional matrix adjust. Identities = 25/47 (53%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G I LLS E EI +AK +E G L ES L Sbjct: 99 SLEDPVRMYLKEIGKIPLLSMEEEIELAKSMELGSEDARKRLAESNL 145 >gi|116511352|ref|YP_808568.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris SK11] gi|125623388|ref|YP_001031871.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris MG1363] gi|116107006|gb|ABJ72146.1| RNA polymerase, sigma 70 subunit, RpoD [Lactococcus lactis subsp. cremoris SK11] gi|124492196|emb|CAL97125.1| RNA polymerase sigma factor rpoD (Sigma-42) [Lactococcus lactis subsp. cremoris MG1363] gi|300070136|gb|ADJ59536.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. cremoris NZ9000] Length = 447 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 201/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG+ Sbjct: 176 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGM 235 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 236 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 295 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 296 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 355 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 356 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 415 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 416 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 117 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 172 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 173 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 204 >gi|242242833|ref|ZP_04797278.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis W23144] gi|242233734|gb|EES36046.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis W23144] Length = 368 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 155/276 (56%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + +K E IAK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKKIEQGDEIAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.5 bits (145), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 73/144 (50%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L E+ S+QM+D L++ I +V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AK+IE Sbjct: 80 DKINPNDLSAPPG--------------VKINDPVRMYLKEIGRVNLLSAQEEIELAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEIAKSRLAEANLRLVVSIAKR 149 >gi|242373866|ref|ZP_04819440.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W1] gi|242348420|gb|EES40022.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W1] Length = 368 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 155/276 (56%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + +K E IAK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKKIEQGDEIAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 73/144 (50%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L E+ S+QM+D L++ I +V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AK+IE Sbjct: 80 EKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEIAKSRLAEANLRLVVSIAKR 149 >gi|167630065|ref|YP_001680564.1| RNA polymerase sigma factor rpod [Heliobacterium modesticaldum Ice1] gi|167592805|gb|ABZ84553.1| RNA polymerase sigma factor rpod [Heliobacterium modesticaldum Ice1] Length = 371 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 134 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REP PEEIAK++ +PVE V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPMPEEIAKEMDIPVERV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A L+E VL +LT R Sbjct: 254 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFILLKEQLEEVLETLTAR 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 314 EMKVLRLRFGLDDGRSRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 371 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 45/131 (34%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I +++G +T +E+ L E++++Q++D L NMGI+VV E +SL Sbjct: 19 LIAKGKKKGVLTYQEIMDALQGVEMTADQVDDIYEQLGNMGIDVVP------ENTESESL 72 Query: 94 DLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 D A + S DDPVRMYL+E+G + LLS E EI +AKR+E G Sbjct: 73 DKAEEPIIREEEEIEVDLSVPEGVGIDDPVRMYLKEIGRVPLLSAEEEIELAKRMEEGDE 132 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 133 AAKRRLAEANL 143 >gi|241889518|ref|ZP_04776817.1| RNA polymerase sigma factor RpoD [Gemella haemolysans ATCC 10379] gi|241863825|gb|EER68208.1| RNA polymerase sigma factor RpoD [Gemella haemolysans ATCC 10379] Length = 361 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 151/244 (61%), Positives = 191/244 (78%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFS Sbjct: 118 EEEKEQAKKDLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFS 177 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I++++R R++ + REP PEEIAKK+ Sbjct: 178 TYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRIQRQLLQDLGREPKPEEIAKKMN 237 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M E VR++LKI +EP+SLETPIG+ED SHLGDFIEDK A SP++ A L+E +L Sbjct: 238 MTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKEAQSPVEHAANELLKEQLEEIL 297 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT REE VL++RFG+ HTLEEVG F VTRERIRQIEAKAIRKLKHPS+ KL+ Sbjct: 298 ETLTDREENVLKLRFGLKDGKTHTLEEVGSAFGVTRERIRQIEAKAIRKLKHPSKLNKLK 357 Query: 678 SFLD 681 F++ Sbjct: 358 GFME 361 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 36/109 (33%), Positives = 58/109 (53%), Gaps = 14/109 (12%) Query: 41 RGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSAS 100 +G +T EE+ L ++SSE M+D L+N I +++ + E+ + Sbjct: 22 QGELTQEEIVDALSKLDISSEAMDDFYEELNNEDIILINAN-------HEEEEEEELDLE 74 Query: 101 NSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + SV A T+DPVRMYL+E+G + LLS+E E+ ++K IE G Sbjct: 75 DLSV-------PAGIRTNDPVRMYLKEIGKVPLLSKEKELELSKIIETG 116 >gi|313123889|ref|YP_004034148.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280452|gb|ADQ61171.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 372 Score = 319 bits (817), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 122 VALAKRIEAGDEEAKQELAEANLRLVVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LGYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 182 RLGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ +PV VR++LK+ +EP+SLETPIG+ED S+LGDFIEDK+A+SP A L+ Sbjct: 242 EIGAEMDLPVNKVREILKLCQEPVSLETPIGEEDDSNLGDFIEDKDAMSPEQHAANEMLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L+ REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLAEVLDTLSDREEEVLRLRFGLDDGKARTLEEVGQHFEVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRS +LR FLD Sbjct: 362 SRSSQLRDFLD 372 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 56/120 (46%), Gaps = 6/120 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P ++ + ++ V + GI++VD E+G L L + L Sbjct: 40 LIKPYKLEGKAVDQLVQEFEDNGISIVD------EDGKPSKLALTKQKNVEKAELNNMDA 93 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +DPVRMYL+E+G + LL+ E E+A+AKRIEAG L E+ L I R Sbjct: 94 PTGMKMNDPVRMYLKEIGRVNLLTSEEEVALAKRIEAGDEEAKQELAEANLRLVVSIAKR 153 >gi|325125918|gb|ADY85248.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 373 Score = 318 bits (816), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 202/273 (73%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + +S E + + G+ EA K E+ ANLRLV+S+AK+Y RG+ Sbjct: 104 VRQYLKRIGRVSLLSGDEEVQLAKRIGAGDQEA---KDELTNANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA +KFD+ LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 SFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P PEEIA ++ +PV+ VR+ LK+ +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+A SP A LR+ VL +LT REE VLR+RFG+ TLEEVG+ Sbjct: 281 GDFIEDKDATSPEQHAASEMLRDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS KLR FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSNKLRDFLE 373 Score = 45.8 bits (107), Expect = 0.027, Method: Compositional matrix adjust. Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 7/100 (7%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 + L P ++ ++ V + GI++VD ++G L LA + L+ Sbjct: 40 DCLLKPYQIEGRAVDQLVQEFEDNGISIVD------DKGEPSKLALAKQKNVEKAELEHL 93 Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R +DPVR YL+ +G + LLS + E+ +AKRI AG Sbjct: 94 SAPGSR-MNDPVRQYLKRIGRVSLLSGDEEVQLAKRIGAG 132 >gi|226311661|ref|YP_002771555.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] gi|226094609|dbj|BAH43051.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] Length = 376 Score = 318 bits (816), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 107 VRMYLKEIGRVPLLSAEEEIKLAQRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 163 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 164 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 223 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP PEEIA+K+ + E VR+++KI +EP+SLETPIG+ED SHL Sbjct: 224 INKLIRVSRQLLQELGREPMPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHL 283 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A+ P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 284 GDFIEDQDALEPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 343 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 344 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 376 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 43/142 (30%), Positives = 70/142 (49%), Gaps = 24/142 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV-----------VDG 80 +++++L ++RG ++ +E+ A L E S+QM++ L + GI + VD Sbjct: 20 EQLVELGKKRGALSYKEITARLAGFEQDSDQMDEFFEYLGDQGIEINNNENEDDDDEVDQ 79 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 ++DE+ E D S + +DPVRMYL+E+G + LLS E EI Sbjct: 80 MIIKDEDNEEFDFDDLSVPPGIKI-------------NDPVRMYLKEIGRVPLLSAEEEI 126 Query: 141 AIAKRIEAGRAMMMASLCESPL 162 +A+RIE G L E+ L Sbjct: 127 KLAQRIEQGDEEAKRRLAEANL 148 >gi|160881641|ref|YP_001560609.1| RpoD family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160430307|gb|ABX43870.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium phytofermentans ISDg] Length = 372 Score = 318 bits (816), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 135 AKKRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REP PEE+AK++ +PVE V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPFPEEVAKEMNIPVERV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+E VL +LT R Sbjct: 255 REIQKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAFTLLKEQLMEVLGTLTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +L+ Sbjct: 315 EQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLE 372 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 32/47 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 ST+DPVRMYL+E+G + LLS + EI +A+R+E G L E+ L Sbjct: 98 STEDPVRMYLKEIGKVPLLSADEEIVLAQRMEQGDKNAKKRLAEANL 144 >gi|154686781|ref|YP_001421942.1| RNA polymerase sigma factor RpoD [Bacillus amyloliquefaciens FZB42] gi|154352632|gb|ABS74711.1| RpoD [Bacillus amyloliquefaciens FZB42] Length = 373 Score = 318 bits (816), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 136 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 256 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 316 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 53.9 bits (128), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 39/141 (27%), Positives = 69/141 (48%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDE 86 D +++ + ++RG +T EE+ + E+ S+QM++ L G+ ++ + ++ ED Sbjct: 16 DQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDP 75 Query: 87 E-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +E+ DL + V +DPVRMYL+E+G + LLS + EI Sbjct: 76 NIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVNLLSAKEEIT 124 Query: 142 IAKRIEAGRAMMMASLCESPL 162 A++IE G L E+ L Sbjct: 125 YAQKIEEGDEESKRRLAEANL 145 >gi|314933733|ref|ZP_07841098.1| RNA polymerase sigma factor RpoD [Staphylococcus caprae C87] gi|313653883|gb|EFS17640.1| RNA polymerase sigma factor RpoD [Staphylococcus caprae C87] Length = 368 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + +K E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKKIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.5 bits (145), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 73/144 (50%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L E+ S+QM+D L++ I +V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFEQLNDNDITLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AK+IE Sbjct: 80 EKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|223044379|ref|ZP_03614413.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus capitis SK14] gi|222442248|gb|EEE48359.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus capitis SK14] Length = 368 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + +K E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKKIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 73/144 (50%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L E+ S+QM+D L++ I +V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AK+IE Sbjct: 80 EKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|52786447|ref|YP_092276.1| RNA polymerase sigma factor RpoD [Bacillus licheniformis ATCC 14580] gi|163119552|ref|YP_079858.2| RNA polymerase sigma factor RpoD [Bacillus licheniformis ATCC 14580] gi|319644974|ref|ZP_07999207.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2] gi|52348949|gb|AAU41583.1| SigA [Bacillus licheniformis ATCC 14580] gi|145903060|gb|AAU24220.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus licheniformis ATCC 14580] gi|317392783|gb|EFV73577.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2] Length = 373 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 136 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 256 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 316 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 41/158 (25%), Positives = 76/158 (48%), Gaps = 20/158 (12%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +D + +++ F+ D ++ + ++RG +T EE+ + ++ S+QM++ L Sbjct: 2 ADKQAHETETEFTFEQVRD---QLTEAGKKRGVLTYEEIAERMSSFDIESDQMDEYYEFL 58 Query: 71 SNMGINVV-DGDDLEDEE-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 G+ ++ + ++ ED +E+ DL + V +DPVRMY Sbjct: 59 GEQGVELISENEETEDPNIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMY 107 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+E+G + LLS + EI AK+IE G L E+ L Sbjct: 108 LKEIGRVNLLSAKEEIEYAKKIEEGDEESKRRLAEANL 145 >gi|310827637|ref|YP_003959994.1| RNA polymerase [Eubacterium limosum KIST612] gi|308739371|gb|ADO37031.1| RNA polymerase [Eubacterium limosum KIST612] Length = 395 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 148/237 (62%), Positives = 192/237 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 158 AKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTP EI K++ E V Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPAEIGKEMGFSEEKV 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI ++P+SLETPIG+E+ SHLGDFIED NA +P ++A A L+E VL +LT R Sbjct: 278 REIQKIAQDPVSLETPIGEEEDSHLGDFIEDDNAPAPSEAASYALLKEQLMEVLNTLTER 337 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L Sbjct: 338 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 394 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 32/47 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVR+YL+E+G + LL+ E E+ IAKR+EAG L E+ L Sbjct: 121 SVNDPVRLYLKEIGKVPLLTAEQEMGIAKRMEAGDDEAKKELAEANL 167 >gi|88608313|ref|YP_506202.1| RNA polymerase sigma factor RpoD [Neorickettsia sennetsu str. Miyayama] gi|88600482|gb|ABD45950.1| RNA polymerase sigma factor RpoD [Neorickettsia sennetsu str. Miyayama] Length = 620 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 242/684 (35%), Positives = 351/684 (51%), Gaps = 114/684 (16%) Query: 32 KKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K +I +RG+VT EL ++F D + +E+ ++ L GI +++ D+ EDE E Sbjct: 14 KALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGILEKDE-EDELSEE 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + + + TDDPVR+YLREM ++LLSR+ E+ IAK I A + Sbjct: 73 VKEEDEEEDEAADIL---------GHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIVAEK 123 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREIID----LEACIGPESKGG--FFHGTE 204 ++++ P ++++ +L + T LRE+I+ L++ + E+ G F G + Sbjct: 124 FESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIESDSGLKSELTEETGKGDDLFEGMD 183 Query: 205 G---HSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDED 261 G Q ++ EK D E E I SA LD+ Sbjct: 184 GKPEEGNQMSDEELMEKVLDIFGELETIITSA------------------------LDKA 219 Query: 262 EDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKL 321 ++ + E L P+ YREL +L N +N K Sbjct: 220 KEGQMVKIVDGEVILDPE-----------YRELHTLAVNHLNQVK--------------- 253 Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDP 381 LN + E ++ I+ + LL + +G+ R V + + + LD Sbjct: 254 --------LNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLI-KGKVHILDA 304 Query: 382 HWVSYAKDFPEGEWKNFVACEVD-SILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 +S K C+ S+ + + I+ + G+ ++R I + RK Sbjct: 305 VVLSEL-------LKEHNICDTHFSLEEFLSPIRELEKNEGM---DYRSISFLTRKVATH 354 Query: 441 ---ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 A+ AK MVEANLRLVIS+AKKYTNRG+ F DLIQEGNIGLMKA +KFD G+KFS Sbjct: 355 LDNANAAKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFS 414 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW +QAITR+IAD +R PVH+ + +KV+RT RR+ N REPT EEIA L Sbjct: 415 TYATWWCRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLK 474 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + V+K LK+ ++PISLE+P+GD+ S GDFIEDKNAVS +D + NLR+ Sbjct: 475 ISPDKVKKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEA 534 Query: 617 LASLTPREERVLRMRFG------------------IGMN--TDHTLEEVGKQFCVTRERI 656 LA L+PREE++LR RFG I +N T+ TLE+VG + VTRERI Sbjct: 535 LAMLSPREEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERI 594 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQIE+K++RK++ PSRS KLR+FL Sbjct: 595 RQIESKSLRKMRSPSRSIKLRTFL 618 >gi|295424882|ref|ZP_06817597.1| RNA polymerase sigma factor rpoD [Lactobacillus amylolyticus DSM 11664] gi|295065448|gb|EFG56341.1| RNA polymerase sigma factor rpoD [Lactobacillus amylolyticus DSM 11664] Length = 368 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 192/251 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 118 IALAKRIENGDEEAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVDKFDY 177 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPE Sbjct: 178 RLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPE 237 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ MP VR +LKI +EP+SLETPIG+ED SHLGDFIEDK A SP A L+ Sbjct: 238 EIGAEMDMPTNKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDKEATSPEQHASYEMLK 297 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 298 EQLEETLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 357 Query: 671 SRSKKLRSFLD 681 SRS +L+ FLD Sbjct: 358 SRSNQLKDFLD 368 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 33/111 (29%), Positives = 52/111 (46%), Gaps = 6/111 (5%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + P + + ++ V + GI++VD + G L L L+ Sbjct: 36 LIEPYNLQGKAVDQLVQEFEDNGISIVDKN------GDPSKLALKKQKDIEKKELEDMSA 89 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + +DPVRMYL+E+G + LL+ + EIA+AKRIE G L E+ L Sbjct: 90 PSSVRMNDPVRMYLKEIGRVPLLNADKEIALAKRIENGDEEAKQELAEANL 140 >gi|186472529|ref|YP_001859871.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] gi|184194861|gb|ACC72825.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phymatum STM815] Length = 664 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 164/380 (43%), Positives = 240/380 (63%), Gaps = 10/380 (2%) Query: 307 DEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGI 365 D++ + L+E + + + + ID L ++ ++ E +L++A + Sbjct: 288 DKRRATAIANLRESIQQELTPIRFTAKTIDRLCAEVQAQVAQVRAIERSILQIAVDRCDM 347 Query: 366 KRDVFLERHQGRELDPHWV----SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 R+ F+E G E D W + +K + ++ A + + + ++ I Sbjct: 348 PRETFVESFPGNETDLDWTMRVAAKSKTYGPALERHLPAIQSE-----QQKLVDIEASIA 402 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + + + I + E + AK+EM+EANLRLVIS+AKKY NRG+ FLDLIQEGNIGL Sbjct: 403 LPLQQLKQINKQLGSAESKMRQAKREMIEANLRLVISIAKKYVNRGMHFLDLIQEGNIGL 462 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ G+KFSTYA WWV+QAITR+IADQ+ TIR+PVHM + I+K+ R R + Sbjct: 463 MKAVDKFEYRRGWKFSTYATWWVRQAITRAIADQARTIRVPVHMIESINKLNRIQREIVQ 522 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP P +A+++ MP +R +LKI K P SL++P+G++ + LGD IED +A SP Sbjct: 523 QTGQEPHPSVLAERMDMPEAKIRSILKIAKNPASLDSPVGEDADTTLGDMIEDTSATSPA 582 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+A+ AN+R L +LTPRE +VLRMR+GI ++ TLEEVG+QF VTRERIRQIE Sbjct: 583 DAAVHANMRRAIDEALDALTPREAKVLRMRYGIDTASELTLEEVGRQFDVTRERIRQIEG 642 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KAIRKL HPSR+ KLR FL+ Sbjct: 643 KAIRKLNHPSRADKLRPFLE 662 >gi|56421017|ref|YP_148335.1| RNA polymerase sigma factor RpoD [Geobacillus kaustophilus HTA426] gi|261417657|ref|YP_003251339.1| RNA polymerase sigma factor RpoD [Geobacillus sp. Y412MC61] gi|297529352|ref|YP_003670627.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. C56-T3] gi|319767537|ref|YP_004133038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC52] gi|56380859|dbj|BAD76767.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) [Geobacillus kaustophilus HTA426] gi|261374114|gb|ACX76857.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC61] gi|297252604|gb|ADI26050.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. C56-T3] gi|317112403|gb|ADU94895.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y412MC52] Length = 375 Score = 318 bits (816), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEA---KRRLTEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQDATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 66.2 bits (160), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 46/136 (33%), Positives = 70/136 (51%), Gaps = 16/136 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-----DE 86 +++ +L ++RG +T EE+ L ++ S+QM++ L+ GI V+ DLE D+ Sbjct: 23 EQLAELGKKRGILTYEEIAERLSGFDLDSDQMDEYYEYLAEQGIEVISESDLEADPDIDD 82 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E+ DL + V +DPVRMYL+E+G + LLS E EI +AKRI Sbjct: 83 LAKEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVPLLSAEEEIELAKRI 131 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 132 EQGDEEAKRRLTEANL 147 >gi|288555754|ref|YP_003427689.1| RNA polymerase sigma factor RpoD [Bacillus pseudofirmus OF4] gi|288546914|gb|ADC50797.1| RNA polymerase sigma factor SigD [Bacillus pseudofirmus OF4] Length = 372 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLSAQEEIELAKRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDYEKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ REPTPEE+A+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVQRQLLQDFGREPTPEEVAEEMELTPEKVREILKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIEDQEALAPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 39/139 (28%), Positives = 68/139 (48%), Gaps = 15/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----L 83 D ++++++ ++RG +T E+ L + S+QM++ L G+ +++ D L Sbjct: 17 DQVKEQLVEVGKKRGVLTYTEITEKLAVFDQDSDQMDEFFEYLGEQGVEILNESDDVPNL 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + E+ DL + + +DPVRMYL+E+G + LLS + EI +A Sbjct: 77 QQAAKEEEEFDLNDLSVPPGI-----------KINDPVRMYLKEIGRVPLLSAQEEIELA 125 Query: 144 KRIEAGRAMMMASLCESPL 162 KRIE G L E+ L Sbjct: 126 KRIEQGDEEAKRRLAEANL 144 >gi|255282119|ref|ZP_05346674.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] gi|255267438|gb|EET60643.1| RNA polymerase sigma factor RpoD [Bryantella formatexigens DSM 14469] Length = 374 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/250 (60%), Positives = 196/250 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AKK ++EANLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 124 VELAKRVEAGDEEAKKRLIEANLRLVVSIAKKYVGRGMPFLDLIQEGNMGLMKAVDKFDY 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR IAD TIR+PVHM + I+K +R R + ++ REPTPE Sbjct: 184 AKGFKFSTYATWWIRQAITRGIADTGRTIRVPVHMVETINKTLRMTRTLLQELGREPTPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A++L +PV VR+VLKI+++P+SL+TPIG+ED SHLGDFIED +A+SP DSA + LR Sbjct: 244 EVAERLNVPVSRVREVLKISRDPVSLDTPIGEEDDSHLGDFIEDDSALSPSDSAAFSMLR 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L SLT RE +V+++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EELGTALESLTDRERQVVQLRFGLIDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFL 680 SRSK+L+ FL Sbjct: 364 SRSKRLKDFL 373 Score = 51.6 bits (122), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 67/125 (53%), Gaps = 2/125 (1%) Query: 40 QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE-EGSEDSLDLASS 98 ++ +T +E+N ++S E+M+ L I++V D+ +D E D+ D Sbjct: 22 KKNMLTYKEVNDAFGSMQISEEKMDFVFEYLEKHNIDLVHEDNADDTTELLLDNDDDILL 81 Query: 99 ASNSSVFLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + V + D + ST+DPVRMYL+E+G++ LL+ E E+ +AKR+EAG L Sbjct: 82 SDEEEVEIIDDADVLEGVSTEDPVRMYLKEIGNVPLLTTEEEVELAKRVEAGDEEAKKRL 141 Query: 158 CESPL 162 E+ L Sbjct: 142 IEANL 146 >gi|308174309|ref|YP_003921014.1| RpoD [Bacillus amyloliquefaciens DSM 7] gi|307607173|emb|CBI43544.1| RpoD [Bacillus amyloliquefaciens DSM 7] gi|328554255|gb|AEB24747.1| RNA polymerase sigma factor RpoD [Bacillus amyloliquefaciens TA208] gi|328912652|gb|AEB64248.1| RNA polymerase sigma factor rpoD [Bacillus amyloliquefaciens LL3] Length = 373 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 136 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 256 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 316 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 42/158 (26%), Positives = 76/158 (48%), Gaps = 20/158 (12%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +D + +++ L D D ++ + ++RG +T EE+ + E+ S+QM++ L Sbjct: 2 ADKQTHETETELTLDQVKD---QLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFL 58 Query: 71 SNMGINVV-DGDDLEDEE-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 G+ ++ + ++ ED +E+ DL + V +DPVRMY Sbjct: 59 GEQGVELISENEETEDPNIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMY 107 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+E+G + LLS + EI A++IE G L E+ L Sbjct: 108 LKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANL 145 >gi|297584635|ref|YP_003700415.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus selenitireducens MLS10] gi|297143092|gb|ADH99849.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus selenitireducens MLS10] Length = 371 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 209/276 (75%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G + + + V + ++ E + AK+ + EANLRLV+S+AK+Y Sbjct: 96 IKINDPVRMYLKEIGRVPLLSAKEEVELAKRIEEDDEEAKRRLAEANLRLVVSIAKRYVG 155 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 156 RGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 215 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEE++K++ + + VR++LKI +EP+SLETPIG+ED Sbjct: 216 VETINKLIRVQRQLLQDLGREPTPEEVSKEMELTPDKVREILKIAQEPVSLETPIGEEDD 275 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A++P D+A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 276 SHLGDFIEDQEALAPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 335 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 336 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLD 371 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 34/124 (27%), Positives = 65/124 (52%), Gaps = 16/124 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----L 83 D +++++ ++RG +T E+ L + S+QM++ L G+++++ + L Sbjct: 17 DQVKEQLVEAGKKRGSLTYVEITEKLGAFDQDSDQMDEFFEHLGEQGVDIINESEAVPSL 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + E E++ DL + + +DPVRMYL+E+G + LLS + E+ +A Sbjct: 77 QQVE-KEEAFDLNDLSVPPGI-----------KINDPVRMYLKEIGRVPLLSAKEEVELA 124 Query: 144 KRIE 147 KRIE Sbjct: 125 KRIE 128 >gi|291484966|dbj|BAI86041.1| RNA polymerase sigma factor [Bacillus subtilis subsp. natto BEST195] Length = 371 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 157/276 (56%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + ++ +K E +K+ + EANLRLV+S+AK+Y Sbjct: 96 VKINDPVRMYLKEIGRVNLLSAKEEIAYAKKIEEGDEESKRRLAEANLRLVVSIAKRYVG 155 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 156 RGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 215 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEIA+ + + E VR++LKI +EP+SLETPIG+ED Sbjct: 216 VETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDD 275 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 276 SHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 335 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 336 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 371 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/141 (29%), Positives = 70/141 (49%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDE 86 D +++ + ++RG +T EE+ + E+ S+QM++ L G+ ++ + ++ ED Sbjct: 14 DQVKEQLTESGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDP 73 Query: 87 E-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +E+ DL + V +DPVRMYL+E+G + LLS + EIA Sbjct: 74 NIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVNLLSAKEEIA 122 Query: 142 IAKRIEAGRAMMMASLCESPL 162 AK+IE G L E+ L Sbjct: 123 YAKKIEEGDEESKRRLAEANL 143 >gi|311069121|ref|YP_003974044.1| RNA polymerase sigma factor RpoD [Bacillus atrophaeus 1942] gi|310869638|gb|ADP33113.1| RNA polymerase sigma factor RpoD [Bacillus atrophaeus 1942] Length = 373 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 136 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 256 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 316 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 42/158 (26%), Positives = 76/158 (48%), Gaps = 20/158 (12%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +D + +++ L D D ++ + ++RG +T EE+ + E+ S+QM++ L Sbjct: 2 ADKQTHETETELTIDQVKD---QLTEAGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFL 58 Query: 71 SNMGINVV-DGDDLEDEE-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 G+ ++ + ++ ED +E+ DL + V +DPVRMY Sbjct: 59 GEQGVELISENEETEDPNIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMY 107 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+E+G + LLS + EI A++IE G L E+ L Sbjct: 108 LKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANL 145 >gi|221310444|ref|ZP_03592291.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. 168] gi|221314767|ref|ZP_03596572.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221319690|ref|ZP_03600984.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. JH642] gi|221323967|ref|ZP_03605261.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. SMY] gi|255767573|ref|NP_390399.2| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis str. 168] gi|296333322|ref|ZP_06875775.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305675173|ref|YP_003866845.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. spizizenii str. W23] gi|321312003|ref|YP_004204290.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5] gi|251757327|sp|P06224|RPOD_BACSU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43; AltName: Full=Sigma-A gi|225185201|emb|CAB14450.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. subtilis str. 168] gi|296149520|gb|EFG90416.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413417|gb|ADM38536.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis subsp. spizizenii str. W23] gi|320018277|gb|ADV93263.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5] Length = 371 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 134 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 254 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 314 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 371 Score = 55.1 bits (131), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 40/141 (28%), Positives = 70/141 (49%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDE 86 D +++ + ++RG +T EE+ + E+ S+QM++ L G+ ++ + ++ ED Sbjct: 14 DQVKEQLTESGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDP 73 Query: 87 E-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +E+ DL + V +DPVRMYL+E+G + LLS + EIA Sbjct: 74 NIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVNLLSAKEEIA 122 Query: 142 IAKRIEAGRAMMMASLCESPL 162 A++IE G L E+ L Sbjct: 123 YAQKIEEGDEESKRRLAEANL 143 >gi|222151460|ref|YP_002560616.1| RNA polymerase sigma factor SigA [Macrococcus caseolyticus JCSC5402] gi|222120585|dbj|BAH17920.1| RNA polymerase sigma factor SigA [Macrococcus caseolyticus JCSC5402] Length = 366 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K + EANLRLV+S+AK+Y RG+ Sbjct: 97 VRMYLKEIGRVNLLSAEEEIELAKRIEQGDEEA---KARLAEANLRLVVSIAKRYVGRGM 153 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 154 LFLDLIQEGNMGLIKAVEKFDFTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 213 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P+PEEI +++ +P E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 214 INKLIRVQRQLLQDLGRDPSPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDSHL 273 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 274 GDFIEDQDAQSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 333 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 334 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 366 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 39/130 (30%), Positives = 70/130 (53%), Gaps = 14/130 (10%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I+ ++ G+++ EE+ L E+ S+ M++ ++ I +++ D +D ++D Sbjct: 23 QLIETGKKNGHLSHEEIADKLQNFEMDSDHMDEFFEAIAENDITLINEKDAQD---TDDK 79 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++L ++ V +DPVRMYL+E+G + LLS E EI +AKRIE G Sbjct: 80 INLNDLSAPPGV-----------KINDPVRMYLKEIGRVNLLSAEEEIELAKRIEQGDEE 128 Query: 153 MMASLCESPL 162 A L E+ L Sbjct: 129 AKARLAEANL 138 >gi|157693020|ref|YP_001487482.1| RNA polymerase sigma factor RpoD [Bacillus pumilus SAFR-032] gi|157681778|gb|ABV62922.1| DNA-directed RNA polymerase sigma subunit SigA [Bacillus pumilus SAFR-032] Length = 373 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 136 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 256 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 316 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 43/158 (27%), Positives = 77/158 (48%), Gaps = 20/158 (12%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 +D + +++ L F+ D K+ + ++RG +T EE+ + E+ S+QM++ L Sbjct: 2 ADKQAHETETELTFEQVRD---KLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEYL 58 Query: 71 SNMGINVV-DGDDLEDEE-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 G+ ++ + ++ ED +E+ DL + V +DPVRMY Sbjct: 59 GEQGVELISENEETEDPNVQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMY 107 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+E+G + LLS + EI A++IE G L E+ L Sbjct: 108 LKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANL 145 >gi|15927141|ref|NP_374674.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus N315] gi|20178083|sp|Q99TT5|RPOD_STAAN RecName: Full=RNA polymerase sigma factor rpoD gi|13701359|dbj|BAB42653.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus N315] Length = 368 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR+VLKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREVLKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|323352412|ref|ZP_08087547.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis VMC66] gi|322121844|gb|EFX93585.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis VMC66] gi|325696737|gb|EGD38625.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK160] gi|328945882|gb|EGG40032.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1087] Length = 370 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNTEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|138896056|ref|YP_001126509.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans NG80-2] gi|196248949|ref|ZP_03147649.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp. G11MC16] gi|134267569|gb|ABO67764.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans NG80-2] gi|196211825|gb|EDY06584.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp. G11MC16] Length = 375 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEA---KRRLTEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 66.6 bits (161), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 47/143 (32%), Positives = 74/143 (51%), Gaps = 16/143 (11%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D + + +++ +L ++RG +T EE+ L ++ S+QM++ L++ GI V+ D+E Sbjct: 16 DTLEQAKEQLAELGKKRGILTYEEIAERLSGFDLDSDQMDEYYEYLADQGIEVISESDIE 75 Query: 85 -----DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 DE E+ DL + V +DPVRMYL+E+G + LLS E E Sbjct: 76 TDPDIDELVKEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVPLLSAEEE 124 Query: 140 IAIAKRIEAGRAMMMASLCESPL 162 I +AKRIE G L E+ L Sbjct: 125 IELAKRIEQGDEEAKRRLTEANL 147 >gi|125717671|ref|YP_001034804.1| RNA polymerase sigma factor RpoD [Streptococcus sanguinis SK36] gi|125497588|gb|ABN44254.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32), putative [Streptococcus sanguinis SK36] gi|324990502|gb|EGC22438.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK353] gi|324995458|gb|EGC27370.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK678] gi|325688386|gb|EGD30405.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK72] gi|325690016|gb|EGD32020.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK115] gi|325693940|gb|EGD35858.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK150] gi|327461509|gb|EGF07840.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1] gi|327468857|gb|EGF14329.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK330] gi|327489365|gb|EGF21158.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1058] gi|332361594|gb|EGJ39398.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1056] gi|332363116|gb|EGJ40903.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK355] gi|332365901|gb|EGJ43657.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1059] Length = 370 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 48.1 bits (113), Expect = 0.006, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|332362696|gb|EGJ40494.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK49] Length = 370 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|1519632|gb|AAC44890.1| sigma 70-type sigma factor SigA [Heliobacillus mobilis] Length = 333 Score = 318 bits (815), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 96 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REP PEEIAK++ +PV+ V Sbjct: 156 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEFGREPNPEEIAKEMDIPVDRV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P ++A L+E VL +LT R Sbjct: 216 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPAEAASFILLKEQLEEVLETLTAR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ ++D Sbjct: 276 EMKVLRLRFGLDDGRSRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYVD 333 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 35/98 (35%), Positives = 53/98 (54%), Gaps = 12/98 (12%) Query: 58 VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 ++++Q++D L NMGI+VV E +S++ A ++ + D S Sbjct: 1 MTADQVDDVYEQLGNMGIDVVS------EPAEAESMEKAEEPIIRESEEEEEEIEVDLSV 54 Query: 118 ------DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G + LLS E EI +AKR+E G Sbjct: 55 PEGVGIDDPVRMYLKEIGRVPLLSAEEEIELAKRMEDG 92 >gi|327458597|gb|EGF04945.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK1057] Length = 370 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 46.2 bits (108), Expect = 0.018, Method: Compositional matrix adjust. Identities = 35/131 (26%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +E+ + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIENLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|70726356|ref|YP_253270.1| RNA polymerase sigma factor RpoD [Staphylococcus haemolyticus JCSC1435] gi|68447080|dbj|BAE04664.1| RNA polymerase sigma factor [Staphylococcus haemolyticus JCSC1435] Length = 368 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E IAK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 74/144 (51%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFDMDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEIAKSRLAEANLRLVVSIAKR 149 >gi|1710683|sp|P52328|RPSD2_BACSP RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|149623|gb|AAA25264.1| RNA polymerase sigma-subunit [Leptospira borgpetersenii] Length = 377 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD G+KFSTYA WW Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWW 199 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA ++ + VE V Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKV 259 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 260 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTPADAAAYELLKEQLEDVLDTLTER 319 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 320 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 43/153 (28%), Positives = 72/153 (47%), Gaps = 14/153 (9%) Query: 17 DSDDSLVFDFSDDSWK-KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 D L +F+ D K ++I+ ++R + +++ L P + EQM++ L ++GI Sbjct: 4 DQHTELETEFTLDQVKDQLIEQGKKRSSLNYKDIMEKLSPFDQDPEQMDEFYEHLGDLGI 63 Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRS------TDDPVRMYLREMG 129 VV+ +D E+ +L + D S +DPVRMYL+E+G Sbjct: 64 EVVNEND-------EEVSNLRQGEDHDGNDNDDFNFDDDLSLPPGIKINDPVRMYLKEIG 116 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + LLS + E+ +AKRI G L E+ L Sbjct: 117 RVPLLSADDEVELAKRIMNGDEEAKRRLAEANL 149 >gi|324993240|gb|EGC25160.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis SK405] Length = 370 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQIGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|322385457|ref|ZP_08059101.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus cristatus ATCC 51100] gi|321270195|gb|EFX53111.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus cristatus ATCC 51100] Length = 370 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLSNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 36/131 (27%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKQTGVATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + ++ S +DPVRMYL+E+G + LLS E E +A +E G Sbjct: 71 ARVLNTEEEEVELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLSNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|20808174|ref|NP_623345.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter tengcongensis MB4] gi|20516766|gb|AAM24949.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 372 Score = 318 bits (814), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 153/238 (64%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 135 AKKRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEE+AK++ MP E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEELAKEMGMPEEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 255 REILKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAYTMLKEQLMDVLDTLTPR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 315 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 372 Score = 65.9 bits (159), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 50/160 (31%), Positives = 82/160 (51%), Gaps = 16/160 (10%) Query: 3 IGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQ 62 +G+KR + + +++ L + ++ ++I ++ G +T E+ L +++ +Q Sbjct: 1 MGRKRETHREGKSMSNNEEL----AREAINELINKGKKTGMLTYNEIMDSLEDIDLNPDQ 56 Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +E +MGI +V GD+ EE SE+ L+L + V S DDPVR Sbjct: 57 IEKVYDTFEDMGIEIV-GDEPRQEEISEEDLNLDDLSLPEGV-----------SIDDPVR 104 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 MYL+E+G I LL+ E EI +AKRIE G L E+ L Sbjct: 105 MYLKEIGKIPLLTPEEEIELAKRIEQGDEEAKKRLIEANL 144 >gi|73662504|ref|YP_301285.1| RNA polymerase sigma factor RpoD [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495019|dbj|BAE18340.1| RNA polymerase sigma factor A [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 368 Score = 318 bits (814), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + +K E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLNAQEEIELAKKIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 41/144 (28%), Positives = 76/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L E+ S+QM++ L++ I++V+ D D++ Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFEMDSDQMDELFDQLTDNDISLVNEKDSSDKD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LL+ + EI +AK+IE Sbjct: 80 SKLNPNDLSAPPG--------------VKINDPVRMYLKEIGRVNLLNAQEEIELAKKIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|15924551|ref|NP_372085.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu50] gi|21283242|ref|NP_646330.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MW2] gi|49483810|ref|YP_041034.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA252] gi|49486397|ref|YP_043618.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MSSA476] gi|57651954|ref|YP_186458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus COL] gi|82751164|ref|YP_416905.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus RF122] gi|87162254|ref|YP_494216.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195369|ref|YP_500173.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268045|ref|YP_001246988.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH9] gi|150394113|ref|YP_001316788.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH1] gi|151221676|ref|YP_001332498.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. Newman] gi|156979879|ref|YP_001442138.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu3] gi|161509790|ref|YP_001575449.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140019|ref|ZP_03564512.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253314932|ref|ZP_04838145.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253732214|ref|ZP_04866379.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253733189|ref|ZP_04867354.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus TCH130] gi|255006347|ref|ZP_05144948.2| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257428347|ref|ZP_05604745.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 65-1322] gi|257433672|ref|ZP_05610030.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus E1410] gi|257436586|ref|ZP_05612630.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus M876] gi|257793637|ref|ZP_05642616.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9781] gi|258411063|ref|ZP_05681343.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9763] gi|258420133|ref|ZP_05683088.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9719] gi|258423989|ref|ZP_05686871.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9635] gi|258443599|ref|ZP_05691938.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8115] gi|258448720|ref|ZP_05696832.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A6224] gi|258450610|ref|ZP_05698672.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5948] gi|258453537|ref|ZP_05701515.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5937] gi|262049137|ref|ZP_06022014.1| RNA polymerase sigma factor [Staphylococcus aureus D30] gi|262051223|ref|ZP_06023447.1| RNA polymerase sigma factor [Staphylococcus aureus 930918-3] gi|269203189|ref|YP_003282458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus ED98] gi|282893062|ref|ZP_06301296.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8117] gi|282904143|ref|ZP_06312031.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus C160] gi|282905970|ref|ZP_06313825.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus Btn1260] gi|282908880|ref|ZP_06316698.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911199|ref|ZP_06319001.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WBG10049] gi|282914368|ref|ZP_06322154.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M899] gi|282916831|ref|ZP_06324589.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus D139] gi|282919337|ref|ZP_06327072.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C427] gi|282920110|ref|ZP_06327835.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9765] gi|282924662|ref|ZP_06332330.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C101] gi|282928194|ref|ZP_06335799.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A10102] gi|283770637|ref|ZP_06343529.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus H19] gi|283958325|ref|ZP_06375776.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus A017934/97] gi|284024620|ref|ZP_06379018.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 132] gi|293503442|ref|ZP_06667289.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 58-424] gi|293510459|ref|ZP_06669165.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus M809] gi|293530999|ref|ZP_06671681.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M1015] gi|294848592|ref|ZP_06789338.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9754] gi|295406684|ref|ZP_06816489.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8819] gi|295428139|ref|ZP_06820771.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus EMRSA16] gi|296275817|ref|ZP_06858324.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MR1] gi|297207720|ref|ZP_06924155.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297245734|ref|ZP_06929599.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8796] gi|297590895|ref|ZP_06949533.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus MN8] gi|300911801|ref|ZP_07129244.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH70] gi|304380850|ref|ZP_07363510.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|60390420|sp|Q6G905|RPOD_STAAS RecName: Full=RNA polymerase sigma factor rpoD gi|60390434|sp|Q6GGD8|RPOD_STAAR RecName: Full=RNA polymerase sigma factor rpoD gi|60393872|sp|P0A0I8|RPOD_STAAM RecName: Full=RNA polymerase sigma factor rpoD gi|60393873|sp|P0A0I9|RPOD_STAAW RecName: Full=RNA polymerase sigma factor rpoD gi|60393874|sp|P0A0J0|RPOD_STAA8 RecName: Full=RNA polymerase sigma factor rpoD gi|81694388|sp|Q5HFJ9|RPOD_STAAC RecName: Full=RNA polymerase sigma factor rpoD gi|153069|gb|AAB59090.1| sigma factor [Staphylococcus aureus] gi|14247332|dbj|BAB57723.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus Mu50] gi|21204682|dbj|BAB95378.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MW2] gi|49241939|emb|CAG40633.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MRSA252] gi|49244840|emb|CAG43300.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus MSSA476] gi|57286140|gb|AAW38234.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus COL] gi|82656695|emb|CAI81122.1| RNA polymerase sigma factor [Staphylococcus aureus RF122] gi|87128228|gb|ABD22742.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87202927|gb|ABD30737.1| RNA polymerase sigma factor, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741114|gb|ABQ49412.1| RNA polymerase, sigma 70 subunit, RpoD family [Staphylococcus aureus subsp. aureus JH9] gi|149946565|gb|ABR52501.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus JH1] gi|150374476|dbj|BAF67736.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus str. Newman] gi|156722014|dbj|BAF78431.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus Mu3] gi|160368599|gb|ABX29570.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253724003|gb|EES92732.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253728729|gb|EES97458.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus TCH130] gi|257275188|gb|EEV06675.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 65-1322] gi|257281765|gb|EEV11902.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus E1410] gi|257283937|gb|EEV14060.1| transcription initiation factor sigma plaC [Staphylococcus aureus subsp. aureus M876] gi|257787609|gb|EEV25949.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9781] gi|257840213|gb|EEV64677.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9763] gi|257843844|gb|EEV68238.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9719] gi|257845610|gb|EEV69642.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A9635] gi|257851005|gb|EEV74948.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8115] gi|257857998|gb|EEV80887.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus A6224] gi|257861768|gb|EEV84567.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5948] gi|257864268|gb|EEV87018.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A5937] gi|259160860|gb|EEW45880.1| RNA polymerase sigma factor [Staphylococcus aureus 930918-3] gi|259162806|gb|EEW47371.1| RNA polymerase sigma factor [Staphylococcus aureus D30] gi|262075479|gb|ACY11452.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus ED98] gi|269941051|emb|CBI49435.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus TW20] gi|282313497|gb|EFB43892.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C101] gi|282317147|gb|EFB47521.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus C427] gi|282319318|gb|EFB49670.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus D139] gi|282321549|gb|EFB51874.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M899] gi|282324894|gb|EFB55204.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WBG10049] gi|282327144|gb|EFB57439.1| RNA polymerase sigma factor RpoS [Staphylococcus aureus subsp. aureus WW2703/97] gi|282331262|gb|EFB60776.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus Btn1260] gi|282590001|gb|EFB95083.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A10102] gi|282594458|gb|EFB99443.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9765] gi|282595761|gb|EFC00725.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus C160] gi|282764380|gb|EFC04506.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8117] gi|283460784|gb|EFC07874.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus H19] gi|283470839|emb|CAQ50050.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Staphylococcus aureus subsp. aureus ST398] gi|283790474|gb|EFC29291.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus A017934/97] gi|285817243|gb|ADC37730.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus 04-02981] gi|290920267|gb|EFD97333.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus M1015] gi|291095108|gb|EFE25373.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 58-424] gi|291466823|gb|EFF09343.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus M809] gi|294824618|gb|EFG41041.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9754] gi|294968431|gb|EFG44455.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8819] gi|295128497|gb|EFG58131.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus EMRSA16] gi|296887737|gb|EFH26635.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297177385|gb|EFH36637.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A8796] gi|297575781|gb|EFH94497.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus MN8] gi|298694843|gb|ADI98065.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus ED133] gi|300886047|gb|EFK81249.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH70] gi|302333237|gb|ADL23430.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp. aureus JKD6159] gi|302751392|gb|ADL65569.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340577|gb|EFM06511.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312437970|gb|ADQ77041.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus aureus subsp. aureus TCH60] gi|312829949|emb|CBX34791.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43) [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315129839|gb|EFT85829.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS03] gi|315195463|gb|EFU25850.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS00] gi|315198744|gb|EFU29072.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus CGS01] gi|320140554|gb|EFW32408.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA131] gi|320144091|gb|EFW35860.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus MRSA177] gi|323440459|gb|EGA98171.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O11] gi|323443233|gb|EGB00851.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O46] gi|329314237|gb|AEB88650.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus T0131] gi|329727416|gb|EGG63872.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21172] gi|329728458|gb|EGG64895.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21189] Length = 368 Score = 318 bits (814), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|295399207|ref|ZP_06809189.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312110191|ref|YP_003988507.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y4.1MC1] gi|294978673|gb|EFG54269.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311215292|gb|ADP73896.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. Y4.1MC1] Length = 377 Score = 318 bits (814), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 108 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEA---KRRLTEANLRLVVSIAKRYVGRGM 164 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 165 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 224 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 225 INKLIRVQRQLLQDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 284 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 285 GDFIEDQEATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 344 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 345 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 67.0 bits (162), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 48/132 (36%), Positives = 71/132 (53%), Gaps = 5/132 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSE 90 +++ +L ++RG +T EE+ L ++ S+QM++ L++ GI V+ DLE D E Sbjct: 22 EQLTELGKKRGILTYEEIAERLSAFDLDSDQMDEFYEYLTDQGIEVISESDLESDLEHDP 81 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D DLA + L +DPVRMYL+E+G + LLS E EI +AKRIE G Sbjct: 82 DIDDLAKEEFD----LNDLSVPPGVKINDPVRMYLKEIGRVPLLSAEEEIELAKRIEQGD 137 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 138 EEAKRRLTEANL 149 >gi|27468166|ref|NP_764803.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis ATCC 12228] gi|57867102|ref|YP_188703.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis RP62A] gi|251810978|ref|ZP_04825451.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis BCM-HMP0060] gi|282876013|ref|ZP_06284880.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis SK135] gi|293366478|ref|ZP_06613155.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W2(grey)] gi|47606037|sp|Q8CP24|RPOD_STAES RecName: Full=RNA polymerase sigma factor rpoD gi|81674470|sp|Q5HNY7|RPOD_STAEQ RecName: Full=RNA polymerase sigma factor rpoD gi|27315712|gb|AAO04847.1|AE016748_81 RNA polymerase sigma factor [Staphylococcus epidermidis ATCC 12228] gi|57637760|gb|AAW54548.1| RNA polymerase sigma-70 factor [Staphylococcus epidermidis RP62A] gi|251805488|gb|EES58145.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis BCM-HMP0060] gi|281295038|gb|EFA87565.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis SK135] gi|291319247|gb|EFE59616.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus epidermidis M23864:W2(grey)] gi|319400897|gb|EFV89116.1| RNA polymerase sigma factor rpoD [Staphylococcus epidermidis FRI909] gi|329725345|gb|EGG61828.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU144] gi|329735301|gb|EGG71593.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU045] gi|329737328|gb|EGG73582.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU028] Length = 368 Score = 318 bits (814), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E IAK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 42/135 (31%), Positives = 71/135 (52%), Gaps = 14/135 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I ++ G+++ EE+ L E+ S+QM+D L++ I +V+ D D + Sbjct: 20 EDVKKQLIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 DKINPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPL 162 G + + L E+ L Sbjct: 126 QGDEIAKSRLAEANL 140 >gi|182416400|ref|YP_001821466.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177843614|gb|ACB77866.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 640 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 155/274 (56%), Positives = 203/274 (74%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ +K I I +E +V+ R EA AK EMVEANLRLVIS+AKKYTNRGL Sbjct: 302 IQHRLKQIETIHRIDPAELLKVVTQTRVHVREAHQAKTEMVEANLRLVISIAKKYTNRGL 361 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 362 SFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 421 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++KV++ +++ + EPTPEE+A ++ +PVE V++++K+ ++PISL++P+GD D + Sbjct: 422 LNKVMQVQKQLLQEYGHEPTPEEVADEMNLPVERVQQIMKMAQQPISLQSPVGDGDDTSF 481 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+A +P D + LRE VL SLT RE RVL +RFG+ TLEEVGKQ Sbjct: 482 GDFIEDKSAENPYDMTAFSLLREKIIDVLDSLTERERRVLSLRFGLIDGYSRTLEEVGKQ 541 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 F VTRERIRQIEAKA+RK++HP+R ++L F D Sbjct: 542 FKVTRERIRQIEAKALRKMRHPTRIRQLHGFFDA 575 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 54/184 (29%), Positives = 97/184 (52%), Gaps = 28/184 (15%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D + +I+L++++GY+T +++N LP + E++++ +++L N+ I +++ D ++D + Sbjct: 43 NDKIRHLIRLSKEQGYLTFDDINEALPESVENQEEIDNVLSILQNLEIEILEPDQVDDYK 102 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + S S+ L DDPVRMYL++MG + LL+RE E+ I+KRIE Sbjct: 103 QRMEEAEEEESRSSQHDIL-----------DDPVRMYLKQMGQVPLLTREQEVEISKRIE 151 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLL-------REIIDLEACIGPESKGGFF 200 A L FQA II + G L+ R +ID + +S+ +F Sbjct: 152 N------AELKAQEALFQATIIGNYIVTLGQKLIDRQERFDRVVIDKKI----DSRESYF 201 Query: 201 HGTE 204 G E Sbjct: 202 KGLE 205 >gi|91779751|ref|YP_554959.1| sigma 70 (RpoD) [Burkholderia xenovorans LB400] gi|91692411|gb|ABE35609.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia xenovorans LB400] Length = 647 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 156/336 (46%), Positives = 228/336 (67%), Gaps = 14/336 (4%) Query: 353 EGELLRLA-QSYGIKRDVFLERHQGRELDPHWV----SYAKDFPEGEWKNF--VACEVDS 405 E E+ R+A + G+ RD F+ +G E DP W + + F +N + E + Sbjct: 317 EREIARIAVERCGVPRDTFIAHFRGNETDPAWARQLAAAGQPFSSVLERNLPAIGLEQEK 376 Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +L ++ + + + EFR + + E + AK EM+EANLRLVIS+AK+YTN Sbjct: 377 LLALQKRVV-------LPLDEFREVCRALSASEAKTLRAKGEMIEANLRLVISIAKRYTN 429 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL FLDLIQEGNIGLM+A +KF++ GYKFSTYA WW++QA++RSIADQ+ TIR+PVHM Sbjct: 430 RGLLFLDLIQEGNIGLMRAVDKFEYRRGYKFSTYATWWIRQAVSRSIADQARTIRVPVHM 489 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + ++K+ R +R++ + EP +A+ + M + VR +L+I KEP+SL+ +G+ D Sbjct: 490 IESLNKLKRISRKILQETGNEPDAALLAQLMEMQEQKVRAMLRIVKEPVSLDASVGENDD 549 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 + +GD IED A+ P D+A+ A +R+ + L +LTPRE ++LR+RFGI + DHTLEE+ Sbjct: 550 TSIGDLIEDSAAILPDDAALHAGMRDAISEALMTLTPREAKILRLRFGIESSRDHTLEEL 609 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+QF +TRERIRQIE KA+RKL+HP+RS +L+SFLD Sbjct: 610 GEQFELTRERIRQIEVKALRKLRHPARSARLKSFLD 645 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 87/164 (53%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG---------DD 82 K +IKL +RG+V E++ LP + +E+ V S MGI V + +D Sbjct: 38 KALIKLGTERGFVIRGEISDCLPERLAQPDAIENVVRAFSEMGIAVFEQAPDAESMIMND 97 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +++ ++ + + SSV D+ T DPVRMY+REMG+ ELL+R+GEIA+ Sbjct: 98 HPAAVATDEQIEEEAVTAISSV------DAEFGRTTDPVRMYMREMGTTELLTRQGEIAL 151 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 A+RIE GR M+ ++ P T ++ D + G T + E +D Sbjct: 152 AQRIEEGRNGMIRAISSCPATIAEILAIADGVACGETAIDEFVD 195 >gi|228476045|ref|ZP_04060753.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis SK119] gi|314936318|ref|ZP_07843665.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis subsp. hominis C80] gi|228269868|gb|EEK11348.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis SK119] gi|313654937|gb|EFS18682.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis subsp. hominis C80] Length = 368 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 60.5 bits (145), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDMDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|258446806|ref|ZP_05694960.1| transcription initiation factor sigma plaC [Staphylococcus aureus A6300] gi|257854381|gb|EEV77330.1| transcription initiation factor sigma plaC [Staphylococcus aureus A6300] Length = 368 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|258437393|ref|ZP_05689377.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9299] gi|257848598|gb|EEV72586.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus A9299] Length = 368 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.2 bits (147), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 42/144 (29%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++++ D D + Sbjct: 20 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLINEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 80 EKLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEVAKSRLAEANLRLVVSIAKR 149 >gi|23099399|ref|NP_692865.1| RNA polymerase sigma factor RpoD [Oceanobacillus iheyensis HTE831] gi|22777628|dbj|BAC13900.1| RNA polymerase sigma-43(-A) factor [Oceanobacillus iheyensis HTE831] Length = 380 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S +E + S + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 111 VRMYLKEIGRVNLLSAAEEIDLASSIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 167 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 168 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 227 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + + REPTPEEI +++ + + VR +LKI +EP+SLETPIG+ED SHL Sbjct: 228 INKLIRVQRSLLQDLGREPTPEEIGEEMELGPDKVRDILKIAQEPVSLETPIGEEDDSHL 287 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A+SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 288 GDFIEDQEAISPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 347 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FLD Sbjct: 348 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLD 380 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 39/130 (30%), Positives = 63/130 (48%), Gaps = 8/130 (6%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 +++++ ++RG + EE+ L E+ EQM++ L G++V+ G+ SED Sbjct: 31 RLLEIGKKRGSLAYEEVADGLSNFELEPEQMDEFYEYLEEQGVDVI-GE-------SEDD 82 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++ A L +DPVRMYL+E+G + LLS EI +A IE G Sbjct: 83 PEMQKIAKEEEFNLNDLSVPLGIKINDPVRMYLKEIGRVNLLSAAEEIDLASSIEEGDEE 142 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 143 AKRRLAEANL 152 >gi|289550668|ref|YP_003471572.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis HKU09-01] gi|315658163|ref|ZP_07911035.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus lugdunensis M23590] gi|289180200|gb|ADC87445.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis HKU09-01] gi|315496492|gb|EFU84815.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus lugdunensis M23590] Length = 368 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 154/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E IAK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLNAQEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 38/144 (26%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++++ ++ G+++ EE+ + ++ ++QM++ L++ I++V+ D D + Sbjct: 20 EDVKKQLLEKGKKEGHLSHEEIAEKMQNFDMDTDQMDEFFDQLNDNDISLVNEKDSSDTD 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G + LL+ + EI +AKRIE Sbjct: 80 EKLNPNDLSAPPG--------------VKINDPVRMYLKEIGRVNLLNAQEEIELAKRIE 125 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 126 QGDEIAKSRLAEANLRLVVSIAKR 149 >gi|260438482|ref|ZP_05792298.1| RNA polymerase sigma factor RpoD [Butyrivibrio crossotus DSM 2876] gi|292809071|gb|EFF68276.1| RNA polymerase sigma factor RpoD [Butyrivibrio crossotus DSM 2876] Length = 370 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 200/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 120 IELAKRMELGDEEAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+P+ Sbjct: 180 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPQ 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +PVE VR++LKI++EP+SLETPIG+E+ SHLGDFI+D N P ++A L+ Sbjct: 240 EIADEMDIPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPAEAAAFTLLK 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL++RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLNEVLGTLTEREQKVLKLRFGLEDGRARTLEEVGKVFNVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRS+KLR +L+ Sbjct: 360 SRSRKLRDYLE 370 Score = 45.8 bits (107), Expect = 0.025, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS + EI +AKR+E G L E+ L Sbjct: 96 SIEDPVRMYLKEIGKVPLLSADEEIELAKRMELGDEEAKKKLAEANL 142 >gi|302386569|ref|YP_003822391.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] gi|302197197|gb|ADL04768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] Length = 401 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ Sbjct: 150 IELAKKIELGDDDAKQRLTEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDY 209 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VR +R++ ++ REP PE Sbjct: 210 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRVSRQLLQELGREPVPE 269 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + M V+ VR+++K+++EP+SLETPIG+E+ SHLGDFI+D+ P D+A L Sbjct: 270 EIAARADMQVDRVREIMKVSQEPVSLETPIGEEEDSHLGDFIQDEQVAVPADAATFTMLH 329 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 330 EQLMEVLDTLTEREQKVLKLRFGLDDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHP 389 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 390 SRSKKLKDYLD 400 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 35/115 (30%), Positives = 60/115 (52%), Gaps = 7/115 (6%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--VDGDDLEDEEGSEDSLDLA 96 ++R + +E+ F + + S++++ L N ++V + G+DLE +E D Sbjct: 48 KKRNVLENQEILDFFVGENLDSDKLDQIFDFLENNKVDVLQIGGEDLELDE---DLFIEE 104 Query: 97 SSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ S S +DPVRMYL+E+G + LLS E EI +AK+IE G Sbjct: 105 DIEDEEEIDMESIDLSVPEGISVEDPVRMYLKEIGKVPLLSSEDEIELAKKIELG 159 >gi|56963455|ref|YP_175186.1| RNA polymerase sigma factor RpoD [Bacillus clausii KSM-K16] gi|56909698|dbj|BAD64225.1| DNA-directed RNA polymerase major sigma-43 factor sigma-A [Bacillus clausii KSM-K16] Length = 373 Score = 317 bits (813), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 163/305 (53%), Positives = 215/305 (70%), Gaps = 10/305 (3%) Query: 381 PHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVRK 436 P AKD E + + V +KI + ++ E G +S E + + + Sbjct: 75 PSLAQVAKDEEEFDLNDL---SVPPGIKINDPVRMYLKEIGRVPLLSAEEEIDLAKRIEQ 131 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA KK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KF Sbjct: 132 GDEEA---KKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYDKGFKF 188 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ REPTPEE+ K++ Sbjct: 189 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDYGREPTPEEVGKEM 248 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + VR++LKI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E V Sbjct: 249 DLSPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAAAYELLKEQLEDV 308 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L Sbjct: 309 LDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRL 368 Query: 677 RSFLD 681 + FLD Sbjct: 369 KDFLD 373 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 42/136 (30%), Positives = 67/136 (49%), Gaps = 8/136 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 D +++++ ++RG +T E+ + E S+QM++ L G+ +++ E Sbjct: 17 DQVKEQLVETGKKRGTLTYAEITEKMAAFEQDSDQMDEFYEYLGEQGVELLN-------E 69 Query: 88 GSEDSLDLASSASNSSVF-LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +D LA A + F L +DPVRMYL+E+G + LLS E EI +AKRI Sbjct: 70 SEDDVPSLAQVAKDEEEFDLNDLSVPPGIKINDPVRMYLKEIGRVPLLSAEEEIDLAKRI 129 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 130 EQGDEEAKKRLAEANL 145 >gi|322389216|ref|ZP_08062777.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 903] gi|321144121|gb|EFX39538.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 903] Length = 369 Score = 317 bits (813), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 368 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 32/131 (24%), Positives = 63/131 (48%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N + P + ++ ++D + + + GI++ D D Sbjct: 17 EFIRSHKKSGTATDDEINDQLVIPFTLDADGIDDLLQRIQDAGISITDKD-------GNP 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + ++ + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 70 SARVLTNEEEPELSDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDL 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|296876770|ref|ZP_06900818.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 15912] gi|296432272|gb|EFH18071.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus parasanguinis ATCC 15912] Length = 369 Score = 317 bits (813), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 368 Score = 44.3 bits (103), Expect = 0.062, Method: Compositional matrix adjust. Identities = 34/131 (25%), Positives = 63/131 (48%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q G T +E+N + P + ++ +ED + + + GI++ D D Sbjct: 17 EFIRSHKQSGAATDDEINDKLVIPFTLDADGIEDLLQRIQDAGISITDKD-------GNP 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + ++ + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 70 SARVLNNEEEPELSDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDL 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|257430984|ref|ZP_05607364.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 68-397] gi|257278414|gb|EEV09050.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp. aureus 68-397] Length = 342 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 67 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 126 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 127 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 186 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 187 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 246 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 247 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 306 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 307 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 342 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 39/128 (30%), Positives = 69/128 (53%), Gaps = 14/128 (10%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLD 94 +K +++G+++ EE+ L ++ S+QM+D L++ I++V+ D D + + D Sbjct: 1 MKKVKKKGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTDEKLNPSD 60 Query: 95 LASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMM 154 L++ +DPVRMYL+E+G + LLS + EI +AKRIE G + Sbjct: 61 LSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAK 106 Query: 155 ASLCESPL 162 + L E+ L Sbjct: 107 SRLAEANL 114 >gi|312867612|ref|ZP_07727818.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis F0405] gi|311096675|gb|EFQ54913.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis F0405] Length = 369 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 368 Score = 42.7 bits (99), Expect = 0.19, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 63/131 (48%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N + P + ++ +ED + + + GI++ D D Sbjct: 17 EFIRSHKKSGTATDDEINDQLVIPFTLDADGIEDLLQRIQDAGISITDKD-------GNP 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + ++ + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 70 SARVLNNEEEPELSDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDL 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|21910055|ref|NP_664323.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS315] gi|28896247|ref|NP_802597.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes SSI-1] gi|21904246|gb|AAM79126.1| putative RNA polymerase sigma 42 protein RpoD [Streptococcus pyogenes MGAS315] gi|28811498|dbj|BAC64430.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes SSI-1] Length = 369 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V KG+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKELAVAVAKGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 44.3 bits (103), Expect = 0.070, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEELKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANL 140 >gi|329769784|ref|ZP_08261185.1| RNA polymerase sigma factor rpoD [Gemella sanguinis M325] gi|328838146|gb|EGF87764.1| RNA polymerase sigma factor rpoD [Gemella sanguinis M325] Length = 362 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 150/244 (61%), Positives = 191/244 (78%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFS Sbjct: 119 EEEKEQAKKDLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYEKGFKFS 178 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I++++R R++ + REP PEEIAKK+ Sbjct: 179 TYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRVQRQLLQDLGREPKPEEIAKKMN 238 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M + VR++LKI +EP+SLETPIG+ED SHLGDFIEDK A SP++ A L+E +L Sbjct: 239 MTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDKEAQSPVEHAANELLKEQLEEIL 298 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT REE VL++RFG+ HTLEEVG F VTRERIRQIEAKAIRKLKHPS+ KL+ Sbjct: 299 ETLTDREENVLKLRFGLKDGKTHTLEEVGSAFGVTRERIRQIEAKAIRKLKHPSKLNKLK 358 Query: 678 SFLD 681 F++ Sbjct: 359 GFME 362 Score = 46.6 bits (109), Expect = 0.014, Method: Compositional matrix adjust. Identities = 36/118 (30%), Positives = 63/118 (53%), Gaps = 14/118 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K+ I+ +++G +T EE+ L +VSSE ++D L+ I +++ + + + Sbjct: 14 KEFIEKGKKQGELTQEEILDALSKLDVSSEAVDDFYEELNREDIILINANQV-------E 66 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + SV A T+DPVRMYL+E+G + LLS+E E+ ++K IE G Sbjct: 67 EEEEELDLEDLSV-------PAGIRTNDPVRMYLKEIGKVPLLSKEKELELSKIIENG 117 >gi|294501280|ref|YP_003564980.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551] gi|295706627|ref|YP_003599702.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319] gi|294351217|gb|ADE71546.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551] gi|294804286|gb|ADF41352.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319] Length = 377 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E ++ + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 108 VRMYLKEIGRVDLLSAEEEINLAKRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 164 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 165 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 224 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEIA+ + + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 225 INKLIRVQRQLLQDLGREPSPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 284 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 285 GDFIEDQDATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 344 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 345 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 61.6 bits (148), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 42/139 (30%), Positives = 69/139 (49%), Gaps = 3/139 (2%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++ ++ ++RG +T EE+ + E+ S+QM++ L G+ V+ + D++ D Sbjct: 23 QLTEIGKKRGVLTYEEIAERMANFEIESDQMDEYYEYLGEQGVEVMSESEANDDDADPDI 82 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L+ L +DPVRMYL+E+G ++LLS E EI +AKRIE G Sbjct: 83 QELSKEEEFD---LNDLSVPPGVKINDPVRMYLKEIGRVDLLSAEEEINLAKRIEEGDEE 139 Query: 153 MMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 140 AKRRLAEANLRLVVSIAKR 158 >gi|319947289|ref|ZP_08021522.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus australis ATCC 700641] gi|319746531|gb|EFV98791.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus australis ATCC 700641] Length = 370 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLTNEEEQELAILVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 41.2 bits (95), Expect = 0.56, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N + P + ++ ++D + + + GI++ D +EG+ Sbjct: 17 EFIRSHKKSGTATDDEINDQLVIPFTLDADGIDDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 71 ARVLNTEEEEPELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|239827752|ref|YP_002950376.1| RNA polymerase sigma factor RpoD [Geobacillus sp. WCH70] gi|239808045|gb|ACS25110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp. WCH70] Length = 374 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 105 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEA---KRRLTEANLRLVVSIAKRYVGRGM 161 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 162 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 221 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 222 INKLIRVQRQLLQDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 281 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 282 GDFIEDQEATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 341 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 342 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 16/136 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE---- 87 +++ +L ++RG +T EE+ L ++ S+QM++ L++ GI V+ DL+ + Sbjct: 22 EQLTELGKKRGILTYEEIAERLSGFDLDSDQMDEFYEYLADQGIEVISESDLDADPDIDD 81 Query: 88 -GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E+ DL + V +DPVRMYL+E+G + LLS E EI +AKRI Sbjct: 82 LSKEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVPLLSAEEEIELAKRI 130 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 131 EQGDEEAKRRLTEANL 146 >gi|15674827|ref|NP_269001.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes M1 GAS] gi|50913963|ref|YP_059935.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10394] gi|71903245|ref|YP_280048.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS6180] gi|71910413|ref|YP_281963.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS5005] gi|94988285|ref|YP_596386.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS9429] gi|94990164|ref|YP_598264.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10270] gi|94992161|ref|YP_600260.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS2096] gi|94994083|ref|YP_602181.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS10750] gi|139474032|ref|YP_001128748.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes str. Manfredo] gi|209559154|ref|YP_002285626.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NZ131] gi|306827613|ref|ZP_07460893.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pyogenes ATCC 10782] gi|13621959|gb|AAK33722.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes M1 GAS] gi|50903037|gb|AAT86752.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10394] gi|71802340|gb|AAX71693.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS6180] gi|71853195|gb|AAZ51218.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS5005] gi|94541793|gb|ABF31842.1| RNA polymerase sigma factor [Streptococcus pyogenes MGAS9429] gi|94543672|gb|ABF33720.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10270] gi|94545669|gb|ABF35716.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS2096] gi|94547591|gb|ABF37637.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes MGAS10750] gi|134272279|emb|CAM30532.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes str. Manfredo] gi|209540355|gb|ACI60931.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NZ131] gi|304430176|gb|EFM33205.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pyogenes ATCC 10782] Length = 369 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V KG+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKELAVAVAKGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 44.7 bits (104), Expect = 0.050, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANL 140 >gi|19745866|ref|NP_607002.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS8232] gi|19748016|gb|AAL97501.1| putative RNA polymerase sigma 42 protein [Streptococcus pyogenes MGAS8232] Length = 369 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V KG+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKELAVAVAKGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 44.7 bits (104), Expect = 0.055, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAKGDLMAKQRLAEANL 140 >gi|3062909|dbj|BAA25730.1| SigA [Bacillus sp.] Length = 372 Score = 317 bits (812), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 208/273 (76%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLTAEEEIELATRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEE+A+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVQRQLLQDVGREPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 41/139 (29%), Positives = 70/139 (50%), Gaps = 15/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----L 83 D +++++L ++RG +T E+ L P + S+QM++ L G+ +++ ++ L Sbjct: 17 DQVKEQLVELGKKRGVLTYAEITEKLAPYDQDSDQMDEFFEYLGEQGVEILNDNEEVPSL 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + E E+ DL + V +DPVRMYL+E+G + LL+ E EI +A Sbjct: 77 QQVEKEEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVPLLTAEEEIELA 125 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 126 TRIEQGDEEAKRRLAEANL 144 >gi|89895793|ref|YP_519280.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense Y51] gi|89335241|dbj|BAE84836.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 367 Score = 317 bits (812), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 130 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA ++ + VE V Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERV 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 250 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPR 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 310 EEKVLRLRFGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 367 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 41/142 (28%), Positives = 73/142 (51%), Gaps = 14/142 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D+ K++I+ +++G +T E+ L E+++EQ+++ + MGI+++ E G Sbjct: 4 DAVKELIQKGKKKGSLTYREIMDTLQGIELTAEQIDEVYEQIGRMGIDIIP------EAG 57 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADR--------STDDPVRMYLREMGSIELLSREGEI 140 ++L+ + V ++ D DDPVRMYL+E+G + LL+ E EI Sbjct: 58 EVEALEKVTDEIPDDVDDPDVEEEVDVDLSIPEGVGIDDPVRMYLKEIGRVPLLTAEEEI 117 Query: 141 AIAKRIEAGRAMMMASLCESPL 162 +AKR+E G L E+ L Sbjct: 118 ELAKRMEQGDESAKRRLAEANL 139 >gi|219670224|ref|YP_002460659.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense DCB-2] gi|219540484|gb|ACL22223.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfitobacterium hafniense DCB-2] Length = 372 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIA ++ + VE V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 255 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 315 EEKVLRLRFGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 372 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 41/142 (28%), Positives = 73/142 (51%), Gaps = 14/142 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D+ K++I+ +++G +T E+ L E+++EQ+++ + MGI+++ E G Sbjct: 9 DAVKELIQKGKKKGSLTYREIMDTLQGIELTAEQIDEVYEQIGRMGIDIIP------EAG 62 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADR--------STDDPVRMYLREMGSIELLSREGEI 140 ++L+ + V ++ D DDPVRMYL+E+G + LL+ E EI Sbjct: 63 EVEALEKVTDEIPDDVDDPDVEEEVDVDLSIPEGVGIDDPVRMYLKEIGRVPLLTAEEEI 122 Query: 141 AIAKRIEAGRAMMMASLCESPL 162 +AKR+E G L E+ L Sbjct: 123 ELAKRMEQGDESAKRRLAEANL 144 >gi|329733136|gb|EGG69473.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp. aureus 21193] Length = 314 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 153/276 (55%), Positives = 206/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 39 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 98 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 99 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 158 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 159 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 218 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 219 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 278 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 279 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 314 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 23/45 (51%), Positives = 32/45 (71%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS + EI +AKRIE G + + L E+ L Sbjct: 42 NDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANL 86 >gi|319892618|ref|YP_004149493.1| RNA polymerase sigma factor RpoD [Staphylococcus pseudintermedius HKU10-03] gi|317162314|gb|ADV05857.1| RNA polymerase sigma factor RpoD [Staphylococcus pseudintermedius HKU10-03] gi|323464344|gb|ADX76497.1| RNA polymerase sigma factor SigA [Staphylococcus pseudintermedius ED99] Length = 369 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 194/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E +AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 119 IELAKRIEQGDEVAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDF 178 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 179 SKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPE 238 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+ Sbjct: 239 EIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLK 298 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 299 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 358 Query: 671 SRSKKLRSFLD 681 SRSK+L+ F+D Sbjct: 359 SRSKRLKDFMD 369 Score = 61.2 bits (147), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 78/144 (54%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L ++ S+QM++ M+++ I +++ D D Sbjct: 21 EDVKKQLIEKGKKEGHLSHEEVADKLQNFDMDSDQMDEFFDMINDNDIQLINEKDSSD-- 78 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++D L+ ++ V +DPVRMYL+E+G ++LLS + EI +AKRIE Sbjct: 79 -TDDKLNPNDLSAPPGV-----------KINDPVRMYLKEIGRVDLLSAQEEIELAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + A L E+ L I R Sbjct: 127 QGDEVAKARLAEANLRLVVSIAKR 150 >gi|184155321|ref|YP_001843661.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956] gi|227514580|ref|ZP_03944629.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus fermentum ATCC 14931] gi|260662165|ref|ZP_05863061.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN] gi|183226665|dbj|BAG27181.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956] gi|227086991|gb|EEI22303.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus fermentum ATCC 14931] gi|260553548|gb|EEX26440.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN] Length = 380 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 143 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 202 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ M + V Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMDTQKV 262 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LKI++EP+SLETPIG+ED SHLGDFIED +A SP D A +++ VL +LT R Sbjct: 263 RDILKISQEPVSLETPIGEEDDSHLGDFIEDHDATSPADHAAYEMMKKQLENVLDTLTDR 322 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 323 EENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 380 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 34/108 (31%), Positives = 57/108 (52%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P ++++ M+ + + + G++VVD E G D L ++ SS L+ + Sbjct: 51 PFGLNADGMDALLQNVEDAGVSVVD------ENGDPDLRALKATEKLSSKALKDTTAPSS 104 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E+A+A RIE G L E+ L Sbjct: 105 IKINDPVRMYLKEIGRVNLLTADEEVALALRIEKGDETAKQELAEANL 152 >gi|322373396|ref|ZP_08047932.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150] gi|321278438|gb|EFX55507.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150] Length = 369 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSNEEEKELAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMGMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFIE 368 Score = 41.2 bits (95), Expect = 0.56, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++ ++D + L++ GI++ D D G+ S + + + ++ S Sbjct: 39 PFVLDADGIDDLLERLTDGGISITDKD------GNPSSKYVVEAPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A +E G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSNEEEKELAIAVENGDLEAKQRLAEANL 140 >gi|212638699|ref|YP_002315219.1| RNA polymerase sigma factor RpoD [Anoxybacillus flavithermus WK1] gi|212560179|gb|ACJ33234.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Anoxybacillus flavithermus WK1] Length = 372 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVQRQLLQDLGREPSPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 58.2 bits (139), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 45/137 (32%), Positives = 68/137 (49%), Gaps = 15/137 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++++L ++RG +T EE+ L ++ S+QM++ L+ GI VV G D Sbjct: 17 EQLVELGKKRGVLTYEEIAERLSSFDLDSDQMDEYYEYLNEQGIEVV---------GESD 67 Query: 92 SLDLASSASNSSVFLQKRKDSADRST------DDPVRMYLREMGSIELLSREGEIAIAKR 145 D + + D D S +DPVRMYL+E+G + LLS E EI +AKR Sbjct: 68 LDDTDLDDPDFDDLKDEEFDLNDLSVPPGVKINDPVRMYLKEIGRVPLLSAEEEIELAKR 127 Query: 146 IEAGRAMMMASLCESPL 162 IE G L E+ L Sbjct: 128 IEQGDEEAKRRLAEANL 144 >gi|297617785|ref|YP_003702944.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297145622|gb|ADI02379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 361 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 124 AKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLMKAVEKFDYRKGYKFSTYATWW 183 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R + K+ REPTP E+A+++ +PVE V Sbjct: 184 IRQAITRAIADQARTIRIPVHMVETINKLSRIQRALLQKLGREPTPAEVAEEMDIPVERV 243 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++K+ +EP+SLETPIG+ED SHLGDFI D++A SP +SA LRE +L++LT R Sbjct: 244 MEIMKVAQEPVSLETPIGEEDDSHLGDFITDEDAESPEESASFVLLREHLDGILSTLTDR 303 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +++ Sbjct: 304 EEKVLRLRFGLDDGRPRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYIE 361 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 44/134 (32%), Positives = 69/134 (51%), Gaps = 8/134 (5%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 +++ +T +E++ L ++ ++Q+ED L MGI V GD ++ E E ++ Sbjct: 17 GKKKKNLTYDEISDDLQGIKLEADQIEDIYEHLQAMGIRV--GDSTDEFEVEETPVE-GE 73 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 +A V + + + DDPVRMYL+E+G + LLS E EI +AKRIE G L Sbjct: 74 AAETEDVLVPEGVE-----IDDPVRMYLKEIGRVPLLSAEEEIELAKRIENGDEDAKRKL 128 Query: 158 CESPLTFQALIIWR 171 E+ L I R Sbjct: 129 VEANLRLVVSIAKR 142 >gi|444799|prf||1908232B RNA polymerase:SUBUNIT=sigma factor Length = 340 Score = 317 bits (811), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 158/272 (58%), Positives = 200/272 (73%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I IS+ E + + G A AK+ + EANLRLV+S+AK+Y+ RG Sbjct: 69 VRMYLKEIGRYPLISLDEETKLAEAIIAGGEGAEFAKQMLAEANLRLVVSIAKRYSGRGN 128 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 129 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 188 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R + ++ R+P+PEEI K+L M + VR+VLKI +EP+SLETPIG+ED SHL Sbjct: 189 INKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEEDDSHL 248 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED SP+D + LRE V+ +LT REE VLRMRFG+ HTLE+VGKQ Sbjct: 249 GDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQ 308 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIEAKAI+KL+HP RSK LR F+ Sbjct: 309 FKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 340 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 26/103 (25%) Query: 58 VSSEQMEDTVAMLSNMGINVVD-----------GDDLEDEEGSEDSLDLASSASNSSVFL 106 + + +ED + + GI++VD D++E EE S+ ++D +N + Sbjct: 10 IVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMD--EIVTNVRI-- 65 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVRMYL+E+G L+S + E +A+ I AG Sbjct: 66 -----------DDPVRMYLKEIGRYPLISLDEETKLAEAIIAG 97 >gi|329117418|ref|ZP_08246135.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis NCFD 2020] gi|326907823|gb|EGE54737.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis NCFD 2020] Length = 369 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTGEEEKELAVAVDEGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 41.2 bits (95), Expect = 0.64, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFVLDADQIDDLLERLTDGGISITD------KEGNPSSKYVVEEPKPEELTDEQLIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A ++ G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTGEEEKELAVAVDEGDLEAKQRLAEANL 140 >gi|15613939|ref|NP_242242.1| RNA polymerase sigma factor RpoD [Bacillus halodurans C-125] gi|12643264|sp|O66381|RPOD_BACHD RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43; AltName: Full=Sigma-A gi|10173992|dbj|BAB05095.1| RNA polymerase major sigma factor [Bacillus halodurans C-125] Length = 372 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 208/273 (76%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLTAEEEIELATRIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEE+A+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 41/139 (29%), Positives = 70/139 (50%), Gaps = 15/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----L 83 D +++++L ++RG +T E+ L P + S+QM++ L G+ +++ ++ L Sbjct: 17 DQVKEQLVELGKKRGVLTYAEITEKLAPYDQDSDQMDEFFEYLGEQGVEILNDNEEVPSL 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + E E+ DL + V +DPVRMYL+E+G + LL+ E EI +A Sbjct: 77 QQVEKEEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVPLLTAEEEIELA 125 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 126 TRIEQGDEEAKRRLAEANL 144 >gi|262282856|ref|ZP_06060623.1| RNA polymerase sigma factor RpoD [Streptococcus sp. 2_1_36FAA] gi|262261108|gb|EEY79807.1| RNA polymerase sigma factor RpoD [Streptococcus sp. 2_1_36FAA] Length = 370 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLTNEEEQELAILVEQGDTEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 43.9 bits (102), Expect = 0.094, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKKTGTAIDDEINDKLIIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 71 ARVLHNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDT 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|157151547|ref|YP_001450555.1| RNA polymerase sigma factor RpoD [Streptococcus gordonii str. Challis substr. CH1] gi|157076341|gb|ABV11024.1| RNA polymerase sigma factor [Streptococcus gordonii str. Challis substr. CH1] Length = 370 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLTNEEEQELAILVEQGDTEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 45.4 bits (106), Expect = 0.029, Method: Compositional matrix adjust. Identities = 34/131 (25%), Positives = 66/131 (50%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G V +E+N + P + ++ +ED + + + GI++ D +EG+ Sbjct: 17 EFIRNHKKAGTVIDDEINDKLIIPFTLDADGIEDLLQRIQDAGISITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + + + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 71 ARVLHNEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAILVEQGDT 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|255525304|ref|ZP_05392244.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium carboxidivorans P7] gi|296188172|ref|ZP_06856564.1| RNA polymerase sigma factor RpoD [Clostridium carboxidivorans P7] gi|255510976|gb|EET87276.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium carboxidivorans P7] gi|296047298|gb|EFG86740.1| RNA polymerase sigma factor RpoD [Clostridium carboxidivorans P7] Length = 361 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 202/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ ++ E IAKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 111 ISLAQRIENGDQIAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 171 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 231 EVAKIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 291 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 351 SRSKKLKDYLD 361 Score = 64.7 bits (156), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 71/131 (54%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I+ ++ G +T +E+ L ++S EQ+E +L +MGI V D+++ E E Sbjct: 19 KRLIEKGKKTGTLTYKEIMDELDEVDLSPEQIEKIYEVLESMGIEV--AGDIQEVEVDEK 76 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL+ + DDPVRMYL+E+G + LL+ E EI++A+RIE G Sbjct: 77 DLDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLAPEEEISLAQRIENGDQ 122 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 123 IAKKKLAEANL 133 >gi|315223009|ref|ZP_07864888.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus F0211] gi|319939161|ref|ZP_08013525.1| RNA polymerase sigma factor rpoD [Streptococcus anginosus 1_2_62CV] gi|315187959|gb|EFU21695.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus F0211] gi|319812211|gb|EFW08477.1| RNA polymerase sigma factor rpoD [Streptococcus anginosus 1_2_62CV] Length = 370 Score = 317 bits (811), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + +V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 100 VRMYLKEIGVVPLLTNEEEQELAVLVEQGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 156 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 157 QFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 216 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 217 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 276 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 277 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 336 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 337 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 369 Score = 40.8 bits (94), Expect = 0.71, Method: Compositional matrix adjust. Identities = 34/131 (25%), Positives = 64/131 (48%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N + P + ++ +ED + + + GI + D +EG+ Sbjct: 17 EFIRNHKKTGTATDDEINDRLVIPFTLEADGIEDLLQRIQDAGIAITD------KEGNPS 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L + + + ++ S +DPVRMYL+E+G + LL+ E E +A +E G Sbjct: 71 ERVLNTEEEEAELTDEELLGSNSAKVNDPVRMYLKEIGVVPLLTNEEEQELAVLVEQGDL 130 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 131 EAKQRLAEANL 141 >gi|152976724|ref|YP_001376241.1| RNA polymerase sigma factor RpoD [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025476|gb|ABS23246.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus cytotoxicus NVH 391-98] Length = 373 Score = 316 bits (810), Expect = 7e-84, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIQLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPTPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 45/139 (32%), Positives = 70/139 (50%), Gaps = 23/139 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ SEQM++ L GI++V +D EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESEQMDEYYEYLGEQGIDLVGDND----EGPNN 77 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 78 HQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIQLA 126 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 127 TRIEEGDEEAKRRLAEANL 145 >gi|317128328|ref|YP_004094610.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus cellulosilyticus DSM 2522] gi|315473276|gb|ADU29879.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus cellulosilyticus DSM 2522] Length = 372 Score = 316 bits (810), Expect = 7e-84, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S SE + + G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLSASEEIDLAKKIEDGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEE++K++ + + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVQRQLLQDLGREPSPEEVSKEMDLTPDKVREILKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIEDQEALAPSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 38/139 (27%), Positives = 68/139 (48%), Gaps = 15/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----L 83 D +++++ ++RG +T E+ L + S+QM++ L G+ +++ + L Sbjct: 17 DQVKEQLLEAGKKRGVLTYAEITERLAVFDQDSDQMDEFFEFLGEQGVEILNETEGVPSL 76 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + E E+ +DL + + +DPVRMYL+E+G + LLS EI +A Sbjct: 77 QQVEKEEEEIDLNDLSVPPGI-----------KINDPVRMYLKEIGRVPLLSASEEIDLA 125 Query: 144 KRIEAGRAMMMASLCESPL 162 K+IE G L E+ L Sbjct: 126 KKIEDGDEEAKRRLAEANL 144 >gi|289548873|ref|YP_003473861.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermocrinis albus DSM 14484] gi|289182490|gb|ADC89734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermocrinis albus DSM 14484] Length = 568 Score = 316 bits (810), Expect = 7e-84, Method: Compositional matrix adjust. Identities = 146/276 (52%), Positives = 207/276 (75%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 + L +R E++ + E GI E ++ ++++G + + AK+ MV+ NLRLV+S+AKKY Sbjct: 291 NEYLALRKEVEELRREMGILPEEIGRVIQIIKEGRTKVTQAKQVMVKCNLRLVVSIAKKY 350 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 NRGL FLDLIQEGNIGLMKA +K+D+ GYKFSTYA WW++QAITR+IADQ+ TIRIPV Sbjct: 351 VNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 410 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+ + + ++++ ++ REPT EEIAK L +PV+ RKV+++ +EPISLETPIGD+ Sbjct: 411 HMIETINDITKAHKKLTQELGREPTAEEIAKYLGIPVDKARKVMRMAQEPISLETPIGDD 470 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + +HL DFIEDK+ SP + + LRE +VL++L +E +L R+G+ T++TLE Sbjct: 471 EDAHLKDFIEDKSVPSPEEQVTRKLLREQLIKVLSTLGEKEREILMYRYGLVDGTEYTLE 530 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++G+ F VTRERIRQIE KAIRKL+HP+RSK L+ F Sbjct: 531 QIGRMFNVTRERIRQIETKAIRKLRHPARSKYLKDF 566 Score = 67.0 bits (162), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 56/156 (35%), Positives = 82/156 (52%), Gaps = 16/156 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK++ L ++GYVT +ELN L + +E E+ + L GI +V+ +E+ E Sbjct: 8 KKLMSLG-EKGYVTYDELNEALGDSLMDTELYEEIMDFLQERGIKLVE----SEEDREER 62 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L SA + LQ KD DPVR+Y+REMG I LL+RE EI AK+IE GR Sbjct: 63 DEHLMVSADH---LLQSSKDG------DPVRLYMREMGKIPLLTREEEIKYAKQIEMGRK 113 Query: 152 MMMASLCESPLTF-QALIIWRDELNDGTTLLREIID 186 +M L + + L W + N G +++I+D Sbjct: 114 IMRRGLLRTSFLIDRVLKDWANVCN-GKLRVQDIVD 148 >gi|89100479|ref|ZP_01173341.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911] gi|89084822|gb|EAR63961.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911] Length = 374 Score = 316 bits (810), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 155/276 (56%), Positives = 207/276 (75%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G + + + +S+ ++ E AK+ + EANLRLV+S+AK+Y Sbjct: 99 VKINDPVRMYLKEIGRVDLLSAQEEISLAKRIEEGDEEAKRRLAEANLRLVVSIAKRYVG 158 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 159 RGMLFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 218 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEIA+ + + + VR++LKI +EP+SLETPIG+ED Sbjct: 219 VETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDD 278 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED++A SP + A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 279 SHLGDFIEDQDATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 338 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 339 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 39/136 (28%), Positives = 71/136 (52%), Gaps = 16/136 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDD----LEDE 86 +++ ++ ++ G + +++ L E+ S+QM++ L + G+ +V D DD +++ Sbjct: 22 EQLTEVGKKTGVLAYDDIAERLSNFELDSDQMDEFYEFLGDQGVELVGDNDDADPNVQEL 81 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E+ DL + V +DPVRMYL+E+G ++LLS + EI++AKRI Sbjct: 82 AKGEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAQEEISLAKRI 130 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 131 EEGDEEAKRRLAEANL 146 >gi|24379277|ref|NP_721232.1| RNA polymerase sigma factor RpoD [Streptococcus mutans UA159] gi|290580718|ref|YP_003485110.1| DNA-dependent RNA polymerase sigma subunit [Streptococcus mutans NN2025] gi|18202024|sp|O33662|RPOD_STRMU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-42 gi|24377195|gb|AAN58538.1|AE014923_2 DNA-dependent RNA polymerase sigma subunit; major sigma factor (sigma 70/42) [Streptococcus mutans UA159] gi|2258087|dbj|BAA21507.1| sigma 42 protein [Streptococcus mutans] gi|254997617|dbj|BAH88218.1| DNA-dependent RNA polymerase sigma subunit [Streptococcus mutans NN2025] Length = 371 Score = 316 bits (810), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 101 VRMYLKEIGVVPLLTNEEEKELAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 157 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 158 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 217 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 218 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 277 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 278 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 337 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 338 FDVTRERIRQIEAKALRKLRHPSRSKQLRDFVE 370 Score = 44.3 bits (103), Expect = 0.066, Method: Compositional matrix adjust. Identities = 31/108 (28%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P E+ +EQ++D + L++ GI++ D EG+ + + ++ S Sbjct: 41 PFELEAEQIDDLLERLTDGGISITD------REGNPSTKYAVEEIKPEELTDEELLGSNS 94 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A +E G L E+ L Sbjct: 95 AKVNDPVRMYLKEIGVVPLLTNEEEKELAIAVENGDLEAKQRLAEANL 142 >gi|326791438|ref|YP_004309259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] gi|326542202|gb|ADZ84061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium lentocellum DSM 5427] Length = 363 Score = 316 bits (810), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK++ MPV V Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLMRVSRQLLQELGRDPQPEEIAKRMDMPVSKV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI++EP+SLETPIG+E+ SHLGDFI D++ P ++A L+E VL +LT R Sbjct: 246 REIMKISQEPVSLETPIGEEEDSHLGDFIPDEDIPVPAEAAAFTLLKEQLIEVLDTLTER 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 306 EQKVLRLRFGLDDGRARTLEEVGKEFSVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 363 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 66/131 (50%), Gaps = 16/131 (12%) Query: 33 KMIKLAR-QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 ++I +A+ ++G + E++N ++ ++E L I+V+ +L D E + Sbjct: 20 QLINIAKDKKGMLDQEDINDVFSDMDLEPSKIEQIYEYLEAQNIDVIG--NLNDAEIDDV 77 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL++ S+ DDPVRMYL+E+G + LLS E EI +A+R++ G Sbjct: 78 DIDLSNLPDGISI-------------DDPVRMYLKEIGKVPLLSAEQEIILAQRMQDGDQ 124 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 125 EAKKKLAEANL 135 >gi|225163701|ref|ZP_03726004.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] gi|224801692|gb|EEG19985.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] Length = 631 Score = 316 bits (810), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 156/277 (56%), Positives = 204/277 (73%), Gaps = 6/277 (2%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGEC---EASIAKKEMVEANLRLVISVAKKYTN 465 I ++ I VE I E ++ +VRK EA AK EMVEANLRLVIS+AKKYTN Sbjct: 297 IHARLREIEVEQRI---EPAQLIEVVRKTNVHIREAHQAKTEMVEANLRLVISIAKKYTN 353 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 354 RGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 413 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + ++KV++ +++ + EPTPEE+A ++ +PVE V++++K+ ++PISL++P+GD D Sbjct: 414 IETLNKVMQVQKQLLQEFGHEPTPEEVADEMNLPVERVQQIMKMAQQPISLQSPVGDGDD 473 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 + GDFIEDK+A +P D + LRE VL SLT RE +VL +RFG+ TLEEV Sbjct: 474 TSFGDFIEDKSAENPYDMTAYSLLREKIIDVLDSLTERERKVLSLRFGLVDGYSRTLEEV 533 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GKQF VTRERIRQIEAKA+RK++HP+R ++L F D Sbjct: 534 GKQFKVTRERIRQIEAKALRKMRHPTRIRQLHGFFDA 570 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 47/155 (30%), Positives = 89/155 (57%), Gaps = 19/155 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED-E 86 ++ + +I+L++++GY+T +++N LP + E++++ +++L N+ I +++ D +ED + Sbjct: 38 NEKIRNLIRLSKEQGYLTFDDINEALPESVENQEEIDNVLSILQNLEIEILEPDQVEDYK 97 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + E+ + S SN+ + DDPVRMYL++MG + LL+RE E+ I+KRI Sbjct: 98 QRQEEQEEEESRTSNNDIL------------DDPVRMYLKQMGQVPLLTREQEVEISKRI 145 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLL 181 E + +L F+A I+ R G LL Sbjct: 146 ETAESKAQEAL------FEASIVGRHIATLGAKLL 174 >gi|320547037|ref|ZP_08041336.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus equinus ATCC 9812] gi|320448322|gb|EFW89066.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus equinus ATCC 9812] Length = 369 Score = 316 bits (809), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSSEEEKELAVAVAAGDLQA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMSPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 43.9 bits (102), Expect = 0.086, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFSLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEEPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A + AG L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSSEEEKELAVAVAAGDLQAKQRLAEANL 140 >gi|171779914|ref|ZP_02920818.1| hypothetical protein STRINF_01701 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171281262|gb|EDT46697.1| hypothetical protein STRINF_01701 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 369 Score = 316 bits (809), Expect = 8e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSSEEEKELAVAVAAGDLQA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 42.7 bits (99), Expect = 0.18, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ + Sbjct: 39 PFSLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEEPKPEELTDEELLGNNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A + AG L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSSEEEKELAVAVAAGDLQAKQRLAEANL 140 >gi|297544972|ref|YP_003677274.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842747|gb|ADH61263.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 357 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 120 AKKRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEE+AK++ MP E V Sbjct: 180 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEELAKEMGMPEEKV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 240 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAFTMLKEQLMDVLDTLTPR 299 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 300 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 357 Score = 66.2 bits (160), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 47/138 (34%), Positives = 71/138 (51%), Gaps = 13/138 (9%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + S D+ ++I ++ G +T E+ L +++ +Q+E +MGI +V G++ Sbjct: 5 ELSKDAITELINKGKKTGMLTYNEIMDSLEDIDLNPDQIEKVYDAFEDMGIEIV-GEEPR 63 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE +E+ LDL S S DDPVRMYL+E+G I LL+ E EI +AK Sbjct: 64 QEEINEEDLDLDLSLPEGI------------SIDDPVRMYLKEIGKIPLLTPEEEIELAK 111 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 112 RIEQGDEEAKKRLIEANL 129 >gi|300087894|ref|YP_003758416.1| RNA polymerase sigma 70 subunit RpoD subfamily [Dehalogenimonas lykanthroporepellens BL-DC-9] gi|299527627|gb|ADJ26095.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalogenimonas lykanthroporepellens BL-DC-9] Length = 502 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 146/244 (59%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E+ A++ +++ANLRLV+SVAKK+ RG+ LDLIQEGNIGL++A EKFD+ G+KFS Sbjct: 259 EIESGKAERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFS 318 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++ +R MS K+ REPTP+EIA ++ Sbjct: 319 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLLSISRSMSQKLGREPTPDEIAAEME 378 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E VR++ K+++ P+SLE+PIG+E+ SHLGDFIED+NA+ P D+A + L+E VL Sbjct: 379 LPPEKVREIAKVSQLPVSLESPIGEEEDSHLGDFIEDQNALPPPDAASRQLLKEQIDNVL 438 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SLTPRE RVL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP+RS+KL+ Sbjct: 439 DSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPTRSRKLK 498 Query: 678 SFLD 681 +L+ Sbjct: 499 DYLE 502 Score = 43.9 bits (102), Expect = 0.080, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 26/34 (76%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DDPVRMYL E+G + LL+ E E +AK++EAG+ Sbjct: 79 VDDPVRMYLHEIGRVPLLNAETEKMLAKKMEAGK 112 >gi|163781693|ref|ZP_02176693.1| RNA polymerase sigma factor RpoD [Hydrogenivirga sp. 128-5-R1-1] gi|159882913|gb|EDP76417.1| RNA polymerase sigma factor RpoD [Hydrogenivirga sp. 128-5-R1-1] Length = 571 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 148/277 (53%), Positives = 209/277 (75%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 V + ++ E++ + E G+ E + ++ ++ +G + AK+ M+++NLRLV+S+AKK Sbjct: 293 VSEYVSLKREVEKLRNEIGVIPEEIKRVMGIIEQGRKKVVKAKQVMIQSNLRLVVSIAKK 352 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y NRGL FLDLIQEGNIGLMKA +K+D+ GYKFSTYA WW++QAITR+IADQ+ TIRIP Sbjct: 353 YVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP 412 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+++++ ++R+ ++ REPTPEEIAK L M + VRKVL+ +EPISLETPIGD Sbjct: 413 VHMIETINRIIKASKRLFQELGREPTPEEIAKHLGMTPDKVRKVLRSAQEPISLETPIGD 472 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ + L DFIEDK+ +P + + LRE RVL +L+ +E +LR R+G+ T++TL Sbjct: 473 DEDTFLKDFIEDKSVPNPEEYVSRKLLREQLERVLETLSDKEREILRYRYGLVDGTEYTL 532 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+VGK F VTRERIRQIE+KAIRKL+HPSR+K L+ F Sbjct: 533 EQVGKMFNVTRERIRQIESKAIRKLRHPSRAKYLKDF 569 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 54/159 (33%), Positives = 91/159 (57%), Gaps = 11/159 (6%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 +S + ++++ +++G+VT +E+N L D VSS+ E+ + L+N I VV+ + ED E Sbjct: 5 ESLRHLVEIGKEKGFVTYDEVNEVLEEDFVSSDSFEELIDTLANFNIQVVESE--EDYE- 61 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +DSLD ++ S + + DPV++YL+EMG I LL+R+ EI AK+IE Sbjct: 62 EKDSLDELVVSTESFTVMGR--------DGDPVKLYLKEMGKIPLLTRQQEIHYAKQIEI 113 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 GR +M L S + L+ +L +G + +I+DL Sbjct: 114 GRKIMRRGLLRSSFLVEKLLQDWGKLCNGKLKIGDIMDL 152 >gi|57234646|ref|YP_181295.1| RNA polymerase sigma factor RpoD [Dehalococcoides ethenogenes 195] gi|57225094|gb|AAW40151.1| RNA polymerase sigma factor RpoD [Dehalococcoides ethenogenes 195] Length = 520 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 146/244 (59%), Positives = 200/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A A++ +++ANLRLV+SVAKK+ RG+ LDLIQEGNIGL++A EKFD+ G+KFS Sbjct: 277 EIDAKRAERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFS 336 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++ +R++S K+ REPTP+EIA ++ Sbjct: 337 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIAVEMD 396 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E VR++ K+++ P+SLE+PIG+E+ SHLGDFIED+NA++P D+A + L+E VL Sbjct: 397 LPPEKVREIAKVSQLPVSLESPIGEEEDSHLGDFIEDQNALAPPDAASRQLLKEQIDTVL 456 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SLTPRE RVL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ Sbjct: 457 GSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLK 516 Query: 678 SFLD 681 +L+ Sbjct: 517 DYLE 520 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 25/34 (73%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DDPVRMYL E+G + LLS E E +AK++E G+ Sbjct: 97 VDDPVRMYLHEIGRVPLLSAEDEKTLAKKMEEGK 130 >gi|167037157|ref|YP_001664735.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167039957|ref|YP_001662942.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter sp. X514] gi|256751255|ref|ZP_05492135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus CCSD1] gi|300915505|ref|ZP_07132817.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X561] gi|307266219|ref|ZP_07547761.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307724719|ref|YP_003904470.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermoanaerobacter sp. X513] gi|320115576|ref|YP_004185735.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|326390577|ref|ZP_08212133.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus JW 200] gi|166854197|gb|ABY92606.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermoanaerobacter sp. X514] gi|166855991|gb|ABY94399.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256749810|gb|EEU62834.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus CCSD1] gi|300888457|gb|EFK83607.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X561] gi|306918749|gb|EFN48981.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307581780|gb|ADN55179.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter sp. X513] gi|319928667|gb|ADV79352.1| RNA polymerase sigma factor RpoD [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|325993402|gb|EGD51838.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter ethanolicus JW 200] Length = 357 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 120 AKKRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEE+AK++ MP E V Sbjct: 180 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEELAKEMGMPEEKV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 240 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAFTMLKEQLMDVLDTLTPR 299 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 300 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 357 Score = 64.3 bits (155), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 46/138 (33%), Positives = 71/138 (51%), Gaps = 13/138 (9%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + S ++ ++I ++ G +T E+ L +++ +Q+E +MGI +V G++ Sbjct: 5 ELSKEAITELINKGKKTGMLTYNEIMDSLEDIDLNPDQIEKVYDAFEDMGIEIV-GEEPR 63 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE +E+ LDL S S DDPVRMYL+E+G I LL+ E EI +AK Sbjct: 64 QEEITEEDLDLDLSLPEGI------------SIDDPVRMYLKEIGKIPLLTPEEEIELAK 111 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 112 RIEQGDEEAKKRLIEANL 129 >gi|55823393|ref|YP_141834.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus CNRZ1066] gi|116628187|ref|YP_820806.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus LMD-9] gi|55739378|gb|AAV63019.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus CNRZ1066] gi|116101464|gb|ABJ66610.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus thermophilus LMD-9] gi|312278801|gb|ADQ63458.1| RNA polymerase sigma factor [Streptococcus thermophilus ND03] Length = 369 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSNEEEKELAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFIE 368 Score = 41.2 bits (95), Expect = 0.56, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++ ++D + L++ GI++ D D G+ S + + + ++ S Sbjct: 39 PFVLDADGIDDLLERLTDGGISITDKD------GNPSSKYVVEAPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A +E G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSNEEEKELAIAVENGDLEAKQRLAEANL 140 >gi|312863004|ref|ZP_07723242.1| RNA polymerase sigma factor RpoD [Streptococcus vestibularis F0396] gi|311100540|gb|EFQ58745.1| RNA polymerase sigma factor RpoD [Streptococcus vestibularis F0396] Length = 369 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSNEEEKELAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFIE 368 Score = 41.2 bits (95), Expect = 0.52, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++ ++D + L++ GI++ D D G+ S + + + ++ S Sbjct: 39 PFVLDADGIDDLLERLTDGGISITDKD------GNPSSKYVVEAPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A +E G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSNEEEKELAIAVENGDLEAKQRLAEANL 140 >gi|40143|emb|CAA27538.1| unnamed protein product [Bacillus subtilis] gi|143454|gb|AAA22709.1| RNA polymerase sigma-43 factor [Bacillus subtilis] gi|1303833|dbj|BAA12489.1| RpoD [Bacillus subtilis] Length = 371 Score = 316 bits (809), Expect = 9e-84, Method: Compositional matrix adjust. Identities = 150/238 (63%), Positives = 188/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ + EANLRLV+S+AK+Y RG+ FLDLI EGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 134 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIHEGNMGLMKAVEKFDYRKGYKFSTYATWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REPTPEEIA+ + + E V Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 254 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDR 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 314 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 371 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 40/141 (28%), Positives = 70/141 (49%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDE 86 D +++ + ++RG +T EE+ + E+ S+QM++ L G+ ++ + ++ ED Sbjct: 14 DQVKEQLTESGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDP 73 Query: 87 E-----GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +E+ DL + V +DPVRMYL+E+G + LLS + EIA Sbjct: 74 NIQQLAKAEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVNLLSAKEEIA 122 Query: 142 IAKRIEAGRAMMMASLCESPL 162 A++IE G L E+ L Sbjct: 123 YAQKIEEGDEESKRRLAEANL 143 >gi|239637627|ref|ZP_04678599.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603] gi|239596845|gb|EEQ79370.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603] gi|330686029|gb|EGG97652.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis VCU121] Length = 367 Score = 316 bits (809), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 194/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E IAK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 117 IELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDF 176 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PE Sbjct: 177 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPE 236 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+ Sbjct: 237 EIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLK 296 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 297 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 356 Query: 671 SRSKKLRSFLD 681 SRSK+L+ F+D Sbjct: 357 SRSKRLKDFMD 367 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 43/144 (29%), Positives = 74/144 (51%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K++I+ ++ G+++ EE+ L E+ S+ M+D L++ I +V+ D D + Sbjct: 19 EDVKKQLIEKGKKEGHLSHEEIAEKLQNFEMDSDMMDDFFDQLNDNDITLVNEKDHSDTD 78 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G ++LLS + EI +AKRIE Sbjct: 79 AKLNPNDLSAPPGVK--------------INDPVRMYLKEIGRVDLLSAQEEIELAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 125 QGDEIAKSRLAEANLRLVVSIAKR 148 >gi|228476995|ref|ZP_04061633.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius SK126] gi|322516348|ref|ZP_08069273.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus vestibularis ATCC 49124] gi|228251014|gb|EEK10185.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius SK126] gi|322125081|gb|EFX96474.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus vestibularis ATCC 49124] Length = 369 Score = 316 bits (809), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSNEEEKELAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFIE 368 Score = 41.2 bits (95), Expect = 0.54, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++ ++D + L++ GI++ D D G+ S + + + ++ S Sbjct: 39 PFVLDADGIDDLLERLTDGGISITDKD------GNPSSKYVVEAPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A +E G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSNEEEKELAIAVENGDLEAKQRLAEANL 140 >gi|289578734|ref|YP_003477361.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] gi|289528447|gb|ADD02799.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] Length = 357 Score = 316 bits (809), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 120 AKKRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REPTPEE+AK++ MP E V Sbjct: 180 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQELGREPTPEELAKEMGMPEEKV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+E VL +LTPR Sbjct: 240 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAFTMLKEQLMDVLDTLTPR 299 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 300 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 357 Score = 66.2 bits (160), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 47/138 (34%), Positives = 71/138 (51%), Gaps = 13/138 (9%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + S D+ ++I ++ G +T E+ L +++ +Q+E +MGI +V G++ Sbjct: 5 ELSKDAITELINKGKKTGMLTYNEIMDSLEDIDLNPDQIEKVYDAFEDMGIEIV-GEEPR 63 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE +E+ LDL S S DDPVRMYL+E+G I LL+ E EI +AK Sbjct: 64 QEEINEEDLDLDLSLPEGI------------SIDDPVRMYLKEIGKIPLLTPEEEIELAK 111 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 112 RIEQGDEEAKKRLIEANL 129 >gi|160947542|ref|ZP_02094709.1| hypothetical protein PEPMIC_01477 [Parvimonas micra ATCC 33270] gi|158446676|gb|EDP23671.1| hypothetical protein PEPMIC_01477 [Parvimonas micra ATCC 33270] Length = 382 Score = 316 bits (809), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 152/260 (58%), Positives = 205/260 (78%), Gaps = 3/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + + G+ EA KK++ E NLRLV+S+AK+Y RG+QFLDLIQEGN+GL Sbjct: 126 LSADEERILAENMEAGDIEA---KKKLAETNLRLVVSIAKRYVGRGMQFLDLIQEGNMGL 182 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA EKFD+ G+KFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+VR R++ Sbjct: 183 MKAVEKFDFRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLVRIERQLVQ 242 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REPT EEI++ + + V+ V ++ KI +EP+SLETPIG+ED SHLGDFIED+ A++P Sbjct: 243 ELGREPTNEEISEHMGIEVDKVNEIRKIAQEPVSLETPIGEEDDSHLGDFIEDETAIAPD 302 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++A + L+E +VL++L+ RE++VL +RFG+ T TLEEVGK+F VTRERIRQIEA Sbjct: 303 EAANFSMLKEQLNQVLSTLSDREKKVLELRFGLNDGTPRTLEEVGKEFEVTRERIRQIEA 362 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKLKHPSRS+KL+ FL+ Sbjct: 363 KALRKLKHPSRSQKLKDFLE 382 Score = 46.6 bits (109), Expect = 0.015, Method: Compositional matrix adjust. Identities = 39/125 (31%), Positives = 67/125 (53%), Gaps = 4/125 (3%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSEDSLDLASSAS 100 G+V + L + + + + +E+ + L+ + +D G++LED E ED +DL Sbjct: 30 GFVNNKYLESLDLFNLIDIDDIEEIKSKLAENQVEFIDEGENLEDIEIVEDLIDLEDEKE 89 Query: 101 NSSVFLQKRKDSADR---STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 ++ K +D +D + DDPV+MYL+E+G I LLS + E +A+ +EAG L Sbjct: 90 DAEDEEIKLEDFSDLKGFNIDDPVKMYLKEIGKIPLLSADEERILAENMEAGDIEAKKKL 149 Query: 158 CESPL 162 E+ L Sbjct: 150 AETNL 154 >gi|291166412|gb|EFE28458.1| RNA polymerase sigma factor RpoD [Filifactor alocis ATCC 35896] Length = 372 Score = 316 bits (809), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 145/251 (57%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K + + +AKK++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 122 IELAQKMDQGSELAKKKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ REP PE Sbjct: 182 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPRPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI+K + M VE +R++ KI++EP+SLETPIG+E+ SHLGDFI D +A++P ++A + L+ Sbjct: 242 EISKVMDMSVEKIREIQKISQEPVSLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSLLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL++L RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLEEVLSTLNEREQKVLKLRFGLEDGRTRTLEEVGKEFDVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +L+ Sbjct: 362 SRSKKLKDYLE 372 Score = 63.2 bits (152), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/138 (31%), Positives = 72/138 (52%), Gaps = 15/138 (10%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG---------DDLE 84 +++ + +G +T EL L P V+ + +E+ L+ +GI ++D DD+E Sbjct: 13 LLEKGKNKGTLTYMELAEILNPIAVNKDDIENIYETLNQLGIEIIDENTPKTHVNLDDIE 72 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + E + D DL + + + K S DDPVRMYL+E+G I LLS E EI +A+ Sbjct: 73 EPEFT-DEKDLEETKVEEDLSVPK-----GISVDDPVRMYLKEIGKISLLSAEEEIELAQ 126 Query: 145 RIEAGRAMMMASLCESPL 162 +++ G + L E+ L Sbjct: 127 KMDQGSELAKKKLVEANL 144 >gi|55821465|ref|YP_139907.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus LMG 18311] gi|55737450|gb|AAV61092.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus thermophilus LMG 18311] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V +S E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLSNEEEKKLAIAVENGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFIE 368 Score = 41.6 bits (96), Expect = 0.48, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++ ++D + L++ GI++ D D G+ S + + + ++ S Sbjct: 39 PFVLDADGIDDLLERLTDGGISITDKD------GNPSSKYVVEAPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS E E +A +E G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLSNEEEKKLAIAVENGDLEAKQRLAEANL 140 >gi|292491943|ref|YP_003527382.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] gi|291580538|gb|ADE14995.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] Length = 578 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 161/373 (43%), Positives = 247/373 (66%), Gaps = 2/373 (0%) Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRD 368 +S + + L+ +L + G L L +R+ L + + + +++ E L G+ ++ Sbjct: 206 ASAQARELRGELAQEFGLLRLVPARLKQLAQPVQEWIRKVQTQEQVLKSCCIHQGGVSQE 265 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 F + +P WV + E + + + ++I + + + +E G+ ++E + Sbjct: 266 DFWQSFSSNATNPQWVEDLLAVGQ-EDRQPLQAQAETIRAAQKVLTQVEIEVGLPLAELK 324 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + +G+ +A AK +MVEANLRLV+SVAKKY NRGL FLDLIQEGNIGLM+A +KF Sbjct: 325 TVHRRLTRGQIQAQRAKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQEGNIGLMRAVDKF 384 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ GYKFSTYA WW++QAITR+I DQS TIRIPVH+ +K+ K+ R + ++ + RE Sbjct: 385 DYRRGYKFSTYAHWWIRQAITRAIDDQSRTIRIPVHVMEKLSKLNRASYQLRQEKGREGR 444 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEE+A++LA+ + + + +I K+PISLETP+G ++ S LG+ +ED+ +P++ AI A Sbjct: 445 PEELAERLALSEQQIHHMHEIAKQPISLETPLGKDEDSQLGELMEDEQVPNPMEVAISAG 504 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ T ++LA+LTPRE +V+ MRFGIGM+TDHTL EV +QF ++RERIRQIEA+A+ KL+ Sbjct: 505 LQAGTQQLLATLTPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRERIRQIEAQALSKLR 564 Query: 669 HPSRSKKLRSFLD 681 SK LRSFL+ Sbjct: 565 RLGHSKALRSFLE 577 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 46/154 (29%), Positives = 75/154 (48%), Gaps = 8/154 (5%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 F+ + K++I + +G +T EEL ++ + S++ E V N+ DL Sbjct: 3 FEMRQEELKRLILKGKAQGLLTEEELQEYIVQEVEDSDEAEAVV--------NLFHDQDL 54 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E+ + D L + + S + S+D + D V Y+REMG+ LL+RE E+A+A Sbjct: 55 EELDEKIDPALLLKNGTESEEETAEVVLSSDGAISDMVNTYMREMGAHALLAREEEVALA 114 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 K IEAG + +L P L+ W DE + G Sbjct: 115 KAIEAGLSQSTEALGSCPAIAAELLRWADEADAG 148 >gi|323127013|gb|ADX24310.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKVLAVAVAEGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKVLAVAVAEGDLEAKQRLAEANL 140 >gi|322411497|gb|EFY02405.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKVLAVAVAEGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKVLAVAVAEGDLEAKQRLAEANL 140 >gi|81428494|ref|YP_395494.1| RNA polymerase sigma factor RpoD [Lactobacillus sakei subsp. sakei 23K] gi|78610136|emb|CAI55185.1| DNA-directed RNA polymerase sigma factor, sigma A (Primary sigma factor) [Lactobacillus sakei subsp. sakei 23K] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 159/286 (55%), Positives = 207/286 (72%), Gaps = 16/286 (5%) Query: 412 EIKSISVETGISIS--------EFRHIVSMVRKGECEASI--------AKKEMVEANLRL 455 E+K +S TGI I+ E + + + E + ++ AK+ + EANLRL Sbjct: 84 ELKDMSAPTGIKINDPVRMYLKEIGRVSLLNAQQEVDLALRIEQGDQEAKQRLAEANLRL 143 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD G+KFSTYA WW++QAITR+IADQ Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQ 203 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K++R R++ + REPTPEEI ++ M + VR++LKI +EP+S Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMNTDKVREILKIAQEPVS 263 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETPIG+ED SHLGDFIED++A SP + A L+E VL +LT REE VLR+RFG+ Sbjct: 264 LETPIGEEDDSHLGDFIEDQDATSPEEHASYELLKEQLESVLDTLTDREENVLRLRFGLD 323 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 324 DGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 369 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/139 (28%), Positives = 71/139 (51%), Gaps = 14/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D + K +IK + + +T +EL A + P + ++++ + + + + GI +VD Sbjct: 13 DTAVKALIKEYKPKKEITNDELVAKIVKPFALEADEINELMQQVEDHGIGIVD------- 65 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIA 143 ED A++ V ++ KD + + +DPVRMYL+E+G + LL+ + E+ +A Sbjct: 66 ---EDGNPSAATLKKEKVSAKELKDMSAPTGIKINDPVRMYLKEIGRVSLLNAQQEVDLA 122 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 123 LRIEQGDQEAKQRLAEANL 141 >gi|325686025|gb|EGD28083.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 373 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 201/273 (73%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + +S E + + G+ EA K E+ ANLRLV+S+AK+Y RG+ Sbjct: 104 VRQYLKRIGRVSLLSGDEEVQLAKRIEAGDQEA---KDELTSANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLMKA KFD+ LG+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 SFLDLIQEGNMGLMKAVGKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P PEEIA ++ +PV+ VR+VLK+ +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+A SP A L++ VL +LT EE VLR+RFG+ TLEEVG+ Sbjct: 281 GDFIEDKDATSPEQHAASEMLKDQLAEVLDTLTDSEENVLRLRFGLDDGNPRTLEEVGRV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRS +LR FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSNQLRDFLE 373 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 7/98 (7%) Query: 52 FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 L P ++ ++ V + GI++VD ++G L LA + L+ Sbjct: 42 LLKPYQIEGRAVDQLVQEFEDNGISIVD------DKGEPSKLALAKQKNVEKAELEHLSA 95 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R +DPVR YL+ +G + LLS + E+ +AKRIEAG Sbjct: 96 PGSR-MNDPVRQYLKRIGRVSLLSGDEEVQLAKRIEAG 132 >gi|146319082|ref|YP_001198794.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05ZYH33] gi|146321288|ref|YP_001200999.1| RNA polymerase sigma factor RpoD [Streptococcus suis 98HAH33] gi|223932503|ref|ZP_03624504.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptococcus suis 89/1591] gi|253752138|ref|YP_003025279.1| RNA polymerase sigma factor RpoD [Streptococcus suis SC84] gi|253753963|ref|YP_003027104.1| RNA polymerase sigma factor RpoD [Streptococcus suis P1/7] gi|253755898|ref|YP_003029038.1| RNA polymerase sigma factor RpoD [Streptococcus suis BM407] gi|330833083|ref|YP_004401908.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST3] gi|145689888|gb|ABP90394.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus suis 05ZYH33] gi|145692094|gb|ABP92599.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus suis 98HAH33] gi|223898774|gb|EEF65134.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptococcus suis 89/1591] gi|251816427|emb|CAZ52060.1| RNA polymerase sigma factor RpoD [Streptococcus suis SC84] gi|251818362|emb|CAZ56188.1| RNA polymerase sigma factor RpoD [Streptococcus suis BM407] gi|251820209|emb|CAR46610.1| RNA polymerase sigma factor RpoD [Streptococcus suis P1/7] gi|292558723|gb|ADE31724.1| RNA polymerase sigma factor rpoD [Streptococcus suis GZ1] gi|319758521|gb|ADV70463.1| RNA polymerase sigma factor RpoD [Streptococcus suis JS14] gi|329307306|gb|AEB81722.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST3] Length = 372 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 102 VRMYLKEIGVVPLLTNEEEQELALAVEAGDPEA---KQRLAEANLRLVVSIAKRYVGRGM 158 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 159 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 218 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 219 INKLVREQRNLLQELGQDPTPEQIAERMDMTPEKVREILKIAQEPVSLETPIGEEDDSHL 278 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 279 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 338 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 339 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 371 Score = 44.3 bits (103), Expect = 0.068, Method: Compositional matrix adjust. Identities = 34/131 (25%), Positives = 66/131 (50%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +++G T +E+N + P + ++ ++D + + + GI++VD +EG+ Sbjct: 20 EFIRNHKKQGSATDDEINDQLVIPFTLDADGIDDLLQRIQDAGISIVD------KEGNPS 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + + ++ S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 74 ARAMQVEEEPELS-DEELLGSTSAKVNDPVRMYLKEIGVVPLLTNEEEQELALAVEAGDP 132 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 133 EAKQRLAEANL 143 >gi|270307915|ref|YP_003329973.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Dehalococcoides sp. VS] gi|270153807|gb|ACZ61645.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Dehalococcoides sp. VS] Length = 520 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 146/244 (59%), Positives = 200/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A A++ +++ANLRLV+SVAKK+ RG+ LDLIQEGNIGL++A EKFD+ G+KFS Sbjct: 277 EIDAKRAERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFS 336 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++ +R++S K+ REPTP+EIA ++ Sbjct: 337 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIALEMD 396 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E VR++ K+++ P+SLE+PIG+E+ SHLGDFIED+NA++P D+A + L+E VL Sbjct: 397 LPPEKVREIAKVSQLPVSLESPIGEEEDSHLGDFIEDQNALAPPDAASRQLLKEQIDTVL 456 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SLTPRE RVL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ Sbjct: 457 GSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLK 516 Query: 678 SFLD 681 +L+ Sbjct: 517 DYLE 520 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 25/34 (73%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DDPVRMYL E+G + LLS E E +AK++E G+ Sbjct: 97 VDDPVRMYLHEIGRVPLLSAEDEKTLAKKMEEGK 130 >gi|73748391|ref|YP_307630.1| RNA polymerase, sigma factor [Dehalococcoides sp. CBDB1] gi|147669171|ref|YP_001213989.1| RpoD family RNA polymerase sigma factor [Dehalococcoides sp. BAV1] gi|289432439|ref|YP_003462312.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalococcoides sp. GT] gi|73660107|emb|CAI82714.1| RNA polymerase, sigma factor [Dehalococcoides sp. CBDB1] gi|146270119|gb|ABQ17111.1| RNA polymerase, sigma 70 subunit, RpoD family [Dehalococcoides sp. BAV1] gi|288946159|gb|ADC73856.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dehalococcoides sp. GT] Length = 520 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 146/244 (59%), Positives = 200/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A A++ +++ANLRLV+SVAKK+ RG+ LDLIQEGNIGL++A EKFD+ G+KFS Sbjct: 277 EIDAKRAERHLIQANLRLVVSVAKKHIGRGMPLLDLIQEGNIGLIRAVEKFDFHRGFKFS 336 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++ +R++S K+ REPTP+EIA ++ Sbjct: 337 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLLSISRQLSQKLGREPTPDEIALEMD 396 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +P E VR++ K+++ P+SLE+PIG+E+ SHLGDFIED+NA++P D+A + L+E VL Sbjct: 397 LPPEKVREIAKVSQLPVSLESPIGEEEDSHLGDFIEDQNALAPPDAASRQLLKEQIDTVL 456 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SLTPRE RVL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ Sbjct: 457 GSLTPRERRVLQLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLK 516 Query: 678 SFLD 681 +L+ Sbjct: 517 DYLE 520 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 25/34 (73%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 DDPVRMYL E+G + LLS E E +AK++E G+ Sbjct: 97 VDDPVRMYLHEIGRVPLLSAEDEKTLAKKMEEGK 130 >gi|225868705|ref|YP_002744653.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus] gi|225701981|emb|CAW99541.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSDEEKVLAVAVAAGDMEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+ + P + ++Q++D + L++ GI++ D +EG+ Sbjct: 16 EFIRHHKKEGTATDDEVTEKLVIPFTLDADQIDDLLERLTDGGISITD------KEGNPS 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + + ++ S +DPVRMYL+E+G + LL+ + E +A + AG Sbjct: 70 SKYVVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSDEEKVLAVAVAAGDM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|222152854|ref|YP_002562031.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J] gi|222113667|emb|CAR41594.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J] Length = 369 Score = 315 bits (808), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSDEEKELAIAVAAGDVDA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 45.1 bits (105), Expect = 0.039, Method: Compositional matrix adjust. Identities = 31/108 (28%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P E+ ++Q++D + L++ GI++ D D GS S + + ++ S Sbjct: 39 PFELDADQIDDLLERLTDGGISITDKD------GSPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E +A + AG L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSDEEKELAIAVAAGDVDAKQRLAEANL 140 >gi|302024138|ref|ZP_07249349.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05HAS68] Length = 372 Score = 315 bits (807), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 102 VRMYLKEIGVVPLLTNEEEQELALAVEAGDPEA---KQRLAEANLRLVVSIAKRYVGRGM 158 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 159 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 218 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 219 INKLVREQRNLLQELGQDPTPEQIAERMDMTPEKVREILKIAQEPVSLETPIGEEDDSHL 278 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 279 GDFIEDEIIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 338 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK LR F++ Sbjct: 339 FNVTRERIRQIEAKALRKLRHPSRSKPLRDFIE 371 Score = 44.3 bits (103), Expect = 0.066, Method: Compositional matrix adjust. Identities = 34/131 (25%), Positives = 66/131 (50%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +++G T +E+N + P + ++ ++D + + + GI++VD +EG+ Sbjct: 20 EFIRNHKKQGSATDDEINDQLVIPFTLDADGIDDLLQRIQDAGISIVD------KEGNPS 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + + ++ S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 74 ARAMQVEEEPELS-DEELLGSTSAKVNDPVRMYLKEIGVVPLLTNEEEQELALAVEAGDP 132 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 133 EAKQRLAEANL 143 >gi|195977963|ref|YP_002123207.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195974668|gb|ACG62194.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 369 Score = 315 bits (807), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSDEEKVLAVAVAAGDMEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 43.5 bits (101), Expect = 0.14, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+ + P + ++Q++D + L++ GI++ D +EG+ Sbjct: 16 EFIRHHKKEGTATDDEVTEKLVIPFTLDADQIDDLLERLTDGGISITD------KEGNPS 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + + ++ S +DPVRMYL+E+G + LL+ + E +A + AG Sbjct: 70 SKYVVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSDEEKVLAVAVAAGDM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|254445278|ref|ZP_05058754.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235] gi|198259586|gb|EDY83894.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235] Length = 576 Score = 315 bits (807), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 149/253 (58%), Positives = 197/253 (77%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ VR+ A AK EMVEANLRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF+ Sbjct: 302 LIAEVRRHLKAAHKAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 361 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + ++KV++ +++ + EPTP Sbjct: 362 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEYGHEPTP 421 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+++A+PVE V+ ++K+ ++PISL++P+GD D ++ GDFIEDK+A +P D + L Sbjct: 422 EEVAEEMALPVERVQTIMKMAQQPISLQSPVGDGDDTNFGDFIEDKSAENPYDQTAFSLL 481 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE VL SLT RE RVL +RFG+ TLEEVGKQF VTRERIRQIEAKA+RK++H Sbjct: 482 REKIIDVLDSLTERERRVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIEAKALRKMRH 541 Query: 670 PSRSKKLRSFLDG 682 P+R ++L F + Sbjct: 542 PTRIRQLHGFFEN 554 Score = 66.2 bits (160), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 34/116 (29%), Positives = 72/116 (62%), Gaps = 11/116 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +I+ ++++GY+T ++N LP S + +++ +++L N+ I+++D +++++ + ++ Sbjct: 25 RYLIRQSKEQGYLTHGDINEALPEGIDSQDDIDNVISILQNLEIDILDPEEVDNFKAKQE 84 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + +N L DDPVRMYL++MG + LL+RE E+ I+KRIE Sbjct: 85 EAEEEQTKANQHDIL-----------DDPVRMYLKQMGQVPLLTREQEVEISKRIE 129 >gi|78044024|ref|YP_359316.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] gi|77996139|gb|ABB15038.1| RNA polymerase sigma factor RpoD [Carboxydothermus hydrogenoformans Z-2901] Length = 370 Score = 315 bits (807), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 133 AKRKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R + ++ REPTPEEIAK++ + + V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRNLLQELGREPTPEEIAKEMGISEDKV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDF+ED +A +P++ A LRE VL +LT R Sbjct: 253 REIMKIAQEPVSLETPIGEEEDSHLGDFVEDPDAKAPVEEASYTLLREQLDEVLKTLTER 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 313 EQKVLRLRFGLDDGRARTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 370 Score = 57.4 bits (137), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 45/145 (31%), Positives = 71/145 (48%), Gaps = 15/145 (10%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED 85 ++ ++++ ++RG +T +L L +++SEQ+++ L+N GI VV Sbjct: 5 MQNEKLMEIVEKGKKRGVLTYNDLLDSLQNVDINSEQIDELYEYLANQGIEVVP------ 58 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADR--------STDDPVRMYLREMGSIELLSRE 137 E E LD +S + F D D + DDPVRMYL+E+G + LL+ E Sbjct: 59 -EIPELELDSINSLDDDVDFKPSDIDEVDLDLTIPEGIAIDDPVRMYLKEIGRVPLLTPE 117 Query: 138 GEIAIAKRIEAGRAMMMASLCESPL 162 EI +AKR E G L E+ L Sbjct: 118 EEIELAKRKEEGDEEAKRKLAEANL 142 >gi|225870339|ref|YP_002746286.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. equi 4047] gi|225699743|emb|CAW93506.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp. equi 4047] Length = 369 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSDEEKVLAVAVAAGDMEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 33/131 (25%), Positives = 65/131 (49%), Gaps = 7/131 (5%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+ + P + ++Q++D + L++ GI++ D +EG+ Sbjct: 16 EFIRHHKKEGTATDDEVTEKLVIPFTLDADQIDDLLERLTDGGISITD------KEGNPS 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + + ++ S +DPVRMYL+E+G + LL+ + E +A + AG Sbjct: 70 SKYVVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSDEEKVLAVAVAAGDM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|222097738|ref|YP_002531795.1| RNA polymerase sigma factor rpod [Bacillus cereus Q1] gi|221241796|gb|ACM14506.1| RNA polymerase sigma-43 factor [Bacillus cereus Q1] Length = 375 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAGEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 63.2 bits (152), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 48/147 (32%), Positives = 73/147 (49%), Gaps = 19/147 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE----- 86 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ DE Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDNDEGPNNR 80 Query: 87 --EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 SE+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 81 QIAKSEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLAT 129 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 RIE G L E+ L I R Sbjct: 130 RIEEGDEEAKRRLAEANLRLVVSIAKR 156 >gi|148380889|ref|YP_001255430.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 3502] gi|153931224|ref|YP_001385198.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 19397] gi|153937635|ref|YP_001388667.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. Hall] gi|153940633|ref|YP_001392215.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. Langeland] gi|168179368|ref|ZP_02614032.1| RNA polymerase sigma factor RpoD [Clostridium botulinum NCTC 2916] gi|168181623|ref|ZP_02616287.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Bf] gi|170757237|ref|YP_001782571.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B1 str. Okra] gi|170761654|ref|YP_001788251.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A3 str. Loch Maree] gi|187778482|ref|ZP_02994955.1| hypothetical protein CLOSPO_02076 [Clostridium sporogenes ATCC 15579] gi|226950364|ref|YP_002805455.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A2 str. Kyoto] gi|237796391|ref|YP_002863943.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Ba4 str. 657] gi|148290373|emb|CAL84500.1| RNA polymerase sigma factor (sigma-43) [Clostridium botulinum A str. ATCC 3502] gi|152927268|gb|ABS32768.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. ATCC 19397] gi|152933549|gb|ABS39048.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A str. Hall] gi|152936529|gb|ABS42027.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. Langeland] gi|169122449|gb|ACA46285.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B1 str. Okra] gi|169408643|gb|ACA57054.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A3 str. Loch Maree] gi|182669799|gb|EDT81775.1| RNA polymerase sigma factor RpoD [Clostridium botulinum NCTC 2916] gi|182675034|gb|EDT86995.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Bf] gi|187772107|gb|EDU35909.1| hypothetical protein CLOSPO_02076 [Clostridium sporogenes ATCC 15579] gi|226843729|gb|ACO86395.1| RNA polymerase sigma factor RpoD [Clostridium botulinum A2 str. Kyoto] gi|229260977|gb|ACQ52010.1| RNA polymerase sigma factor RpoD [Clostridium botulinum Ba4 str. 657] gi|295320212|gb|ADG00590.1| RNA polymerase sigma factor RpoD [Clostridium botulinum F str. 230613] gi|322807253|emb|CBZ04827.1| RNA polymerase sigma factor RpoD [Clostridium botulinum H04402 065] Length = 361 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E +AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 111 IELAQRIEAGDMVAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 171 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 231 EVAKIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 291 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 351 SRSKKLKDYLD 361 Score = 60.8 bits (146), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 41/131 (31%), Positives = 70/131 (53%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I ++ G ++ +E+ L ++S EQ+E +L +MG+ V D+ D + E+ Sbjct: 19 RRLIDKGKKSGSLSYKEIMDELEEIDLSPEQIEKIYDVLESMGVEVTG--DMNDIDVKEE 76 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL+ + DDPVRMYL+E+G + LL+ E EI +A+RIEAG Sbjct: 77 DIDLSVPEGIA--------------IDDPVRMYLKEIGKVALLTSEEEIELAQRIEAGDM 122 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 123 VAKKKLAEANL 133 >gi|288905580|ref|YP_003430802.1| RNA polymerase major sigma factor [Streptococcus gallolyticus UCN34] gi|306831670|ref|ZP_07464827.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325978609|ref|YP_004288325.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288732306|emb|CBI13876.1| RNA polymerase major sigma factor [Streptococcus gallolyticus UCN34] gi|304426095|gb|EFM29210.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325178537|emb|CBZ48581.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 369 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKELAVAVAAGDLQA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFSLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEEPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + AG L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVAAGDLQAKQRLAEANL 140 >gi|300854008|ref|YP_003778992.1| putative RNA polymerase sigma factor [Clostridium ljungdahlii DSM 13528] gi|300434123|gb|ADK13890.1| predicted RNA polymerase sigma factor [Clostridium ljungdahlii DSM 13528] Length = 354 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 202/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ ++ E IAKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 104 ISLAKRIEEGDQIAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 163 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REP PE Sbjct: 164 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQELGREPHPE 223 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+ + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 224 EVAQIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 283 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 284 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 343 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 344 SRSKKLKDYLD 354 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 48/131 (36%), Positives = 71/131 (54%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK+I+ ++ G +T +E+ L ++S EQ+E L +MGI V GD+ E E +E Sbjct: 12 KKIIEKGKKNGTLTYKEIMDELEEVDLSPEQIEKIYEALESMGIEVT-GDEHETE-SNEK 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +LDL+ + DDPVRMYL+E+G + LL E EI++AKRIE G Sbjct: 70 NLDLSVPDGIA--------------IDDPVRMYLKEIGKVPLLLPEEEISLAKRIEEGDQ 115 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 116 IAKKKLAEANL 126 >gi|42783418|ref|NP_980665.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 10987] gi|47567855|ref|ZP_00238563.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241] gi|217961783|ref|YP_002340353.1| RNA polymerase sigma factor RpoD [Bacillus cereus AH187] gi|228916924|ref|ZP_04080486.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228987542|ref|ZP_04147661.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229141030|ref|ZP_04269573.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26] gi|229157906|ref|ZP_04285980.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342] gi|229163237|ref|ZP_04291192.1| RNA polymerase sigma factor [Bacillus cereus R309803] gi|229198419|ref|ZP_04325125.1| RNA polymerase sigma factor [Bacillus cereus m1293] gi|301055785|ref|YP_003793996.1| RNA polymerase sigma factor [Bacillus anthracis CI] gi|42739347|gb|AAS43273.1| RNA polymerase sigma-43 factor [Bacillus cereus ATCC 10987] gi|47555532|gb|EAL13875.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241] gi|217066780|gb|ACJ81030.1| RNA polymerase sigma-43 factor [Bacillus cereus AH187] gi|228585119|gb|EEK43231.1| RNA polymerase sigma factor [Bacillus cereus m1293] gi|228620300|gb|EEK77171.1| RNA polymerase sigma factor [Bacillus cereus R309803] gi|228625565|gb|EEK82318.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342] gi|228642463|gb|EEK98751.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26] gi|228772274|gb|EEM20721.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228842748|gb|EEM87834.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|300377954|gb|ADK06858.1| RNA polymerase sigma factor [Bacillus cereus biovar anthracis str. CI] gi|324328197|gb|ADY23457.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar finitimus YBT-020] Length = 375 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 63.2 bits (152), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 45/139 (32%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D ++EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NDEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 SE+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQIAKSEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEEGDEEAKRRLAEANL 147 >gi|306833811|ref|ZP_07466936.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis ATCC 700338] gi|304424005|gb|EFM27146.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis ATCC 700338] Length = 369 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKELAVAVATGDLQA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 42.0 bits (97), Expect = 0.35, Method: Compositional matrix adjust. Identities = 28/108 (25%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFSLDADQIDDLLERLTDGGISITD------KEGNPSTKYIVEEPKPEELTDEELLGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKELAVAVATGDLQAKQRLAEANL 140 >gi|1173127|sp|P43344|RPOD_SERMA RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 Length = 215 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 152/214 (71%), Positives = 179/214 (83%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 1 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 60 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 61 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 120 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 121 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREXKVLRMRFGIDMNTDHTLEEVGK 180 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 181 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 214 >gi|30022370|ref|NP_834001.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 14579] gi|218232261|ref|YP_002369099.1| RNA polymerase sigma factor RpoD [Bacillus cereus B4264] gi|228923044|ref|ZP_04086337.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228960557|ref|ZP_04122206.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|229048011|ref|ZP_04193587.1| RNA polymerase sigma factor [Bacillus cereus AH676] gi|229111765|ref|ZP_04241313.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15] gi|229129569|ref|ZP_04258539.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4] gi|229146877|ref|ZP_04275242.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24] gi|229152492|ref|ZP_04280684.1| RNA polymerase sigma factor [Bacillus cereus m1550] gi|296504786|ref|YP_003666486.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171] gi|29897928|gb|AAP11202.1| RNA polymerase sigma factor rpoD [Bacillus cereus ATCC 14579] gi|218160218|gb|ACK60210.1| RNA polymerase sigma-43 factor [Bacillus cereus B4264] gi|228631100|gb|EEK87737.1| RNA polymerase sigma factor [Bacillus cereus m1550] gi|228636705|gb|EEK93170.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24] gi|228653886|gb|EEL09754.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4] gi|228671759|gb|EEL27055.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15] gi|228723468|gb|EEL74837.1| RNA polymerase sigma factor [Bacillus cereus AH676] gi|228799157|gb|EEM46125.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228836677|gb|EEM82025.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|296325838|gb|ADH08766.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171] Length = 375 Score = 315 bits (807), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 45/139 (32%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D +EEG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NEEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQISKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEEGDEEAKRRLAEANL 147 >gi|167755652|ref|ZP_02427779.1| hypothetical protein CLORAM_01167 [Clostridium ramosum DSM 1402] gi|237734400|ref|ZP_04564881.1| RNA polymerase sigma factor rpoD [Mollicutes bacterium D7] gi|167704591|gb|EDS19170.1| hypothetical protein CLORAM_01167 [Clostridium ramosum DSM 1402] gi|229382630|gb|EEO32721.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. D7] Length = 417 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 151/239 (63%), Positives = 190/239 (79%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 178 AKKELAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWW 237 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ ++ REP+ EEIA+K+ M E Sbjct: 238 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLIQELGREPSAEEIAEKMDGMTPEK 297 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI+ EP+SLETPIG+ED SHLGDFIED+ A+SP D A L++ VL LT Sbjct: 298 VREIQKISLEPVSLETPIGEEDDSHLGDFIEDEGAMSPDDYAANELLKDELNEVLLELTD 357 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHPSRSK+L+ FLD Sbjct: 358 REEKVLRLRFGLDDGRTRTLEEVGKEFSVTRERIRQIEAKALRKLKHPSRSKRLKDFLD 416 Score = 40.8 bits (94), Expect = 0.79, Method: Compositional matrix adjust. Identities = 17/32 (53%), Positives = 26/32 (81%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +DPV+MYL+E+G +ELL+ + EI +AK+I G Sbjct: 143 NDPVKMYLKEIGRVELLTHDEEIDLAKKILEG 174 >gi|224476669|ref|YP_002634275.1| RNA polymerase sigma factor RpoD [Staphylococcus carnosus subsp. carnosus TM300] gi|222421276|emb|CAL28090.1| RNA polymerase sigma factor SigA [Staphylococcus carnosus subsp. carnosus TM300] Length = 369 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 152/276 (55%), Positives = 204/276 (73%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G + + + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 94 VKINDPVRMYLKEIGRVDLLNAQEEIELAKRIEQGDEVAKARLAEANLRLVVSIAKRYVG 153 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 154 RGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 213 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 214 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDD 273 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 274 SHLGDFIEDQEVQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 333 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 334 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 369 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 41/144 (28%), Positives = 75/144 (52%), Gaps = 14/144 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +D K+++ ++ G+++ EE+ L ++ S+QM++ +++ IN+V+ D D + Sbjct: 21 EDVKKQLLDKGKKEGHLSHEEIAEKLQNFDMDSDQMDEFFDQINDNDINLVNEKDSSDTD 80 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + DL++ +DPVRMYL+E+G ++LL+ + EI +AKRIE Sbjct: 81 EKLNPHDLSAPPGVK--------------INDPVRMYLKEIGRVDLLNAQEEIELAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G + A L E+ L I R Sbjct: 127 QGDEVAKARLAEANLRLVVSIAKR 150 >gi|302389497|ref|YP_003825318.1| RNA polymerase, sigma 70 subunit, RpoD [Thermosediminibacter oceani DSM 16646] gi|302200125|gb|ADL07695.1| RNA polymerase, sigma 70 subunit, RpoD [Thermosediminibacter oceani DSM 16646] Length = 367 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 163/306 (53%), Positives = 221/306 (72%), Gaps = 11/306 (3%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILK--------IRNEIKSISVETGISISEFRHIVSMVR 435 ++ A D PE + E+D + +R +K I ++ E + + Sbjct: 65 INDADDIPESLLEEISEVELDLSIPEGVAIDDPVRMYLKEIGKIPLLTPEEEIELAKRIE 124 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA K+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYK Sbjct: 125 KGDKEA---KRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYK 181 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+PTPEEIA++ Sbjct: 182 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPTPEEIAEE 241 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +PVE VR+++KI +EP+SLETPIG+E+ SHLGDFI D+ A +P D+A LRE Sbjct: 242 MELPVEKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDEEAQAPADAAAYRLLREQLED 301 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +LTPREE+VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKK Sbjct: 302 VLETLTPREEKVLRLRFGLDDGKPRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKK 361 Query: 676 LRSFLD 681 L+ FL+ Sbjct: 362 LKDFLE 367 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 46/136 (33%), Positives = 72/136 (52%), Gaps = 19/136 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPP-DEVSSEQMEDTVAMLSNMGINVV-DGDDLED---E 86 K++I+ ++ G +T +E+ L +++ +EQ++ +MGI ++ D DD+ + E Sbjct: 18 KELIEKGKKTGVLTYKEIMETLGDIEDLDAEQIDKIYESFEDMGIEIINDADDIPESLLE 77 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E SE LDL+ + DDPVRMYL+E+G I LL+ E EI +AKRI Sbjct: 78 EISEVELDLSIPEGVA--------------IDDPVRMYLKEIGKIPLLTPEEEIELAKRI 123 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 124 EKGDKEAKRRLAEANL 139 >gi|16800559|ref|NP_470827.1| RNA polymerase sigma factor RpoD [Listeria innocua Clip11262] gi|116872885|ref|YP_849666.1| RNA polymerase sigma factor RpoD [Listeria welshimeri serovar 6b str. SLCC5334] gi|217964400|ref|YP_002350078.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Listeria monocytogenes HCC23] gi|290894216|ref|ZP_06557185.1| rpoD protein [Listeria monocytogenes FSL J2-071] gi|20140102|sp|Q92BQ6|RPOD_LISIN RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43 gi|16413964|emb|CAC96722.1| RNA polymerase sigma factor RpoD [Listeria innocua Clip11262] gi|116741763|emb|CAK20887.1| RNA polymerase sigma factor RpoD (Sigma-A) [Listeria welshimeri serovar 6b str. SLCC5334] gi|217333670|gb|ACK39464.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Listeria monocytogenes HCC23] gi|290556213|gb|EFD89758.1| rpoD protein [Listeria monocytogenes FSL J2-071] gi|307571035|emb|CAR84214.1| RNA polymerase sigma factor [Listeria monocytogenes L99] gi|313623755|gb|EFR93895.1| RNA polymerase sigma factor RpoD [Listeria innocua FSL J1-023] Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EET--ESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|251782161|ref|YP_002996463.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390790|dbj|BAH81249.1| RNA polymerase sigma factor [Streptococcus dysgalactiae subsp. equisimilis GGS_124] Length = 369 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + V +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTSEEEKVFAVAVAEGDLEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 41.2 bits (95), Expect = 0.56, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + ++ S Sbjct: 39 PFALDADQIDDLLERLTDGGISITD------KEGNPSSKYIVEEPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E A + G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTSEEEKVFAVAVAEGDLEAKQRLAEANL 140 >gi|206971344|ref|ZP_03232295.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134] gi|218899458|ref|YP_002447869.1| RNA polymerase sigma-43 factor [Bacillus cereus G9842] gi|228902815|ref|ZP_04066960.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222] gi|228910126|ref|ZP_04073946.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] gi|228941457|ref|ZP_04104008.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954576|ref|ZP_04116601.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228967357|ref|ZP_04128392.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228974388|ref|ZP_04134957.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980981|ref|ZP_04141284.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|229071795|ref|ZP_04205010.1| RNA polymerase sigma factor [Bacillus cereus F65185] gi|229081552|ref|ZP_04214050.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2] gi|229180570|ref|ZP_04307912.1| RNA polymerase sigma factor [Bacillus cereus 172560W] gi|229192502|ref|ZP_04319465.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876] gi|206734116|gb|EDZ51287.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134] gi|218541635|gb|ACK94029.1| RNA polymerase sigma-43 factor [Bacillus cereus G9842] gi|228591079|gb|EEK48935.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876] gi|228602994|gb|EEK60473.1| RNA polymerase sigma factor [Bacillus cereus 172560W] gi|228701757|gb|EEL54245.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2] gi|228711390|gb|EEL63350.1| RNA polymerase sigma factor [Bacillus cereus F65185] gi|228778772|gb|EEM27036.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407] gi|228785438|gb|EEM33448.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228792392|gb|EEM39959.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228805233|gb|EEM51827.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818238|gb|EEM64312.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228849643|gb|EEM94477.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200] gi|228856824|gb|EEN01339.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222] gi|326942074|gb|AEA17970.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar chinensis CT-43] Length = 375 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 45/139 (32%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D +EEG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NEEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEEGDEEAKRRLAEANL 147 >gi|313618909|gb|EFR90770.1| RNA polymerase sigma factor RpoD [Listeria innocua FSL S4-378] Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEVGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 43/137 (31%), Positives = 69/137 (50%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EET--ESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IE G L E+ L Sbjct: 130 IEVGDIEAKGRLAEANL 146 >gi|229174966|ref|ZP_04302486.1| RNA polymerase sigma factor [Bacillus cereus MM3] gi|228608634|gb|EEK65936.1| RNA polymerase sigma factor [Bacillus cereus MM3] Length = 375 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D ++EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NDEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQITKAEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEEGDEEAKRRLAEANL 147 >gi|289434736|ref|YP_003464608.1| RNA polymerase sigma factor RpoD [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289170980|emb|CBH27522.1| RNA polymerase sigma factor RpoD [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313633237|gb|EFS00106.1| RNA polymerase sigma factor RpoD [Listeria seeligeri FSL N1-067] Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G + LL+ + EIA+AKR Sbjct: 83 EE--TESFDLTDLSVPPGV-----------KINDPVRMYLKEIGRVNLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|313890499|ref|ZP_07824127.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus SPIN 20026] gi|332523157|ref|ZP_08399409.1| RNA polymerase sigma factor RpoD [Streptococcus porcinus str. Jelinkova 176] gi|313121016|gb|EFR44127.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus SPIN 20026] gi|332314421|gb|EGJ27406.1| RNA polymerase sigma factor RpoD [Streptococcus porcinus str. Jelinkova 176] Length = 369 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ +A K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTGEEEKELAIAVAEGDVDA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368 Score = 39.7 bits (91), Expect = 1.6, Method: Compositional matrix adjust. Identities = 28/108 (25%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFVLDADQIDDLLERLTDGGISITD------KEGNPSTKYIVEEPKPEELTDEQLIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTGEEEKELAIAVAEGDVDAKQRLAEANL 140 >gi|313608766|gb|EFR84582.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL F2-208] Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|255026189|ref|ZP_05298175.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J2-003] Length = 361 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 111 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 170 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 171 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 230 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 231 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 290 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 291 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 350 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 351 SRSKQLKDFLE 361 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 10 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 69 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 70 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 116 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 117 IEAGDIEAKGRLAEANL 133 >gi|229098765|ref|ZP_04229703.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29] gi|229104924|ref|ZP_04235581.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28] gi|229117789|ref|ZP_04247154.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3] gi|228665652|gb|EEL21129.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3] gi|228678498|gb|EEL32718.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28] gi|228684609|gb|EEL38549.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29] Length = 375 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 62.4 bits (150), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ ++ ++RG +T EE+ + E+ S+QM++ L GI++V +D +EEG Sbjct: 22 EQLTEVGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NEEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEEGDEEAKRRLAEANL 147 >gi|163942050|ref|YP_001646934.1| RNA polymerase sigma factor RpoD [Bacillus weihenstephanensis KBAB4] gi|229013514|ref|ZP_04170648.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048] gi|229019517|ref|ZP_04176334.1| RNA polymerase sigma factor [Bacillus cereus AH1273] gi|229025758|ref|ZP_04182158.1| RNA polymerase sigma factor [Bacillus cereus AH1272] gi|229061987|ref|ZP_04199313.1| RNA polymerase sigma factor [Bacillus cereus AH603] gi|229135118|ref|ZP_04263920.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196] gi|229169042|ref|ZP_04296758.1| RNA polymerase sigma factor [Bacillus cereus AH621] gi|163864247|gb|ABY45306.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus weihenstephanensis KBAB4] gi|228614451|gb|EEK71560.1| RNA polymerase sigma factor [Bacillus cereus AH621] gi|228648347|gb|EEL04380.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196] gi|228717296|gb|EEL68969.1| RNA polymerase sigma factor [Bacillus cereus AH603] gi|228735541|gb|EEL86136.1| RNA polymerase sigma factor [Bacillus cereus AH1272] gi|228741773|gb|EEL91956.1| RNA polymerase sigma factor [Bacillus cereus AH1273] gi|228747751|gb|EEL97620.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048] Length = 375 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 45/138 (32%), Positives = 71/138 (51%), Gaps = 19/138 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE----- 86 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ DE Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDNDEGPNNR 80 Query: 87 --EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 81 QITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLAT 129 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 130 RIEEGDEEAKRRLAEANL 147 >gi|330955107|gb|EGH55367.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae Cit 7] Length = 216 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/215 (69%), Positives = 180/215 (83%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM Sbjct: 1 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI KEPIS+ETPIGD++ S Sbjct: 61 ETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDS 120 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HLGDFIED SP+D A +L+E T VL+ LT RE +VLRMRFGI MNTDHTLEEVG Sbjct: 121 HLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVG 180 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 KQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 181 KQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 215 >gi|228993035|ref|ZP_04152958.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442] gi|228999085|ref|ZP_04158667.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17] gi|229006633|ref|ZP_04164267.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4] gi|228754494|gb|EEM03905.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4] gi|228760702|gb|EEM09666.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17] gi|228766683|gb|EEM15323.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442] Length = 373 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 17/136 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ E Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDEGPNNHQI 80 Query: 89 --SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A RI Sbjct: 81 TKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLATRI 129 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 130 EEGDEEAKRRLAEANL 145 >gi|134300301|ref|YP_001113797.1| RNA polymerase sigma factor RpoD [Desulfotomaculum reducens MI-1] gi|134053001|gb|ABO50972.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfotomaculum reducens MI-1] Length = 367 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +GE EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 98 VRMYLKEIGRVPLLSPEEEVDLAKRMEQGEEEA---KRRLAEANLRLVVSIAKRYVGRGM 154 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 155 LFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 214 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP+PEEIAK++ + E VR++LKI +EP+SLETPIG+E+ SHL Sbjct: 215 INKLIRVSRQLLQELGREPSPEEIAKEMDISGEKVREILKIAQEPVSLETPIGEEEDSHL 274 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED +A +P + A LRE VL +LT RE++VLR+RFG+ TLEEVG++ Sbjct: 275 GDFIEDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFGLDDGRARTLEEVGQK 334 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAK +RKL+HPSRSKKL+ +LD Sbjct: 335 FGVTRERIRQIEAKTLRKLRHPSRSKKLKDYLD 367 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 49/138 (35%), Positives = 74/138 (53%), Gaps = 16/138 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K++I+ ++RG +T E+ L E+S +Q++D +S MGI VV DLE Sbjct: 11 KELIEKGKKRGVLTYNEIMDTLQGTELSPDQIDDIYEKISAMGIEVVPLASDLE------ 64 Query: 91 DSLDLASSASNSSVFLQKRKDSADRST------DDPVRMYLREMGSIELLSREGEIAIAK 144 L++ S NS+ ++ + D S DDPVRMYL+E+G + LLS E E+ +AK Sbjct: 65 -PLEVDDSVENSTE--EEVEVEVDLSIPEGIGIDDPVRMYLKEIGRVPLLSPEEEVDLAK 121 Query: 145 RIEAGRAMMMASLCESPL 162 R+E G L E+ L Sbjct: 122 RMEQGEEEAKRRLAEANL 139 >gi|16803494|ref|NP_464979.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes EGD-e] gi|46907682|ref|YP_014071.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. F2365] gi|47092744|ref|ZP_00230530.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 4b H7858] gi|47095405|ref|ZP_00233015.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 1/2a F6854] gi|224499695|ref|ZP_03668044.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes Finland 1988] gi|224501605|ref|ZP_03669912.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-561] gi|226224055|ref|YP_002758162.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes Clip81459] gi|254824487|ref|ZP_05229488.1| RNA polymerase subunit sigma [Listeria monocytogenes FSL J1-194] gi|254827742|ref|ZP_05232429.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N3-165] gi|254829787|ref|ZP_05234442.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 10403S] gi|254852080|ref|ZP_05241428.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-503] gi|254898380|ref|ZP_05258304.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes J0161] gi|254912128|ref|ZP_05262140.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes J2818] gi|254932639|ref|ZP_05265998.1| RNA polymerase subunit sigma [Listeria monocytogenes HPB2262] gi|254936456|ref|ZP_05268153.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes F6900] gi|254994146|ref|ZP_05276336.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J2-064] gi|255029176|ref|ZP_05301127.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes LO28] gi|255522085|ref|ZP_05389322.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL J1-175] gi|284801841|ref|YP_003413706.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5578] gi|284994983|ref|YP_003416751.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5923] gi|315282349|ref|ZP_07870778.1| RNA polymerase sigma factor RpoD [Listeria marthii FSL S4-120] gi|1710684|sp|P52331|RPOD_LISMO RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-43 gi|664756|gb|AAC43306.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes] gi|16410883|emb|CAC99532.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes EGD-e] gi|46880950|gb|AAT04248.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. F2365] gi|47016226|gb|EAL07149.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 1/2a F6854] gi|47018932|gb|EAL09679.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes str. 4b H7858] gi|225876517|emb|CAS05226.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258600121|gb|EEW13446.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N3-165] gi|258605378|gb|EEW17986.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL R2-503] gi|258609048|gb|EEW21656.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes F6900] gi|284057403|gb|ADB68344.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5578] gi|284060450|gb|ADB71389.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 08-5923] gi|293584198|gb|EFF96230.1| RNA polymerase subunit sigma [Listeria monocytogenes HPB2262] gi|293590099|gb|EFF98433.1| sigma 43 subunit of RNA polymerase [Listeria monocytogenes J2818] gi|293593725|gb|EFG01486.1| RNA polymerase subunit sigma [Listeria monocytogenes FSL J1-194] gi|313614010|gb|EFR87725.1| RNA polymerase sigma factor RpoD [Listeria marthii FSL S4-120] gi|328465497|gb|EGF36726.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 1816] gi|332311895|gb|EGJ24990.1| RNA polymerase sigma factor rpoD [Listeria monocytogenes str. Scott A] gi|1093602|prf||2104269C RNA polymerase:SUBUNIT=sigma Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|311031650|ref|ZP_07709740.1| RNA polymerase sigma factor RpoD [Bacillus sp. m3-13] Length = 374 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 105 VRMYLKEIGRVDLLSAEEEISLANRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 161 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 162 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 221 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEIA+ + + + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 222 INKLIRVQRQLLQDLGREPSPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHL 281 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 282 GDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 341 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 342 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 40/131 (30%), Positives = 67/131 (51%), Gaps = 6/131 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++ ++ ++RG +T EE+ + E+ S+QM++ L G+ ++ E GS+D Sbjct: 22 EQLTEVGKKRGVLTYEEIAEKMAGFEIESDQMDEYYEYLGEQGVEIIG------EAGSDD 75 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + A L +DPVRMYL+E+G ++LLS E EI++A RIE G Sbjct: 76 DPNTQQLAKEEEFDLNDLTVPPGVKINDPVRMYLKEIGRVDLLSAEEEISLANRIEEGDE 135 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 136 EAKRRLAEANL 146 >gi|30264362|ref|NP_846739.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Ames] gi|47529811|ref|YP_021160.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. 'Ames Ancestor'] gi|49187190|ref|YP_030442.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Sterne] gi|49481307|ref|YP_038350.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141207|ref|YP_085621.1| RNA polymerase sigma factor RpoD [Bacillus cereus E33L] gi|65321666|ref|ZP_00394625.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Bacillus anthracis str. A2012] gi|118479464|ref|YP_896615.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis str. Al Hakam] gi|165872043|ref|ZP_02216683.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488] gi|167634513|ref|ZP_02392833.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442] gi|167638663|ref|ZP_02396939.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193] gi|170687516|ref|ZP_02878733.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465] gi|170707362|ref|ZP_02897816.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389] gi|196046412|ref|ZP_03113638.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108] gi|218905429|ref|YP_002453263.1| RNA polymerase sigma-43 factor [Bacillus cereus AH820] gi|225866273|ref|YP_002751651.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102] gi|228929335|ref|ZP_04092360.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935612|ref|ZP_04098427.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228948006|ref|ZP_04110292.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229093361|ref|ZP_04224468.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42] gi|229123831|ref|ZP_04253025.1| RNA polymerase sigma factor [Bacillus cereus 95/8201] gi|229186532|ref|ZP_04313694.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1] gi|229601154|ref|YP_002868581.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0248] gi|254684050|ref|ZP_05147910.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. CNEVA-9066] gi|254736399|ref|ZP_05194105.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Western North America USA6153] gi|254741437|ref|ZP_05199124.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Kruger B] gi|254757799|ref|ZP_05209826.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Australia 94] gi|30259020|gb|AAP28225.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Ames] gi|47504959|gb|AAT33635.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. 'Ames Ancestor'] gi|49181117|gb|AAT56493.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Sterne] gi|49332863|gb|AAT63509.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974676|gb|AAU16226.1| RNA polymerase sigma-43 factor [Bacillus cereus E33L] gi|118418689|gb|ABK87108.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis str. Al Hakam] gi|164712174|gb|EDR17711.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488] gi|167513511|gb|EDR88881.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193] gi|167529965|gb|EDR92700.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442] gi|170127606|gb|EDS96479.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389] gi|170668711|gb|EDT19457.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465] gi|196022882|gb|EDX61563.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108] gi|218536133|gb|ACK88531.1| RNA polymerase sigma-43 factor [Bacillus cereus AH820] gi|225787167|gb|ACO27384.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102] gi|228596963|gb|EEK54621.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1] gi|228659652|gb|EEL15298.1| RNA polymerase sigma factor [Bacillus cereus 95/8201] gi|228690017|gb|EEL43818.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42] gi|228811696|gb|EEM58031.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228824052|gb|EEM69869.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830349|gb|EEM75961.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229265562|gb|ACQ47199.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0248] Length = 373 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 70/139 (50%), Gaps = 23/139 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND----EGPNN 77 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 78 HQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 126 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 127 TRIEEGDEEAKRRLAEANL 145 >gi|312143990|ref|YP_003995436.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium sp. 'sapolanicus'] gi|311904641|gb|ADQ15082.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium sp. 'sapolanicus'] Length = 360 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+++VEANLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 110 VMLAKRMEQGDEWAKQQLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKAVEKFDY 169 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+K++R +R++ + REP PE Sbjct: 170 TKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKGREPKPE 229 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ + E VR+++KI +EP+SLETPIG+E+ SHLGDFIED+++ +P +A L+ Sbjct: 230 EIGEEMDISAEKVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDEDSPAPASAASYILLK 289 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+RVL +RFGI TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 290 EQLDGVLDTLTEREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHP 349 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +L+ Sbjct: 350 SRSKKLKDYLE 360 Score = 59.3 bits (142), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 42/135 (31%), Positives = 68/135 (50%), Gaps = 15/135 (11%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D + +I ++ G +T EE+ L ++ SE +E + + IN+V+ +DEE Sbjct: 12 DEVQALISRGKKEGELTYEEIMDALEDIDLDSEDIEQIYDLFNEKNINIVNEKLQQDEEE 71 Query: 89 SEDS-LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +DS LDL+ DDPVRMYL+E+G ++LL+ + E+ +AKR+E Sbjct: 72 EDDSGLDLSVPKGVG--------------IDDPVRMYLKEIGKVDLLTADEEVMLAKRME 117 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 118 QGDEWAKQQLVEANL 132 >gi|227817068|ref|YP_002817077.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. CDC 684] gi|227007300|gb|ACP17043.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. CDC 684] Length = 373 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 17/136 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ E Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDEGPNNHQI 80 Query: 89 --SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A RI Sbjct: 81 TKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLATRI 129 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 130 EEGDEEAKRRLAEANL 145 >gi|205374117|ref|ZP_03226917.1| RNA polymerase sigma factor RpoD [Bacillus coahuilensis m4-4] Length = 337 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/266 (58%), Positives = 202/266 (75%), Gaps = 9/266 (3%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 +S E IS++E + +G+ EA K+ + EANLRLV+S+AK+Y RG+ FLDLIQ Sbjct: 81 LSAEEEISLAE------RIEQGDEEA---KRRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 131 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R Sbjct: 132 EGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRV 191 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R++ + REP+PEEI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED Sbjct: 192 QRQLLQDLGREPSPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDS 251 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK F VTRER Sbjct: 252 EAQSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRER 311 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 312 IRQIEAKALRKLRHPSRSKRLKDFLE 337 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 34/112 (30%), Positives = 56/112 (50%), Gaps = 17/112 (15%) Query: 57 EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE------DSLDLASSASNSSVFLQKRK 110 ++ S+Q+++ L GI +V +D + + +E + DL + V Sbjct: 9 DLDSDQIDEYFEQLGEQGIEIVHENDSDSDPNAEQLNKNEEEFDLNDLSVPPGV------ 62 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G ++LLS E EI++A+RIE G L E+ L Sbjct: 63 -----KINDPVRMYLKEIGRVDLLSAEEEISLAERIEQGDEEAKRRLAEANL 109 >gi|225412271|ref|ZP_03761460.1| hypothetical protein CLOSTASPAR_05493 [Clostridium asparagiforme DSM 15981] gi|225042189|gb|EEG52435.1| hypothetical protein CLOSTASPAR_05493 [Clostridium asparagiforme DSM 15981] Length = 376 Score = 315 bits (806), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 191/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K + E+NLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 138 AAKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+++VRT+R++ ++ REPT EEIA + M VE V Sbjct: 198 IRQAITRSIADQARTIRIPVHMVENINRLVRTSRQLLQELGREPTTEEIAARAEMSVERV 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+++EP+SLETPIG+E+ SHLGDFI+D N P D+A L E VL +LT R Sbjct: 258 SEILKMSQEPVSLETPIGEEEDSHLGDFIQDDNVTVPQDAATYTLLHEQLMEVLTTLTER 317 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 318 EQKVLRLRFGLDDGRPRTLEEVGREFKVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 375 Score = 43.9 bits (102), Expect = 0.085, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 29/47 (61%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S DPVRMYL+E+G I LL E EI +A+++E G L ES L Sbjct: 101 SLQDPVRMYLKEIGKIPLLDMEAEIRLARQMEEGDREAAKRLAESNL 147 >gi|300765597|ref|ZP_07075576.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N1-017] gi|300513698|gb|EFK40766.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL N1-017] Length = 374 Score = 314 bits (805), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 363 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 364 SRSKQLKDFLE 374 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 43/137 (31%), Positives = 69/137 (50%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + I V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAEIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EET--ESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|229086862|ref|ZP_04219022.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44] gi|228696437|gb|EEL49262.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44] Length = 373 Score = 314 bits (805), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 70/139 (50%), Gaps = 23/139 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND----EGPNR 77 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 78 HQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 126 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 127 TRIEEGDEEAKRRLAEANL 145 >gi|169830688|ref|YP_001716670.1| RNA polymerase sigma factor RpoD [Candidatus Desulforudis audaxviator MP104C] gi|169637532|gb|ACA59038.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Desulforudis audaxviator MP104C] Length = 360 Score = 314 bits (805), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 VS+ R+ E AK+ ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 110 VSLARRMEAGDDEAKRRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 169 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 170 KKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQELGREPLPE 229 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ + + VR++ KI +EP+SLETPIG+E+ SHLGDFIED++A +P + A LR Sbjct: 230 EIAREMDISEDKVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAQAPAEEASFTLLR 289 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+RVLR+RFG+ TLEEVG++F VTRERIRQIEAK +RKL+HP Sbjct: 290 EQLDDVLKTLTEREQRVLRLRFGLDDGRARTLEEVGQEFGVTRERIRQIEAKTLRKLRHP 349 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 350 SRSKKLKDYLD 360 Score = 56.6 bits (135), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 38/117 (32%), Positives = 65/117 (55%), Gaps = 10/117 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSEDS 92 +++ +QRG +T E+ L E++ +Q++D L+ GI VV +G DL + + Sbjct: 12 LVEKGKQRGTLTYNEVMDSLQGFELTPDQIDDVYERLAGEGIEVVPEGPDL----AALEE 67 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + + + D DDPVRMYL+E+G I LL+ E E+++A+R+EAG Sbjct: 68 ETREEDVEEAEIAIPEGVD-----IDDPVRMYLKEIGRIPLLTPEEEVSLARRMEAG 119 >gi|315303191|ref|ZP_07873849.1| RNA polymerase sigma factor RpoD [Listeria ivanovii FSL F6-596] gi|313628434|gb|EFR96909.1| RNA polymerase sigma factor RpoD [Listeria ivanovii FSL F6-596] Length = 386 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 136 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 195 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 196 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 255 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 256 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 315 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 316 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 375 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 376 SRSKQLKDFLE 386 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 35 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 94 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 95 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 141 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 142 IEAGDIEAKGRLAEANL 158 >gi|1943995|dbj|BAA19494.1| sigA=sigma70 [Staphylococcus aureus] Length = 368 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 152/276 (55%), Positives = 205/276 (74%), Gaps = 1/276 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +++ + + + ++ E +AK + EANLRLV+S+AK+Y Sbjct: 93 VKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVG 152 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IA Q+ TIRIPVHM Sbjct: 153 RGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIAHQARTIRIPVHM 212 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + R+P PEEI +++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 213 VETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDD 272 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 SHLGDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEV Sbjct: 273 SHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 332 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 GK F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+D Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368 Score = 61.6 bits (148), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 43/143 (30%), Positives = 74/143 (51%), Gaps = 14/143 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K++I+ ++ G+++ EE+ L ++ S+QM+D L++ I++V+ D D + Sbjct: 21 DVKKQLIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDISLVNEKDSSDTDE 80 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + DL++ +DPVRMYL+E+G + LLS + EI +AKRIE Sbjct: 81 KLNPSDLSAPPGVK--------------INDPVRMYLKEIGRVNLLSAQEEIELAKRIEQ 126 Query: 149 GRAMMMASLCESPLTFQALIIWR 171 G + + L E+ L I R Sbjct: 127 GDEVAKSRLAEANLRLVVSIAKR 149 >gi|254721884|ref|ZP_05183673.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. A1055] Length = 373 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGI 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 17/136 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ E Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDEGPNNHQI 80 Query: 89 --SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A RI Sbjct: 81 TKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLATRI 129 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 130 EEGDEEAKRRLAEANL 145 >gi|225026959|ref|ZP_03716151.1| hypothetical protein EUBHAL_01215 [Eubacterium hallii DSM 3353] gi|224955724|gb|EEG36933.1| hypothetical protein EUBHAL_01215 [Eubacterium hallii DSM 3353] Length = 422 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRL +S+AK+Y+ RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 184 AKKKLSEANLRLTVSIAKRYSGRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 243 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR+IADQ+ TIRIPVHM + +++V RT+RR+ + REPTPEEIA+ + +PVE V Sbjct: 244 IRQSITRAIADQARTIRIPVHMVETMNRVNRTSRRLLQEYGREPTPEEIAEAMNLPVERV 303 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ KI++EP+SLETPIG+E+ SHLGDFI+D++ P D A LRE +V+ +L+ R Sbjct: 304 LEISKISQEPVSLETPIGEEEDSHLGDFIQDEHIPVPADEAAHTLLREQLEKVMDTLSER 363 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL +RFG+ HTLEEVG++F VTRERIRQIEAKA+RKL+HP+RS+KLR FL+ Sbjct: 364 EQKVLALRFGLEDGKPHTLEEVGREFQVTRERIRQIEAKALRKLRHPTRSRKLRDFLE 421 Score = 57.4 bits (137), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 46/156 (29%), Positives = 74/156 (47%), Gaps = 23/156 (14%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV-----VDGDDLEDEEGSEDSL 93 +Q+ V ++E+ ++ Q+E +A L I+V ++ DD+ED+ G DSL Sbjct: 47 KQKNVVELQEIRDVFQNSPLTQAQLERIIAYLEEQKIDVLTMPDINADDIEDDVGEIDSL 106 Query: 94 D-------------LASSASNSSVFLQKRKDSADRSTD-----DPVRMYLREMGSIELLS 135 + + +A + + ++S + T+ DPVRMYL+E+G I LLS Sbjct: 107 NDMDVFQKPDRIGNVQVTAEIEKGYEKTAEESENSFTERGNAEDPVRMYLKEIGRIPLLS 166 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 E EI +AKR+E G L E+ L I R Sbjct: 167 SEEEIELAKRMEEGDEEAKKKLSEANLRLTVSIAKR 202 >gi|229031941|ref|ZP_04187928.1| RNA polymerase sigma factor [Bacillus cereus AH1271] gi|228729405|gb|EEL80395.1| RNA polymerase sigma factor [Bacillus cereus AH1271] Length = 375 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 106 VRMYLKEIGRVDLLSAEEEIRLATRIEDGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 163 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 222 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 223 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 282 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 283 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 342 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 343 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 63.2 bits (152), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 45/139 (32%), Positives = 72/139 (51%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D +EEG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND--NEEGPNN 79 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 80 RQISKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 128 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 129 TRIEDGDEEAKRRLAEANL 147 >gi|299822900|ref|ZP_07054786.1| DNA-directed RNA polymerase sigma subunit RpoD [Listeria grayi DSM 20601] gi|299816429|gb|EFI83667.1| DNA-directed RNA polymerase sigma subunit RpoD [Listeria grayi DSM 20601] Length = 389 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 150/251 (59%), Positives = 194/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 139 VALAKRIETGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 198 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 199 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 258 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+ Sbjct: 259 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLK 318 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 319 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHP 378 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 379 SRSKQLKDFLE 389 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 45/138 (32%), Positives = 69/138 (50%), Gaps = 22/138 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD---------LE 84 +I+ ++ G +T +++ A L P + S+QM++ + L+ GI V D D L Sbjct: 37 LIETGKKSGTLTYDKVAAQLAPFTLDSDQMDEFLVHLTQNGIEVTDDVDEDEDPDEKELI 96 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE E LDL + V +DPVRMYL+E+G + LL+ + E+A+AK Sbjct: 97 KEETEE--LDLTDMSVPPGV-----------KINDPVRMYLKEIGRVNLLTADEEVALAK 143 Query: 145 RIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 144 RIETGDIEAKGRLAEANL 161 >gi|270487764|ref|ZP_06204838.1| sigma-70, region 4 [Yersinia pestis KIM D27] gi|270336268|gb|EFA47045.1| sigma-70, region 4 [Yersinia pestis KIM D27] Length = 215 Score = 314 bits (805), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 151/214 (70%), Positives = 179/214 (83%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 +QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 1 MQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 60 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SH Sbjct: 61 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 120 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGK Sbjct: 121 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGK 180 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 QF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 181 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 214 >gi|319651585|ref|ZP_08005712.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317396652|gb|EFV77363.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 374 Score = 314 bits (804), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 105 VRMYLKEIGRVDLLSAEEEIALANRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 161 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 162 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 221 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REPTPEEIA+ + + + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 222 INKLIRVQRQLLQDLGREPTPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHL 281 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED++A SP + A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 282 GDFIEDQDATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 341 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 342 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 40/135 (29%), Positives = 68/135 (50%), Gaps = 16/135 (11%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE----- 87 +++++ ++ G + +++ L EV S QM++ L + G+ +V ++ ED Sbjct: 23 QLVEIGKKTGVLAYDDIAERLSQFEVDSHQMDEFYEFLGDQGVELVGDNENEDPNVQELA 82 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +E+ DL + V +DPVRMYL+E+G ++LLS E EIA+A RIE Sbjct: 83 KNEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIALANRIE 131 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 132 EGDEEAKRRLAEANL 146 >gi|220932077|ref|YP_002508985.1| RNA polymerase, sigma 70 subunit, RpoD family [Halothermothrix orenii H 168] gi|219993387|gb|ACL69990.1| RNA polymerase, sigma 70 subunit, RpoD family [Halothermothrix orenii H 168] Length = 358 Score = 314 bits (804), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 152/238 (63%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+VEANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 121 AKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REPTPEEI +++ MP E V Sbjct: 181 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFIED++A +P +A LRE VL +LT R Sbjct: 241 REILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+RVL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 301 EKRVLELRFGLEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 358 Score = 58.2 bits (139), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 47/131 (35%), Positives = 70/131 (53%), Gaps = 14/131 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++IK ++ GY+T EE+ L E+SSE +E + + M I+VVD D D++ +D Sbjct: 14 KELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVVDDVDEVDDDKGDD 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L+L+ DDPVRMYL+E+G + LL+ E E+ +AKRIE G Sbjct: 74 DLELSIPEGV--------------GIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDE 119 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 120 QAKRELVEANL 130 >gi|224542125|ref|ZP_03682664.1| hypothetical protein CATMIT_01300 [Catenibacterium mitsuokai DSM 15897] gi|224524962|gb|EEF94067.1| hypothetical protein CATMIT_01300 [Catenibacterium mitsuokai DSM 15897] Length = 418 Score = 314 bits (804), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 151/239 (63%), Positives = 189/239 (79%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 179 AKKELAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ ++ REPT EEIA+K+ M Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQELGREPTAEEIAEKMDGMTPAK 298 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI+ EP+SLETPIG+ED SHLGDFIED+ A+SP D A L++ VL LT Sbjct: 299 VREIQKISLEPVSLETPIGEEDDSHLGDFIEDEGAMSPDDYASNELLKDELNEVLLELTD 358 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHPSRSK+L+ FLD Sbjct: 359 REEKVLRLRFGLDDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPSRSKRLKDFLD 417 Score = 45.1 bits (105), Expect = 0.046, Method: Compositional matrix adjust. Identities = 43/159 (27%), Positives = 73/159 (45%), Gaps = 42/159 (26%) Query: 32 KKMIKLARQRGY-VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG---------- 80 K +I A+ +G +T ++L+AF ++ E E+ + ++ I + DG Sbjct: 18 KMLISAAKAKGNRLTQDDLDAFQSRYDLDDEAYENLIDAINENHIEIEDGLDALEIDDDD 77 Query: 81 ------DDLEDEEGSE------------------DSLDLASSASNSSVFLQKRKD----- 111 DDL+D EG E + LD+ +N ++ Q D Sbjct: 78 FMAGGADDLDDLEGLEVDTDDDTGDDDIANLDFGNDLDMDFGDTNK-MYNQSDDDDDMNQ 136 Query: 112 -SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ +DPV+MYL+E+G ++LL+ E EI +AKRI G Sbjct: 137 LGSNVKINDPVKMYLKEIGRVDLLTHEQEIELAKRILEG 175 >gi|187736115|ref|YP_001878227.1| RNA polymerase, sigma 70 subunit, RpoD family [Akkermansia muciniphila ATCC BAA-835] gi|187426167|gb|ACD05446.1| RNA polymerase, sigma 70 subunit, RpoD family [Akkermansia muciniphila ATCC BAA-835] Length = 688 Score = 314 bits (804), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 152/248 (61%), Positives = 194/248 (78%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK EA AK EMVEANLRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ G Sbjct: 437 LRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRG 496 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K++R +++ + REPTPEEIA Sbjct: 497 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPTPEEIA 556 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ +PVE VR VLK+ ++PISL+ P+GD D + GDFIEDK A +P++ A + L+E Sbjct: 557 EEIHLPVERVRSVLKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKI 616 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +LT RE V+ RFG+ + TLEEVG+QF VTRERIRQIEAKA+RKL+HP+R Sbjct: 617 KDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPTRI 676 Query: 674 KKLRSFLD 681 K++ FL+ Sbjct: 677 SKIKGFLE 684 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 41/116 (35%), Positives = 71/116 (61%), Gaps = 7/116 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++IKLA+++GY+T +++N LP D V + E + L +M +++D D++ D Sbjct: 162 RELIKLAKEQGYLTFDDINDSLPNDIVDQQDYEAIMDRLRSMAFDIIDASDVD---SYTD 218 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +++ + L+ + D DDPVRMYL++MG + LL+RE E+AI+KRIE Sbjct: 219 RTRISTEEEDEEEKLEAKMDI----LDDPVRMYLKQMGQVSLLTREEEVAISKRIE 270 >gi|298246437|ref|ZP_06970243.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297553918|gb|EFH87783.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 422 Score = 314 bits (804), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 147/243 (60%), Positives = 192/243 (79%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E A+K + EANLRLV+SVAKKY RG+ LDLIQEGNIGL++A EKFD+ G+KFST Sbjct: 180 SEGEEAQKRLTEANLRLVVSVAKKYIGRGMNLLDLIQEGNIGLIRAVEKFDYNKGFKFST 239 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I++++R +RR+ + REPT EEIA ++ + Sbjct: 240 YATWWIRQAITRAIADQARTIRIPVHMVETINRLIRISRRLLQDLGREPTSEEIAAQMEI 299 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E VR+++K+++EP+SLETPIG+ED SHLGDFIED A++P D+A L+E VL Sbjct: 300 SAEKVREIIKVSQEPVSLETPIGEEDDSHLGDFIEDHTALAPADAASHQLLKEQVEDVLD 359 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SLT RE +VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ Sbjct: 360 SLTERERKVLQLRFGLDDGRSRTLEEVGKEFHVTRERIRQIEAKALRKLRHPSRSRKLKD 419 Query: 679 FLD 681 +LD Sbjct: 420 YLD 422 Score = 43.9 bits (102), Expect = 0.091, Method: Compositional matrix adjust. Identities = 20/36 (55%), Positives = 27/36 (75%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S DDPVRMYLRE+G + LL+ EI +A+ +E G+A Sbjct: 132 SLDDPVRMYLREIGRVPLLTAHEEIRLAQLMERGKA 167 >gi|77406972|ref|ZP_00783989.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae H36B] gi|77174413|gb|EAO77265.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae H36B] Length = 369 Score = 314 bits (804), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELAVAVAEGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFME 368 Score = 43.9 bits (102), Expect = 0.083, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 55/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + + ++ S Sbjct: 39 PFVLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEGPKSEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTNEEEKELAVAVAEGDLMAKQRLAEANL 140 >gi|22537572|ref|NP_688423.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae 2603V/R] gi|25011538|ref|NP_735933.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae NEM316] gi|76788342|ref|YP_330069.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae A909] gi|77409561|ref|ZP_00786243.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae COH1] gi|77412516|ref|ZP_00788814.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae CJB111] gi|77414847|ref|ZP_00790961.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae 515] gi|22534455|gb|AAN00296.1|AE014257_3 RNA polymerase sigma-70 factor [Streptococcus agalactiae 2603V/R] gi|24413077|emb|CAD47155.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae NEM316] gi|76563399|gb|ABA45983.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae A909] gi|77159097|gb|EAO70294.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae 515] gi|77161430|gb|EAO72443.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae CJB111] gi|77171826|gb|EAO75013.1| RNA polymerase sigma-70 factor [Streptococcus agalactiae COH1] Length = 369 Score = 314 bits (804), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELAVAVAEGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFME 368 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFVLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEGPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTNEEEKELAVAVAEGDLMAKQRLAEANL 140 >gi|168187756|ref|ZP_02622391.1| RNA polymerase sigma factor RpoD [Clostridium botulinum C str. Eklund] gi|169294399|gb|EDS76532.1| RNA polymerase sigma factor RpoD [Clostridium botulinum C str. Eklund] Length = 368 Score = 313 bits (803), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 200/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 118 VDLAQRIEAGEMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 177 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 178 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPE 237 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 238 EIAKIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 297 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 298 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 357 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 358 SRSKKLKDYLD 368 Score = 58.2 bits (139), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 69/131 (52%), Gaps = 15/131 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G +T +E+ L E+S EQ+E +L +M I V+ GD + E E+ Sbjct: 25 KSLIDKGKKKGSLTYKEIMDELDNVELSPEQIEKVYGVLESMDIEVI-GDMKDMESEEEE 83 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL+ S DDPVRMYL+E+G + LL+ + E+ +A+RIEAG Sbjct: 84 EIDLSVPEGIS--------------IDDPVRMYLKEIGKVPLLTPDEEVDLAQRIEAGEM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 YAKKKLAEANL 140 >gi|322387734|ref|ZP_08061343.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus infantis ATCC 700779] gi|321141601|gb|EFX37097.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus infantis ATCC 700779] Length = 369 Score = 313 bits (803), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDVEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + + +EPTPE+IA+K+ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 43.9 bits (102), Expect = 0.098, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 64/131 (48%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N L P + E +E+ + + + GI++ D EG+ Sbjct: 17 EFIRNHKKTGTATDDEINNVLVIPFALDVEGIENLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SERVLSTEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDV 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|289167835|ref|YP_003446104.1| DNA-dependent RNA Polymerase sigma factor rpoD [Streptococcus mitis B6] gi|288907402|emb|CBJ22239.1| DNA-dependent RNA Polymerase sigma factor rpoD [Streptococcus mitis B6] Length = 369 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + + +EPTPE+IA+K+ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 39/131 (29%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q+G T +E+NA L P + ++ +ED + + + GI++ D EG+ Sbjct: 17 EFIRNHKQKGTATDDEINASLVLPFTLDADGIEDLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSAEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|319745370|gb|EFV97681.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus agalactiae ATCC 13813] Length = 380 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 110 VRMYLKEIGVVPLLTNEEEKELAVAVAEGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 166 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 167 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 226 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 227 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 286 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 287 GDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 346 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 347 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFME 379 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 50 PFVLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEGPKPEELTDEELIGSNS 103 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 104 AKVNDPVRMYLKEIGVVPLLTNEEEKELAVAVAEGDLMAKQRLAEANL 151 >gi|167772125|ref|ZP_02444178.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM 17241] gi|167665923|gb|EDS10053.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM 17241] Length = 361 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD G+KFSTYA WW Sbjct: 124 ARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDHTKGFKFSTYATWW 183 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+KV + + + +K EPT EEI+ +L MPV+ V Sbjct: 184 IRQAITRAIADQARTIRIPVHMVETINKVKKVSSLLLHKNGHEPTAEEISAELDMPVDKV 243 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++++ +EP+SLETPIG+E+ SHLGDFI D++A +P +A LRE + VL +LTPR Sbjct: 244 REIMRVAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPDTAASHTLLREQLSEVLQTLTPR 303 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 304 EEKVLRLRFGLEDGRSRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 361 Score = 41.2 bits (95), Expect = 0.55, Method: Compositional matrix adjust. Identities = 32/124 (25%), Positives = 63/124 (50%), Gaps = 20/124 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG------DDLED 85 K++++ + +G +T +E++ L + EQ++ +L I +++ +D +D Sbjct: 11 KELLESGKAKGKLTTKEISDALEELDYDVEQVDKMYDLLEQNNIEIIEDMVTPVEEDFKD 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 G LD+A +A ++ DDPV++YL+E+G + LLS + EI +A R Sbjct: 71 L-GKGTDLDVALAAEGINI-------------DDPVKVYLKEIGRVPLLSADEEIDLAVR 116 Query: 146 IEAG 149 + G Sbjct: 117 MAQG 120 >gi|323703334|ref|ZP_08114984.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum nigrificans DSM 574] gi|323531697|gb|EGB21586.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum nigrificans DSM 574] Length = 367 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 130 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ + + V Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMNISGDKV 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED +A +P + A LRE VL +LT R Sbjct: 250 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDADARAPAEEASFTLLREQLDEVLKTLTDR 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVG++F VTRERIRQIEAK +RKL+HPSRSKKL+ +LD Sbjct: 310 EQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYLD 367 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 49/141 (34%), Positives = 75/141 (53%), Gaps = 7/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 K+MI+ ++RG +T E+ L E+++EQ++D L+ MGI VV + DLE E + Sbjct: 14 KEMIEKGKKRGSLTYGEIMDSLQGAELTAEQIDDIYEQLAAMGIEVVPEVTDLEPLE-VD 72 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D+ D + + + + DDPVRMYL+E+G + LLS E E+ +AKR+E G Sbjct: 73 DAADTPTEDVEIDLSIPE-----GIGIDDPVRMYLKEIGRVPLLSPEEEVELAKRMEQGD 127 Query: 151 AMMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 128 EEAKRRLAEANLRLVVSIAKR 148 >gi|261367093|ref|ZP_05979976.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM 15176] gi|282571217|gb|EFB76752.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM 15176] Length = 364 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 148/248 (59%), Positives = 196/248 (79%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD G Sbjct: 117 IQAGGPEGEKAKQRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDHTKG 176 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV + + ++ ++ +P+ EEIA Sbjct: 177 FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSQLLHEYGHDPSAEEIA 236 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L M V+ VR+++++ +EP+SLETPIG+E+ SHLGDFI D +A P ++A Q L+E Sbjct: 237 ERLDMSVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFIPDDDAPVPAEAASQTLLKEQL 296 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS Sbjct: 297 ADVLKTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 356 Query: 674 KKLRSFLD 681 KKLR FLD Sbjct: 357 KKLRDFLD 364 Score = 40.4 bits (93), Expect = 0.96, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + DDPV++YL+E+G + LL+ E EI +A +I+AG Sbjct: 87 TIDDPVKVYLKEIGRVPLLTPEEEIDLALKIQAG 120 >gi|253682266|ref|ZP_04863063.1| RNA polymerase sigma factor RpoD [Clostridium botulinum D str. 1873] gi|253561978|gb|EES91430.1| RNA polymerase sigma factor RpoD [Clostridium botulinum D str. 1873] Length = 368 Score = 313 bits (803), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 153/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ ++ E AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 118 ISLAQRIEDGDMYAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 177 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 178 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPE 237 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 238 EIAKIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 297 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 298 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 357 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 358 SRSKKLKDYLD 368 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 43/131 (32%), Positives = 70/131 (53%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G +T +E+ L E++ EQ+E +L +M I V+ D+++ E E+ Sbjct: 26 KNLIDKGKKKGNLTYKEIMDELDNVELTPEQIEKVYGVLESMDIEVIG--DMKEIETEEE 83 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL+ S DDPVRMYL+E+G + LLS + EI++A+RIE G Sbjct: 84 EIDLSIPEGIS--------------IDDPVRMYLKEIGKVPLLSPDEEISLAQRIEDGDM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 YAKKKLAEANL 140 >gi|322379076|ref|ZP_08053479.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS1] gi|322379940|ref|ZP_08054217.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS5] gi|321147638|gb|EFX42261.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS5] gi|321148568|gb|EFX43065.1| RNA polymerase sigma factor RpoD [Helicobacter suis HS1] Length = 634 Score = 313 bits (802), Expect = 6e-83, Method: Compositional matrix adjust. Identities = 197/576 (34%), Positives = 321/576 (55%), Gaps = 74/576 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I LLS+E E+ ++K+I+ G +++ ++C P + +++ L + Sbjct: 119 SDSPVRMYLREMGEIPLLSKEEEVYLSKQIKLGENIILDAICSVPYLIDFIYNYKEALIN 178 Query: 177 GTTLLREII---DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESA 233 ++E+ D E + + + +E + + +S +K++ V+E ++ Sbjct: 179 RERRVKELFRNFDNEGSMAKKDEDVEIEDSEEEDTPEIKRNSSDKDKKRVEEVLESFKAL 238 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRE 293 K K+ +++P ++E ED H L+ Sbjct: 239 NKAKKEWLKLLNTP----------VEEQEDPLLHALTL---------------------- 266 Query: 294 LRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 + KC+VLKEKL L + L I+ LV+ + K E Sbjct: 267 -----------------AYKCRVLKEKLYDLGPTSKL----INELVKAMETSLKSDDGFE 305 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVD-SILKIRNE 412 EL RL + + +E H+ + K+ + +A + +++ + E Sbjct: 306 KELKRLEYKLSLFNESLIENHK---------NILKNITTMSREEIIAMMPEATMIGVYME 356 Query: 413 IKSI-----SVETGISI--SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 IK + + + G ++ S+ + I+S +++G+ + AK +M +NLRLV+S+AK+YT+ Sbjct: 357 IKKLFQTKEASKDGFNLEPSKLKEILSQIKRGKLISDRAKNKMARSNLRLVVSIAKRYTS 416 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL FLDLIQEGNIGLMKA +KF+ YKFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 417 RGLPFLDLIQEGNIGLMKAVDKFEHEKNYKFSTYATWWIKQAISRAIADQARTIRIPIHM 476 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 D I+++ + R+ + +EP + +AK++ +P++ VR V+KITKEPISLE+P+G++D Sbjct: 477 IDTINRINKVMRKYMQENGKEPDLDLVAKEVGLPLDKVRNVIKITKEPISLESPVGNDDD 536 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEE 644 GDF+EDKN V ++ ++ +L+ VL L RE+ V+RMRFG+ + +D TLEE Sbjct: 537 GKFGDFVEDKNVVGSMEHIMREDLKAQIDGVLDQLNEREKSVIRMRFGLLEDESDRTLEE 596 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +GK+ VTRER+RQIE+ AI+KL+ P + LRS+L Sbjct: 597 IGKELNVTRERVRQIESSAIKKLRSPQYGRLLRSYL 632 >gi|323490072|ref|ZP_08095293.1| RNA polymerase sigma factor RpoD [Planococcus donghaensis MPA1U2] gi|323396368|gb|EGA89193.1| RNA polymerase sigma factor RpoD [Planococcus donghaensis MPA1U2] Length = 384 Score = 313 bits (802), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + E + ++ +G+ EA KK + EANLRLV+S+AK+Y RG+ Sbjct: 115 VRMYLKEIGRVDLLKAEEEVRLAKLIEQGDEEA---KKRLAEANLRLVVSIAKRYVGRGM 171 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 172 LFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 231 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + R+P+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 232 INKLIRVQRQLLQDLGRDPSPEEIGEEMDLLPEKVREILKIAQEPVSLETPIGEEDDSHL 291 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED +A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 292 GDFIEDSDAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 351 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 352 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 384 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 6/144 (4%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +++ K++I+ ++ G + E++ L E+ S+ +E+ + L GI +LE + Sbjct: 28 EEAKKQLIEAGKKTGELNYEQIADKLAIFEMESDAVEEFIDQLEGHGI------ELERKS 81 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 E+ LD + L +DPVRMYL+E+G ++LL E E+ +AK IE Sbjct: 82 DDEEHLDRLMKPTEDKFDLNDLSVPPGVKINDPVRMYLKEIGRVDLLKAEEEVRLAKLIE 141 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 G L E+ L I R Sbjct: 142 QGDEEAKKRLAEANLRLVVSIAKR 165 >gi|293376344|ref|ZP_06622581.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325843397|ref|ZP_08167955.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] gi|292645033|gb|EFF63106.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325489319|gb|EGC91693.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] Length = 456 Score = 313 bits (802), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 146/242 (60%), Positives = 195/242 (80%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E AKK +VEANLRLV+S+AK++ RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTY Sbjct: 214 EGEYAKKRLVEANLRLVVSIAKRHVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTY 273 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ REP PEEI++K+ + Sbjct: 274 ATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQELGREPLPEEISEKMGIA 333 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E VR++LKI++EP+SLE+P+G+ED SHLGDFI D +A+SP + A L++ VL + Sbjct: 334 PEKVREILKISQEPVSLESPVGEEDDSHLGDFIPDADALSPSEFASNEMLKKELDDVLET 393 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT REERVLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS++L+ F Sbjct: 394 LTDREERVLRLRFGLEDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSRRLKDF 453 Query: 680 LD 681 ++ Sbjct: 454 ME 455 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 41/140 (29%), Positives = 75/140 (53%), Gaps = 23/140 (16%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD---------- 82 ++IKL ++RGY+T +E+N ++ E + + + + GI++V + Sbjct: 17 QLIKLGKKRGYLTYDEINNSFEQVQLDPEMISSFLDLYDSEGISIVKSEKIVETPEVGET 76 Query: 83 --------LEDEEGSEDSLDL-ASSASNSSVFLQKRKDSADRST----DDPVRMYLREMG 129 L D + ED ++ A+ ++ V L+++ D + ++ +DPVRMYL+E+G Sbjct: 77 EEEDTVLLLPDFDADEDEDNIPANFSTEDEVDLEEKFDEFEFTSQFKINDPVRMYLKEIG 136 Query: 130 SIELLSREGEIAIAKRIEAG 149 +ELLS + EI AK+IE G Sbjct: 137 RVELLSSQEEINFAKKIERG 156 >gi|299144149|ref|ZP_07037229.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298518634|gb|EFI42373.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 383 Score = 313 bits (802), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 146 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVEKFDYTKGFKFSTYATWW 205 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+P PEEI K++ + VE V Sbjct: 206 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELGRDPLPEEIGKEMNLEVEKV 265 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFI D +SP D+A L+E VL +LT R Sbjct: 266 REIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEILSPSDAATFTLLKEQLEDVLQTLTDR 325 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 326 EKKVLTLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 383 Score = 47.8 bits (112), Expect = 0.007, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S DDPVRMYL+E+G I LL+ + EI IA+R+E G L E+ L Sbjct: 109 SVDDPVRMYLKEIGKIPLLTGDEEIDIAQRMEVGDEDAKQELAEANL 155 >gi|229828460|ref|ZP_04454529.1| hypothetical protein GCWU000342_00522 [Shuttleworthia satelles DSM 14600] gi|229793054|gb|EEP29168.1| hypothetical protein GCWU000342_00522 [Shuttleworthia satelles DSM 14600] Length = 614 Score = 313 bits (802), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 143/238 (60%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 377 AKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 436 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA+++ + V Sbjct: 437 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAREMETTPDRV 496 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI+D+NA P ++A L+E VL +LT R Sbjct: 497 REILKISQEPVSLETPIGEEEDSHLGDFIQDENAPVPAEAATFTLLKEQLNEVLDTLTER 556 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +L+ Sbjct: 557 ERKVLILRFGLEDGRGRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLE 614 Score = 45.1 bits (105), Expect = 0.045, Method: Compositional matrix adjust. Identities = 26/74 (35%), Positives = 44/74 (59%), Gaps = 11/74 (14%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 DDPVRMYL+E+G + LL+ E E+ +A+++E G + A + + I R+E+ G Sbjct: 302 DDPVRMYLKEIGKVHLLTAEEEVDLAQKMEKG---LKAD--------EQIEILREEIRSG 350 Query: 178 TTLLREIIDLEACI 191 ++++LEA I Sbjct: 351 DLSEEDMMNLEAQI 364 >gi|110798581|ref|YP_696687.1| RNA polymerase sigma factor RpoD [Clostridium perfringens ATCC 13124] gi|15186722|dbj|BAB62883.1| RNA polymerase major sigma factor [Clostridium perfringens] gi|110673228|gb|ABG82215.1| RNA polymerase sigma factor RpoD [Clostridium perfringens ATCC 13124] Length = 366 Score = 313 bits (801), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E ++ AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 116 IELAKKIEEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 175 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PE Sbjct: 176 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLVQELGRDPLPE 235 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E++K++ MPV+ VR++LKI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+ Sbjct: 236 ELSKQMDMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTMLK 295 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 296 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 355 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 356 SRSKKLKDYLD 366 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 46/131 (35%), Positives = 69/131 (52%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I ++ G +T +E+ L E++ EQ+E +L +MGI V+ E EE E+ Sbjct: 24 KRLIDKGKKSGSLTYKEIMDELDEIELNPEQIEKIYEVLESMGIEVISEI--EQEEEEEE 81 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL+ + DDPVRMYL+E+G ++LLS E EI +AK+IE G Sbjct: 82 ELDLSVPEGIA--------------IDDPVRMYLKEIGKVQLLSSEDEIELAKKIEEGSN 127 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 128 YAKKKLAEANL 138 >gi|255659373|ref|ZP_05404782.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544] gi|260848459|gb|EEX68466.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544] Length = 373 Score = 313 bits (801), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 123 VALAKRMEAGDEEAQKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 183 NKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPTPE 242 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + V+ VR+++KI +EP+SLETPIG+E+ SHLGDFIED++A +P D+A L+ Sbjct: 243 EIAKEMEIGVDRVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPADAASFMLLK 302 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 303 EQLEDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHP 362 Query: 671 SRSKKLRSFLD 681 SRS+KL+ FLD Sbjct: 363 SRSRKLKDFLD 373 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 25/47 (53%), Positives = 33/47 (70%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S DDPVRMYL+E+G + LL+ E E+A+AKR+EAG L E+ L Sbjct: 99 SIDDPVRMYLKEIGRVPLLTAEEEVALAKRMEAGDEEAQKRLAEANL 145 >gi|110803528|ref|YP_699284.1| RNA polymerase sigma factor RpoD [Clostridium perfringens SM101] gi|169343561|ref|ZP_02864560.1| RNA polymerase sigma factor RpoD [Clostridium perfringens C str. JGS1495] gi|170763881|ref|ZP_02634334.2| RNA polymerase sigma factor RpoD [Clostridium perfringens B str. ATCC 3626] gi|170764050|ref|ZP_02630759.2| RNA polymerase sigma factor RpoD [Clostridium perfringens E str. JGS1987] gi|170764227|ref|ZP_02638581.2| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] gi|182420445|ref|ZP_02641259.2| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] gi|182624422|ref|ZP_02952206.1| RNA polymerase sigma factor RpoD [Clostridium perfringens D str. JGS1721] gi|110684029|gb|ABG87399.1| RNA polymerase sigma factor RpoD [Clostridium perfringens SM101] gi|169298121|gb|EDS80211.1| RNA polymerase sigma factor RpoD [Clostridium perfringens C str. JGS1495] gi|170663661|gb|EDT16344.1| RNA polymerase sigma factor RpoD [Clostridium perfringens E str. JGS1987] gi|170713105|gb|EDT25287.1| RNA polymerase sigma factor RpoD [Clostridium perfringens B str. ATCC 3626] gi|170715649|gb|EDT27831.1| RNA polymerase sigma factor RpoD [Clostridium perfringens CPE str. F4969] gi|177910425|gb|EDT72802.1| RNA polymerase sigma factor RpoD [Clostridium perfringens D str. JGS1721] gi|182382279|gb|EDT79758.1| RNA polymerase sigma factor RpoD [Clostridium perfringens NCTC 8239] Length = 366 Score = 313 bits (801), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E ++ AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 116 IELAKKIEEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 175 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PE Sbjct: 176 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLVQELGRDPLPE 235 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E++K++ MPV+ VR++LKI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+ Sbjct: 236 ELSKQMDMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTMLK 295 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 296 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 355 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 356 SRSKKLKDYLD 366 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 46/131 (35%), Positives = 68/131 (51%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I ++ G +T +E+ L E++ EQ+E +L +MGI V+ E EE E+ Sbjct: 24 KRLIDKGKKSGSLTYKEIMDELDEIELNPEQIEKIYEVLESMGIEVISEI--EQEEEEEE 81 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL+ + DDPVRMYL+E+G + LLS E EI +AK+IE G Sbjct: 82 ELDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLSSEDEIELAKKIEEGSN 127 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 128 YAKKKLAEANL 138 >gi|18310989|ref|NP_562923.1| RNA polymerase sigma factor RpoD [Clostridium perfringens str. 13] gi|18145671|dbj|BAB81713.1| transcription initiation factor sigma A [Clostridium perfringens str. 13] Length = 373 Score = 313 bits (801), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 203/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K E ++ AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 123 IELAKKIEEGSNYAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PE Sbjct: 183 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLVQELGRDPLPE 242 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E++K++ MPV+ VR++LKI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+ Sbjct: 243 ELSKQMDMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTMLK 302 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 303 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 362 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 363 SRSKKLKDYLD 373 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 46/131 (35%), Positives = 70/131 (53%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I ++ G +T +E+ L E++ EQ+E +L +MGI V+ ++E EE E+ Sbjct: 31 KRLIDKGKKSGSLTYKEIMDELDEIELNPEQIEKIYEVLESMGIEVIS--EIEQEEEEEE 88 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL+ + DDPVRMYL+E+G + LLS E EI +AK+IE G Sbjct: 89 ELDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLSSEDEIELAKKIEEGSN 134 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 135 YAKKKLAEANL 145 >gi|118444745|ref|YP_878546.1| RNA polymerase sigma factor RpoD [Clostridium novyi NT] gi|118135201|gb|ABK62245.1| RNA polymerase sigma-70 factor [Clostridium novyi NT] Length = 368 Score = 313 bits (801), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 131 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK + MPV+ V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKIMEMPVDKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTPR Sbjct: 251 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTPR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 311 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 368 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 45/131 (34%), Positives = 69/131 (52%), Gaps = 15/131 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G +T +E+ L E+S EQ+E A+L +M I V+ GD + E E+ Sbjct: 25 KSLIDKGKKKGSLTYKEIMDELDNVELSPEQIEKVYAVLESMDIEVI-GDMKDMETEEEE 83 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL+ S DDPVRMYL+E+G + LL+ + EI +A+RIE G Sbjct: 84 EIDLSVPEGIS--------------IDDPVRMYLKEIGKVPLLTPDEEIDLAQRIEEGEM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 YAKKKLAEANL 140 >gi|319935434|ref|ZP_08009871.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319809650|gb|EFW06063.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 422 Score = 313 bits (801), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 160/285 (56%), Positives = 209/285 (73%), Gaps = 8/285 (2%) Query: 402 EVDSILKIRNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ S +KI + +K E G +S E + + +G+ EA KK++ ANLRLV+ Sbjct: 140 QLGSNVKINDPVKMYLKEIGRVELLSHDEEIDLAKRILEGDEEA---KKKLAAANLRLVV 196 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ Sbjct: 197 SIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQAR 256 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEGVRKVLKITKEPISL 576 TIRIPVHM + I+K+ R R++ ++ REP EEIA+K+ M E VR++ KI+ EP+SL Sbjct: 257 TIRIPVHMVETINKLTRVQRQLIQELGREPLAEEIAEKMDGMTPEKVREIQKISLEPVSL 316 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIG+ED SHLGDFIED+ A+SP D A L++ VL LT REE+VLR+RFG+ Sbjct: 317 ETPIGEEDDSHLGDFIEDEGAMSPDDYAANELLKDELNEVLLELTDREEKVLRLRFGLDD 376 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK+F VTRERIRQIEAKA+RKLKHPSRSK+L+ FLD Sbjct: 377 GRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPSRSKRLKDFLD 421 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 40/150 (26%), Positives = 68/150 (45%), Gaps = 42/150 (28%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG----------------DDLED 85 G ++ ++L+AFL ++ E E+ + +++ GI + DG DL+D Sbjct: 30 GTLSQDDLDAFLTKYDLDDESAEELLQFITDSGIVIEDGLDALELDDEELLKGVGTDLDD 89 Query: 86 EEGSED----------------SLDLAS-----SASNSSVFLQKRKDSADR-----STDD 119 EG ED LD + ++++ D ++ +D Sbjct: 90 LEGLEDLGALEGLDDALGEDVPDLDFVGDFDMMTGDTANMYTHNDDDDENQLGSNVKIND 149 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAG 149 PV+MYL+E+G +ELLS + EI +AKRI G Sbjct: 150 PVKMYLKEIGRVELLSHDEEIDLAKRILEG 179 >gi|331269992|ref|YP_004396484.1| RpoD family RNA polymerase sigma-70 subunit [Clostridium botulinum BKT015925] gi|329126542|gb|AEB76487.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium botulinum BKT015925] Length = 368 Score = 312 bits (800), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 151/238 (63%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 131 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK + MPV+ V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKIMEMPVDKV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTPR Sbjct: 251 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTPR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 311 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 368 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 42/131 (32%), Positives = 64/131 (48%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++G +T +E+ L E++ EQ+E +L +M I VV G Sbjct: 26 KNLIDKGKKKGNLTYKEIMDELDNVELTPEQIEKVYGVLESMDIEVV---------GDIK 76 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 ++ + SV S DDPVRMYL+E+G + LLS + EI +A+RIE G Sbjct: 77 EIETEEEEIDLSV-------PEGISIDDPVRMYLKEIGKVPLLSPDEEINLAQRIEDGDM 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 YAKKKLAEANL 140 >gi|288818771|ref|YP_003433119.1| RNA polymerase sigma factor RpoD [Hydrogenobacter thermophilus TK-6] gi|288788171|dbj|BAI69918.1| RNA polymerase sigma factor RpoD [Hydrogenobacter thermophilus TK-6] gi|308752357|gb|ADO45840.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hydrogenobacter thermophilus TK-6] Length = 570 Score = 312 bits (800), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 145/273 (53%), Positives = 205/273 (75%) Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 L + E+K + E G+ E ++ ++++G + + AK+ MV+ NLRLV+S+AKKY NR Sbjct: 296 LTLEREVKELRKELGVLPEELDRVMHIIKEGRTKVTKAKQVMVKCNLRLVVSIAKKYVNR 355 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +K+D+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 356 GLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMI 415 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+ + + +++ ++ REP PEEIAK L + VE RKV++ ++EPISLETPIGD++ + Sbjct: 416 ETINDITKAHKKLFQELGREPFPEEIAKYLGISVEKARKVMRTSQEPISLETPIGDDEET 475 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HL DFIEDK+ +SP + + LRE +VL++L +E+ +L R+G+ T++TLE++G Sbjct: 476 HLKDFIEDKSVLSPEEQVSRKLLREQLIKVLSTLGEKEKEILMYRYGLVDGTEYTLEQIG 535 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 K F VTRERIRQIE KAIRKL+HP+R+K L+ F Sbjct: 536 KMFNVTRERIRQIETKAIRKLRHPARAKYLKDF 568 Score = 70.9 bits (172), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 49/137 (35%), Positives = 75/137 (54%), Gaps = 12/137 (8%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED 85 S D+ KK+++L ++GYVT +E+N L D V SE E+ + L G+ +++ +++ + Sbjct: 2 LSKDNIKKLMELG-EKGYVTYDEINEALGEDVVDSEAYEEIMDFLQERGVRIIESEEITE 60 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E D + S ++ L R DPV++YLREMG I LLSRE EI AK+ Sbjct: 61 ELEHGDEF----TVSTENLLLTAR-------DGDPVKLYLREMGRIPLLSREEEIMYAKQ 109 Query: 146 IEAGRAMMMASLCESPL 162 IE GR +M L + Sbjct: 110 IEMGRKIMRRGLLRTSF 126 >gi|75761907|ref|ZP_00741832.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74490615|gb|EAO53906.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 268 Score = 312 bits (800), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 31 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEI +++ + E V Sbjct: 91 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKV 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED+ A SP D A L+E VL +LT R Sbjct: 151 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDR 210 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 211 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 268 >gi|307706485|ref|ZP_07643293.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK321] gi|307708623|ref|ZP_07645087.1| RNA polymerase sigma factor RpoD [Streptococcus mitis NCTC 12261] gi|307615372|gb|EFN94581.1| RNA polymerase sigma factor RpoD [Streptococcus mitis NCTC 12261] gi|307618125|gb|EFN97284.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK321] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 39/131 (29%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q+G T +E+NA L P + ++ +ED + + + GI++ D EG+ Sbjct: 17 EFIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSTEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|313888947|ref|ZP_07822607.1| RNA polymerase sigma factor RpoD [Peptoniphilus harei ACS-146-V-Sch2b] gi|312845120|gb|EFR32521.1| RNA polymerase sigma factor RpoD [Peptoniphilus harei ACS-146-V-Sch2b] Length = 362 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 148/251 (58%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E +AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 112 VEIAKRMEEGDELAKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDY 171 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P PE Sbjct: 172 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQDLGRDPLPE 231 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + VE VR++ KI +EP+SLETPIG+E+ SHLGDFI D +SP D+A L+ Sbjct: 232 EIAAEMNLDVERVREIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEILSPQDAATFTLLK 291 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 292 EQLNTVLETLTDREKKVLTLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHP 351 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +L+ Sbjct: 352 SRSKKLKDYLE 362 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 32/47 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPVRMYL+E+G I LL+ E E+ IAKR+E G + L E+ L Sbjct: 88 TVDDPVRMYLKEIGKISLLTAEEEVEIAKRMEEGDELAKKELAEANL 134 >gi|270292885|ref|ZP_06199096.1| RNA polymerase sigma-70 factor [Streptococcus sp. M143] gi|306825379|ref|ZP_07458719.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|315613017|ref|ZP_07887928.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis ATCC 49296] gi|322374450|ref|ZP_08048964.1| RNA polymerase sigma-70 factor [Streptococcus sp. C300] gi|331266528|ref|YP_004326158.1| RNA polymerase sigma factor RpoD (sigma-70 factor, Sigma-A) [Streptococcus oralis Uo5] gi|270278864|gb|EFA24710.1| RNA polymerase sigma-70 factor [Streptococcus sp. M143] gi|304432317|gb|EFM35293.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|315315127|gb|EFU63168.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus sanguinis ATCC 49296] gi|321279950|gb|EFX56989.1| RNA polymerase sigma-70 factor [Streptococcus sp. C300] gi|326683200|emb|CBZ00818.1| RNA polymerase sigma factor RpoD (sigma-70 factor, Sigma-A) [Streptococcus oralis Uo5] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 45.1 bits (105), Expect = 0.037, Method: Compositional matrix adjust. Identities = 37/130 (28%), Positives = 65/130 (50%), Gaps = 8/130 (6%) Query: 34 MIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 I+ ++ G T +E+N+ L P + ++ +ED + + + GI++ D EG+ S Sbjct: 18 FIRNHKKTGTATDDEINSSLVIPFTLDADGIEDLLQRIQDAGISITDN------EGNP-S 70 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 71 ARVLSAEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDIE 130 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 131 AKQRLAEANL 140 >gi|322376488|ref|ZP_08050981.1| RNA polymerase sigma-70 factor [Streptococcus sp. M334] gi|321282295|gb|EFX59302.1| RNA polymerase sigma-70 factor [Streptococcus sp. M334] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 38/131 (29%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q+G T +E+NA + P + ++ +ED + + + GI++ D EG+ Sbjct: 17 EFIRNHKQKGTATDDEINASLVVPFTLDADGIEDLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSAEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|325290508|ref|YP_004266689.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophobotulus glycolicus DSM 8271] gi|324965909|gb|ADY56688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophobotulus glycolicus DSM 8271] Length = 392 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 146/251 (58%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + + E +AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 142 IELAKSMEAGDEMAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDF 201 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+PTPE Sbjct: 202 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVNRQLLQELGRDPTPE 261 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E AK + +P E VR+++KI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A L+ Sbjct: 262 ETAKVMDIPEERVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPSEAASFLLLK 321 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 322 EQLEEVLETLTSREEKVLRLRFGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLRHP 381 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 382 SRSKKLKDYLD 392 Score = 64.7 bits (156), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 48/144 (33%), Positives = 73/144 (50%), Gaps = 12/144 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I+L + +G +T +E+ L ++S EQ+E+ +S +GI+V+D E EG D + Sbjct: 36 LIELGKTKGNLTYDEIANALQKIDLSEEQIEEVYDQISTLGIDVID----EHSEGETDIV 91 Query: 94 ------DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 LA S + + DDPVRMYL+E+G + LL+ E EI +AK +E Sbjct: 92 IDKETEKLAEEISEETDIDLSIPEGV--GIDDPVRMYLKEIGRVPLLTAEEEIELAKSME 149 Query: 148 AGRAMMMASLCESPLTFQALIIWR 171 AG M L E+ L I R Sbjct: 150 AGDEMAKRRLAEANLRLVVSIAKR 173 >gi|169829158|ref|YP_001699316.1| RNA polymerase sigma factor rpoD [Lysinibacillus sphaericus C3-41] gi|168993646|gb|ACA41186.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43) [Lysinibacillus sphaericus C3-41] Length = 375 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 188/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEI +++ + E V Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED A SP D A L+E VL +LT R Sbjct: 258 REILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDR 317 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 318 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/141 (29%), Positives = 74/141 (52%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML-SNMGINVVDGDDLEDE 86 DD+ K + + A+ G ++++E++ L P E+ +E++ L + I ++ ++ E+E Sbjct: 18 DDAKKFLQEKAKTEGEISMKEISEKLTPYELENEEIFHFAEDLEKHKDIQIIGKEEFEEE 77 Query: 87 -----EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 E +E++ DL + V +DPVRMYL+E+G ++LLS E EI Sbjct: 78 SLMKEEANEETFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEQEIK 126 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +A+RIE G L E+ L Sbjct: 127 LAERIEQGDEEARKRLAEANL 147 >gi|307705133|ref|ZP_07642010.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK597] gi|307621329|gb|EFO00389.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK597] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 38/131 (29%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q+G T +E+NA + P + ++ +ED + + + GI++ D EG+ Sbjct: 17 EFIRNHKQKGTATDDEINASLVVPFTLDADGIEDLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSAEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|296161119|ref|ZP_06843929.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295888642|gb|EFG68450.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 705 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 149/322 (46%), Positives = 223/322 (69%), Gaps = 9/322 (2%) Query: 364 GIKRDVFLERHQGRELDPHW----VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 G+ RD F+ +G E W V+ + F +N A +++ + ++ ++ Sbjct: 387 GVPRDTFVAHFRGNETHLAWARQLVAAGQPFSSVLERNLPAIDLE-----QEKLLALQQR 441 Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 + + EFR + + E + AK EM+EANLRLVIS+AK+YTNRGL FLDLIQEGNI Sbjct: 442 VVLPLDEFREVCRALSASEAKTLRAKGEMIEANLRLVISIAKRYTNRGLLFLDLIQEGNI 501 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLM+A +KF++ GYKFSTYA WW++QA++RSIADQ+ TIR+PVHM + ++K+ R +R++ Sbjct: 502 GLMRAVDKFEYRRGYKFSTYATWWIRQAVSRSIADQARTIRVPVHMIESLNKLKRISRQI 561 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + EP +A+++ M + VR +L+I +EP+SL+ +G+ D + +GD IED A+ Sbjct: 562 LQETGSEPDAALLAQRMEMQEQKVRAMLRIVREPVSLDASVGENDDTSIGDLIEDSTAIL 621 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P D+A+ A++R+ + L +LTPRE ++LR+RFGI DHTLEE+G+QF +TRERIRQI Sbjct: 622 PDDAALHASMRDAISEALMTLTPREAKILRLRFGIESGRDHTLEELGEQFELTRERIRQI 681 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E KA+RKL+HP+RS++L+SFLD Sbjct: 682 EVKALRKLRHPARSERLKSFLD 703 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 58/174 (33%), Positives = 92/174 (52%), Gaps = 16/174 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD------LED 85 + +IKL +RG+V E++ LP + +E+ + S MGI V + L D Sbjct: 97 RALIKLGTERGFVIRGEISDCLPERLAQPDAIENVIRAFSEMGIAVFEQAPDAESMILHD 156 Query: 86 EEG--SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 ++D ++ + + SSV D+ T DPVRMY+REMG+ ELL+R+GEIA+A Sbjct: 157 RAAVSADDQIEEEAVTAISSV------DAEFGRTTDPVRMYMREMGTTELLTRQGEIALA 210 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 +RIE GR M+ ++ P T ++ D + G T + E++D I P + G Sbjct: 211 RRIEEGRNGMIRAISSCPATIAEILAIADGVACGETAIDELVD--GLIDPAATG 262 >gi|293365255|ref|ZP_06611972.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus oralis ATCC 35037] gi|306829363|ref|ZP_07462553.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus mitis ATCC 6249] gi|291316705|gb|EFE57141.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus oralis ATCC 35037] gi|304428449|gb|EFM31539.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus mitis ATCC 6249] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 45.4 bits (106), Expect = 0.033, Method: Compositional matrix adjust. Identities = 37/130 (28%), Positives = 65/130 (50%), Gaps = 8/130 (6%) Query: 34 MIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 I+ ++ G T +E+N+ L P + ++ +ED + + + GI++ D EG+ S Sbjct: 18 FIRNHKKTGTATDDEINSSLVIPFTLDADGIEDLLQRIQDAGISITDN------EGNP-S 70 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 71 ARVLSTEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDIE 130 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 131 AKQRLAEANL 140 >gi|307709167|ref|ZP_07645626.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564] gi|307620113|gb|EFN99230.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564] Length = 369 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 38/131 (29%), Positives = 67/131 (51%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNA-FLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ +Q+G T +E+NA + P + ++ +ED + + + GI++ D EG+ Sbjct: 17 EFIRNHKQKGTATDDEINASLVVPFTLDADGIEDLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSTEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|299535819|ref|ZP_07049140.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1] gi|298729019|gb|EFI69573.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1] Length = 375 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 188/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEI +++ + E V Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED A SP D A L+E VL +LT R Sbjct: 258 REILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDR 317 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 318 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 58.5 bits (140), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 43/141 (30%), Positives = 75/141 (53%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML-SNMGINVVDGDDLEDE 86 DD+ K + + A+ G ++++E++ L P E+ +E++ L + I ++ ++ E+E Sbjct: 18 DDAKKFLQEKAKTEGEISMKEISEKLTPYELENEEIFHFAEDLEKHKDIQIIGKEEFEEE 77 Query: 87 -----EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 E +E++ DL + V +DPVRMYL+E+G ++LLS E EIA Sbjct: 78 SLMKEEANEETFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEQEIA 126 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +A+RIE G L E+ L Sbjct: 127 LAERIEQGDEEARKRLAEANL 147 >gi|196034883|ref|ZP_03102290.1| RNA polymerase sigma-43 factor [Bacillus cereus W] gi|195992422|gb|EDX56383.1| RNA polymerase sigma-43 factor [Bacillus cereus W] Length = 373 Score = 312 bits (799), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+E SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEGDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 341 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 373 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 17/136 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V GD+ E Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLV-GDNDEGPNNHQI 80 Query: 89 --SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A RI Sbjct: 81 TKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLATRI 129 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 130 EEGDEEAKRRLAEANL 145 >gi|118586868|ref|ZP_01544302.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42 [Oenococcus oeni ATCC BAA-1163] gi|71466858|emb|CAH41003.1| rpoD protein [Oenococcus oeni] gi|118432700|gb|EAV39432.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42 [Oenococcus oeni ATCC BAA-1163] Length = 458 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 166/361 (45%), Positives = 231/361 (63%), Gaps = 24/361 (6%) Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 K+ +LN +ID L+E++ D I+ +G +S K + +P Sbjct: 119 KMAKPFALNADQIDKLIEKVEDAGISIVDEDGNPSE--KSLKTKSN-----------NPS 165 Query: 383 W--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 +S A P+G N D + EI +S+ ++ + I + KG + Sbjct: 166 QEELSQASSAPKGVKIN------DPVRMYLKEIGRVSL---LNADQEVAIAKRIEKGGSD 216 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A++E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA Sbjct: 217 GERARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYA 276 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P PEEI ++ + Sbjct: 277 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTA 336 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + VR++ KI +EP+SLETPIG+ED SHLGDFIED SP++S L++ VL +L Sbjct: 337 DKVREIQKIAQEPVSLETPIGEEDDSHLGDFIEDNEGESPIESTSDQMLKDQLEEVLGTL 396 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+ Sbjct: 397 TEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFM 456 Query: 681 D 681 + Sbjct: 457 E 457 Score = 65.1 bits (157), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 66/121 (54%), Gaps = 5/121 (4%) Query: 30 SWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 S K IK ++ G V ++L N P ++++Q++ + + + GI++VD ED Sbjct: 97 SLKAFIKKNKKSGQVVYDDLENKMAKPFALNADQIDKLIEKVEDAGISIVD----EDGNP 152 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 SE SL S+ + Q +DPVRMYL+E+G + LL+ + E+AIAKRIE Sbjct: 153 SEKSLKTKSNNPSQEELSQASSAPKGVKINDPVRMYLKEIGRVSLLNADQEVAIAKRIEK 212 Query: 149 G 149 G Sbjct: 213 G 213 >gi|168491966|ref|ZP_02716109.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC0288-04] gi|183573791|gb|EDT94319.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC0288-04] Length = 369 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE +L +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 43/138 (31%), Positives = 68/138 (49%), Gaps = 22/138 (15%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDD------LED 85 + I+ +Q+G T +E+NA L P + ++ +ED + + + GI++ D + L + Sbjct: 17 EFIRNHKQKGIATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN 76 Query: 86 EEGSEDS-LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE E S DL S S +DPVRMYL+E+G + LL+ E E +A Sbjct: 77 EEEPELSDEDLIGSTSAK--------------VNDPVRMYLKEIGVVPLLTNEEEKELAL 122 Query: 145 RIEAGRAMMMASLCESPL 162 +EAG L E+ L Sbjct: 123 AVEAGDIEAKQRLAEANL 140 >gi|160893000|ref|ZP_02073788.1| hypothetical protein CLOL250_00537 [Clostridium sp. L2-50] gi|156865083|gb|EDO58514.1| hypothetical protein CLOL250_00537 [Clostridium sp. L2-50] Length = 377 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 146/237 (61%), Positives = 191/237 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 140 AKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 199 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA + +PVE V Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIADVMDIPVERV 259 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI++EP+SLETPIG+E+ SHLGDFI D N P D+A L+E VL +LT R Sbjct: 260 REILKISQEPVSLETPIGEEEDSHLGDFIPDDNMPVPADAAAFTLLKEQLVEVLDTLTER 319 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++VL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR ++ Sbjct: 320 EKKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLRDYI 376 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 24/47 (51%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LLS E EI +AKR+E G L E+ L Sbjct: 103 SIEDPVRMYLKEIGKVPLLSAEEEIELAKRMEEGDEQAKQKLAEANL 149 >gi|15900942|ref|NP_345546.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae TIGR4] gi|15903023|ref|NP_358573.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae R6] gi|111657922|ref|ZP_01408632.1| hypothetical protein SpneT_02000898 [Streptococcus pneumoniae TIGR4] gi|116516638|ref|YP_816435.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae D39] gi|148985044|ref|ZP_01818287.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP3-BS71] gi|148989116|ref|ZP_01820506.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP6-BS73] gi|148994179|ref|ZP_01823494.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP9-BS68] gi|148998339|ref|ZP_01825781.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP11-BS70] gi|149003984|ref|ZP_01828792.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP14-BS69] gi|149006254|ref|ZP_01829966.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP18-BS74] gi|149013172|ref|ZP_01833989.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP19-BS75] gi|149019675|ref|ZP_01834994.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP23-BS72] gi|168483147|ref|ZP_02708099.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1873-00] gi|168487460|ref|ZP_02711968.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1087-00] gi|168488915|ref|ZP_02713114.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae SP195] gi|168494506|ref|ZP_02718649.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC3059-06] gi|168576202|ref|ZP_02722096.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae MLV-016] gi|169833634|ref|YP_001694498.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae Hungary19A-6] gi|182684177|ref|YP_001835924.1| RNA polymerase sigma factor [Streptococcus pneumoniae CGSP14] gi|221231817|ref|YP_002510969.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ATCC 700669] gi|225854569|ref|YP_002736081.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae JJA] gi|225856717|ref|YP_002738228.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae P1031] gi|225858886|ref|YP_002740396.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 70585] gi|225861039|ref|YP_002742548.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae Taiwan19F-14] gi|237650028|ref|ZP_04524280.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974] gi|237821736|ref|ZP_04597581.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae CCRI 1974M2] gi|298230104|ref|ZP_06963785.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae str. Canada MDR_19F] gi|298255542|ref|ZP_06979128.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502915|ref|YP_003724855.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pneumoniae TCH8431/19A] gi|303256088|ref|ZP_07342108.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae BS455] gi|303260611|ref|ZP_07346576.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP-BS293] gi|303263023|ref|ZP_07348956.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP14-BS292] gi|303264870|ref|ZP_07350786.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS397] gi|303266910|ref|ZP_07352787.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS457] gi|303269116|ref|ZP_07354896.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS458] gi|307067745|ref|YP_003876711.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus pneumoniae AP200] gi|307127396|ref|YP_003879427.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 670-6B] gi|61234224|sp|P0A4I9|RPOD_STRPN RecName: Full=RNA polymerase sigma factor rpoD gi|61234230|sp|P0A4J0|RPOD_STRR6 RecName: Full=RNA polymerase sigma factor rpoD gi|2108331|emb|CAA72252.1| rpoD [Streptococcus pneumoniae] gi|14972548|gb|AAK75186.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae TIGR4] gi|15458593|gb|AAK99783.1| RNA polymerase sigmA FACTOR 70 [Streptococcus pneumoniae R6] gi|116077214|gb|ABJ54934.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae D39] gi|147755736|gb|EDK62781.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP11-BS70] gi|147758043|gb|EDK65049.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP14-BS69] gi|147762031|gb|EDK68993.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP18-BS74] gi|147763023|gb|EDK69967.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP19-BS75] gi|147922742|gb|EDK73859.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP3-BS71] gi|147925339|gb|EDK76417.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP6-BS73] gi|147927422|gb|EDK78452.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SP9-BS68] gi|147931050|gb|EDK82030.1| RNA polymerase sigma-70 factor [Streptococcus pneumoniae SP23-BS72] gi|168996136|gb|ACA36748.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae Hungary19A-6] gi|172043392|gb|EDT51438.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1873-00] gi|182629511|gb|ACB90459.1| RNA polymerase sigma factor [Streptococcus pneumoniae CGSP14] gi|183569691|gb|EDT90219.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC1087-00] gi|183572434|gb|EDT92962.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae SP195] gi|183575600|gb|EDT96128.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae CDC3059-06] gi|183577989|gb|EDT98517.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae MLV-016] gi|220674277|emb|CAR68818.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ATCC 700669] gi|225720127|gb|ACO15981.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae 70585] gi|225722225|gb|ACO18078.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae JJA] gi|225725305|gb|ACO21157.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae P1031] gi|225728137|gb|ACO23988.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Streptococcus pneumoniae Taiwan19F-14] gi|298238510|gb|ADI69641.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus pneumoniae TCH8431/19A] gi|301794192|emb|CBW36610.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV104] gi|301800046|emb|CBW32640.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae OXC141] gi|301802035|emb|CBW34765.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV200] gi|302596935|gb|EFL64061.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae BS455] gi|302635850|gb|EFL66352.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP14-BS292] gi|302638261|gb|EFL68731.1| RNA polymerase sigma factor [Streptococcus pneumoniae SP-BS293] gi|302641365|gb|EFL71732.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS458] gi|302643543|gb|EFL73813.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS457] gi|302645558|gb|EFL75789.1| RNA polymerase sigma factor [Streptococcus pneumoniae BS397] gi|306409282|gb|ADM84709.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Streptococcus pneumoniae AP200] gi|306484458|gb|ADM91327.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae 670-6B] gi|327389372|gb|EGE87717.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA04375] gi|332073431|gb|EGI83910.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17570] gi|332075028|gb|EGI85499.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17545] gi|332075404|gb|EGI85873.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41301] gi|332200548|gb|EGJ14620.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41317] gi|332201555|gb|EGJ15625.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47368] gi|332202930|gb|EGJ16998.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47901] Length = 369 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE +L +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 43/138 (31%), Positives = 68/138 (49%), Gaps = 22/138 (15%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDD------LED 85 + I+ +Q+G T +E+NA L P + ++ +ED + + + GI++ D + L + Sbjct: 17 EFIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN 76 Query: 86 EEGSEDS-LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE E S DL S S +DPVRMYL+E+G + LL+ E E +A Sbjct: 77 EEEPELSDEDLIGSTSAK--------------VNDPVRMYLKEIGVVPLLTNEEEKELAL 122 Query: 145 RIEAGRAMMMASLCESPL 162 +EAG L E+ L Sbjct: 123 AVEAGDIEAKQRLAEANL 140 >gi|307703796|ref|ZP_07640737.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037] gi|307622631|gb|EFO01627.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037] Length = 318 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 48 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 104 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 105 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 164 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 165 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 224 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 225 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 284 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 285 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 317 Score = 39.7 bits (91), Expect = 1.7, Method: Compositional matrix adjust. Identities = 21/51 (41%), Positives = 29/51 (56%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S +DPVRMYL+E+G + LL+ E E +A +EAG L E+ L Sbjct: 39 STSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDIEAKQRLAEANL 89 >gi|309800318|ref|ZP_07694490.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302] gi|308116065|gb|EFO53569.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302] Length = 369 Score = 311 bits (798), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368 Score = 45.4 bits (106), Expect = 0.028, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 65/131 (49%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELN-AFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N A + P + E +E+ + + + GI++ D EG+ Sbjct: 17 EFIRNHKKTGTATDDEINNALVIPFTLDVEGIENLLQRIQDAGISITDN------EGNP- 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 70 SARVLSTEEEPELTDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDI 129 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 130 EAKQRLAEANL 140 >gi|315924365|ref|ZP_07920587.1| DNA-directed RNA polymerase sigma subunit RpoD [Pseudoramibacter alactolyticus ATCC 23263] gi|315622244|gb|EFV02203.1| DNA-directed RNA polymerase sigma subunit RpoD [Pseudoramibacter alactolyticus ATCC 23263] Length = 396 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 145/237 (61%), Positives = 190/237 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKKE+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 159 AKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 218 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REPTP EI K++ + V Sbjct: 219 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPAEIGKEMGFSEDKV 278 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI ++P+SLETPIG+E+ SHLGDFI D A +P ++A A L+E VL++LT R Sbjct: 279 REIQKIAQDPVSLETPIGEEEDSHLGDFIPDDEAPAPSEAASYALLKEQLIDVLSTLTDR 338 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L Sbjct: 339 EEKVLRLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 395 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 40/135 (29%), Positives = 70/135 (51%), Gaps = 13/135 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD-DLEDEEGSEDS 92 +I+ +Q+G + E++ L + S++++ L I + D D+ D Sbjct: 41 LIERGKQKGILNSEDIEHALSEKDFDSDEIDAVYLYLQKQNIRLTFKDMDMTD------- 93 Query: 93 LDLASSASNSSV----FLQKRKD-SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 LD AS A S+ K++D + + + +DPVR+YL+E+G + LL+ + E+AIAKR+ Sbjct: 94 LDDASIAELRSIEKDEKTNKKEDLTENVNVNDPVRLYLKEIGRVSLLTADEEMAIAKRMA 153 Query: 148 AGRAMMMASLCESPL 162 AG L E+ L Sbjct: 154 AGDEDAKKELAEANL 168 >gi|169824520|ref|YP_001692131.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328] gi|302380672|ref|ZP_07269137.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3] gi|303233690|ref|ZP_07320344.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4] gi|167831325|dbj|BAG08241.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328] gi|302311615|gb|EFK93631.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3] gi|302495124|gb|EFL54876.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4] Length = 388 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E + AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 138 VQLAQEMENGSKRAKKKLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDY 197 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VR R++ + R+PT E Sbjct: 198 TRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRIERQLLQDLGRDPTNE 257 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + VE VR+V KI +EP+SLETPIG+E+ SHLGDFIED A++P ++A LR Sbjct: 258 EIAKEMGIEVEKVREVRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAIAPDEAANFTMLR 317 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L +L RE +VL +RFG+ T TLEEVGK F VTRERIRQIEAKA+RKLKHP Sbjct: 318 EELEGILNTLNERERKVLALRFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLKHP 377 Query: 671 SRSKKLRSFLD 681 SRS+KL+ FL+ Sbjct: 378 SRSQKLKDFLE 388 Score = 43.5 bits (101), Expect = 0.14, Method: Compositional matrix adjust. Identities = 20/47 (42%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPV+MYL+E+G I LLS + E+ +A+ +E G L E+ L Sbjct: 114 NVDDPVKMYLKEIGKIPLLSADEEVQLAQEMENGSKRAKKKLAEANL 160 >gi|291520418|emb|CBK75639.1| RNA polymerase, sigma 70 subunit, RpoD [Butyrivibrio fibrisolvens 16/4] Length = 376 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 148/251 (58%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K E AK ++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 125 VELAQKMEDGDQEAKNKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLMKAVEKFDY 184 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REPTPE Sbjct: 185 HKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPE 244 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + + V+ V ++LKI++EP+SLETPIG+E+ SHLGDF+ D+N P ++A L+ Sbjct: 245 EIAAAMGITVDRVHEILKISQEPVSLETPIGEEEDSHLGDFLPDENVPVPAEAATFTLLK 304 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+RVL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 305 EQLHEVLDTLTEREQRVLILRFGLEDGKARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 364 Query: 671 SRSKKLRSFLD 681 SRS+KL+ +LD Sbjct: 365 SRSRKLKDYLD 375 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 9/136 (6%) Query: 28 DDSWKKMIKLAR-QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 D ++IK+A+ Q+ + E++ FL ++ ++QME + L GI D+ Sbjct: 20 DSKIAELIKIAKSQKNILEDYEISEFLKDYKIDAKQMERILTYLDKKGI------DVNFS 73 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G D+L LAS + DS S +DPVRMYL+E+G + LLS E E+ +A+++ Sbjct: 74 SGPSDALLLASDDEDLEDIDMSVPDSV--SIEDPVRMYLKEIGKVPLLSAEEEVELAQKM 131 Query: 147 EAGRAMMMASLCESPL 162 E G L E+ L Sbjct: 132 EDGDQEAKNKLAEANL 147 >gi|312865945|ref|ZP_07726166.1| RNA polymerase sigma factor RpoD [Streptococcus downei F0415] gi|311098349|gb|EFQ56572.1| RNA polymerase sigma factor RpoD [Streptococcus downei F0415] Length = 338 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 150/273 (54%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I + ++ E + + +G+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 68 VRMYLKEIGIVPLLTNEEEKELAIAAAEGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 124 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 125 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 184 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 185 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 244 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 245 GDFIEDEVIENPVDYTTRIVLREQLNEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 304 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 305 FNVTRERIRQIEAKALRKLRHPSRSKQLKDFME 337 Score = 42.4 bits (98), Expect = 0.29, Method: Compositional matrix adjust. Identities = 30/108 (27%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ S + + + ++ S Sbjct: 8 PFVLDADQIDDLLERLTDGGISITD------KEGNPSSKYVVEAPKPEELTDEELLGSNS 61 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A G M L E+ L Sbjct: 62 AKVNDPVRMYLKEIGIVPLLTNEEEKELAIAAAEGDLMAKQRLAEANL 109 >gi|153953576|ref|YP_001394341.1| hypothetical protein CKL_0942 [Clostridium kluyveri DSM 555] gi|219854198|ref|YP_002471320.1| hypothetical protein CKR_0855 [Clostridium kluyveri NBRC 12016] gi|146346457|gb|EDK32993.1| RpoD2 [Clostridium kluyveri DSM 555] gi|219567922|dbj|BAH05906.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 354 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 152/251 (60%), Positives = 201/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ +K E IAKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 104 MSLAKKIEEGDQIAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 163 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP E Sbjct: 164 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHAE 223 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK + MPV+ VR+++KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+ Sbjct: 224 EVAKIMEMPVDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLK 283 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 284 EQLINVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHP 343 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 344 SRSKKLKDYLD 354 Score = 62.4 bits (150), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/131 (32%), Positives = 71/131 (54%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK+I+ ++ G +T +E+ L ++S +Q+E +L +MGI V D+ + E +E Sbjct: 12 KKLIEKGKKNGTLTYKEIMDELQEVDLSPQQIEKIYEVLESMGIEV--NGDMNELELNEK 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +LDL+ + DDPVRMYL+E+G + LL E E+++AK+IE G Sbjct: 70 NLDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLLPEEEMSLAKKIEEGDQ 115 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 116 IAKKKLAEANL 126 >gi|322391830|ref|ZP_08065295.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus peroris ATCC 700780] gi|321145310|gb|EFX40706.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus peroris ATCC 700780] Length = 381 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 153/273 (56%), Positives = 204/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 111 VRMYLKEIGVVPLLTNEEEKELALAVEAGDVEA---KQRLAEANLRLVVSIAKRYVGRGM 167 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 168 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 227 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 228 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 287 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE VL +LT REE VLR+RFG+ TLE+VGK Sbjct: 288 GDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 347 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+ PSRSK LR F++ Sbjct: 348 FNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 380 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 37/131 (28%), Positives = 63/131 (48%), Gaps = 8/131 (6%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + I+ ++ G T +E+N L P + E +E+ + + + GI + D EG+ Sbjct: 29 EFIRNHKKTGTATDDEINNVLVIPFALDVEGIENLLQRIQDAGIAITDN------EGNP- 81 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S+ + + S +DPVRMYL+E+G + LL+ E E +A +EAG Sbjct: 82 SERVLSTEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAGDV 141 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 142 EAKQRLAEANL 152 >gi|24214932|ref|NP_712413.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai str. 56601] gi|45657567|ref|YP_001653.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|26399555|sp|P59117|RPOD_LEPIN RecName: Full=RNA polymerase sigma factor rpoD gi|47605974|sp|P61540|RPOD_LEPIC RecName: Full=RNA polymerase sigma factor rpoD gi|24195965|gb|AAN49431.1|AE011394_5 RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai str. 56601] gi|45600806|gb|AAS70290.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 585 Score = 311 bits (797), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 175/405 (43%), Positives = 257/405 (63%), Gaps = 29/405 (7%) Query: 295 RSLQDNAVNGQKDEKSSVKCKVLKEKL-------VKLVGSLSLNQSRIDLLVEQLYDISK 347 + LQ+ +K ++S K K KEK+ + L ++Q I + +++ + Sbjct: 193 KVLQEAVSKIRKYSETSKKYKEFKEKIDASTEIIHNAIRELGVSQKEIQKISQKIKSMVF 252 Query: 348 RIMHNEGELLRLAQSYGIK-RDV-----FLERHQGRELDPHWVSYAKDFPEGEWKNFVAC 401 RI + L++ YG RD+ F+E+++ +LD V + E Sbjct: 253 RIKEIDRHFLKIKAQYGQDVRDIKAFNRFIEKNE--KLDDIEVKMGVNIDE--------- 301 Query: 402 EVDSILK-IRN---EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 V ++K IRN +++ + E G ++ E + + KGE E S AKKE+V+ANLRLV+ Sbjct: 302 -VREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV 360 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AK+Y NRG+ F DLIQEGNIGL+KA +KF++ GYKFSTYA WW++QAITR+I+DQ+ Sbjct: 361 SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR 420 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIR+PVHM ++++KV+R R + R+P EEIA++L PV+ V+ V + +EPISLE Sbjct: 421 TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE 480 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 P+G E+ S LGDFI D +P+++A + L E +VL +L RE++V+RMRFG+ Sbjct: 481 IPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG 540 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TLEEVG QF VTRERIRQIEAKA+R+L+HPSRSKKL+ ++DG Sbjct: 541 YPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG 585 >gi|229825188|ref|ZP_04451257.1| hypothetical protein GCWU000182_00540 [Abiotrophia defectiva ATCC 49176] gi|229790560|gb|EEP26674.1| hypothetical protein GCWU000182_00540 [Abiotrophia defectiva ATCC 49176] Length = 372 Score = 311 bits (797), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 142/238 (59%), Positives = 191/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K++ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 135 ARKKLTEANLRLVVSIAKRYLGRGMQFLDLIQEGNMGLIKAVEKFDYTKGYKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+ITR+IADQ+ TIRIPVHM + I+K++R R+++ + REP PEEI K+L M E V Sbjct: 195 IKQSITRAIADQARTIRIPVHMVETINKLIRAQRQLTQTLGREPQPEEIGKELNMEPEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++KI +EP+S ETPIG+E+ SH+GDFI D + ++P+++A A L+E VL SLT R Sbjct: 255 RSIMKIAQEPVSFETPIGEEEDSHIGDFIPDDSNMAPVEAATHAILKEQLEEVLDSLTER 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RV+++RFG+ TLEEVGK+F VTRERIRQIE+KA+RKL+ PSRS+KL+ +L+ Sbjct: 315 EARVIKLRFGLEDGRTRTLEEVGKEFNVTRERIRQIESKALRKLRQPSRSRKLKDYLE 372 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 45/146 (30%), Positives = 78/146 (53%), Gaps = 9/146 (6%) Query: 32 KKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K+++K A+++ G + E++ A E+S +++E L GI+V+ D+L+D + E Sbjct: 11 KELVKDAKEKKGVLEAEDVKAVFAGREISEDELEKCYRYLERQGIDVLIIDELDDVD--E 68 Query: 91 DSLDLASSASNSSVFLQKRKDSA-----DRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 D + L S+ N + +K +++ ST+DPVRMYL+E+G + LL + EI +AK Sbjct: 69 DKI-LISTEDNDEIEREKIEETEITVPEGISTEDPVRMYLKEIGKVPLLDMDEEIKLAKS 127 Query: 146 IEAGRAMMMASLCESPLTFQALIIWR 171 + G L E+ L I R Sbjct: 128 MAEGDDEARKKLTEANLRLVVSIAKR 153 >gi|258516189|ref|YP_003192411.1| RNA polymerase sigma factor RpoD [Desulfotomaculum acetoxidans DSM 771] gi|257779894|gb|ACV63788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum acetoxidans DSM 771] Length = 359 Score = 311 bits (797), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 109 VELAKRMEMGEEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDY 168 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PE Sbjct: 169 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPMPE 228 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + + VR+++KI +EP+SLETPIG+E+ SHLGDFIED +A +P + A LR Sbjct: 229 EIAKEMNITEDKVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDHDARAPAEEASFTLLR 288 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VLR+RFG+ TLEEVG++F VTRERIRQIEAK +RKL+HP Sbjct: 289 EQLDDVLKTLTDREQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHP 348 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +LD Sbjct: 349 SRSKKLKDYLD 359 Score = 63.9 bits (154), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 40/134 (29%), Positives = 69/134 (51%), Gaps = 10/134 (7%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 ++ + +++ +++GY+T E+ L E++ +Q++D LS MGI+++ + DE Sbjct: 8 ENIRSLVEKGKKQGYLTYHEIMDVLQTTELTPDQIDDVYEQLSGMGIDLLATEPEMDEAA 67 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + D+ S DDPVRMYL+E+G + LLS E E+ +AKR+E Sbjct: 68 VKPDEDVEVDLSVPEGI----------GIDDPVRMYLKEIGRVPLLSSEEEVELAKRMEM 117 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 118 GEEEAKRRLAEANL 131 >gi|147677242|ref|YP_001211457.1| RNA polymerase sigma factor RpoD [Pelotomaculum thermopropionicum SI] gi|146273339|dbj|BAF59088.1| DNA-directed RNA polymerase, sigma subunit [Pelotomaculum thermopropionicum SI] Length = 363 Score = 311 bits (796), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + KG+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 94 VRMYLKEIGRVPLLTPEEEVELAKRMEKGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 150 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 151 LFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 210 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R++ ++ R+P+PEEIAK++ + + VR++LKI +EP+SLETPIG+E+ SHL Sbjct: 211 INKLVRVQRQLLQELGRDPSPEEIAKEMNITEDKVREILKIAQEPVSLETPIGEEEDSHL 270 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED A +P + A LRE VL +LT RE+RVLR+RFG+ TLEEVG++ Sbjct: 271 GDFIEDHEARAPAEEASFTLLREQLDEVLKTLTEREQRVLRLRFGLDDGRARTLEEVGQK 330 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAK +RKL+HPSRSKKL+ +LD Sbjct: 331 FGVTRERIRQIEAKTLRKLRHPSRSKKLKDYLD 363 Score = 59.7 bits (143), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 47/147 (31%), Positives = 75/147 (51%), Gaps = 6/147 (4%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D +D +++I+ ++RG +T E+ L +++ EQ++D L+ +GI VV ++ Sbjct: 4 DEKNDGVRELIEKGKKRGVLTYNEIMDSLQGTDLTPEQIDDIYEKLAGLGIEVVP--EIP 61 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 D E DS L + V L + DDPVRMYL+E+G + LL+ E E+ +AK Sbjct: 62 DIE-PLDSSALENPPDEVEVDLSIPEGVG---IDDPVRMYLKEIGRVPLLTPEEEVELAK 117 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWR 171 R+E G L E+ L I R Sbjct: 118 RMEKGDEEAKRRLAEANLRLVVSIAKR 144 >gi|126652263|ref|ZP_01724442.1| RNA polymerase sigma factor RpoD [Bacillus sp. B14905] gi|126590995|gb|EAZ85107.1| RNA polymerase sigma factor RpoD [Bacillus sp. B14905] Length = 375 Score = 311 bits (796), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 188/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEI +++ + E V Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED A SP D A L+E V+ +LT R Sbjct: 258 REILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHAAYELLKEQLEDVIDTLTDR 317 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 318 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 58.5 bits (140), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 43/141 (30%), Positives = 75/141 (53%), Gaps = 17/141 (12%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML-SNMGINVVDGDDLEDE 86 DD+ K + + A+ G ++++E++ L P E+ +E++ L + I ++ ++ E+E Sbjct: 18 DDAKKFLQEKAKTEGEISMKEISEKLTPYELENEEIFHFAEDLEKHKDIQIIGKEEFEEE 77 Query: 87 -----EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 E +E++ DL + V +DPVRMYL+E+G ++LLS E EIA Sbjct: 78 SLMKEEANEETFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEQEIA 126 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +A+RIE G L E+ L Sbjct: 127 LAERIEQGDEEARKRLAEANL 147 >gi|47679387|gb|AAT36674.1| DNA-directed RNA polymerase sigma A subunit [Oenococcus oeni PSU-1] Length = 465 Score = 311 bits (796), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 165/361 (45%), Positives = 231/361 (63%), Gaps = 24/361 (6%) Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 K+ +LN +ID L+E++ D I+ +G +S K + +P Sbjct: 126 KMAKPFALNADQIDKLIEKVEDAGISIVDEDGNPSE--KSLKTKSN-----------NPS 172 Query: 383 W--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 +S A P+G N D + EI +S+ ++ + I + KG + Sbjct: 173 QEELSQASSAPKGVKIN------DPVRMYLKEIGRVSL---LNADQEVAIAKRIEKGGSD 223 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A++E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA Sbjct: 224 GERARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYA 283 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P PEEI ++ + Sbjct: 284 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTA 343 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + VR++ KI +EP+SLETPIG+E+ SHLGDFIED SP++S L++ VL +L Sbjct: 344 DKVREIQKIAQEPVSLETPIGEENDSHLGDFIEDNEGESPIESTSDQMLKDQLEEVLGTL 403 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+ Sbjct: 404 TEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFM 463 Query: 681 D 681 + Sbjct: 464 E 464 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 66/121 (54%), Gaps = 5/121 (4%) Query: 30 SWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 S K IK ++ G V ++L N P ++++Q++ + + + GI++VD ED Sbjct: 104 SLKAFIKKNKKSGQVVYDDLENKMAKPFALNADQIDKLIEKVEDAGISIVD----EDGNP 159 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 SE SL S+ + Q +DPVRMYL+E+G + LL+ + E+AIAKRIE Sbjct: 160 SEKSLKTKSNNPSQEELSQASSAPKGVKINDPVRMYLKEIGRVSLLNADQEVAIAKRIEK 219 Query: 149 G 149 G Sbjct: 220 G 220 >gi|85860024|ref|YP_462226.1| RNA polymerase sigma factor [Syntrophus aciditrophicus SB] gi|85723115|gb|ABC78058.1| RNA polymerase sigma factor [Syntrophus aciditrophicus SB] Length = 580 Score = 310 bits (795), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 187/434 (43%), Positives = 276/434 (63%), Gaps = 35/434 (8%) Query: 260 EDEDDSAHTLSAMEDQLRPKVMCALDEIA-------EVYRELRSLQDNAVNGQKDEKSSV 312 EDED ED R +V+ LD++A ++ ++LR+ +D + +G+K K + Sbjct: 164 EDEDGYVE-----EDSQRERVIKLLDKVAMLDGKNDQILQKLRA-KDLSEDGRKALK--I 215 Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + + K+ ++KL + + +ID LV + + E E+ + + G+ Sbjct: 216 QMEKNKKAIIKLCRKVRFGKKQIDKLVANIKRYLAELEKAEDEIQKCKEETGLSLTQI-- 273 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVAC--------EVDSILKIRN-EIKSISVETGIS 423 S K +P+ E V+++++ N ++K+I+ ETG S Sbjct: 274 --------EKACSRLKKYPQDEAAILAEYGITMEKLKSVEAMIREANRKLKNITKETGYS 325 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ++ F+ I+ + GE +A AK+++VEANLRLV+S+AKKYTNRGLQFLDLIQEGNIGLMK Sbjct: 326 VTAFKKILFNIEHGEKKAEEAKRKLVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMK 385 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++RT+R + ++ Sbjct: 386 AVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEL 445 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REP+P+EIA K+ P+E VRKVLKI KEPISLETPIG+E+ SHLGDFIEDK +SP ++ Sbjct: 446 GREPSPDEIANKMEYPLEKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKKIMSPSEA 505 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 I +L E T ++L++LTPREE+VLRMRFGI ++ EE+ +Q E IE A Sbjct: 506 TISMDLAEQTRKILSTLTPREEKVLRMRFGISERIEYGEEEL-EQGEEEGEFPGPIETGA 564 Query: 664 IRKLKHPSRSKKLR 677 RKL++PSR + ++ Sbjct: 565 YRKLRNPSRRRTVK 578 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 53/173 (30%), Positives = 89/173 (51%), Gaps = 26/173 (15%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---GD 81 + + +KK+I L ++G++T +++N FLP D SS+Q++D + + I+++D G+ Sbjct: 4 NIQSEEFKKLISLGEEKGFLTYDDVNDFLPSDITSSDQIDDIIMLFGEKNIDIIDTEKGE 63 Query: 82 DL-------EDEEGSEDSL-DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 L E E E L D+ S A T DPV+MYLREMG + L Sbjct: 64 KLLVKSPVEERETAKEGELIDMMSVAGK---------------TGDPVKMYLREMGYVSL 108 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 LSR+GE+ IAK IE G M ++ + + ++ ++L ++ +ID Sbjct: 109 LSRDGEVEIAKIIEEGAQEAMGAVFGVTASVKEVVDIGNKLKSDEIRIKNVID 161 >gi|116491026|ref|YP_810570.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Oenococcus oeni PSU-1] gi|290890507|ref|ZP_06553582.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429] gi|116091751|gb|ABJ56905.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Oenococcus oeni PSU-1] gi|290479903|gb|EFD88552.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429] Length = 458 Score = 310 bits (795), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 165/361 (45%), Positives = 231/361 (63%), Gaps = 24/361 (6%) Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 K+ +LN +ID L+E++ D I+ +G +S K + +P Sbjct: 119 KMAKPFALNADQIDKLIEKVEDAGISIVDEDGNPSE--KSLKTKSN-----------NPS 165 Query: 383 W--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECE 440 +S A P+G N D + EI +S+ ++ + I + KG + Sbjct: 166 QEELSQASSAPKGVKIN------DPVRMYLKEIGRVSL---LNADQEVAIAKRIEKGGSD 216 Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A++E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA Sbjct: 217 GERARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYA 276 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P PEEI ++ + Sbjct: 277 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTA 336 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + VR++ KI +EP+SLETPIG+E+ SHLGDFIED SP++S L++ VL +L Sbjct: 337 DKVREIQKIAQEPVSLETPIGEENDSHLGDFIEDNEGESPIESTSDQMLKDQLEEVLGTL 396 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T REE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ F+ Sbjct: 397 TEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFM 456 Query: 681 D 681 + Sbjct: 457 E 457 Score = 65.1 bits (157), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 66/121 (54%), Gaps = 5/121 (4%) Query: 30 SWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 S K IK ++ G V ++L N P ++++Q++ + + + GI++VD ED Sbjct: 97 SLKAFIKKNKKSGQVVYDDLENKMAKPFALNADQIDKLIEKVEDAGISIVD----EDGNP 152 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 SE SL S+ + Q +DPVRMYL+E+G + LL+ + E+AIAKRIE Sbjct: 153 SEKSLKTKSNNPSQEELSQASSAPKGVKINDPVRMYLKEIGRVSLLNADQEVAIAKRIEK 212 Query: 149 G 149 G Sbjct: 213 G 213 >gi|297588502|ref|ZP_06947145.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna ATCC 53516] gi|297573875|gb|EFH92596.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna ATCC 53516] Length = 389 Score = 310 bits (794), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E + AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 139 VKLAQEMENGSKRAKKKLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDY 198 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++VR R++ + R+PT E Sbjct: 199 TRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRIERQLLQDLGRDPTNE 258 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + VE VR+V KI +EP+SLETPIG+E+ SHLGDFIED A++P ++A LR Sbjct: 259 EIAKEMGIEVEKVREVRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAIAPDEAANFTMLR 318 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L +L RE +VL +RFG+ T TLEEVGK F VTRERIRQIEAKA+RKLKHP Sbjct: 319 EELEGILNTLNERERKVLALRFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLKHP 378 Query: 671 SRSKKLRSFLD 681 SRS+KL+ FL+ Sbjct: 379 SRSQKLKDFLE 389 Score = 44.3 bits (103), Expect = 0.063, Method: Compositional matrix adjust. Identities = 21/47 (44%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPV+MYL+E+G I LLS E E+ +A+ +E G L E+ L Sbjct: 115 NVDDPVKMYLKEIGKIPLLSAEEEVKLAQEMENGSKRAKKKLAEANL 161 >gi|312880428|ref|ZP_07740228.1| RNA polymerase, sigma 70 subunit, RpoD [Aminomonas paucivorans DSM 12260] gi|310783719|gb|EFQ24117.1| RNA polymerase, sigma 70 subunit, RpoD [Aminomonas paucivorans DSM 12260] Length = 387 Score = 310 bits (794), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + + E + +K ++VEANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EKFD+ Sbjct: 137 VELAKGVEAGHAPSKAKLVEANLRLVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEKFDY 196 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPT E Sbjct: 197 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLVQRLGREPTAE 256 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ +P E V ++ +I +EP+SLETPIG+E+ S LGDF+EDK+ SP ++A LR Sbjct: 257 EIAGEMEIPAERVEEIQRIAQEPVSLETPIGEEEDSQLGDFLEDKDLPSPEEAAASQILR 316 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L LT RE VLR+RFG+ HTLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 317 EQLEEMLEDLTDREREVLRLRFGLEDGHPHTLEEVGRRFGVTRERIRQIEAKALRKLRHP 376 Query: 671 SRSKKLRSFLD 681 SRSKKLR FL+ Sbjct: 377 SRSKKLRDFLE 387 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 42/134 (31%), Positives = 77/134 (57%), Gaps = 7/134 (5%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D+ ++++ R++G+VT E++ LP + +S++ +++ L +GI V++ +E Sbjct: 33 DNVRELLHEGREKGFVTYEDIEKHLPKEVLSADVLDNLYFNLMELGIEVMEEAKTREETP 92 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +++ L A+ + ++ + D DPVRMYLRE+G I LL+ E E+ +AK +EA Sbjct: 93 ADEPLPQAT-------YQEEMGELEDLPLSDPVRMYLREIGKIPLLTPEEEVELAKGVEA 145 Query: 149 GRAMMMASLCESPL 162 G A A L E+ L Sbjct: 146 GHAPSKAKLVEANL 159 >gi|327440913|dbj|BAK17278.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris StLB046] Length = 375 Score = 310 bits (793), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 187/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD G+KFSTYA WW Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHRKGFKFSTYATWW 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEI +++ + E V Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED A SP D A L+E VL +LT R Sbjct: 258 REILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDR 317 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 318 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 375 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 43/151 (28%), Positives = 77/151 (50%), Gaps = 17/151 (11%) Query: 18 SDDSLVFDFSDDSWKK-MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGIN 76 S D++V S + KK ++ A+Q G ++++E++ L E+ +E++ + + + Sbjct: 8 SKDTVVNGVSLEQVKKQLLAKAKQVGEMSMKEISDTLAFFELENEEIFNFADEIEKNDVT 67 Query: 77 VVDGDD-----LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 V ++ L +E SE++ DL + V +DPVRMYL+E+G + Sbjct: 68 VEGKEEFEEEALSKQESSEEAFDLNDLSVPPGV-----------KINDPVRMYLKEIGRV 116 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +LLS + EI +A+RIE G L E+ L Sbjct: 117 DLLSADQEIRLAERIEQGDEEARKRLAEANL 147 >gi|304317433|ref|YP_003852578.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778935|gb|ADL69494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 357 Score = 310 bits (793), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 157/273 (57%), Positives = 211/273 (77%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + KG+ EA KK + EANLRLV+S+AK+Y RG+ Sbjct: 88 VRMYLKEIGKIPLLSPDEEIELAKRIEKGDEEA---KKRLTEANLRLVVSIAKRYVGRGM 144 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GL+KA EKF++ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 145 QFLDLIQEGNLGLLKAVEKFNYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 204 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ R+P PEEIAK++ M V+ VR+++KI +EP+SLETPIG+E+ SHL Sbjct: 205 INKLIRVSRQLLQELGRDPLPEEIAKEMDMSVDKVREIMKIAQEPVSLETPIGEEEDSHL 264 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D++A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 265 GDFIPDEDAPAPAEAAAFTMLKEQLIDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 324 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 325 FNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 357 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 44/134 (32%), Positives = 67/134 (50%), Gaps = 12/134 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 +S K++I ++ G +T E+ L ++ +EQ+E +GI +V + ++E Sbjct: 8 NSIKELIDKGKKNGMLTYNEIMNSLEDIDMDAEQIEKVYDTFEKLGIEIVGEEPQQEELI 67 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E+ LDL S + DDPVRMYL+E+G I LLS + EI +AKRIE Sbjct: 68 PEEDLDLDLSIPEGI------------NIDDPVRMYLKEIGKIPLLSPDEEIELAKRIEK 115 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 116 GDEEAKKRLTEANL 129 >gi|150390747|ref|YP_001320796.1| RpoD family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149950609|gb|ABR49137.1| RNA polymerase, sigma 70 subunit, RpoD family [Alkaliphilus metalliredigens QYMF] Length = 372 Score = 310 bits (793), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 202/251 (80%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + + E +AKK++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 122 IDLATRMEAGDELAKKKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + REP PE Sbjct: 182 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEFGREPKPE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ +P E VR++LKI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A + L+ Sbjct: 242 EIAKEMDLPEEKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFSLLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPRE++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLIEVLDTLTPREQKVLRLRFGLDDGRARTLEEVGKKFDVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRSKKL+ +L+ Sbjct: 362 SRSKKLKDYLE 372 Score = 58.2 bits (139), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 46/143 (32%), Positives = 73/143 (51%), Gaps = 9/143 (6%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + +S KK+I+ ++RG +T E+ L E+ EQ+E+ + +GI++V GD Sbjct: 6 NMKKESIKKLIEKGKKRGIITYAEIVHALEDIELDKEQIEEIYEHFATLGIDIV-GDKEA 64 Query: 85 DEEGSEDSLDL-----ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 D+ D +L + A N + K DDPVRMYL+E+G + LL+ E Sbjct: 65 DDVDDVDEAELEDEEEVTVAENIEADINMLKGVI---IDDPVRMYLKEIGKVPLLTGPEE 121 Query: 140 IAIAKRIEAGRAMMMASLCESPL 162 I +A R+EAG + L E+ L Sbjct: 122 IDLATRMEAGDELAKKKLVEANL 144 >gi|116328273|ref|YP_797993.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116330997|ref|YP_800715.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|116121017|gb|ABJ79060.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116124686|gb|ABJ75957.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 585 Score = 310 bits (793), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 151/285 (52%), Positives = 209/285 (73%), Gaps = 4/285 (1%) Query: 402 EVDSILK-IRN---EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 EV ++K IRN +++ + E G ++ E + + KGE E S AKKE+V+ANLRLV+ Sbjct: 301 EVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQAKKELVKANLRLVV 360 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AK+Y NRG+ F DLIQEGNIGL+KA +KF++ GYKFSTYA WW++QAITR+I+DQ+ Sbjct: 361 SIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQAR 420 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIR+PVHM ++++KV+R R + R+P EEIA++L PV+ V+ V + +EPISLE Sbjct: 421 TIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLE 480 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 P+G E+ S LGDFI D +P+++A + L E +VL +L RE++V+RMRFG+ Sbjct: 481 IPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDG 540 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TLEEVG QF VTRERIRQIEAKA+R+L+HPSRSKKL+ ++DG Sbjct: 541 YPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG 585 Score = 68.9 bits (167), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 43/135 (31%), Positives = 82/135 (60%), Gaps = 11/135 (8%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +K+I L + G V+ +++N LP ++SE+++D +L MGI +V EE + + Sbjct: 11 QKIISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIV-------EEYTRN 63 Query: 92 SLDLASS--ASNSSVFLQKRKDSADRSTD--DPVRMYLREMGSIELLSREGEIAIAKRIE 147 +L+ AS+ + S +K+K+S+ ++ DP+++YLRE+G + L+S E E+ +AKRIE Sbjct: 64 TLEPASTLVPKDDSKPARKKKESSASASGSEDPIKLYLREIGKVSLISGETEVFLAKRIE 123 Query: 148 AGRAMMMASLCESPL 162 G ++ ++ S + Sbjct: 124 KGEKIIEETILSSSI 138 >gi|194397936|ref|YP_002037704.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae G54] gi|194357603|gb|ACF56051.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae G54] Length = 369 Score = 309 bits (792), Expect = 8e-82, Method: Compositional matrix adjust. Identities = 151/273 (55%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELALAVEAGDIEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ +P+D + LRE +L +LT REE VLR+RFG+ TLE+VGK Sbjct: 276 GDFIEDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLEDVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RK + PSRSK LR F++ Sbjct: 336 FNVTRERIRQIEAKALRKXRQPSRSKPLRDFIE 368 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 43/138 (31%), Positives = 68/138 (49%), Gaps = 22/138 (15%) Query: 33 KMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDD------LED 85 + I+ +Q+G T +E+NA L P + ++ +ED + + + GI++ D + L + Sbjct: 17 EFIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN 76 Query: 86 EEGSEDS-LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 EE E S DL S S +DPVRMYL+E+G + LL+ E E +A Sbjct: 77 EEEPELSDEDLIGSTSAK--------------VNDPVRMYLKEIGVVPLLTNEEEKELAL 122 Query: 145 RIEAGRAMMMASLCESPL 162 +EAG L E+ L Sbjct: 123 AVEAGDIEAKQRLAEANL 140 >gi|28211633|ref|NP_782577.1| RNA polymerase sigma factor RpoD [Clostridium tetani E88] gi|28204075|gb|AAO36514.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] Length = 366 Score = 309 bits (792), Expect = 9e-82, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 198/238 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 129 ARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 188 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ + V+ V Sbjct: 189 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMEISVDRV 248 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A L+E VL +LTPR Sbjct: 249 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPAEAAAFTMLKEQLINVLDTLTPR 308 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 309 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 366 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 40/133 (30%), Positives = 62/133 (46%), Gaps = 19/133 (14%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I ++ G +T +E+ L E++ EQ+E L +M I+V Sbjct: 23 KNLIDKGKKSGSLTYKEIMDELEEIELTPEQIEKVYEALESMNIDV-------------- 68 Query: 92 SLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 L + ++ S S DDPVRMYL+E+G + LL+ E E+ +A+RIEAG Sbjct: 69 ---LGADEIKKEEEEEEIDISVPEGISIDDPVRMYLKEIGKVPLLTSEEEVDLAQRIEAG 125 Query: 150 RAMMMASLCESPL 162 L E+ L Sbjct: 126 ELKARKKLAEANL 138 >gi|289450258|ref|YP_003475183.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] gi|289184805|gb|ADC91230.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3 str. UPII9-5] Length = 353 Score = 309 bits (791), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 148/273 (54%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I ++ E + + +++G EA K + EANLRLV+S+AK+Y RG+ Sbjct: 84 VRMYLKEIGKVPLLNAEEEKDLARAMKEGSQEA---KDRLCEANLRLVVSIAKRYVGRGM 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GL+KA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 141 QFLDLIQEGNLGLIKAVDKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 200 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ ++ REP EE+A+++ + E VR++ KI++EP+SLE PIG+E+ SHL Sbjct: 201 INKLIRVQRQLLQELGREPEVEELAQEMGISPEKVREIQKISQEPVSLEKPIGEEEDSHL 260 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A SP D A L+E +L+ LTPREE+VLR+RFG+ TLEEVG++ Sbjct: 261 GDFIPDDDAPSPADQAAFTLLKEQLLEILSGLTPREEKVLRLRFGLDDGRSRTLEEVGRE 320 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RK++HPSRSKKL+ +LD Sbjct: 321 FNVTRERIRQIEAKALRKMRHPSRSKKLKDYLD 353 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 25/62 (40%), Positives = 36/62 (58%), Gaps = 1/62 (1%) Query: 111 DSAD-RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 DS+D + DDPVRMYL+E+G + LL+ E E +A+ ++ G LCE+ L I Sbjct: 73 DSSDVMNVDDPVRMYLKEIGKVPLLNAEEEKDLARAMKEGSQEAKDRLCEANLRLVVSIA 132 Query: 170 WR 171 R Sbjct: 133 KR 134 >gi|94263094|ref|ZP_01286913.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93456637|gb|EAT06745.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 540 Score = 309 bits (791), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 148/261 (56%), Positives = 192/261 (73%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ I + + +G+ + AK +V+ANLRLV+SVAKKY RGLQ LDLIQEGNIG Sbjct: 279 GLDQEGLAEIQAGIARGQEVSQEAKNRLVQANLRLVVSVAKKYAGRGLQLLDLIQEGNIG 338 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA EKF++ GYKFSTYA WW++QA+TR+IADQ TIRIPVHM D I+++++ A+ Sbjct: 339 LMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMIDTINRMLKGAKEFQ 398 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + REPTP+E+A+ L + V V+ VLKI KEP+SL+TP+G+ + S L DFIED A SP Sbjct: 399 RQHGREPTPDEMAQHLGVEVAKVKSVLKIAKEPLSLDTPVGNSNDSFLADFIEDTEAASP 458 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ I NL+ RVL +L+PREE VLR+RFG+ D TLEEVG+ F VTRERIRQIE Sbjct: 459 DEATIYENLQSNLRRVLKTLSPREEMVLRLRFGLDTAMDLTLEEVGENFAVTRERIRQIE 518 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA++KLKHP+R +L SF D Sbjct: 519 AKALKKLKHPARRNQLSSFYD 539 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 27/67 (40%), Positives = 42/67 (62%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPV++YL+EMGS+ LLS E EIA+A+ IEAG ++ +L +P L D++ G Sbjct: 98 DPVKVYLQEMGSVPLLSTEEEIAVAREIEAGELLIQQALLTAPPAIAYLSKLIDKVMAGN 157 Query: 179 TLLREII 185 L +++ Sbjct: 158 RQLSDLL 164 >gi|312195623|ref|YP_004015684.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311226959|gb|ADP79814.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 418 Score = 309 bits (791), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 148/266 (55%), Positives = 204/266 (76%), Gaps = 4/266 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++ E G+ R +V + R GE IAK +VEANLRLV+S+A++Y RG+ FLDLIQ Sbjct: 157 LAAENGLVGDLRRELVWVERDGE----IAKSRLVEANLRLVVSIARRYVGRGMLFLDLIQ 212 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R Sbjct: 213 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRI 272 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R++ + REPTPEEIAK++ + + VR++ K+ +EPISLETPIG+E+ SHLGDFIED Sbjct: 273 QRQLLQDLGREPTPEEIAKEMDLTPDKVREIQKVAQEPISLETPIGEEEDSHLGDFIEDS 332 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +AV P+D+A L+E VL +L+ RE++V+++RFG+ TLEEVG++F VTRER Sbjct: 333 DAVVPVDAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRER 392 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIE+K + KL+HPSRS+KLR +L+ Sbjct: 393 IRQIESKTLSKLRHPSRSQKLRDYLE 418 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 28/38 (73%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +ADR + D VR YL ++G + LL+ E E+ +AKR+EAG Sbjct: 113 AADRMSHDSVRQYLSQIGRVRLLTAEEEVDLAKRVEAG 150 >gi|220927994|ref|YP_002504903.1| RNA polymerase sigma factor RpoD [Clostridium cellulolyticum H10] gi|219998322|gb|ACL74923.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulolyticum H10] Length = 359 Score = 309 bits (791), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 197/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 122 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRRGFKFSTYATWW 181 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP P+EIAK++ M V+ V Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPDEIAKEIGMSVDKV 241 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI++EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL +LTPR Sbjct: 242 REIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTLLKEQLIDVLDTLTPR 301 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 302 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 359 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 42/131 (32%), Positives = 64/131 (48%), Gaps = 12/131 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +Q+G +T +E+ E+ E +E L MG++V+ D E EE Sbjct: 13 KELIDRGKQKGMLTYKEIMDAFEEIELEPEHIEKIYETLETMGVDVIGDIDSEMEE---- 68 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + L + SV S DDPVRMYL+E+G + LL+ + EI +A R+E G Sbjct: 69 -IQLTDEELDISV-------PEGVSIDDPVRMYLKEIGKVPLLTADEEIDLAHRMENGDI 120 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 121 EAKRRLAEANL 131 >gi|15606649|ref|NP_214029.1| RNA polymerase sigma factor RpoD [Aquifex aeolicus VF5] gi|2983864|gb|AAC07417.1| RNA polymerase sigma factor RpoD [Aquifex aeolicus VF5] Length = 575 Score = 308 bits (790), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 166/409 (40%), Positives = 261/409 (63%), Gaps = 32/409 (7%) Query: 286 EIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E+A+ YR L +++ + +E S K ++ K++ + + ++ + + E Sbjct: 182 ELAKAYRNLLDVREEYIKNPSEE-SRKKYLYAHARMNKIIKEMKIKYAKFERVTE----- 235 Query: 346 SKRIMHNEGELLRLAQSYGIKR---DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE 402 E++++ + Y KR + + + + DP + +A++F E + E Sbjct: 236 ---------EIIKIYKEYARKRKDLNARIRKLKALYKDPDY--FAQNFLTDENLQKIVQE 284 Query: 403 ----VDSILKIRNEIKSIS-----VETGISI---SEFRHIVSMVRKGECEASIAKKEMVE 450 + +L + NE S+ ++ I + E ++ ++ +G + AK+ M++ Sbjct: 285 KNIPTEKVLNLINEYNSLKREVQRIQNLIGVFPEEELPKVMKIIEQGRKKVVQAKQVMIQ 344 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +NLRLV+S+AKKY NRGL FLDLIQEGNIGLMKA +K+D+ GYKFSTYA WW++QAITR Sbjct: 345 SNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAITR 404 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+K+++ ++++ + REPTPEEIA+ L +PVE V+KV+K + Sbjct: 405 AIADQARTIRIPVHMIETINKIIKASKKLFQENGREPTPEEIAEYLDIPVEKVKKVMKFS 464 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 +EPISLETPIGD+D + L DFIEDK+ +P + + LRE +VL++L+ +E +L Sbjct: 465 QEPISLETPIGDDDDTFLKDFIEDKSIPNPEEQVTRKLLREQLQKVLSTLSEKEREILMY 524 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 R+G+ T++TLE+VGK F VTRERIRQIE KA+RKL+HP+R+K L+ F Sbjct: 525 RYGLVDGTEYTLEQVGKMFNVTRERIRQIENKALRKLRHPARAKYLKDF 573 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 52/159 (32%), Positives = 87/159 (54%), Gaps = 7/159 (4%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 +S K +I++ +++GYVT +E+N L D SSE E+ + +L M I VV+ + +EE Sbjct: 5 ESVKALIEMGKEKGYVTYDEINEVLEEDVTSSELFEELIDILHRMNIQVVESKEEYEEES 64 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E + + S+ ++ DPV++YLREMG I LL RE EI A++IE Sbjct: 65 EETQEEEEEVVVSGSL-------TSSSRDGDPVKLYLREMGKIPLLKREEEIYYARQIEI 117 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 GR +M L + + ++ +L +G ++E++DL Sbjct: 118 GRKIMRRGLMRTSFLVEKILDDWAKLCNGKLKIQEVMDL 156 >gi|218962087|ref|YP_001741862.1| RNA polymerase sigma factor [Candidatus Cloacamonas acidaminovorans] gi|167730744|emb|CAO81656.1| RNA polymerase sigma factor [Candidatus Cloacamonas acidaminovorans] Length = 579 Score = 308 bits (790), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 153/284 (53%), Positives = 212/284 (74%), Gaps = 4/284 (1%) Query: 403 VDSILKIRN---EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 V+++ KI+N +I+ + +ET ++ ++ ++ + + E A+ EM+EAN+RLVIS+ Sbjct: 292 VETLRKIKNARRKIRRVELETKMTGNKLIFLLREIDRAERNKERAQNEMIEANVRLVISI 351 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AK Y NRGL+FLDLIQEGN GLM+A EK+D+ GYKFSTYA WW++QAITR+IADQ+ TI Sbjct: 352 AKHYNNRGLEFLDLIQEGNTGLMRAVEKYDYRKGYKFSTYATWWIRQAITRAIADQARTI 411 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+ RT+RR+ K+ REP PEEI++ L +PVE ++ ++ I+KEP+SL+ P Sbjct: 412 RIPVHMIESINKINRTSRRLMQKLGREPYPEEISEVLDIPVEKIKNIMSISKEPVSLDKP 471 Query: 580 IG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 IG D + S LGDFIED+ +SP A ++ L++ VL +LTPREERV+R+RFGI Sbjct: 472 IGHDSEDSILGDFIEDRTIISPERLAERSLLKKQVDEVLKTLTPREERVIRLRFGIDDGY 531 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TLEEVG F VTRERIRQIE KA++KL+HPSR+ L+ FLD Sbjct: 532 HRTLEEVGNIFQVTRERIRQIEDKALKKLRHPSRAAILQQFLDN 575 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 49/137 (35%), Positives = 77/137 (56%), Gaps = 12/137 (8%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 ++ KK+++L ++ GY+T +++N LPP ++++D + LS GI ++D E E+ Sbjct: 5 NECLKKLVELGKESGYITFKQINEILPPSPFFLDKVDDIIFDLSQDGIEIID----ETEK 60 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S S + F KR DDPVRMYLREMG + LL REGE+ +AK+IE Sbjct: 61 RITKSGAAIRKPSTAKKFKSKR------YYDDPVRMYLREMGRVPLLDREGEVRVAKKIE 114 Query: 148 AGRAMMMASL--CESPL 162 + M+ ++ C S L Sbjct: 115 TYQKMINQNVFKCGSTL 131 >gi|225026302|ref|ZP_03715494.1| hypothetical protein EUBHAL_00543 [Eubacterium hallii DSM 3353] gi|224956366|gb|EEG37575.1| hypothetical protein EUBHAL_00543 [Eubacterium hallii DSM 3353] Length = 367 Score = 308 bits (789), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 143/238 (60%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K+++EANLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA EKFD+ G KFSTY+ WW Sbjct: 130 ARKQLIEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVEKFDYKKGNKFSTYSTWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR IAD + TIR+PVHM + I+K +RT+R + ++ REPT EEIAKK+ MPV + Sbjct: 190 IRQAITRGIADTAKTIRVPVHMVETINKTLRTSRMLLQELGREPTNEEIAKKMNMPVAKI 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK +++P+SL+TPIG+E+ S LGDFIED++ +SP+DSA + L+E +ASLT R Sbjct: 250 DEILKTSRDPVSLDTPIGEEEDSQLGDFIEDESLLSPVDSASFSMLKEELEEAMASLTER 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ FL+ Sbjct: 310 ERNVIKLRFGLDDGKTRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDFLE 367 Score = 46.6 bits (109), Expect = 0.016, Method: Compositional matrix adjust. Identities = 48/189 (25%), Positives = 81/189 (42%), Gaps = 22/189 (11%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED 85 FS+ K + + + + + +E+N E++ E+ E + G++V++ + Sbjct: 8 FSNIMEKLLKQAHKNKNVLEYKEINDAFKNIELTPEKFEWILDYFEKQGVDVLNT----N 63 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSAD----RSTDDPVRMYLREMGSIELLSREGEIA 141 EE D + + D AD S +DPVRMYL+E+G+I LL+ E E+ Sbjct: 64 EEDDGDDNFIDDDTEEVEII-----DDADILEGVSLEDPVRMYLKEIGNIPLLTAEEEVF 118 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFH 201 +A+RIE G L E+ L + I + + G + L I E G Sbjct: 119 LAQRIEKGDEQARKQLIEANLRL-VVSIAKKYVGRGMSFLDLI--------QEGNMGLMK 169 Query: 202 GTEGHSYQK 210 E Y+K Sbjct: 170 AVEKFDYKK 178 >gi|304439790|ref|ZP_07399688.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371777|gb|EFM25385.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus duerdenii ATCC BAA-1640] Length = 370 Score = 308 bits (789), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 148/252 (58%), Positives = 198/252 (78%), Gaps = 3/252 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + KG+ EA+ +E+ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA +KFD Sbjct: 122 IAKRMEKGDREAA---RELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFD 178 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+P Sbjct: 179 YTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSP 238 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EEIA+++ + VE VR++ KI +EP+SLETPIG+E+ SHLGDFI D+ SP D+A L Sbjct: 239 EEIAEEMNIDVERVREIQKIAQEPVSLETPIGEEEDSHLGDFIPDEEIQSPQDAATFTLL 298 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE VL +LT RE++VL +RFG+ + TLEEVGK+F VTRERIRQIEAKA+RKL+H Sbjct: 299 REQLGDVLDTLTDREKKVLTLRFGLEDGRNRTLEEVGKEFDVTRERIRQIEAKALRKLRH 358 Query: 670 PSRSKKLRSFLD 681 PSRS+KL+ +L+ Sbjct: 359 PSRSRKLKDYLE 370 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 49/149 (32%), Positives = 78/149 (52%), Gaps = 12/149 (8%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 + ED D S+ D DS ++K +++G +T EE+ L + S++++ Sbjct: 6 DFEDEDQSMSKDSIVDS---LMKTGKKKGNLTYEEIVDALDEIPMESDEIDSLYKEFEKK 62 Query: 74 GINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 GI ++D + +DE+ +D +DL S + SV S DDPVRMYL+E+G I L Sbjct: 63 GIELLDEEIGDDEDDDDDKIDL--SKEDLSV-------PKGISVDDPVRMYLKEIGKIPL 113 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPL 162 L+ + E+ IAKR+E G L E+ L Sbjct: 114 LTADEEVVIAKRMEKGDREAARELAEANL 142 >gi|94266972|ref|ZP_01290621.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93452327|gb|EAT02958.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 353 Score = 308 bits (789), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 147/252 (58%), Positives = 190/252 (75%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I + + +G+ + AK +V+ANLRLV+SVAKKY RGLQ LDLIQEGNIGLMKA EKF+ Sbjct: 101 IQAGIARGQEVSQEAKNRLVQANLRLVVSVAKKYAGRGLQLLDLIQEGNIGLMKAVEKFE 160 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QA+TR+IADQ TIRIPVHM D I+++++ A+ + REPTP Sbjct: 161 YRRGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMIDTINRMLKGAKEFQRQHGREPTP 220 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +E+A+ L + V V+ VLKI KEP+SL+TP+G+ + S L DFIED A SP ++ I NL Sbjct: 221 DEMAQHLGVEVAKVKSVLKIAKEPLSLDTPVGNSNDSFLADFIEDTEAASPDEATIYENL 280 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + RVL +L+PREE VLR+RFG+ D TLEEVG+ F VTRERIRQIEAKA++KLKH Sbjct: 281 QSNLRRVLKTLSPREEMVLRLRFGLDTAMDLTLEEVGENFAVTRERIRQIEAKALKKLKH 340 Query: 670 PSRSKKLRSFLD 681 P+R +L SF D Sbjct: 341 PARRNQLSSFYD 352 >gi|210620870|ref|ZP_03292287.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] gi|210155082|gb|EEA86088.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275] Length = 388 Score = 308 bits (789), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 145/239 (60%), Positives = 194/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA W Sbjct: 150 LAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYEKGFKFSTYATW 209 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+ PEEIAK++ + VE Sbjct: 210 WIRQAITRAIADQARTIRIPVHMVETINKLMRVSRQLLQELGRDAKPEEIAKEMDLSVEK 269 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D +A +P SA + L+E VL SL Sbjct: 270 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPDISAAYSLLKEQIDEVLGSLNE 329 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 330 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 388 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 44/150 (29%), Positives = 66/150 (44%), Gaps = 12/150 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE----GS 89 +I ++ G +T EE+ E++ EQM++ L ++GI +VD ++ G+ Sbjct: 20 LILKGKKNGSLTFEEIGDAFETVEMNKEQMDNLYDTLQSVGIELVDEKSKKNNATFAVGN 79 Query: 90 EDSLDLASSASNSSVFLQKRKDS--------ADRSTDDPVRMYLREMGSIELLSREGEIA 141 D + S K DS S DDPVRMYL+E+G I LL E+ Sbjct: 80 NDDMGFDHIDDPDSDDDDKDGDSEALDLSLPKGISIDDPVRMYLKEIGKIPLLKPHEEVE 139 Query: 142 IAKRIEAGRAMMMASLCESPLTFQALIIWR 171 AKR+ G + L E+ L I R Sbjct: 140 YAKRMHEGDELAKQRLVEANLRLVVSIAKR 169 >gi|269792833|ref|YP_003317737.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100468|gb|ACZ19455.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermanaerovibrio acidaminovorans DSM 6589] Length = 387 Score = 308 bits (788), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++VEANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 150 AKEKLVEANLRLVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEKFDYRKGYKFSTYATWW 209 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R + ++ REP+ EEIA+++ + V+ V Sbjct: 210 IRQAITRAIADQARTIRIPVHMVETINKLIRISRVLVQRLGREPSAEEIAQEMGVTVDRV 269 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ KI +EP+SLETPIG+E+ S LGDF+EDK+ SP ++A LRE +L LT R Sbjct: 270 EEIQKIAQEPVSLETPIGEEEDSQLGDFLEDKDLPSPDEAAANQILREQLEEMLEDLTDR 329 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+ VLR+RFG+ HTLEEVG++F VTRERIRQIEAKA+RKL+HPSRSK+LR FLD Sbjct: 330 EKEVLRLRFGLEDGHSHTLEEVGRRFGVTRERIRQIEAKALRKLRHPSRSKRLRDFLD 387 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 46/133 (34%), Positives = 69/133 (51%), Gaps = 18/133 (13%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------GDDLEDEEGSED 91 AR++G+VT +++ LP + +S++ +++ L +GI+VVD GD + E+ Sbjct: 41 AREKGFVTYDDIEKHLPKELLSADVLDNLYYNLMELGIDVVDETKAQRGDSI-----GEE 95 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 L S A + D D DPVRMYLRE+G I LLS E E+ +AK +EAG Sbjct: 96 VLPQISPADDLG-------DLEDLPLSDPVRMYLREIGRIPLLSPEEEVELAKGVEAGDK 148 Query: 152 MMMASLCESPLTF 164 L E+ L Sbjct: 149 RAKEKLVEANLRL 161 >gi|188585841|ref|YP_001917386.1| RNA polymerase, sigma 70 subunit, RpoD family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350528|gb|ACB84798.1| RNA polymerase, sigma 70 subunit, RpoD family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 360 Score = 308 bits (788), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ EANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 123 AKRKLAEANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 182 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA+++ M + V Sbjct: 183 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLVQELGREPLPEEIAEQMDMSEDKV 242 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+ED SHLGDFIED++A P D+A L+ VL SLTPR Sbjct: 243 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQDAKPPADAAAFELLKGQLEEVLDSLTPR 302 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP RSK+L+ +LD Sbjct: 303 EQKVLRLRFGLDDGKTRTLEEVGKHFGVTRERIRQIEAKALRKLRHPMRSKRLKDYLD 360 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 44/132 (33%), Positives = 70/132 (53%), Gaps = 19/132 (14%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEGSE 90 ++K+ ++RG++T +E+ L ++SS+Q+++ +L+ GI+VVD D +D +E Sbjct: 17 LLKVGKERGFLTYKEIMDQLSEFQLSSDQIDEFYEVLTQAGIDVVDAIGEVDPDDPTKAE 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L L S DPVRMYL+E+G I LLS + EI +AK+IE G Sbjct: 77 LDLSLPEGVEVS----------------DPVRMYLKEIGKIPLLSPDDEIELAKKIEEGD 120 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 121 EGAKRKLAEANL 132 >gi|225174152|ref|ZP_03728151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter alkaliphilus AHT 1] gi|225169937|gb|EEG78732.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter alkaliphilus AHT 1] Length = 372 Score = 308 bits (788), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 144/251 (57%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK+ + EANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 122 IALAKRMEAGDEEAKRRLAEANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLIKAVEKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP P+ Sbjct: 182 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLVQELGREPAPD 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + + E VR++LKI +EP+SLETPIG+ED SHLGDFIED++ +P ++A L+ Sbjct: 242 EIAHVMNISEERVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDVQAPAEAAAFELLK 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LTPRE++VL +RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLDDVLETLTPREKKVLTLRFGLEDGRSRTLEEVGQVFGVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 RSK+L+ +L+ Sbjct: 362 MRSKRLKDYLE 372 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 42/131 (32%), Positives = 75/131 (57%), Gaps = 4/131 (3%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG-DDLEDEEGSED 91 ++++ ++RG +T +E+ L ++S+E++++ LS +G++VVD +LE + E+ Sbjct: 17 ELVQRGKKRGLLTYKEIIEPLQEMDLSAEEIDEFYDHLSRLGVDVVDDVAELETLDVDEE 76 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 ++ + L + +DPVRMYL+E+G I LLS + EIA+AKR+EAG Sbjct: 77 TIKEEEDTPEEEIDLTVPEGIG---VNDPVRMYLKEIGKIPLLSSDEEIALAKRMEAGDE 133 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 134 EAKRRLAEANL 144 >gi|227499199|ref|ZP_03929334.1| RNA polymerase [Acidaminococcus sp. D21] gi|226904646|gb|EEH90564.1| RNA polymerase [Acidaminococcus sp. D21] Length = 582 Score = 308 bits (788), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 191/239 (79%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 344 AKKALSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGFKFSTYATWW 403 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REPTPEEIA+++ +PVE V Sbjct: 404 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQELGREPTPEEIAQEMDVPVERV 463 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++ KI +EP+SLETPIG+E+ SHLGDFIED+ A SP ++A L+E +VL L+P Sbjct: 464 REIQKIAQEPVSLETPIGEEEDSHLGDFIEDQEAPSPAEAASYTLLQEQLGKVLQEHLSP 523 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE RVL +RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ P RSK L+ FL+ Sbjct: 524 RERRVLELRFGLLDGRTRTLEEVGQYFGVTRERIRQIEAKALRKLRSPKRSKPLKEFLE 582 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 38/109 (34%), Positives = 55/109 (50%), Gaps = 10/109 (9%) Query: 56 DEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLA---SSASNSSVFLQKRKDS 112 D +S ++M++ + L+ I VVD E+E + D +L S SN SV Sbjct: 93 DSISVDEMDEIYSKLAEKNIEVVDDHAEEEEPENMDDEELTIEESELSNLSV-------P 145 Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 DDPVRMYL+E+G + LLS EI +AKR + G + +SP Sbjct: 146 EGVIVDDPVRMYLKEIGRVPLLSGNDEIKLAKRTDKGNQAAVILDGQSP 194 >gi|288916958|ref|ZP_06411330.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288351667|gb|EFC85872.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 392 Score = 308 bits (788), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 142/244 (58%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 149 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 208 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 209 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 268 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 269 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 328 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 329 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 388 Query: 678 SFLD 681 +L+ Sbjct: 389 DYLE 392 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 66/121 (54%), Gaps = 10/121 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K +I ++ G++T E++ + E+ EQ E + +L++ GI V+ E G Sbjct: 13 DEVKDLITRGKEIGFLTTEDVTVAIQAAELPPEQAETVLQVLNDEGIEVL-------EAG 65 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E++ D A + ++ A T DPVRMYL+E+G + LL+ E E+ +AKRIEA Sbjct: 66 GENA-DEADLLARRRREEEELALKA--PTSDPVRMYLKEIGKVPLLTAEEEVDLAKRIEA 122 Query: 149 G 149 G Sbjct: 123 G 123 >gi|163815580|ref|ZP_02206953.1| hypothetical protein COPEUT_01755 [Coprococcus eutactus ATCC 27759] gi|158449217|gb|EDP26212.1| hypothetical protein COPEUT_01755 [Coprococcus eutactus ATCC 27759] Length = 399 Score = 307 bits (787), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 141/250 (56%), Positives = 196/250 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E AKK++ E+NLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 148 IELAKRMEAGDEAAKKKLAESNLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 207 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV R +R + K+ REP PE Sbjct: 208 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVTRVSRDLLQKLGREPLPE 267 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+ + + +P E V++++KI +EP+SLETPIG+E+ SHLGDFI+D++ +P+++ Q L Sbjct: 268 EVGEVMGLPKERVQEIMKIAQEPVSLETPIGEEEDSHLGDFIQDESIPTPVEATNQTLLH 327 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E V+++LT RE+RV+++RFG TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 328 EQLDDVVSTLTEREQRVIKLRFGWDDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHP 387 Query: 671 SRSKKLRSFL 680 +RS+KL+ FL Sbjct: 388 NRSRKLKDFL 397 Score = 52.4 bits (124), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 33/100 (33%), Positives = 52/100 (52%), Gaps = 1/100 (1%) Query: 63 MEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 M+ L G++++ D ++EE + D +A + D + +T DPV+ Sbjct: 72 MQKIFNFLEQNGVDILQITDTDEEEPALDEDVIAEGEEVEKIDFTDTGDISS-TTQDPVK 130 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 MYL+++G + LLS E EI +AKR+EAG L ES L Sbjct: 131 MYLKDIGKVPLLSAEEEIELAKRMEAGDEAAKKKLAESNL 170 >gi|158313963|ref|YP_001506471.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158109368|gb|ABW11565.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 409 Score = 307 bits (787), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 142/244 (58%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 166 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 225 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 226 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 285 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 286 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 345 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 346 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 405 Query: 678 SFLD 681 +L+ Sbjct: 406 DYLE 409 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 66/121 (54%), Gaps = 10/121 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K +I ++ G++T E++ + E+ EQ E + +L++ GI V+ E G Sbjct: 30 DEVKDLITRGKEIGFLTTEDVTVAIQAAELPPEQAETVLQVLNDEGIEVL-------EAG 82 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E++ D A + ++ A T DPVRMYL+E+G + LL+ E E+ +AKRIEA Sbjct: 83 GENA-DEADLLARRRREEEELALKA--PTSDPVRMYLKEIGKVPLLTAEEEVDLAKRIEA 139 Query: 149 G 149 G Sbjct: 140 G 140 >gi|86739990|ref|YP_480390.1| sigma 38 [Frankia sp. CcI3] gi|86566852|gb|ABD10661.1| RNA polymerase, sigma 70 subunit, RpoD [Frankia sp. CcI3] Length = 409 Score = 307 bits (787), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 142/244 (58%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 166 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 225 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 226 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 285 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 286 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 345 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 346 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 405 Query: 678 SFLD 681 +L+ Sbjct: 406 DYLE 409 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 40/121 (33%), Positives = 64/121 (52%), Gaps = 10/121 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K +I ++ G++T E++ + E+ EQ E + +L++ GI V+ E Sbjct: 30 DEVKDLITRGKEIGFLTTEDVTVAIQAAELPPEQAETVLQVLNDEGIEVL--------EA 81 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +S D A + ++ A T DPVRMYL+E+G + LL+ E E+ +AKRIEA Sbjct: 82 GGESPDEADLLARRRREEEELALKA--PTSDPVRMYLKEIGKVPLLTAEEEVDLAKRIEA 139 Query: 149 G 149 G Sbjct: 140 G 140 >gi|111221463|ref|YP_712257.1| RNA polymerase essential primary sigma 70 factor [Frankia alni ACN14a] gi|111148995|emb|CAJ60675.1| RNA polymerase essential primary sigma 70 factor [Frankia alni ACN14a] Length = 409 Score = 307 bits (787), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 142/244 (58%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 166 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 225 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 226 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 285 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 286 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 345 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 346 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 405 Query: 678 SFLD 681 +L+ Sbjct: 406 DYLE 409 Score = 60.8 bits (146), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 65/121 (53%), Gaps = 10/121 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K +I ++ G++T E++ + E+ EQ E + +L++ GI V+ E G Sbjct: 30 DEVKDLITRGKEIGFLTTEDVTVAIQAAELPPEQAETVLQVLNDEGIEVL-------EAG 82 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E+ D A + ++ A T DPVRMYL+E+G + LL+ E E+ +AKRIEA Sbjct: 83 GENP-DEADLLARRRREEEELALKA--PTSDPVRMYLKEIGKVPLLTAEEEVDLAKRIEA 139 Query: 149 G 149 G Sbjct: 140 G 140 >gi|323704675|ref|ZP_08116253.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323536137|gb|EGB25910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 357 Score = 307 bits (786), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 156/273 (57%), Positives = 210/273 (76%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + KG+ EA KK + EANLRLV+S+AK+Y RG+ Sbjct: 88 VRMYLKEIGKIPLLSPDEEIELAKRIEKGDEEA---KKRLTEANLRLVVSIAKRYVGRGM 144 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKF++ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 145 LFLDLIQEGNLGLLKAVEKFNYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 204 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ R+P PEEIAK++ M V+ VR+++KI +EP+SLETPIG+E+ SHL Sbjct: 205 INKLIRVSRQLLQELGRDPLPEEIAKEMDMSVDKVREIMKIAQEPVSLETPIGEEEDSHL 264 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D++A +P ++A L+E VL +LTPREE+VLR+RFG+ TLEEVGK+ Sbjct: 265 GDFIPDEDAPAPAEAAAFTMLKEQLIDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKE 324 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 325 FNVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 357 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 43/134 (32%), Positives = 67/134 (50%), Gaps = 12/134 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 +S K++I ++ G +T E+ L ++ ++Q+E +GI +V + +DE Sbjct: 8 NSIKELIDKGKKNGMLTYNEIMNSLEDIDMDADQIEKVYDTFEKLGIEIVGEEPQQDELI 67 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 E+ LDL + + DDPVRMYL+E+G I LLS + EI +AKRIE Sbjct: 68 PEEDLDLDLTIPEGI------------NIDDPVRMYLKEIGKIPLLSPDEEIELAKRIEK 115 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 116 GDEEAKKRLTEANL 129 >gi|289642669|ref|ZP_06474809.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] gi|289507499|gb|EFD28458.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] Length = 392 Score = 307 bits (786), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 141/244 (57%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 149 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 208 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QA+TR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 209 TYATWWIRQAVTRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 268 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 269 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 328 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 329 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 388 Query: 678 SFLD 681 +L+ Sbjct: 389 DYLE 392 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 37/123 (30%), Positives = 64/123 (52%), Gaps = 14/123 (11%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDDLEDE 86 D K +I ++ G++T E++ L E+ EQ + + +L++ GI +++ G+D E+ Sbjct: 13 DEVKDLITRGKEIGFLTTEDVTVALQAAELPPEQTDAVLQVLNDEGIEILEAGGEDAEEN 72 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + + T DPVRMYL+E+G + LL+ E E+ +AKRI Sbjct: 73 DLLARRRREEEELALKA------------PTSDPVRMYLKEIGKVPLLTAEEEVDLAKRI 120 Query: 147 EAG 149 EAG Sbjct: 121 EAG 123 >gi|269836760|ref|YP_003318988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269786023|gb|ACZ38166.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 538 Score = 307 bits (786), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 144/239 (60%), Positives = 192/239 (80%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA+K++ EANLRLV+SVAKKY RG+ LDL+QEGN+GL++A EKF G+KFSTYA W Sbjct: 300 IARKKLTEANLRLVVSVAKKYGGRGMSMLDLVQEGNLGLIRAVEKFQHHKGFKFSTYATW 359 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM ++I++++RT+RR+ ++ REPT EEIA ++ +P + Sbjct: 360 WIRQAITRAIADQARTIRIPVHMVEQINRLIRTSRRLQQELGREPTSEEIAAEMGLPPDK 419 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++LKI++EP+SLE PIG+E+ S+LGDFIED A++P D+A L+E VL SL Sbjct: 420 VREILKISQEPVSLEMPIGEEEDSNLGDFIEDSKALAPSDAASLKLLKEQVDDVLGSLGD 479 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE RVL +RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKLR +L+ Sbjct: 480 RERRVLELRFGLDDGRTRTLEEVGREFGVTRERIRQIEAKALRKLRHPSRSKKLRDYLE 538 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 38/120 (31%), Positives = 72/120 (60%), Gaps = 8/120 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I+ AR++GY++ EEL A + + ++ + L+ M + V+D E + D Sbjct: 43 RRIIERAREQGYLSAEEL-ADVASAPGGAAAVDAITSQLAEMNVPVLD-----PAEDAPD 96 Query: 92 SLDLASSASNSSVFLQKRKDS--ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D+A+ +++ +F + D + S DDPVR+YLRE+G ++LL+ E E+A+A+ +E G Sbjct: 97 LPDVAAVEADNDLFSTELSDVDLSGVSLDDPVRIYLREIGRVQLLTGEQEVALAQAMERG 156 >gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12] Length = 409 Score = 307 bits (786), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 142/244 (58%), Positives = 198/244 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 166 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 225 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 226 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 285 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 286 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 345 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR Sbjct: 346 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLR 405 Query: 678 SFLD 681 +L+ Sbjct: 406 DYLE 409 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 38/125 (30%), Positives = 68/125 (54%), Gaps = 18/125 (14%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D K +I ++ G++T E++ + E+ EQ E + +L++ GI V+ E G Sbjct: 30 DEVKDLITRGKEIGFLTTEDVTVAIQAAELPPEQAETVLQVLNDEGIEVL-------EAG 82 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAK 144 E+ A + ++R++ + + T +PVRMYL+E+G + LL+ E ++ +AK Sbjct: 83 GEN-------ADEPDLLARRRREKEELALKAPTSEPVRMYLKEIGKVPLLTAEEQVDLAK 135 Query: 145 RIEAG 149 RIEAG Sbjct: 136 RIEAG 140 >gi|289523410|ref|ZP_06440264.1| RNA polymerase sigma factor RpoD [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503102|gb|EFD24266.1| RNA polymerase sigma factor RpoD [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 412 Score = 307 bits (786), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 142/234 (60%), Positives = 185/234 (79%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++EANLRLV+S+AKKY RGL FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW++QA Sbjct: 179 LIEANLRLVVSIAKKYIGRGLSFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQA 238 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPT EEIA+ L +P E V + Sbjct: 239 ITRAIADQARTIRIPVHMVETINKLIRVSRQLVQQLGREPTIEEIAQSLGLPPEKVEDIQ 298 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 +I +EP+SLETPIG+E+ S LGDF+EDK + +P D+ LRE +L LT RE V Sbjct: 299 RIAQEPVSLETPIGEEEDSQLGDFLEDKESPNPEDATAGQLLREQLEEMLGELTEREREV 358 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LR+RFG+ HTLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSK+LR +L+ Sbjct: 359 LRLRFGLEDGHAHTLEEVGKRFNVTRERIRQIEAKALRKLRHPSRSKRLRDYLE 412 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 42/135 (31%), Positives = 76/135 (56%), Gaps = 10/135 (7%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVS-SEQMEDTVAMLSNMGINVVDGDDLEDEE 87 ++ +++++ RQ+G++T ++L +LP + +S ++ M++ + L +GI+V + D L+ Sbjct: 59 ENIRELLQEGRQKGFITYDDLEKYLPQEALSEADIMDNVYSNLLELGIDVKEEDKLQ--- 115 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ V L++ D S DPVRMYLRE+G I LL+ E E+ +AKR+E Sbjct: 116 ------EIRQGELLPQVSLEELSDIESVSISDPVRMYLREIGKISLLTPEEEVELAKRVE 169 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 170 EGEEEAKKKLIEANL 184 >gi|167463432|ref|ZP_02328521.1| RNA polymerase sigma factor RpoD [Paenibacillus larvae subsp. larvae BRL-230010] Length = 375 Score = 306 bits (785), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 151/251 (60%), Positives = 198/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD Sbjct: 125 VELAKRIEQGDEEAKRRLTEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDH 184 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 185 TKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 244 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + + VR+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+ Sbjct: 245 EIAKEMELSTDKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLK 304 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 305 EQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 364 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 365 SRSKRLKDFLE 375 Score = 63.2 bits (152), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 46/135 (34%), Positives = 74/135 (54%), Gaps = 13/135 (9%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE----- 87 ++I+L ++R +T +E+ L P + +EQ++D LS MGI+V G++ +D+E Sbjct: 21 QLIELGKKRSSLTYKEIMDRLAPYDQDAEQIDDFFEHLSEMGIDV--GNENDDDEDNIRP 78 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+ D+ D + + K +DPVRMYL+E+G + LLS E E+ +AKRIE Sbjct: 79 GNTDNEDEDFNFEDDLTLPPGIK------INDPVRMYLKEIGRVPLLSAEDEVELAKRIE 132 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 133 QGDEEAKRRLTEANL 147 >gi|315645989|ref|ZP_07899110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] gi|315278750|gb|EFU42064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] Length = 376 Score = 306 bits (785), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 139 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYKKGFKFSTYATWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA ++ + VE V Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAAEMELSVEKV 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 259 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTER 318 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 319 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 376 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 47/147 (31%), Positives = 76/147 (51%), Gaps = 3/147 (2%) Query: 17 DSDDSLVFDFSDDSWK-KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 D L +F+ D K ++I+ ++R ++ +++ L P + +EQME+ L+++GI Sbjct: 4 DQHTELETEFTLDQVKDQLIEQGKKRSVLSYKDIMEKLSPFDQDTEQMEEFYEQLADLGI 63 Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 +VV+ +D DE S D S + F +DPVRMYL+E+G + LLS Sbjct: 64 DVVNEND--DEGTHRQSEDSESRENEDFGFDDDLSLPPGIKINDPVRMYLKEIGRVPLLS 121 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPL 162 + EI +A RIE G L E+ L Sbjct: 122 ADDEIELANRIEQGDEEAKRRLAEANL 148 >gi|306820486|ref|ZP_07454120.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551472|gb|EFM39429.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 538 Score = 306 bits (785), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 154/286 (53%), Positives = 211/286 (73%), Gaps = 9/286 (3%) Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 KN V V LK +I+ ++VE +SE MV+ E AK ++VEANLRL Sbjct: 262 KNNVDDPVRMYLKEIGKIQLLTVEEEHRLSEL-----MVKGDEY----AKMKIVEANLRL 312 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ Sbjct: 313 VVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQ 372 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIRIPVHM + I+K++R R++ ++ R+P PEEIA+++ M + +R+++KI +EP+S Sbjct: 373 ARTIRIPVHMVETINKLIRINRQLVQELGRDPRPEEIAEQMGMSQDKIREIMKIAQEPVS 432 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LETPIG+E+ SHLGDFI D +A +P ++A + LRE +VL +LT RE RVL++RFG+ Sbjct: 433 LETPIGEEEDSHLGDFIPDDDAQAPSEAAAYSLLREQIEQVLCTLTDRERRVLKLRFGLD 492 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK+F VTRERIRQIEAKA+RKL+ P +S KL+ +LD Sbjct: 493 DGRPRTLEEVGKEFDVTRERIRQIEAKALRKLRGPKKSNKLKDYLD 538 Score = 38.5 bits (88), Expect = 4.0, Method: Compositional matrix adjust. Identities = 42/170 (24%), Positives = 78/170 (45%), Gaps = 24/170 (14%) Query: 13 SEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSN 72 S ++D +D L + + + +I+ R+ GY+ + + + ++ E++ED ++ Sbjct: 163 SVYDDKEDILSVMEYEKAVQGLIEKGRRDGYIDYDTIMNTVDNYDIGKEKIEDMYDRFAS 222 Query: 73 MGINVVDGDDL-----------EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPV 121 GI+++D D + EG D L L S + ++V DDPV Sbjct: 223 FGIDIIDDMDKDTPHDEAKGGEQKSEGDFDLLSLELSLTKNNV-------------DDPV 269 Query: 122 RMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 RMYL+E+G I+LL+ E E +++ + G + E+ L I R Sbjct: 270 RMYLKEIGKIQLLTVEEEHRLSELMVKGDEYAKMKIVEANLRLVVSIAKR 319 >gi|150015739|ref|YP_001307993.1| RNA polymerase sigma factor RpoD [Clostridium beijerinckii NCIMB 8052] gi|149902204|gb|ABR33037.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium beijerinckii NCIMB 8052] Length = 376 Score = 306 bits (785), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 139 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEI+K + +PV+ V Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGRDPFPEEISKVMELPVDKV 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTPR Sbjct: 259 REIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTPR 318 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 319 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 376 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 40/131 (30%), Positives = 66/131 (50%), Gaps = 17/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I ++ G +T +E+ + ++S EQ+E +L G+ ++ ++ D E +E+ Sbjct: 35 KELIDKGKKNGSLTYKEIMEAMDHIDLSPEQIEKIYEVLEMTGVEIIG--EIADTE-TEE 91 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL+ + DDPVRMYL+E+G + LLS E EI AK IE G Sbjct: 92 EIDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLSSEQEITYAKEIEEGNQ 137 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 138 KAKKKLAEANL 148 >gi|160915039|ref|ZP_02077252.1| hypothetical protein EUBDOL_01047 [Eubacterium dolichum DSM 3991] gi|158432838|gb|EDP11127.1| hypothetical protein EUBDOL_01047 [Eubacterium dolichum DSM 3991] Length = 398 Score = 306 bits (785), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 148/239 (61%), Positives = 188/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK+++ ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 158 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ + R+PT EEIA K+ + E Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPTAEEIAAKMENISPEK 277 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK A+SP + A L++ VL LT Sbjct: 278 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKEALSPDEYANNQLLKDEINTVLQGLTE 337 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+L+ F+D Sbjct: 338 REEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLKDFVD 396 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 22/51 (43%), Positives = 33/51 (64%) Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 AS+ Q +S+ +DPV+MYL+E+G +ELL + E IA+RI+AG Sbjct: 104 ASDIEHLEQSFANSSHTKINDPVKMYLKEIGRVELLDPKEEPEIARRIQAG 154 >gi|261405623|ref|YP_003241864.1| RpoD subfamily RNA polymerase sigma-70 factor [Paenibacillus sp. Y412MC10] gi|329925852|ref|ZP_08280581.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] gi|261282086|gb|ACX64057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. Y412MC10] gi|328939598|gb|EGG35946.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] Length = 377 Score = 306 bits (785), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYKKGFKFSTYATWW 199 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP+PEEIA ++ + VE V Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAAEMELSVEKV 259 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 260 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTER 319 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 320 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 60.5 bits (145), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 48/148 (32%), Positives = 77/148 (52%), Gaps = 5/148 (3%) Query: 17 DSDDSLVFDFSDDSWK-KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 D L +F+ D K ++I+ ++R ++ +++ L P + +EQME+ L+++GI Sbjct: 5 DQHTELETEFTLDQVKDQLIEQGKKRSVLSYKDIMEKLSPFDQDTEQMEEFYEQLADLGI 64 Query: 76 NVVDGDDLEDEEGSE-DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 +VV+ +D EEG S D S + F +DPVRMYL+E+G + LL Sbjct: 65 DVVNEND---EEGPHRQSGDSESHDNEDFGFDDDLSLPPGIKINDPVRMYLKEIGRVPLL 121 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPL 162 S + EI +A RIE G L E+ L Sbjct: 122 SADDEIELANRIEQGDEEAKRRLAEANL 149 >gi|282891123|ref|ZP_06299627.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281498940|gb|EFB41255.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 546 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 151/291 (51%), Positives = 212/291 (72%), Gaps = 3/291 (1%) Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 P E + A ++++ + ++K + G S+ +F+ V M+++ ++ AK+EMVE Sbjct: 254 PRAERNKYAAAKLNAA---KRKLKKRELAAGRSLEDFKKDVRMLQRWMDKSQEAKREMVE 310 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +NLRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR Sbjct: 311 SNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTR 370 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IADQ+ TIRIPVHM + I+KV+R A+++ + REP+PEE+A +L + E VR++ KI Sbjct: 371 AIADQARTIRIPVHMIETINKVLRGAKKLMMETGREPSPEELANELGITAERVREIYKIA 430 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 + PISL+ +GD S GDF+ED A SP ++ + L++ VLA+LT RE +VL Sbjct: 431 QHPISLQAEVGDGGESQFGDFLEDTGADSPAEATGYSILKDKMNEVLATLTDRERKVLIQ 490 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFG+ TLEEVG +F VTRERIRQIEAKA+RK++HP+RSK+L++FLD Sbjct: 491 RFGLLDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMRHPTRSKQLKAFLD 541 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 42/117 (35%), Positives = 67/117 (57%), Gaps = 10/117 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 ++ LA+++GY+T EE+N LP +++Q++ + LS M + V++ + + Sbjct: 21 LVSLAKEQGYITYEEINEILPMTFDNADQIDQVLIFLSGMDVQVLN-------QAEVERQ 73 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + L KR + S DDPVRMYL+EMGS+ LLSRE E+ I+KRIE + Sbjct: 74 KEKKKEAKEMEGLPKRSEG---SPDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQ 127 >gi|308069922|ref|YP_003871527.1| RNA polymerase sigma factor rpoD (Sigma-A) [Paenibacillus polymyxa E681] gi|310643031|ref|YP_003947789.1| RNA polymerase sigma factor rpod [Paenibacillus polymyxa SC2] gi|305859201|gb|ADM70989.1| RNA polymerase sigma factor rpoD (Sigma-A) [Paenibacillus polymyxa E681] gi|309247981|gb|ADO57548.1| RNA polymerase sigma factor rpoD [Paenibacillus polymyxa SC2] Length = 377 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYEKGFKFSTYATWW 199 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEE+A ++ + VE V Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEVAAEMELSVEKV 259 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 260 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTER 319 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 320 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 4/152 (2%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 ++ +H + + L D D ++I+L ++ + +++ L P + EQM++ L Sbjct: 2 ANDQHTELETELTLDQVKD---QLIELGKKSSSLNYKDIMEKLSPFDQDPEQMDEFYEQL 58 Query: 71 SNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 ++GI VV+ +D E ++ D ++ + F +DPVRMYL+E+G Sbjct: 59 GDLGIEVVNDNDEEVTRLRQND-DPENNDGDDFNFDDDLSLPPGIKINDPVRMYLKEIGR 117 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + LLS + E+ +AKRI G L E+ L Sbjct: 118 VPLLSADDEVELAKRINNGDEEAKRRLAEANL 149 >gi|293375429|ref|ZP_06621710.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325844412|ref|ZP_08168139.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] gi|292645982|gb|EFF64011.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325489086|gb|EGC91470.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1] Length = 464 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 145/242 (59%), Positives = 192/242 (79%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA AKK +VE+NLRLV+S+A+++ RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTY Sbjct: 222 EAEYAKKRLVESNLRLVVSIARRHIGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTY 281 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ REP PEEIA+K+ + Sbjct: 282 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRIQRQLVQELGREPLPEEIAEKMEIT 341 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E R++LKI++EPISLE+P+GDE S LGDFI D +A+SP D L++ VL + Sbjct: 342 PEKAREILKISQEPISLESPVGDEADSSLGDFIPDADALSPSDFTSNEMLKKELAEVLET 401 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT REERVLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS++L+ F Sbjct: 402 LTDREERVLRLRFGLEDGHTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSRRLKDF 461 Query: 680 LD 681 ++ Sbjct: 462 ME 463 Score = 43.9 bits (102), Expect = 0.10, Method: Compositional matrix adjust. Identities = 35/148 (23%), Positives = 63/148 (42%), Gaps = 31/148 (20%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 K+IKL ++RGY+T +E+N ++ E + + + + I++V + + + Sbjct: 17 KLIKLGKKRGYLTYDEINNSFAEVQLDPEMISSFLDLYESEQIDIVKAKKVVETPKVKKE 76 Query: 93 LDLASSASNSSV----------------------FLQKRKD---------SADRSTDDPV 121 + N+ F + +D ++ DPV Sbjct: 77 VKETPKVQNTEEEQTTTEEADFEENEEEENIPADFKIEEEDEEPFDAFEITSQLKLSDPV 136 Query: 122 RMYLREMGSIELLSREGEIAIAKRIEAG 149 MYL+E+G +ELLS + EI AK+IE G Sbjct: 137 HMYLKEIGRVELLSSQEEIKFAKKIERG 164 >gi|149194280|ref|ZP_01871377.1| RNA polymerase sigma factor RpoD [Caminibacter mediatlanticus TB-2] gi|149135455|gb|EDM23934.1| RNA polymerase sigma factor RpoD [Caminibacter mediatlanticus TB-2] Length = 604 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 195/573 (34%), Positives = 319/573 (55%), Gaps = 71/573 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I LL ++ E+ I +RI+ G +++ ++C P ++ +++ L + Sbjct: 96 SDSPVRMYLREMGHIPLLDKDEEVEIFRRIQLGEEIILDAICSIPFLIDLVLKYKEPLLN 155 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERD---DVQETEGDIESA 233 ++E+ G + RE E ++ +E E I+ Sbjct: 156 RERRVKELFKNFVDEEEVEDEDTKEGKKNKKISLREKRINELFKNLEKAKKEWEKVIDEY 215 Query: 234 AKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEI---AEV 290 ++ KD S PE D+ H + + + + KV AL+E+ +++ Sbjct: 216 DRILKDT-----SMPE-------------DERLHKILQLTFK-KKKVKDALNELGYTSKL 256 Query: 291 YRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 E+ + A+ G KD + +K + + R+ L EQL ++ K I+ Sbjct: 257 INEIVKTVETALKGDKDFEKELKKR----------------EYRLPLFNEQLRNLHKEIL 300 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 EL K D+ A PE N V ++ +++ + Sbjct: 301 SKITEL--------SKEDI-----------------AAMVPEHTMVN-VYMDIKKLVEAK 334 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +++ G+ + I+ +++G+ + AK++M ANLRLV+S+AKKYTNRGL F Sbjct: 335 KASENM---FGMDPKKLEVILEQLKRGKKIVTEAKEKMARANLRLVVSIAKKYTNRGLPF 391 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ T+RIP+HM + I+ Sbjct: 392 LDLIQEGNIGLMKAIDKFEFEKGYKFSTYATWWIRQAISRAIADQARTVRIPIHMIENIN 451 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 ++ + R+ + +EP+ E IAK++ MPVE ++++LKI+KEPISLE P+G+E+ GD Sbjct: 452 QINKIIRKYVQEEGKEPSLEVIAKEMKMPVEKIKQILKISKEPISLEAPVGEEEDGKFGD 511 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQF 649 FIEDK+ +P D + +LR+ +L +L RE+ V++MRFG+ + ++ TLEE+GK Sbjct: 512 FIEDKSFSNPYDEVVLEDLRKHIDEILENLNEREKAVIKMRFGLMPDKSERTLEEIGKAL 571 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VTRER+RQIE+ AI+KL+HP+ K L+++++ Sbjct: 572 NVTRERVRQIESSAIKKLRHPNIGKLLKNYIES 604 >gi|182418305|ref|ZP_02949600.1| RNA polymerase sigma factor RpoD [Clostridium butyricum 5521] gi|237666788|ref|ZP_04526773.1| RNA polymerase sigma factor RpoD [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377687|gb|EDT75231.1| RNA polymerase sigma factor RpoD [Clostridium butyricum 5521] gi|237657987|gb|EEP55542.1| RNA polymerase sigma factor RpoD [Clostridium butyricum E4 str. BoNT E BL5262] Length = 369 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 132 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEI+K + +PV+ V Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGRDPFPEEISKVMDLPVDKV 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTPR Sbjct: 252 REIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTPR 311 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 312 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 369 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 37/132 (28%), Positives = 65/132 (49%), Gaps = 18/132 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 K+++ ++ G +T +E+ + ++ EQ+E L M I ++ + ++ D +E Sbjct: 27 KELLDKGKKNGSLTYKEIMEAMDHIDLGPEQIEKIYEALEMMNIEIIGEANETAD---AE 83 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + +DL+ + DDPVRMYL+E+G + LLS E EI A++IE G Sbjct: 84 EEIDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLSSEQEIEYAQQIEEGN 129 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 130 QRAKKKLAEANL 141 >gi|160878392|ref|YP_001557360.1| RpoD family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160427058|gb|ABX40621.1| RNA polymerase, sigma 70 subunit, RpoD family [Clostridium phytofermentans ISDg] Length = 371 Score = 306 bits (784), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 144/271 (53%), Positives = 205/271 (75%), Gaps = 3/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++ +K I +S++E + + +K E ++AK+ + E+NLRLV+S+AK+Y RGL Sbjct: 101 VKQYLKEIGSYPLLSVAEE---IELAKKIEAGDNMAKQILAESNLRLVVSIAKRYVGRGL 157 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW++QAITRSIADQS TIRIPVHM + Sbjct: 158 SFLDLIQEGNLGLIKAVDKFDYNKGYKFSTYATWWIRQAITRSIADQSRTIRIPVHMSEV 217 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K R +R + ++ REP+ +E+A + +P+E VR++LK++ +PISL+TPIG+ED SHL Sbjct: 218 INKTYRVSRNLLQELGREPSEQELADAMNLPIEKVREILKVSADPISLDTPIGEEDDSHL 277 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI+D + P D+A A L++ +++L +LT RE+RVL +RFG+ TLEEVGK+ Sbjct: 278 GDFIKDDTIMGPEDAASYAVLQDQISKLLDTLTEREQRVLILRFGLQDGRSRTLEEVGKE 337 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 F VTRERIRQIEAKA+RKL+HPSR++ L+ + Sbjct: 338 FNVTRERIRQIEAKALRKLRHPSRARMLKGY 368 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 46/134 (34%), Positives = 69/134 (51%), Gaps = 7/134 (5%) Query: 32 KKMIKLAR-QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K++I A +G + ++++N F ++ Q++ L I V++ D EDE + Sbjct: 13 KELIAFANDNKGVIEVDKVNDFFKELNLNVRQIDKIYEYLEANNIVVLNPTD-EDEPNED 71 Query: 91 DSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 L+L +S + SA ST DDPV+ YL+E+GS LLS EI +AK+IEA Sbjct: 72 ALLELED---DSDMIGDTEDLSAMTSTISDDPVKQYLKEIGSYPLLSVAEEIELAKKIEA 128 Query: 149 GRAMMMASLCESPL 162 G M L ES L Sbjct: 129 GDNMAKQILAESNL 142 >gi|188587782|ref|YP_001920276.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E3 str. Alaska E43] gi|251778486|ref|ZP_04821406.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188498063|gb|ACD51199.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E3 str. Alaska E43] gi|243082801|gb|EES48691.1| RNA polymerase sigma factor RpoD [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 374 Score = 306 bits (784), Expect = 9e-81, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 194/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA W Sbjct: 136 VAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATW 195 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEI+K + +PV+ Sbjct: 196 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGRDPFPEEISKVMELPVDK 255 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTP Sbjct: 256 VREIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTP 315 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 316 REEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 374 Score = 59.3 bits (142), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 64/131 (48%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I ++ G +T +E+ + ++S EQ+E +L MGI V+ G D E+ Sbjct: 32 KGLIDKGKKNGSLTYKEIMDEIDHIDLSPEQIEKIYEVLEMMGIEVIGGAT--DAPEVEE 89 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL + DDPVRMYL+E+G + LLS E EI AKRIE G Sbjct: 90 EIDLTVLEGIA--------------IDDPVRMYLKEIGKVPLLSSEQEIDYAKRIEEGDP 135 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 136 VAKKKLAEANL 146 >gi|312196071|ref|YP_004016132.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311227407|gb|ADP80262.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 393 Score = 306 bits (783), Expect = 9e-81, Method: Compositional matrix adjust. Identities = 140/239 (58%), Positives = 194/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 155 VAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATW 214 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEIAK++ + + Sbjct: 215 WIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIAKEMDLTPDK 274 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++LK+ +EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL +L+ Sbjct: 275 VREILKVAQEPVSLETPIGEEEDSHLGDFIEDSDAVVPVDAASFLLLQEQLDSVLHTLSD 334 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++V+++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS+KLR +L+ Sbjct: 335 REKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSRSQKLRDYLE 393 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 39/122 (31%), Positives = 66/122 (54%), Gaps = 18/122 (14%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I ++ G++T +++ + E+ EQ E + +L++ GI V+D Sbjct: 18 KDLITRGKEAGFLTTDDITVAIQAAELPQEQAEQVLTLLNDEGIEVLDPR---------- 67 Query: 92 SLDLASSASNSSVFLQKRKD----SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 A SA S + ++R++ +A T DPVRMYL+E+G + LL+ E+ +AKRIE Sbjct: 68 ----ADSAETSDLLARRRREEEALNAKAPTSDPVRMYLKEIGKVPLLTAAEEVDLAKRIE 123 Query: 148 AG 149 AG Sbjct: 124 AG 125 >gi|322383680|ref|ZP_08057431.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151892|gb|EFX44835.1| RNA polymerase sigma factor RpoD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 354 Score = 306 bits (783), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD GYKFSTYA WW Sbjct: 117 AKRRLTEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHTKGYKFSTYATWW 176 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPEEIAK++ + + V Sbjct: 177 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMELSTDKV 236 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 237 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTER 296 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 297 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 354 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 47/134 (35%), Positives = 73/134 (54%), Gaps = 13/134 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE-----G 88 MI+L ++R +T +E+ L P + +EQ++D LS MGI+V G++ +D+E G Sbjct: 1 MIELGKKRSSLTYKEIMDRLAPYDQDAEQIDDFFEHLSEMGIDV--GNENDDDEDNIRPG 58 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + D+ D + + K +DPVRMYL+E+G + LLS E E+ +AKRIE Sbjct: 59 NTDNEDEDFNFEDDLTLPPGIK------INDPVRMYLKEIGRVPLLSAEDEVELAKRIEQ 112 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 113 GDEEAKRRLTEANL 126 >gi|326204489|ref|ZP_08194346.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium papyrosolvens DSM 2782] gi|325985282|gb|EGD46121.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium papyrosolvens DSM 2782] Length = 359 Score = 306 bits (783), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 122 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRRGFKFSTYATWW 181 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP P+EIAK++ M V+ V Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPDEIAKEIGMSVDKV 241 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI++EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL +LT R Sbjct: 242 REIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTLLKEQLIDVLDTLTAR 301 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 302 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 359 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/134 (31%), Positives = 69/134 (51%), Gaps = 18/134 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---DLEDEEG 88 K++I +Q+G +T +E+ E+ E +E L MG++VV GD ++E+ + Sbjct: 13 KELIDRGKQKGMLTYKEIIDAFEEIELEPEHIEKIYETLETMGVDVV-GDMEAEMEEIQL 71 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +++ LD++ S DDPVRMYL+E+G + LLS + EI +A R+E Sbjct: 72 TDEELDISIPEGIS--------------IDDPVRMYLKEIGKVPLLSADEEIDLAHRMEN 117 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 118 GDIEAKRRLAEANL 131 >gi|260655747|ref|ZP_05861216.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1] gi|260629363|gb|EEX47557.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1] Length = 969 Score = 305 bits (782), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 146/260 (56%), Positives = 198/260 (76%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+ + V++ ++ E AK E++ ANLRLV+S+AKKY RG+QFLDLIQEGN+GL Sbjct: 710 VSLLDAAEEVALAKRVEAGDETAKDEIINANLRLVVSIAKKYIGRGMQFLDLIQEGNLGL 769 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ Sbjct: 770 IRAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMVRISRQLVQ 829 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K+ REP+ EEIA ++ + E V ++ +I++ P+SLETPIG+E+ S LGDFIED++ SP Sbjct: 830 KLGREPSDEEIAAEMKIEPERVEEIKRISQMPVSLETPIGEEEDSQLGDFIEDRSLPSPE 889 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D A L+E +L +L+ RE VLR RFG+ +TLEEVG++F VTRERIRQIEA Sbjct: 890 DVAADNLLQEQIEEMLNALSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIRQIEA 949 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HPSRSKKLR FLD Sbjct: 950 KALRKLRHPSRSKKLRDFLD 969 Score = 58.5 bits (140), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 43/152 (28%), Positives = 76/152 (50%), Gaps = 12/152 (7%) Query: 10 DSDSEHEDSDDSLVFDFSDDSW-KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVA 68 D +S D +D+ + S W +++ + + +G+VT +++ +P D +S+ +E + Sbjct: 577 DEESGEADDEDAALARQSRMKWVRELYTVGKDKGFVTNQDIEETVPADAWNSDVLEFVIE 636 Query: 69 MLSNMGINVVD------GD-----DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 L N+G+++VD GD + D S N + ++ D Sbjct: 637 NLMNLGVDLVDSTGSAAGDVTAGQAAARALAESKNSDADSDEDNDPGYGEELGKMEDVPL 696 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPVRMYLR++G + LL E+A+AKR+EAG Sbjct: 697 SDPVRMYLRDIGKVSLLDAAEEVALAKRVEAG 728 >gi|229825330|ref|ZP_04451399.1| hypothetical protein GCWU000182_00684 [Abiotrophia defectiva ATCC 49176] gi|229790702|gb|EEP26816.1| hypothetical protein GCWU000182_00684 [Abiotrophia defectiva ATCC 49176] Length = 409 Score = 305 bits (782), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 142/236 (60%), Positives = 186/236 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + E+NLRLV+S+AKKY RGL FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW Sbjct: 171 ATDRLTESNLRLVVSIAKKYVGRGLSFLDLIQEGNLGLIKAVDKFDYSKGYKFSTYATWW 230 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIRIPVHM + I+K R +R + ++ REPT EEIAK++ +PVE V Sbjct: 231 IRQAITRSIADQSRTIRIPVHMSEVINKAYRISRSLLQELGREPTEEEIAKEMNLPVEKV 290 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI+ +PISL+TPIG+ED SHLGDFI+D + P D+A L++ ++L +L+ R Sbjct: 291 REIMKISADPISLDTPIGEEDDSHLGDFIKDDTIMGPEDAAAYTMLQDQIQKLLTTLSER 350 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+RVL +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP+R++ LR F Sbjct: 351 EQRVLILRFGLLDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLRHPNRARMLRGF 406 Score = 41.6 bits (96), Expect = 0.43, Method: Compositional matrix adjust. Identities = 20/46 (43%), Positives = 30/46 (65%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DDPV++YL+E+G+ LLS + E+ +AK+I G L ES L Sbjct: 135 SDDPVKIYLKEIGNYPLLSMDEEVELAKKIAEGDQYATDRLTESNL 180 >gi|291533682|emb|CBL06795.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Megamonas hypermegale ART12/1] Length = 329 Score = 305 bits (782), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 150/266 (56%), Positives = 201/266 (75%), Gaps = 3/266 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + G+ EA +K + EANLRLV+S+AK+Y RG+ Sbjct: 66 VRMYLKEIGRVPLLSADEEIKLAKRMEDGDLEA---QKRLAEANLRLVVSIAKRYVGRGM 122 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 123 LFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 182 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ + REP+PEEIAK++ + V+ VR+++KI +EP+SLETPIG+E+ SHL Sbjct: 183 INKLIRVSRQLLQSLGREPSPEEIAKEMDVSVDRVREIMKIAQEPVSLETPIGEEEDSHL 242 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED +A +P ++A L+E VL +LT REE+VLR+RFG+ TLEEVG+ Sbjct: 243 GDFIEDHDAPAPAEAASFVLLKEQLEDVLDTLTEREEKVLRLRFGLDDGRARTLEEVGQN 302 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSK 674 F VTRERIRQIEAKA+RKL+HPSRSK Sbjct: 303 FGVTRERIRQIEAKALRKLRHPSRSK 328 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 13/111 (11%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRKD 111 + PDE+ +++ DT + GI+++D G+D+ G +D +L + + L + Sbjct: 9 MSPDEI--DELYDT---FTKRGIDIIDNGNDI----GPDDDSNLKDDEDDIDIDLSIPEG 59 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPVRMYL+E+G + LLS + EI +AKR+E G L E+ L Sbjct: 60 I---NIDDPVRMYLKEIGRVPLLSADEEIKLAKRMEDGDLEAQKRLAEANL 107 >gi|187934045|ref|YP_001885115.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B str. Eklund 17B] gi|187722198|gb|ACD23419.1| RNA polymerase sigma factor RpoD [Clostridium botulinum B str. Eklund 17B] Length = 374 Score = 305 bits (782), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 194/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA W Sbjct: 136 VAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATW 195 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEI+K + +PV+ Sbjct: 196 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGRDPFPEEISKVMELPVDK 255 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI +EP+SLETPIG+E+ SHLGDFI D A +P ++A L+E VL +LTP Sbjct: 256 VREIQKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPAEAAAFTMLKEQLINVLDTLTP 315 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 316 REEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 374 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 64/131 (48%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I ++ G +T +E+ + ++S EQ+E +L MGI V+ G D E+ Sbjct: 32 KGLIDKGKKNGSLTYKEIMDEIDHIDLSPEQIEKIYEVLEMMGIEVIGGAT--DAPEVEE 89 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 +DL + DDPVRMYL+E+G + LLS E EI AKRIE G Sbjct: 90 EIDLTVLEGIA--------------IDDPVRMYLKEIGKVPLLSSEQEIDYAKRIEEGDP 135 Query: 152 MMMASLCESPL 162 + L E+ L Sbjct: 136 VAKKKLAEANL 146 >gi|297570260|ref|YP_003691604.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] gi|296926175|gb|ADH86985.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] Length = 555 Score = 305 bits (782), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 146/263 (55%), Positives = 194/263 (73%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + G+ E +++ + GE + AK +V++NLRLV+SVAKKY RGLQ LDL+QEGN Sbjct: 291 QYGLDRQELSALLAQISLGEEISREAKNRLVQSNLRLVVSVAKKYAGRGLQLLDLVQEGN 350 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ TIRIPVHM D I+++++ A+ Sbjct: 351 IGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMIDTINRMLKGAKE 410 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + REPTPEE+A+ L + + V+ +LKI KEP+SL+TP+G + S L DFIED ++ Sbjct: 411 YQRQHGREPTPEEMAEHLGVDIAKVKSILKIAKEPLSLDTPVGSGEDSFLSDFIEDADST 470 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 SP ++ I +L++ RVL +LTPREE VLR+RFGI TD TLEEVG+ F VTRERIRQ Sbjct: 471 SPDEATIYDSLQDNLARVLKTLTPREEMVLRLRFGIDTATDLTLEEVGENFSVTRERIRQ 530 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IEAKA++KLKHP+R L F D Sbjct: 531 IEAKALKKLKHPTRKSILSPFYD 553 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 25/67 (37%), Positives = 40/67 (59%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 DPV++YL+EMG++ LLS E E+A+AK IE G + +L +P L ++ G Sbjct: 108 DPVKVYLQEMGAVALLSSEEEVAVAKEIERGERTIQDALVIAPPALAYLDEIAKKIQHGN 167 Query: 179 TLLREII 185 +L +I+ Sbjct: 168 RMLSDIV 174 >gi|315185629|gb|EFU19397.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta thermophila DSM 6578] Length = 568 Score = 305 bits (781), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 145/269 (53%), Positives = 198/269 (73%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K+ +E +I + + + +G AK ++++ANLRLV+S+AKKYTNRGL F D Sbjct: 299 LKAFEIEFEATIPQILEMSKEIARGHHLMKTAKDKLIQANLRLVVSIAKKYTNRGLHFFD 358 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV Sbjct: 359 LVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKV 418 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R AR++ + REPT EEIA +L P+ V+ V + +EPISLE+PIG+E+ S +GDFI Sbjct: 419 QREARQLMQVLGREPTDEEIADRLGWPLSRVKSVKNVAREPISLESPIGEEEDSSVGDFI 478 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDK AV+P A L++ VLA+L PRE+ VL+MRFG+ TLEEVG F VT Sbjct: 479 EDKTAVNPSHQTAYALLQQQIKDVLATLPPREQEVLKMRFGLEDGYSLTLEEVGLYFNVT 538 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+R+L+HP RS++L+ +L+ Sbjct: 539 RERIRQIEAKALRRLRHPKRSRRLKDYLE 567 Score = 66.6 bits (161), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 47/134 (35%), Positives = 81/134 (60%), Gaps = 17/134 (12%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVS--SEQMEDTVAMLSNMGINVVDGDDLEDEE 87 S +K+I+ +++G +T ++L+ FLP +E+S E++++ +A+L I VV+ DD E Sbjct: 4 SVQKLIEYGKRKGILTYDDLSDFLP-EEISDSEEKIQEVLAVLEEAHIQVVEEDD---SE 59 Query: 88 GSEDSLDLASSASNSS-VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G E S A N V + +R+ S TDDP+R+YLRE+G LL+ E E++++K++ Sbjct: 60 GGE------SKAKNRRRVVITEREGS----TDDPIRLYLREIGRENLLTAEEEVSLSKQM 109 Query: 147 EAGRAMMMASLCES 160 E G ++ L S Sbjct: 110 EEGENIIKEVLKHS 123 >gi|169334166|ref|ZP_02861359.1| hypothetical protein ANASTE_00560 [Anaerofustis stercorihominis DSM 17244] gi|169258883|gb|EDS72849.1| hypothetical protein ANASTE_00560 [Anaerofustis stercorihominis DSM 17244] Length = 403 Score = 305 bits (781), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 150/272 (55%), Positives = 199/272 (73%), Gaps = 3/272 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + G+ EA +K++ EANLRLV+S+AK+Y NRG+ Sbjct: 135 VRMYLKEIGKVDLLSAEEELDLAQKIESGDVEA---RKKLCEANLRLVVSIAKRYVNRGM 191 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 192 SFLDLIQEGNLGLLKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 251 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+ R R + + R+P EIAK++ +P E VR ++KI+++P+SLETPIG+E+ SHL Sbjct: 252 INKLKRVQRMLIQDLGRDPNSHEIAKEMGLPEEKVRDIMKISQDPVSLETPIGEEEDSHL 311 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +AV+P ++A LR VL +LT RE +VL +RFG+ TLEEVG Sbjct: 312 GDFIPDDDAVAPEEAASYMLLRTQLFEVLKTLTDREAKVLILRFGLEDGRPRTLEEVGDI 371 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 FCVTRERIRQIEAKA+RKL+HP+RSKKLR FL Sbjct: 372 FCVTRERIRQIEAKALRKLRHPTRSKKLRDFL 403 Score = 51.6 bits (122), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 33/93 (35%), Positives = 46/93 (49%), Gaps = 9/93 (9%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +DPVRMYL+E+G ++LLS E E+ +A++IE+G LCE+ L I R +N G Sbjct: 132 NDPVRMYLKEIGKVDLLSAEEELDLAQKIESGDVEARKKLCEANLRLVVSIAKR-YVNRG 190 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + L I E G E Y K Sbjct: 191 MSFLDLI--------QEGNLGLLKAVEKFDYTK 215 >gi|171914125|ref|ZP_02929595.1| RNA polymerase sigma factor RpoD [Verrucomicrobium spinosum DSM 4136] Length = 576 Score = 305 bits (781), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 148/273 (54%), Positives = 203/273 (74%), Gaps = 1/273 (0%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++ ++ + ++ E+R +V+ + E++ AK EMVEANLRLVIS+AKKYTNRGL Sbjct: 301 VQKALEDFELHAWVTPEEYRRLVAETIQWSKESTKAKTEMVEANLRLVISIAKKYTNRGL 360 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GLM+A EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM D Sbjct: 361 SFLDLIQEGNMGLMRAVEKFEYKRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIDT 420 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT-SH 587 I+K++R +++ ++ R+PTP+EIA+++ +PVE V VL+++++P+SL+T +GD D + Sbjct: 421 INKLLRVQKQLVQELGRDPTPDEIAEEIHLPVERVNAVLRMSQQPVSLQTKVGDSDGDTE 480 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 GDFIED +VSP++ LR+ VL SLT RE VL RFG+ + TLEEVG+ Sbjct: 481 FGDFIEDNTSVSPMELTAMNLLRDKLKDVLDSLTDRERAVLEQRFGLVDGSGRTLEEVGR 540 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 QF VTRERIRQIEAKA+RKL+HP+R +KL F Sbjct: 541 QFHVTRERIRQIEAKALRKLRHPTRIRKLGGFF 573 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 53/187 (28%), Positives = 97/187 (51%), Gaps = 8/187 (4%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I+LA+++ Y+T ++ N LP V+ E M++ + L ++ I V++ ++ + Sbjct: 53 LIRLAKEQDYLTFDDFNESLPNGFVTPELMDEILIRLRSLEIEVIEPTQVDRVKTKR--- 109 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 A+ A + +++R+D DDPVRMYL++MG++ LL+R+ EI I+KRIE + + Sbjct: 110 --ATVAEDEDTVVEEREDGQLDMLDDPVRMYLKQMGAVPLLTRDQEIGISKRIEKAESHL 167 Query: 154 MASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRED 213 A L + D L GT +++ L+ I E + +F Q R+D Sbjct: 168 QACLQNIGFIATEYLHLGDALASGTERFDKLV-LDRQI--EDRDSYFKKLRQVCDQVRDD 224 Query: 214 SSQEKER 220 S+ E+ Sbjct: 225 ISKANEQ 231 >gi|293400669|ref|ZP_06644814.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305695|gb|EFE46939.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 396 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 188/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK+++ ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 156 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 215 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ + R+P+ EEIA K+ + E Sbjct: 216 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 275 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK A+SP + A L++ VL LT Sbjct: 276 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKEALSPDEYANNQLLKDEINTVLQGLTE 335 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+L+ F+D Sbjct: 336 REEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLKDFVD 394 Score = 43.1 bits (100), Expect = 0.15, Method: Compositional matrix adjust. Identities = 20/43 (46%), Positives = 30/43 (69%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q +S+ +DPV+MYL+E+G +ELL + E IA+RI+AG Sbjct: 110 QSFANSSHTKINDPVKMYLKEIGRVELLDPKEEPEIARRIQAG 152 >gi|291531112|emb|CBK96697.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum 70/3] Length = 358 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 121 ARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I KV + + ++ ++ EPTP+EIA +L + V+ V Sbjct: 181 IRQAITRSIADQARTIRIPVHMVETITKVKKVSSQLLHENGHEPTPQEIADRLGITVDRV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L+I+++P+SLETPIG+E+ SHLGDFI D++A +P ++A + L+E + +L +LTPR Sbjct: 241 REILRISQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAASRTLLKEQLSEILGTLTPR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 301 EEKVLRLRFGLEDGRPRTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 358 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 37/141 (26%), Positives = 65/141 (46%), Gaps = 15/141 (10%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG----D 81 +D ++I +Q G +T +E+ L + ++++ + I +VD + Sbjct: 1 MADSKINELINHGKQSGKLTTKEITDVLEELDFDADEINKLYDDFESSNIEIVDDFSADE 60 Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DL+ DS D SS S+ + + DDPV++YL+E+G + LL+ E EI Sbjct: 61 DLDSALDFTDSDDFESSLSSEGI-----------AIDDPVKIYLKEIGRVPLLTAEEEIE 109 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +A R+ G L E+ L Sbjct: 110 LATRMAQGDKYARKRLSEANL 130 >gi|167750934|ref|ZP_02423061.1| hypothetical protein EUBSIR_01919 [Eubacterium siraeum DSM 15702] gi|167656113|gb|EDS00243.1| hypothetical protein EUBSIR_01919 [Eubacterium siraeum DSM 15702] gi|291557421|emb|CBL34538.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Eubacterium siraeum V10Sc8a] Length = 358 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 121 ARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I KV + + ++ ++ EPTP+EIA +L + V+ V Sbjct: 181 IRQAITRSIADQARTIRIPVHMVETITKVKKVSSQLLHENGHEPTPQEIADRLGITVDRV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L+I+++P+SLETPIG+E+ SHLGDFI D++A +P ++A + L+E + +L +LTPR Sbjct: 241 REILRISQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAASRTLLKEQLSEILGTLTPR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ FLD Sbjct: 301 EEKVLRLRFGLEDGRPRTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDFLD 358 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 37/141 (26%), Positives = 65/141 (46%), Gaps = 15/141 (10%) Query: 26 FSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG----D 81 +D ++I +Q G +T +E+ L + ++++ + I +VD + Sbjct: 1 MADSKINELINHGKQNGKLTTKEITDVLEELDFDADEINKLYDDFESSNIEIVDDFSADE 60 Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DL+ DS D SS S+ + + DDPV++YL+E+G + LL+ E EI Sbjct: 61 DLDSALDFTDSDDFESSLSSEGI-----------AIDDPVKIYLKEIGRVPLLTAEEEIE 109 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +A R+ G L E+ L Sbjct: 110 LATRMAQGDKYARKRLSEANL 130 >gi|309775524|ref|ZP_07670524.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 3_1_53] gi|308916618|gb|EFP62358.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium 3_1_53] Length = 397 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 188/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK+++ ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 157 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 216 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ + R+P+ EEIA K+ + E Sbjct: 217 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 276 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK A+SP + A L++ VL LT Sbjct: 277 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKEALSPDEYANNQLLKDEINTVLQGLTE 336 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+L+ F+D Sbjct: 337 REEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLKDFVD 395 Score = 40.4 bits (93), Expect = 0.97, Method: Compositional matrix adjust. Identities = 19/43 (44%), Positives = 29/43 (67%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q +S+ +DPV+MYL+E+G +ELL + E IA+RI+ G Sbjct: 111 QSFANSSHTKINDPVKMYLKEIGRVELLDPKEEPEIAQRIQDG 153 >gi|307718768|ref|YP_003874300.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] gi|306532493|gb|ADN02027.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] Length = 580 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 144/269 (53%), Positives = 198/269 (73%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K+ +E +I + + + +G AK ++++ANLRLV+S+AKKYTNRGL F D Sbjct: 311 LKAFEIEFEATIPQILEMSKEIARGHHLMKTAKDKLIQANLRLVVSIAKKYTNRGLHFFD 370 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV Sbjct: 371 LVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKV 430 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R AR++ + REPT EEIA +L P+ V+ V + +EPISLE+PIG+E+ S +GDFI Sbjct: 431 QREARQLMQVLGREPTDEEIADRLGWPLSRVKSVKNVAREPISLESPIGEEEDSSVGDFI 490 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 EDK A++P A L++ VLA+L PRE+ VL+MRFG+ TLEEVG F VT Sbjct: 491 EDKTAINPSHQTAYALLQQQIKDVLATLPPREQEVLKMRFGLEDGYSLTLEEVGLYFNVT 550 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RERIRQIEAKA+R+L+HP RS++L+ +L+ Sbjct: 551 RERIRQIEAKALRRLRHPKRSRRLKDYLE 579 Score = 67.4 bits (163), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 47/134 (35%), Positives = 81/134 (60%), Gaps = 17/134 (12%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVS--SEQMEDTVAMLSNMGINVVDGDDLEDEE 87 S +K+I+ +++G +T ++L+ FLP +E+S E++++ +A+L I VV+ DD E Sbjct: 16 SVQKLIEYGKRKGILTYDDLSDFLP-EEISDSEEKIQEVLAVLEEAHIQVVEEDD---SE 71 Query: 88 GSEDSLDLASSASNSS-VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 G E S A N V + +R+ S TDDP+R+YLRE+G LL+ E E++++K++ Sbjct: 72 GGE------SKAKNRRRVVITEREGS----TDDPIRLYLREIGRENLLTAEEEVSLSKQM 121 Query: 147 EAGRAMMMASLCES 160 E G ++ L S Sbjct: 122 EEGETIIKEVLKHS 135 >gi|309388945|gb|ADO76825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium praevalens DSM 2228] Length = 364 Score = 305 bits (780), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 144/251 (57%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+++V+ANLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +KFD+ Sbjct: 114 VELAKRMEQGEEWAKQQLVQANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKAVDKFDY 173 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+K++R +R++ + REP E Sbjct: 174 TKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKGREPKDE 233 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI ++ + E VR+++KI+++P+SLETPIG+E+ SHLGDFIED ++ +P +A L+ Sbjct: 234 EIGAEMDISAEKVREIMKISQDPVSLETPIGEEEDSHLGDFIEDVDSPAPASAASYILLK 293 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+RVL +RFGI TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 294 EQLNDVLDTLTDREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHP 353 Query: 671 SRSKKLRSFLD 681 SRSKK++ +L+ Sbjct: 354 SRSKKIKDYLN 364 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/131 (31%), Positives = 67/131 (51%), Gaps = 9/131 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 KK++ ++ G +T E++ L ++ SE +E + S M I VV+ + + Sbjct: 15 KKLVSRGKKEGELTYEDIMDALEDIDLDSEDIEKIYEIFSEMNIEVVNS------KLEDS 68 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 D NS + L K + S DDPVRMYL+E+G ++LL+ E E+ +AKR+E G Sbjct: 69 EEDDDEDDQNSGLDLSIPKSA---SIDDPVRMYLKEIGKVDLLTAEEEVELAKRMEQGEE 125 Query: 152 MMMASLCESPL 162 L ++ L Sbjct: 126 WAKQQLVQANL 136 >gi|313897367|ref|ZP_07830910.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2] gi|312957737|gb|EFR39362.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2] Length = 398 Score = 304 bits (779), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 188/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK+++ ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 158 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ + R+P+ EEIA K+ + E Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 277 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK A+SP + A L++ VL LT Sbjct: 278 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKEALSPDEYANNQLLKDEINTVLQGLTE 337 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+L+ F+D Sbjct: 338 REEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLKDFVD 396 Score = 43.5 bits (101), Expect = 0.14, Method: Compositional matrix adjust. Identities = 20/43 (46%), Positives = 30/43 (69%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q +S+ +DPV+MYL+E+G +ELL + E IA+RI+AG Sbjct: 112 QSFANSSHTKINDPVKMYLKEIGRVELLDPKEEPEIARRIQAG 154 >gi|223985702|ref|ZP_03635749.1| hypothetical protein HOLDEFILI_03055 [Holdemania filiformis DSM 12042] gi|223962313|gb|EEF66778.1| hypothetical protein HOLDEFILI_03055 [Holdemania filiformis DSM 12042] Length = 408 Score = 304 bits (779), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 188/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ +NLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 168 AKRILISSNLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 227 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ + REPT EEIA+K+ + + Sbjct: 228 IRQAITRAIADQARTIRIPVHMVETINKLTRVQRQLVQDLGREPTAEEIAEKMENITPDK 287 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK+A+SP A L++ VL LT Sbjct: 288 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKDAMSPDQYANNQLLKDEINNVLQGLTE 347 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+LR F+D Sbjct: 348 REEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLRDFVD 406 Score = 44.7 bits (104), Expect = 0.050, Method: Compositional matrix adjust. Identities = 27/71 (38%), Positives = 42/71 (59%), Gaps = 11/71 (15%) Query: 80 GDDLEDE-EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 G+D ++E E E +DL+ + S+S +DPV+MYL+E+G + LL+ E Sbjct: 104 GEDFDEEVEDVEVPIDLSETYSSSPYV----------RINDPVKMYLKEIGRVPLLNPED 153 Query: 139 EIAIAKRIEAG 149 E IA+RI+AG Sbjct: 154 EPEIARRIQAG 164 >gi|254519856|ref|ZP_05131912.1| transcription initiation factor sigma A [Clostridium sp. 7_2_43FAA] gi|226913605|gb|EEH98806.1| transcription initiation factor sigma A [Clostridium sp. 7_2_43FAA] Length = 370 Score = 304 bits (779), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 133 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEI+K + +PV+ V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGRDPFPEEISKVMDLPVDKV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFI D +A++P ++A L+E VL +LTPR Sbjct: 253 REIQKIAQEPVSLETPIGEEEDSHLGDFIPDDDALAPAEAAAFTMLKEQLINVLDTLTPR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 313 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 370 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 52/159 (32%), Positives = 79/159 (49%), Gaps = 27/159 (16%) Query: 4 GKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 GKK N D +S+ ++V K ++ ++ G +T +E+ + ++S EQ+ Sbjct: 11 GKKENEDKNSKM-----TIV--------KNLLDKGKKSGTLTYKEIMDEVEHIDLSPEQI 57 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 E +L +MGI V+ GD E +E E+ LDL + + DDPVRM Sbjct: 58 EKIYEVLESMGIEVI-GDPNEADE-VEEELDLDLTIPEGI------------AIDDPVRM 103 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 YL+E+G + LLS E EI +A RIE G L E+ L Sbjct: 104 YLKEIGKVPLLSSEEEIELANRIEQGDQRAKKKLAEANL 142 >gi|164688099|ref|ZP_02212127.1| hypothetical protein CLOBAR_01744 [Clostridium bartlettii DSM 16795] gi|164602512|gb|EDQ95977.1| hypothetical protein CLOBAR_01744 [Clostridium bartlettii DSM 16795] Length = 385 Score = 304 bits (778), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 145/239 (60%), Positives = 197/239 (82%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+ +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA W Sbjct: 147 IAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYERGFKFSTYATW 206 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK++ M E Sbjct: 207 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKEMDMSEEK 266 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D++A++P ++A + L++ VL SL Sbjct: 267 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDEDALAPAEAAAYSLLKDQIEEVLGSLNE 326 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 327 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 385 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 47/156 (30%), Positives = 72/156 (46%), Gaps = 14/156 (8%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEG 88 + K +I +++G +T+ E+ E+ +Q+E+ L N+GI ++ D D + Sbjct: 11 TAKTLIDKGKKQGSLTLSEIMEAFSETELDKDQVENLYETLGNLGIEIIEDKTQKADVDF 70 Query: 89 SEDSLDLASSASNSSVF---LQKRKD-SADR---------STDDPVRMYLREMGSIELLS 135 S++ DL V L+K D D+ S DDPVRMYL+E+G I LL Sbjct: 71 SDNDNDLIVDKDFDGVSDDELKKEDDIEMDKIDLSLPKGISIDDPVRMYLKEIGKIPLLK 130 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 EI AKR+ G + L E+ L I R Sbjct: 131 PHEEIEYAKRMLEGDEIAKQRLVEANLRLVVSIAKR 166 >gi|257066626|ref|YP_003152882.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaerococcus prevotii DSM 20548] gi|256798506|gb|ACV29161.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anaerococcus prevotii DSM 20548] Length = 602 Score = 304 bits (778), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 143/247 (57%), Positives = 194/247 (78%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+ + AKK++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ G Sbjct: 356 LRRAVLNSKRAKKKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRG 415 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ EEIA Sbjct: 416 FKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIA 475 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ + VE V+++ KI++EP+SLETPIG+ED SHLGDFIED +A+ P ++A LRE Sbjct: 476 EQMGLEVEKVQEIRKISQEPVSLETPIGEEDDSHLGDFIEDDSAIDPGEAANYTMLREQL 535 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL+ L RE+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P++S Sbjct: 536 NDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSPNKS 595 Query: 674 KKLRSFL 680 + L+ FL Sbjct: 596 ELLKDFL 602 Score = 43.1 bits (100), Expect = 0.15, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G ++LL+ EI +A+R+E G Sbjct: 115 VDDPVKMYLKEIGKVDLLTATEEIILARRMEMG 147 >gi|323342093|ref|ZP_08082326.1| DNA-directed RNA polymerase sigma subunit RpoD [Erysipelothrix rhusiopathiae ATCC 19414] gi|322464518|gb|EFY09711.1| DNA-directed RNA polymerase sigma subunit RpoD [Erysipelothrix rhusiopathiae ATCC 19414] Length = 459 Score = 304 bits (778), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 187/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 219 ARRILISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 278 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R + + REPT EEIA ++ + E Sbjct: 279 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRSLVQTLGREPTAEEIAAEMENITPEK 338 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI +P+SLETPIG+ED SHLGDFIEDK+A+SP + A L+E VL LT Sbjct: 339 VREIQKIALDPVSLETPIGEEDDSHLGDFIEDKDALSPDEYANNQLLKEEIKMVLEGLTE 398 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHP+RSK+LR F+D Sbjct: 399 REEKVLRLRFGLEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPTRSKRLRDFVD 457 Score = 38.1 bits (87), Expect = 4.9, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 40/72 (55%) Query: 78 VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 VD D + DE ++ D + + + S + + + +DPV+MYL+E+G + LL + Sbjct: 79 VDDDFISDEAEEDEIFDDSLNKVDLSSYENELTSANMVRINDPVKMYLKEIGRVNLLDAK 138 Query: 138 GEIAIAKRIEAG 149 E IA+R++ G Sbjct: 139 DEPEIARRLQEG 150 >gi|269215371|ref|ZP_06159225.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122] gi|269131227|gb|EEZ62301.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122] Length = 383 Score = 304 bits (778), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 138/238 (57%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 145 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+PTPEEI +K+ + E V Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLNRDPTPEEIGEKMGLSAERV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED +AV P D+A + L+E ++VL L R Sbjct: 265 REIQKISQEPVSLETPIGEEEDSQLGDFIEDDSAVVPPDAASFSMLQEQLSKVLDGLAER 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ HTLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 325 ERKVISLRFGLEDGHPHTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 382 Score = 45.4 bits (106), Expect = 0.035, Method: Compositional matrix adjust. Identities = 36/99 (36%), Positives = 50/99 (50%), Gaps = 27/99 (27%) Query: 80 GDDLEDEEGSEDSLDLA-------------SSASNSSVFLQK---------RKDSADRS- 116 GDDL E+G + +L+ +AS S + L K R+ S+D S Sbjct: 14 GDDLAAEDGKDVDANLSDEELLEGIPENELKAASTSEINLPKLSSSRASKVRRRSSDGSS 73 Query: 117 ----TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 T DPVRMYL+E+G + LL+ EI +A +IEAG A Sbjct: 74 AVMLTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVA 112 >gi|257791063|ref|YP_003181669.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eggerthella lenta DSM 2243] gi|317488219|ref|ZP_07946788.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA] gi|325830757|ref|ZP_08164141.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1] gi|257474960|gb|ACV55280.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eggerthella lenta DSM 2243] gi|316912661|gb|EFV34201.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA] gi|325487164|gb|EGC89607.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1] Length = 409 Score = 303 bits (777), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 138/238 (57%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 171 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 230 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ REP+PEEI K++ +P E V Sbjct: 231 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPSPEEIGKEMGLPAERV 290 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV P D+A + L+E ++VL L R Sbjct: 291 REIQKISQEPVSLETPIGEEEDSQLGDFIEDDAAVVPPDAASFSMLQEQLSKVLDGLAER 350 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 351 ERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 408 Score = 46.6 bits (109), Expect = 0.015, Method: Compositional matrix adjust. Identities = 26/49 (53%), Positives = 33/49 (67%), Gaps = 4/49 (8%) Query: 109 RKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 RK +AD S T DPVRMYL+E+G + LL+ EI +A +IEAG A M Sbjct: 92 RKRNADASVTMLTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAAM 140 >gi|251796255|ref|YP_003010986.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. JDR-2] gi|247543881|gb|ACT00900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. JDR-2] Length = 376 Score = 303 bits (777), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 197/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ E AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD Sbjct: 126 IELARRIENGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDH 185 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REPTPE Sbjct: 186 QKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPE 245 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + + VR+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+ Sbjct: 246 EIAAEMELSTDKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLK 305 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HP Sbjct: 306 EQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHP 365 Query: 671 SRSKKLRSFLD 681 SRSK+L+ FL+ Sbjct: 366 SRSKRLKDFLE 376 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 42/134 (31%), Positives = 69/134 (51%), Gaps = 8/134 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++I+ ++R +T +E+ L P + EQ+++ L ++GI V++ D ED D Sbjct: 20 EQLIEQGKKRASLTYKEIMEKLSPFDQDPEQIDEFFEQLDDLGIEVLNERD-EDR----D 74 Query: 92 SLDLASSASNSSVFLQKRKDSA---DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 L+ + S D A +DPVRMYL+E+G + LLS + EI +A+RIE Sbjct: 75 PLNRGEDSERESDDFNFDDDLALPPGIKINDPVRMYLKEIGRVPLLSADDEIELARRIEN 134 Query: 149 GRAMMMASLCESPL 162 G L E+ L Sbjct: 135 GDEEAKRRLAEANL 148 >gi|304403970|ref|ZP_07385632.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus curdlanolyticus YK9] gi|304346948|gb|EFM12780.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus curdlanolyticus YK9] Length = 377 Score = 303 bits (777), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 154/273 (56%), Positives = 205/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S + + + KG+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 108 VRMYLKEIGRVPLLSADDEVELAKRIEKGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 164 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 165 LFLDLIQEGNMGLIKAVEKFDHTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 224 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP PEEIA ++ + + VR+++KI +EP+SLETPIG+ED SHL Sbjct: 225 INKLIRVSRQLLQELGREPAPEEIAAEMELSTDKVREIMKIAQEPVSLETPIGEEDDSHL 284 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 285 GDFIEDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKV 344 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 345 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 39/130 (30%), Positives = 66/130 (50%), Gaps = 1/130 (0%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I+ ++R +T +E+ L P + EQ+++ L ++GI VV+ +D E +D Sbjct: 21 QLIEHGKKRSSLTYKEIMEKLAPFDQDPEQIDEFFEQLDDLGIEVVNEND-ESPISRDDH 79 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++ F +DPVRMYL+E+G + LLS + E+ +AKRIE G Sbjct: 80 DRDRDQENDEFNFDDDLALPPGIKINDPVRMYLKEIGRVPLLSADDEVELAKRIEKGDEE 139 Query: 153 MMASLCESPL 162 L E+ L Sbjct: 140 AKRRLAEANL 149 >gi|284049111|ref|YP_003399450.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidaminococcus fermentans DSM 20731] gi|283953332|gb|ADB48135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidaminococcus fermentans DSM 20731] Length = 589 Score = 303 bits (777), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 147/239 (61%), Positives = 189/239 (79%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 351 AKKCLSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGFKFSTYATWW 410 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REPTPEEIAK++ + VE V Sbjct: 411 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQELGREPTPEEIAKEMDVSVERV 470 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++ KI +EP+SLETPIG+E+ SHLGDFIED+ A SP D+A L+E +VL L+ Sbjct: 471 REIQKIAQEPVSLETPIGEEEDSHLGDFIEDQEAPSPADAASYTLLQEQLGKVLQEHLSA 530 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE RVL +RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+ P RSK L+ FL+ Sbjct: 531 RERRVLELRFGLMDGRTRTLEEVGQYFGVTRERIRQIEAKALRKLRSPKRSKPLKEFLE 589 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 43/116 (37%), Positives = 61/116 (52%), Gaps = 13/116 (11%) Query: 39 RQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS---EDSLD 94 + G +T +E+ L D VS ++M+ + L+ I VVD D EDEE ED L Sbjct: 81 KNHGVLTYKEIQDRLQNEDTVSVDEMDAIYSKLAEKNIEVVD-DGAEDEEPETIDEDELK 139 Query: 95 L-ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + S +N SV DDPVRMYL+E+G + LL+ + EI +AKR + G Sbjct: 140 VDESELANLSV-------PEGVIVDDPVRMYLKEIGRVPLLAGDDEIKLAKRADKG 188 >gi|292670109|ref|ZP_06603535.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] gi|292648297|gb|EFF66269.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] Length = 382 Score = 303 bits (777), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 142/251 (56%), Positives = 189/251 (75%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 131 IELARRMEAGDESARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 190 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K +R +R++ + R+PT E Sbjct: 191 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKYIRISRQLLQDLGRDPTAE 250 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK++ + VR+++KI +EP+SLETPIG+E+ SHLGDFIED+ A+ P D+A L+ Sbjct: 251 EVAKEMGLSTLRVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAALDPADAASVMLLK 310 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E T VL +L PRE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 311 EQITEVLQTLAPREAEVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 370 Query: 671 SRSKKLRSFLD 681 R +KL+ D Sbjct: 371 VRLRKLQGNFD 381 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 28/34 (82%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + DDPVRMYL+E+G + LL+ + EI +A+R+EAG Sbjct: 107 AVDDPVRMYLKEIGRVPLLTADEEIELARRMEAG 140 >gi|332799075|ref|YP_004460574.1| RpoD subfamily RNA polymerase sigma-70 [Tepidanaerobacter sp. Re1] gi|332696810|gb|AEE91267.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tepidanaerobacter sp. Re1] Length = 374 Score = 303 bits (777), Expect = 6e-80, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 137 AKRRLAEANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLMKAVEKFDYKKGYKFSTYATWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEEIA+++ +PVE V Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQELGRDPLPEEIAEEMELPVEKV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SL TPIG+E+ S LGDFI D A++P D+A L+E VL +LTPR Sbjct: 257 REIMKIAQEPVSLATPIGEEEDSFLGDFIPDDEALAPADAAAYLLLKEQLEDVLETLTPR 316 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 317 EEKVLRLRFGLDDGRPRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 39/132 (29%), Positives = 66/132 (50%), Gaps = 14/132 (10%) Query: 34 MIKLARQRGYVTIEE-LNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 +I+ ++ G ++ E ++A +++ +EQ++ MGI V+D D Sbjct: 26 LIEKGKKNGVLSYGEIMDALEDIEDLDTEQIDKIYESFEEMGIEVLD-----------DG 74 Query: 93 LDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ + V ++ SA + DDPVRMYL+E+G + LLS E EI ++KRIE G Sbjct: 75 EEIPEEETLEEVPTEEIDLSAPEGVAIDDPVRMYLKEIGKVPLLSAEEEIMLSKRIEEGD 134 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 135 KEAKRRLAEANL 146 >gi|297622151|ref|YP_003710288.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044] gi|297377452|gb|ADI39282.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044] Length = 555 Score = 303 bits (777), Expect = 6e-80, Method: Compositional matrix adjust. Identities = 146/261 (55%), Positives = 198/261 (75%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G S+ E++ V M+++ ++ AK+EMVE+NLRLVIS+AKKYTNRGL FLDLIQEGN+G Sbjct: 290 GRSLEEYKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMG 349 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+++ Sbjct: 350 LMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLM 409 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + REPTPEE+A +L + E +R++ KI + PISL+ +GD S GDF+ED A SP Sbjct: 410 METGREPTPEELANELGLSAERIREIYKIAQHPISLQAEVGDGGESQFGDFLEDTGADSP 469 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ + L++ VL +LT RE +VL RFG+ TLEEVG +F VTRERIRQIE Sbjct: 470 AEATGYSILKDKMNEVLLTLTDRERKVLIQRFGLNDGKPKTLEEVGVEFNVTRERIRQIE 529 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RK++HP+RSK+L++FLD Sbjct: 530 AKALRKMRHPTRSKQLKAFLD 550 Score = 65.1 bits (157), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 36/117 (30%), Positives = 66/117 (56%), Gaps = 10/117 (8%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 ++ +A+ +G++T EE+N LP +++Q++ + LS M + +++ + + Sbjct: 22 LVAIAKDQGFITYEEINDVLPMTIDTADQIDQILIFLSGMDVQILN-------QSEVERQ 74 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + L +R + + DDPVRMYL+EMGS+ LL+RE E+ I+KRIE + Sbjct: 75 KEKKKEAKELEGLPRRVEG---TPDDPVRMYLKEMGSVPLLTREEEVEISKRIEKAQ 128 >gi|332297995|ref|YP_004439917.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181098|gb|AEE16786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 599 Score = 303 bits (776), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 149/276 (53%), Positives = 197/276 (71%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I KI +++ + E +SE + + +G AK ++ ANLRLV+S+AKKYTN Sbjct: 324 IQKIDRKLRRLEYEFENDVSEILSMAKEIDRGRRMMKEAKNRLINANLRLVVSIAKKYTN 383 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQF DL+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM Sbjct: 384 RGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM 443 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 ++I+KVVR +R++ + REPT EEIA +L PV V++V + +EPISLETPIG+E+ Sbjct: 444 IEQINKVVRESRQLMQRFGREPTDEEIAAQLGWPVNRVKQVKSVAREPISLETPIGEEED 503 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDFIEDK +P L++ +LA+L PRE+ VL+MRFG+ TLEEV Sbjct: 504 SLLGDFIEDKEVENPAAKTAYTMLQDHLRSILATLPPREQEVLKMRFGLDDGFSLTLEEV 563 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G F VTRERIRQIEAKA+R+L+HP RS LR ++D Sbjct: 564 GLYFNVTRERIRQIEAKALRRLRHPRRSGGLRDYID 599 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 38/138 (27%), Positives = 71/138 (51%), Gaps = 16/138 (11%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL---- 83 D + K+++ + + VT +ELN +LPP+ +++++ME+ + +L + + + D L Sbjct: 5 DPAITKLLEYGKTKHSVTWDELNEYLPPEILNTDKMENVLMLLEKNHVQIEEEDTLDDAD 64 Query: 84 ----------EDEEGSEDSLDLASSASNSSVFLQKR--KDSADRSTDDPVRMYLREMGSI 131 + + D D + +KR + D S DDPVR+YLRE+G Sbjct: 65 ASADDASADDASADDASDDDDSTEEETKPEEPERKRLVYNDKDSSGDDPVRLYLREIGKE 124 Query: 132 ELLSREGEIAIAKRIEAG 149 LL+ E E+ ++K++E G Sbjct: 125 HLLTAEQEVFLSKKMEDG 142 >gi|283769573|ref|ZP_06342469.1| RNA polymerase sigma factor RpoD [Bulleidia extructa W1219] gi|283103841|gb|EFC05227.1| RNA polymerase sigma factor RpoD [Bulleidia extructa W1219] Length = 413 Score = 303 bits (776), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 154/283 (54%), Positives = 204/283 (72%), Gaps = 7/283 (2%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A DS+ EI + + + SE I + +G+ EA + ++ +NLRLV+S+ Sbjct: 136 ATSGDSVKMYLKEIGRVPL---LKASEEIEIAKKIEQGDEEA---RNVLISSNLRLVVSI 189 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKY RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TI Sbjct: 190 AKKYVGRGMQFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTI 249 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEGVRKVLKITKEPISLET 578 RIPVHM + I+K+ R R + ++ REPTPEEI+ L + + VR++ KI +P+SLET Sbjct: 250 RIPVHMVETINKLTRVERSLVQELSREPTPEEISACLEGISADKVREIKKIALDPVSLET 309 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIG+ED SHLGDFIEDK+A+SP A L++ VL+ LT REE+VLR+RFG+ Sbjct: 310 PIGEEDDSHLGDFIEDKDALSPDQYASNQLLKDEINDVLSGLTEREEKVLRLRFGLYDGR 369 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVG++F VTRERIRQIEAKA+RKLKHP+RSK+L+ F D Sbjct: 370 TRTLEEVGREFNVTRERIRQIEAKALRKLKHPNRSKRLKDFFD 412 Score = 37.4 bits (85), Expect = 7.6, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 24/34 (70%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ D V+MYL+E+G + LL EI IAK+IE G Sbjct: 137 TSGDSVKMYLKEIGRVPLLKASEEIEIAKKIEQG 170 >gi|169351085|ref|ZP_02868023.1| hypothetical protein CLOSPI_01864 [Clostridium spiroforme DSM 1552] gi|169292147|gb|EDS74280.1| hypothetical protein CLOSPI_01864 [Clostridium spiroforme DSM 1552] Length = 415 Score = 303 bits (775), Expect = 8e-80, Method: Compositional matrix adjust. Identities = 145/231 (62%), Positives = 182/231 (78%), Gaps = 1/231 (0%) Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+ Sbjct: 184 NLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRA 243 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEGVRKVLKIT 570 IADQ+ TIRIPVHM + I+K+ R R + ++ REPT EEIA+++ M E VR++ KI+ Sbjct: 244 IADQARTIRIPVHMVETINKLTRIQRLLIQELGREPTAEEIAERIDGMTPEKVREIQKIS 303 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 EP+SLETPIG+ED SHLGDFIED+ +SP D A L++ VL LT REE+VLR+ Sbjct: 304 LEPVSLETPIGEEDDSHLGDFIEDEGVMSPDDYAANELLKDELNEVLLELTDREEKVLRL 363 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLKHPSRSK+L+ FLD Sbjct: 364 RFGLDDGRTRTLEEVGKEFSVTRERIRQIEAKALRKLKHPSRSKRLKDFLD 414 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 22/61 (36%), Positives = 39/61 (63%), Gaps = 1/61 (1%) Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + D+L + A ++ + K + ++ +DPV+MYL+E+G +ELLS + EI +AK+I Sbjct: 113 TSDTLHMYQVA-DADAEMDKNQLGSNVKINDPVKMYLKEIGRVELLSHDDEIKLAKKILE 171 Query: 149 G 149 G Sbjct: 172 G 172 >gi|255655465|ref|ZP_05400874.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-23m63] gi|296451458|ref|ZP_06893195.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP08] gi|296880193|ref|ZP_06904159.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP07] gi|296259725|gb|EFH06583.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP08] gi|296428782|gb|EFH14663.1| DNA-directed RNA polymerase sigma subunit RpoD [Clostridium difficile NAP07] Length = 388 Score = 303 bits (775), Expect = 8e-80, Method: Compositional matrix adjust. Identities = 146/239 (61%), Positives = 195/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+ +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA W Sbjct: 150 IAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATW 209 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK++ M + Sbjct: 210 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKEMEMTEDK 269 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D +A +P ++A + L+E VL SL Sbjct: 270 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQIEDVLGSLND 329 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 330 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 388 Score = 53.9 bits (128), Expect = 9e-05, Method: Compositional matrix adjust. Identities = 42/148 (28%), Positives = 72/148 (48%), Gaps = 16/148 (10%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV------------ 77 + K +I+ +++G +T+ E+ E+ +Q+E+ L N+GI + Sbjct: 14 TAKTLIEKGKKQGSLTLAEIMEAFSETELDKDQVENLYETLGNLGIEITETKNYKADIDF 73 Query: 78 -VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELL 134 V DDL ED+ + S +S++ ++ S + S DDPVRMYL+E+G I LL Sbjct: 74 SVADDDLSIGHLDEDA-EAISHEDSSAIEIETVDLSLPKGISIDDPVRMYLKEIGKIPLL 132 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPL 162 E+ A+R+ G + L E+ L Sbjct: 133 KPHEEVEFARRMHEGDEIAKQRLVEANL 160 >gi|254975009|ref|ZP_05271481.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-66c26] gi|255092397|ref|ZP_05321875.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile CIP 107932] gi|255100481|ref|ZP_05329458.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-63q42] gi|255306421|ref|ZP_05350592.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile ATCC 43255] gi|255314137|ref|ZP_05355720.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-76w55] gi|255516815|ref|ZP_05384491.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-97b34] gi|255649917|ref|ZP_05396819.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-37x79] gi|260683071|ref|YP_003214356.1| RNA polymerase factor sigma-43 [Clostridium difficile CD196] gi|260686669|ref|YP_003217802.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile R20291] gi|306520001|ref|ZP_07406348.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile QCD-32g58] gi|260209234|emb|CBA62522.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile CD196] gi|260212685|emb|CBE03759.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile R20291] Length = 388 Score = 303 bits (775), Expect = 8e-80, Method: Compositional matrix adjust. Identities = 146/239 (61%), Positives = 195/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+ +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA W Sbjct: 150 IAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATW 209 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK++ M + Sbjct: 210 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKEMEMTEDK 269 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D +A +P ++A + L+E VL SL Sbjct: 270 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQIEDVLGSLND 329 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 330 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 388 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 45/150 (30%), Positives = 71/150 (47%), Gaps = 20/150 (13%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV------------ 77 + K +I+ +++G +T+ E+ E+ +Q+E+ L N+GI + Sbjct: 14 TAKTLIEKGKKQGSLTLAEIMEAFSETELDKDQVENLYETLGNLGIEITETKNYKADIDF 73 Query: 78 -VDGDDLE----DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 V DDL DE+ S D +S+ +V L K S DDPVRMYL+E+G I Sbjct: 74 SVADDDLSIGHLDEDAEAISHDDSSAIEIETVDLSLPKGI---SIDDPVRMYLKEIGKIP 130 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPL 162 LL E+ A+R+ G + L E+ L Sbjct: 131 LLKPHEEVEFARRMHEGDEIAKQRLVEANL 160 >gi|320530862|ref|ZP_08031899.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] gi|320136896|gb|EFW28841.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] Length = 381 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 141/248 (56%), Positives = 190/248 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + R+ E + A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 130 VELARRMEAGDASARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 189 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+VR +R + ++ R+ T E Sbjct: 190 SKGYKFSTYATWWIRQAITRALADQARTIRIPVHMVETINKLVRVSRSLLQELGRDATAE 249 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + V VR+++KI +EP+SLETP+G+E+ SHLGDFIED+ A+ P D+A L+ Sbjct: 250 EIAKEMGLSVVRVREIMKIAQEPVSLETPVGEEEDSHLGDFIEDEAALDPADAASMMLLK 309 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +L PRE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 310 EQISEVLKTLAPREAEVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 369 Query: 671 SRSKKLRS 678 R +KL+ Sbjct: 370 VRLRKLQG 377 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 43/127 (33%), Positives = 67/127 (52%), Gaps = 10/127 (7%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T EL L ++S ++M+D G+ +VD D+E +ED+ LA+ ++ Sbjct: 30 GTLTFSELIEELEKSDMSPDEMDDLYGRFQEFGVEIVDDTDME-AMAAEDAESLAADDAD 88 Query: 102 SSVFLQKRKDSADRST------DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 Q+ D S DDPVRMYL+E+G + LL+ E E+ +A+R+EAG A Sbjct: 89 ME---QEEAVEIDLSVPEGVALDDPVRMYLKEIGRVPLLTAEEEVELARRMEAGDASARH 145 Query: 156 SLCESPL 162 L E+ L Sbjct: 146 RLEEANL 152 >gi|196229539|ref|ZP_03128404.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] gi|196226771|gb|EDY21276.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] Length = 671 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 151/271 (55%), Positives = 198/271 (73%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 ++K + T +S EF+ ++ +A AK EMVEANLRLVIS+AKKYTNRGL FL Sbjct: 398 KLKDQQMRTWLSPEEFQEEYKELKVWLKKALKAKTEMVEANLRLVISIAKKYTNRGLSFL 457 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGN+GLMKA EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K Sbjct: 458 DLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 517 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 ++R +++ REPTPEE+A ++ +PVE VR VLK+ ++PISL++P+G+ D + GDF Sbjct: 518 LMRVQKQLVQDYGREPTPEEVADEIQLPVERVRAVLKMAQQPISLQSPVGESDDTSFGDF 577 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IEDK A + D L+E VL +LT RE +VL RFG+ TLEEVG+QF V Sbjct: 578 IEDKGAENLSDMTAIVLLKEKIKDVLETLTERERQVLEQRFGLVDGYSRTLEEVGRQFKV 637 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 TRERIRQIEAKA+RK++HP+R ++L FL+ Sbjct: 638 TRERIRQIEAKALRKMRHPTRIRQLEGFLEA 668 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 41/116 (35%), Positives = 68/116 (58%), Gaps = 8/116 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++IKLA+++GY+T ++LN LP + ++ME + L +M I +++ D+ D Sbjct: 136 RELIKLAKEQGYLTFDDLNEALPDNVNDPDEMETIMNRLRSMEIEIIEASDV-------D 188 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 A + +K + D DDPVRMYL++MG + LL+RE E+ I+KRIE Sbjct: 189 RFKDGKKADDQEEEEEKPEAKLD-ILDDPVRMYLKQMGQVPLLTREQEVEISKRIE 243 >gi|126699059|ref|YP_001087956.1| RNA polymerase sigma factor (sigma-43) [Clostridium difficile 630] gi|115250496|emb|CAJ68320.1| RNA polymerase sigma factor SigA1 (sigma-43) [Clostridium difficile] Length = 390 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 146/239 (61%), Positives = 195/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+ +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA W Sbjct: 152 IAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATW 211 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK++ M + Sbjct: 212 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKEMEMTEDK 271 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D +A +P ++A + L+E VL SL Sbjct: 272 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQIEDVLGSLND 331 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 332 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 390 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 45/150 (30%), Positives = 71/150 (47%), Gaps = 20/150 (13%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV------------ 77 + K +I+ +++G +T+ E+ E+ +Q+E+ L N+GI + Sbjct: 16 TAKTLIEKGKKQGSLTLAEIMEAFSETELDKDQVENLYETLGNLGIEITETKNYKADIDF 75 Query: 78 -VDGDDLE----DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 V DDL DE+ S D +S+ +V L K S DDPVRMYL+E+G I Sbjct: 76 SVADDDLSIGHLDEDAEAISHDDSSAIEIETVDLSLPKGI---SIDDPVRMYLKEIGKIP 132 Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPL 162 LL E+ A+R+ G + L E+ L Sbjct: 133 LLKPHEEVEFARRMHEGDEIAKQRLVEANL 162 >gi|158320313|ref|YP_001512820.1| RpoD family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158140512|gb|ABW18824.1| RNA polymerase, sigma 70 subunit, RpoD family [Alkaliphilus oremlandii OhILAs] Length = 372 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK +VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 135 AKKRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGFKFSTYATWW 194 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIA ++ + E V Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAAEMDLSEEKV 254 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LKI +EP+SLETPIG+E+ SHLGDFI D++A +P ++A + L+E VL +LTPR Sbjct: 255 REILKIAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAFSLLKEQLVEVLDTLTPR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 315 EQKVLRLRFGLDDGRARTLEEVGKKFDVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 372 Score = 62.0 bits (149), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 47/151 (31%), Positives = 77/151 (50%), Gaps = 15/151 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD------- 81 ++ K +I+ ++RG +T E+ L ++ EQ+++ S+MGI++V GD Sbjct: 10 ETVKNLIEKGKKRGMITYSEVMDALEDVDLDKEQIDEIYDHFSSMGIDIV-GDKRDMVED 68 Query: 82 -DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 D+ DE E ++ + + L+ + DDPVRMYL+E+G + LLS E EI Sbjct: 69 LDMMDESVLEPEVEAEEIIEDDASLLK------GVNIDDPVRMYLKEIGKVPLLSAEEEI 122 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 +AKR++AG L E+ L I R Sbjct: 123 ELAKRMDAGDEEAKKRLVEANLRLVVSIAKR 153 >gi|325478784|gb|EGC81895.1| RNA polymerase sigma factor RpoD [Anaerococcus prevotii ACS-065-V-Col13] Length = 604 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 141/237 (59%), Positives = 189/237 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ G+KFSTYA WW Sbjct: 368 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 427 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ EEIA+++ + VE V Sbjct: 428 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKV 487 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++ KI++EP+SLETPIG+ED SHLGDFIED A+ P ++A LRE VL+ L R Sbjct: 488 QEIRKISQEPVSLETPIGEEDDSHLGDFIEDDTAIDPGEAANYTMLREQLNDVLSCLGAR 547 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P++S+ L+ FL Sbjct: 548 EKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSPNKSELLKDFL 604 Score = 44.3 bits (103), Expect = 0.073, Method: Compositional matrix adjust. Identities = 36/122 (29%), Positives = 59/122 (48%), Gaps = 12/122 (9%) Query: 40 QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD--LEDEEGSED------ 91 Q G +T ++ F E+ + + + + ++GI +V+ + LEDEE +ED Sbjct: 28 QDGLITYSQIYTFENFKEMEDDSKKFVINQVLSLGIEIVEKSETVLEDEEVTEDMKDDLS 87 Query: 92 ---SLDLASSASNSSVFLQKRKD-SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 L+ L K D DDPV+MYL+E+G + LL+ EI +A+R+E Sbjct: 88 DDEDLEEEIEEDEVEEDLNKNVDIMVGVKVDDPVKMYLKEIGKVSLLTATEEIILARRME 147 Query: 148 AG 149 G Sbjct: 148 MG 149 >gi|313897024|ref|ZP_07830571.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] gi|312974471|gb|EFR39939.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] Length = 381 Score = 303 bits (775), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 141/248 (56%), Positives = 190/248 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + R+ E + A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 130 VELARRMEAGDASARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 189 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+VR +R + ++ R+ T E Sbjct: 190 SKGYKFSTYATWWIRQAITRALADQARTIRIPVHMVETINKLVRVSRSLLQELGRDATAE 249 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + V VR+++KI +EP+SLETP+G+E+ SHLGDFIED+ A+ P D+A L+ Sbjct: 250 EIAKEMGLSVVRVREIMKIAQEPVSLETPVGEEEDSHLGDFIEDEAALDPADAASMMLLK 309 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +L PRE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 310 EQISEVLKTLAPREAEVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 369 Query: 671 SRSKKLRS 678 R +KL+ Sbjct: 370 VRLRKLQG 377 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 43/127 (33%), Positives = 67/127 (52%), Gaps = 10/127 (7%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T EL L ++S ++M+D G+ +VD D+E +ED+ LA+ ++ Sbjct: 30 GTLTFSELIEELEKSDMSPDEMDDLYGRFREFGVEIVDDTDME-AMAAEDAESLAADDAD 88 Query: 102 SSVFLQKRKDSADRST------DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 Q+ D S DDPVRMYL+E+G + LL+ E E+ +A+R+EAG A Sbjct: 89 ME---QEEAVEIDLSVPEGVALDDPVRMYLKEIGRVPLLTAEEEVELARRMEAGDASARH 145 Query: 156 SLCESPL 162 L E+ L Sbjct: 146 RLEEANL 152 >gi|317132028|ref|YP_004091342.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ethanoligenens harbinense YUAN-3] gi|315470007|gb|ADU26611.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ethanoligenens harbinense YUAN-3] Length = 372 Score = 302 bits (774), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 149/247 (60%), Positives = 196/247 (79%), Gaps = 1/247 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R GE + + A+K + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ GY Sbjct: 127 RMGEGDVA-ARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGY 185 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KVVR R++ ++ R+P EEIA+ Sbjct: 186 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVVRVERQLLQELGRQPQAEEIAE 245 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + M V+ VR+++K+ +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+E Sbjct: 246 LMGMSVDKVREIMKVAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAASHTLLKEQLG 305 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL +LT RE +VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSK Sbjct: 306 DVLKTLTQREAKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSK 365 Query: 675 KLRSFLD 681 KL+ FLD Sbjct: 366 KLKDFLD 372 Score = 54.3 bits (129), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 42/146 (28%), Positives = 70/146 (47%), Gaps = 23/146 (15%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD------ 82 D ++I+ + +G +T+ E+ L + +EQ E L + I+V+D + Sbjct: 10 DRIAELIETGKTKGNLTMTEITDALEEIDFDAEQTEKLYEALEHHNIDVLDDQEEPTPEE 69 Query: 83 ------LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSR 136 + EE S+ ++DL SS S + + DDPV++YL+E+G + LLS Sbjct: 70 LEGDLEEDAEEASKPNVDLESSLSAEGI-----------AIDDPVKVYLKEIGRVPLLSG 118 Query: 137 EGEIAIAKRIEAGRAMMMASLCESPL 162 E EI +AKR+ G L E+ L Sbjct: 119 EEEIELAKRMGEGDVAARKRLSEANL 144 >gi|160935059|ref|ZP_02082445.1| hypothetical protein CLOLEP_03935 [Clostridium leptum DSM 753] gi|156866512|gb|EDO59884.1| hypothetical protein CLOLEP_03935 [Clostridium leptum DSM 753] Length = 365 Score = 302 bits (774), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 152/248 (61%), Positives = 197/248 (79%), Gaps = 1/248 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + S AKK + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ G Sbjct: 119 IRISEGDES-AKKRLSEANLRLVVSIAKRYLGRGMQFLDLIQEGNLGLIKAVEKFDYTKG 177 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV + + ++ + EPT +EIA Sbjct: 178 YKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSQLLHTNGHEPTADEIA 237 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +L MPV+ VR+++++ +EP+SLETPIG+E+ SHLGDFI D +A +P D+A L+E Sbjct: 238 LELDMPVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPADAASHILLKEQL 297 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +LTPREE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS Sbjct: 298 AEVLDTLTPREEKVLRLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 357 Query: 674 KKLRSFLD 681 KKL+ FLD Sbjct: 358 KKLKDFLD 365 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 6/125 (4%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 A+ +G ++ +E+ + + EQ+E L MG+ +V+ D E+ + + DL Sbjct: 19 AKAKGQLSNKEILDAIGELDFEPEQLEKFYDTLEAMGVEIVE--DFEEIPLDDINFDLVP 76 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + + + + DDPV++YL+E+G + LLS E EI +A RI G L Sbjct: 77 DDEDDA----EVPAVESVAIDDPVKVYLKEIGRVPLLSPEEEIDLAIRISEGDESAKKRL 132 Query: 158 CESPL 162 E+ L Sbjct: 133 SEANL 137 >gi|302874342|ref|YP_003842975.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulovorans 743B] gi|307689391|ref|ZP_07631837.1| RNA polymerase sigma factor RpoD [Clostridium cellulovorans 743B] gi|302577199|gb|ADL51211.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium cellulovorans 743B] Length = 363 Score = 302 bits (774), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PEE+A+K+ MPV+ V Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLLRITRQLVQELGRDPLPEELAEKMEMPVDKV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ KI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL +LTPR Sbjct: 246 IEIRKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTMLKEQLINVLDTLTPR 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 306 EEKVLRLRFGLDDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 363 Score = 68.6 bits (166), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 47/131 (35%), Positives = 70/131 (53%), Gaps = 16/131 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I+ ++ G +T E+ L E+S EQ+E +L ++GI V+ D++D E +ED Sbjct: 21 KSLIETGKKTGSLTYTEIIDELENIELSPEQIEKIYEVLESVGIEVIG--DMKDIEVTED 78 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 DL+ + DDPVRMYL+E+G + LLS E EI +A+RIEAG Sbjct: 79 EFDLSVPEGIA--------------IDDPVRMYLKEIGKVPLLSPETEIELAERIEAGDP 124 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 125 AAKKKLAEANL 135 >gi|302338588|ref|YP_003803794.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635773|gb|ADK81200.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 612 Score = 302 bits (773), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 170/374 (45%), Positives = 238/374 (63%), Gaps = 19/374 (5%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + +L L+ L ++Q I E+ D +KRI+H + E R+ + G+ L R+ GR Sbjct: 249 RHELFSLIEELDIHQEEIVGFSEKFSDTAKRILHYQREQERIERRLGVTSSKEL-RNMGR 307 Query: 378 ELDPHWVSYAKDFPEGEWK--NFVACEVDSIL-KIR----NE--IKSISVETGISISEFR 428 L PE K + D I KIR NE ++SI +E +I Sbjct: 308 GLA---------IPERRRKIEEELQLSSDQIKEKIRQIQVNEKHLQSIELEFEDAIDSIL 358 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + G+ AK +++ANLRLV+S+AKKYTNRGL F DL+QEGNIGL+KA EKF Sbjct: 359 ERSKEISHGQVMMKNAKDRLIQANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKF 418 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KVVR +R++ + R+PT Sbjct: 419 EYSKGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVVRESRQLMQILGRDPT 478 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EE+A++L V V+ V + +EPISLETPIG+E+ S LGDFIEDK+ +P + Sbjct: 479 DEEVAERLGWTVLRVKSVKNVAREPISLETPIGEEEDSLLGDFIEDKDIENPANQTAFTL 538 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E V+ +L PRE+ VL+MRFG+ TLEEVG F VTRERIRQIEAKA+R+L+ Sbjct: 539 LQEQLQEVMKTLPPREQEVLKMRFGLDDGYSLTLEEVGLYFNVTRERIRQIEAKALRRLR 598 Query: 669 HPSRSKKLRSFLDG 682 HP RS++L+ ++D Sbjct: 599 HPKRSRRLKDYIDN 612 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 46/172 (26%), Positives = 85/172 (49%), Gaps = 32/172 (18%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD------- 79 +D S K+++ A+++ +T +E+N FLP V+SE++E+ +A+L I++ D Sbjct: 6 ADKSVAKLLEYAKEKKRITYDEVNDFLPDSIVNSEKIEEVIALLEEHNISLDDEQDKNDD 65 Query: 80 -----------------------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRS 116 GD E + S + + L S + + KD++ + Sbjct: 66 MPDDDGELDDDFVDLDDDDDDSDGDMDEKGDTSLEDIPLKRSPDRTRRVVYNDKDAS--A 123 Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 DDP+R+YLRE+G LL+ E E+ ++K++E G A++ + ES + L Sbjct: 124 VDDPIRLYLREIGKESLLTAEQEVELSKQMEHGEAIIKRVVKESGMIIPQLF 175 >gi|195953901|ref|YP_002122191.1| RNA polymerase, sigma 70 subunit, RpoD family [Hydrogenobaculum sp. Y04AAS1] gi|195933513|gb|ACG58213.1| RNA polymerase, sigma 70 subunit, RpoD family [Hydrogenobaculum sp. Y04AAS1] Length = 578 Score = 302 bits (773), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 143/273 (52%), Positives = 201/273 (73%) Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 L ++ EI+ I G+ E I++++ +G +K MV++NLRLV+S+AKKY NR Sbjct: 303 LALQREIEDIERRLGVLPEELNKIINIIEQGRKRVKESKDMMVKSNLRLVVSIAKKYINR 362 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGN+GLMKA +K+D+ G+KFSTYA WW+KQAITR+IADQ+ TIRIPVHM Sbjct: 363 GLHFLDLIQEGNMGLMKAVDKYDYKKGFKFSTYATWWIKQAITRAIADQAKTIRIPVHMI 422 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + I+K+ + ++++ + REP+PEEIAK L M E VRK+LK +EPISLETPIGD++ + Sbjct: 423 ETINKISKVSKKLFQEYGREPSPEEIAKALNMSPEKVRKILKSIQEPISLETPIGDDEDT 482 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 HL DFIED + +P ++ + LRE +++ +L+ +E V+ RFG+ +HTLE+VG Sbjct: 483 HLKDFIEDSSISNPEEATARRLLREQIEKIINTLSDKEREVIMYRFGLVDGIEHTLEQVG 542 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 F +TRERIRQIE+KAIRK++HPSR+K L+ F Sbjct: 543 TMFNLTRERIRQIESKAIRKIRHPSRAKYLKDF 575 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 49/162 (30%), Positives = 85/162 (52%), Gaps = 17/162 (10%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-------DE 86 ++++ +++GYVT +++N ++ D V S+++E +LS GI +++ D+ E D Sbjct: 10 LLEIGKEKGYVTYDDINEYVSEDLVESDELESLFDILSEKGIQILE-DEAEAAIHHETDN 68 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E E+ ++ SAS AD +D VR YL+EMG I LL R EI AK I Sbjct: 69 EILEEDDEMIVSASIVE---------ADLKNNDSVRYYLKEMGKIALLGRADEIEHAKYI 119 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLE 188 E GR + L + ++ + ++ DG +EI+D++ Sbjct: 120 EMGRKQLRRGLLRTSFLVDMVLRYWAKVCDGKMRSQEILDMQ 161 >gi|328948111|ref|YP_004365448.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328448435|gb|AEB14151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 655 Score = 302 bits (773), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 148/277 (53%), Positives = 198/277 (71%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I KI +++ + + S+ E + + +G + AK ++ ANLRLV+S+AKKYTN Sbjct: 379 IQKIDRKLRELEYDFENSVDEILEMKKEIERGRLQLEQAKNRLINANLRLVVSIAKKYTN 438 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGLQ DLIQEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM Sbjct: 439 RGLQLFDLIQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM 498 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 ++I+KVVR +R++ K REPT EEIA +L+ P+ V++V + +EPISLETPIG+E+ Sbjct: 499 IEQINKVVRESRQLMQKYGREPTDEEIAAQLSWPLARVKQVKNVAREPISLETPIGEEED 558 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDFIEDK +P + L+E VL++L RE+ VL+MRFG+ TLEEV Sbjct: 559 SSLGDFIEDKEIENPANQTAYTLLQEQLRSVLSTLPQREQEVLKMRFGLDDGYSLTLEEV 618 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 G F VTRERIRQIEAKA+R+L+HP RS LR ++D Sbjct: 619 GLYFNVTRERIRQIEAKALRRLRHPRRSNGLRDYIDS 655 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 39/131 (29%), Positives = 76/131 (58%), Gaps = 5/131 (3%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL--ED 85 D + KK++ A + ++ +E+ L P+ V+S +ME+ + +L+ I V++ D L ++ Sbjct: 71 DPNVKKLLDYACSKQIISWDEITEILTPEFVNSPKMEEVLQLLTKNNIQVMEEDSLLDDE 130 Query: 86 EEGSEDSLDLASSASNSSVFLQKRK---DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E ED S + + S F +K + + + DDP+R+YLRE+G LL+ E E+ + Sbjct: 131 ENEEEDDEGALSDSEDDSKFDEKHRLVSNDKEYGVDDPIRLYLREIGKENLLTAEQEVIL 190 Query: 143 AKRIEAGRAMM 153 +K++E G+ ++ Sbjct: 191 SKQMEDGQNII 201 >gi|253576089|ref|ZP_04853421.1| RNA polymerase sigma-subunit [Paenibacillus sp. oral taxon 786 str. D14] gi|251844432|gb|EES72448.1| RNA polymerase sigma-subunit [Paenibacillus sp. oral taxon 786 str. D14] Length = 374 Score = 302 bits (773), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 148/238 (62%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD G+KFSTYA WW Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHKKGFKFSTYATWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIA ++ + VE V Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAAEMDLSVEKV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+ED SHLGDFIED+ A++P D+A L+E VL +LT R Sbjct: 257 REIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTER 316 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 317 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 374 Score = 43.9 bits (102), Expect = 0.10, Method: Compositional matrix adjust. Identities = 22/45 (48%), Positives = 30/45 (66%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LLS + E+ +AKRIE G L E+ L Sbjct: 102 NDPVRMYLKEIGRVPLLSADDEMELAKRIENGDEEAKRRLAEANL 146 >gi|227499774|ref|ZP_03929874.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] gi|227218160|gb|EEI83426.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] Length = 606 Score = 301 bits (772), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 141/237 (59%), Positives = 189/237 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ G+KFSTYA WW Sbjct: 370 AKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 429 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ EEIA+++ + V+ V Sbjct: 430 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVDKV 489 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++ KI++EP+SLETPIG+ED SHLGDFIED AV P ++A LRE VL+ L R Sbjct: 490 QEIRKISQEPVSLETPIGEEDDSHLGDFIEDDTAVDPGEAANYTMLREQLNDVLSCLGAR 549 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P++S+ L+ FL Sbjct: 550 EKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSPNKSELLKDFL 606 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 25/33 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G + LL+ EI +A+R+E G Sbjct: 119 VDDPVKMYLKEIGKVSLLTATEEIILARRMEMG 151 >gi|297379310|gb|ADI34197.1| RNA polymerase sigma factor RpoD [Helicobacter pylori v225d] Length = 677 Score = 301 bits (771), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 192/575 (33%), Positives = 320/575 (55%), Gaps = 72/575 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L + Sbjct: 162 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALIN 221 Query: 177 GTTLLREII-----DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++E+ D E + K E ++R+ EK+R V++ + + Sbjct: 222 RERRVKELFRSFDDDDENSVSDSKKDD--DSEEYEENEERKKVVSEKDRKRVEKVQESFK 279 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS-AMEDQLRPKVMCALDEIAEV 290 + K K+ +++P +DE ED+ L+ A + Q + L+ +++ Sbjct: 280 ALDKAKKEWLKALEAP----------VDEKEDELVRLLTLAYKRQTLKDRLYDLEPTSKL 329 Query: 291 YREL-RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 EL ++++ +G EK + K L+ KL +L N +I + + +++K Sbjct: 330 INELVKTMETTLKSGDGFEK---ELKRLEYKLPLFNDTLIANHKKI---LANITNMTKED 383 Query: 350 MHNEGELLRLAQSYGIKRDVFLERH---QGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 + + + Y + +FL + +G +LDP+ Sbjct: 384 IIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLDPN------------------------ 419 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + + I+ +++G+ + AK +M ++NLRLV+S+AK++T+R Sbjct: 420 -------------------KLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSR 460 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 461 GLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMI 520 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D I+++ + R+ + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D Sbjct: 521 DTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDG 580 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEV 645 GDF+EDKN VS +D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+ Sbjct: 581 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEI 640 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 GK+ VTRER+RQIE+ AI+KL+ P + LR++L Sbjct: 641 GKELNVTRERVRQIESSAIKKLRSPQYGRILRNYL 675 >gi|325849230|ref|ZP_08170681.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325480230|gb|EGC83297.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 612 Score = 301 bits (771), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 142/250 (56%), Positives = 196/250 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + + +A+ AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ Sbjct: 363 VKRLNRAIFDANRAKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDY 422 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ E Sbjct: 423 NRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNE 482 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ + VE V+++ KI +EP+SLETPIG+E+ SHLGDFIED A++P D+A + LR Sbjct: 483 EIAEQMGIEVEKVQEIRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLR 542 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL+ L RE+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P Sbjct: 543 DQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSP 602 Query: 671 SRSKKLRSFL 680 ++S+ L+ FL Sbjct: 603 NKSELLKDFL 612 Score = 42.0 bits (97), Expect = 0.38, Method: Compositional matrix adjust. Identities = 17/32 (53%), Positives = 25/32 (78%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G ++LL EI +AK++E G Sbjct: 126 DDPVKMYLKEIGKVKLLDAHEEIFLAKKMELG 157 >gi|308061382|gb|ADO03270.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Cuz20] Length = 672 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 192/575 (33%), Positives = 319/575 (55%), Gaps = 72/575 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L + Sbjct: 157 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALIN 216 Query: 177 GTTLLREII-----DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++E+ D E + K E ++R+ EK+R V++ + + Sbjct: 217 RERRVKELFRSFDDDDENSVSDSKKDD--DSEEYEENEERKKVVSEKDRKRVEKVQESFK 274 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS-AMEDQLRPKVMCALDEIAEV 290 + K K+ +++P +DE ED+ L+ A + Q + L+ +++ Sbjct: 275 ALDKAKKEWLKALEAP----------VDEKEDELVRLLTLAYKRQTLKDRLYDLEPTSKL 324 Query: 291 YREL-RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 EL ++++ +G EK + K L+ KL +L N +I + + ++K Sbjct: 325 INELVKTMETTLKSGDGFEK---ELKRLEYKLPLFNDTLIANHKKI---LANITSMTKED 378 Query: 350 MHNEGELLRLAQSYGIKRDVFLERH---QGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 + + + Y + +FL + +G +LDP+ Sbjct: 379 IIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLDPN------------------------ 414 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + + I+ +++G+ + AK +M ++NLRLV+S+AK++T+R Sbjct: 415 -------------------KLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSR 455 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 456 GLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMI 515 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D I+++ + R+ + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D Sbjct: 516 DTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDG 575 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEV 645 GDF+EDKN VS +D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+ Sbjct: 576 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEI 635 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 GK+ VTRER+RQIE+ AI+KL+ P + LR++L Sbjct: 636 GKELNVTRERVRQIESSAIKKLRSPQYGRILRNYL 670 >gi|77165531|ref|YP_344056.1| hypothetical protein Noc_2066 [Nitrosococcus oceani ATCC 19707] gi|76883845|gb|ABA58526.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus oceani ATCC 19707] Length = 579 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 143/266 (53%), Positives = 201/266 (75%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + VE G+ + E + I + + + +A AK +MVEANLRLV+SVAKKY NRGL FLDLIQ Sbjct: 313 VEVEAGLPLDELKAIHQRLVRSQFQAQRAKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQ 372 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KFD+ GYKFSTYA WW++QAITR+I DQS TIRIPVH+ +K+ K+ R Sbjct: 373 EGNIGLMKAVDKFDYHRGYKFSTYAHWWIRQAITRAIDDQSRTIRIPVHVMEKLSKLNRA 432 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + ++ + RE PEE+A++LA+ + + ++ +I K+PISLETP+G ++ S LG+ +ED+ Sbjct: 433 SYQLRQEKGREGRPEELAERLALSEQQIHRMHEIAKQPISLETPLGKDEDSQLGELMEDE 492 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +P++ AI A L+ ++LA+L+PRE +V+ MRFGIGM+TDHTL EV +QF ++RER Sbjct: 493 QVPNPMEVAITAGLQTGAQQLLAALSPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRER 552 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEA+A+ KL+ SK LR+FL+ Sbjct: 553 IRQIEAQALGKLRRLGHSKALRNFLE 578 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 43/163 (26%), Positives = 77/163 (47%), Gaps = 7/163 (4%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 F+ + K++I + +G +T EEL ++ + S++ E + + G D Sbjct: 3 FEMRQEELKRLILKGKAQGLLTEEELQDYIIQEVEDSDEAETMAHLFHHH-----QGLD- 56 Query: 84 EDEEGSEDSLDLASSASNS-SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E E + +L L +S+ + L + + + D V Y+REMG+ LL+RE EI + Sbjct: 57 EFNEALDSTLLLKNSSEEEIAETLPTLEGESTGAVSDMVYAYMREMGAHALLTREEEITL 116 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 AK IE G + +L P L+ W +E+ G L++ + Sbjct: 117 AKAIETGLSQSTEALGNCPAAVAELVRWAEEVATGKGRLKDWL 159 >gi|310659059|ref|YP_003936780.1| RNA polymerase sigma factor rpod [Clostridium sticklandii DSM 519] gi|308825837|emb|CBH21875.1| RNA polymerase sigma factor RpoD [Clostridium sticklandii] Length = 376 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 145/239 (60%), Positives = 195/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAKK++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA W Sbjct: 138 IAKKKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGFKFSTYATW 197 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+P PEE+AK++ MP E Sbjct: 198 WIRQAITRAIADQARTIRIPVHMVETINKLIRVHRQLLQEYGRDPKPEELAKEMDMPEEK 257 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +R+++KI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A + L+E VL +L Sbjct: 258 IREIMKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQLEDVLCTLNE 317 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 318 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 376 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 40/136 (29%), Positives = 72/136 (52%), Gaps = 6/136 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE---G 88 K +I ++ G +T E++ L E+ EQ+E+ + +GI+++D ++++D+ Sbjct: 14 KSLIDKGKKDGSLTYEQIGEALSEMELDKEQIENIYDTFAQLGIDILD-ENIKDDTVIFN 72 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADR--STDDPVRMYLREMGSIELLSREGEIAIAKRI 146 E + + + + K S + S DDPVRMYL+E+G I LLS E EI +A+++ Sbjct: 73 KEFNKNPDAETEDEDEDASKLDLSIPKGVSIDDPVRMYLKEIGKIPLLSAEEEIDLAEKM 132 Query: 147 EAGRAMMMASLCESPL 162 G + L E+ L Sbjct: 133 GYGDEIAKKKLVEANL 148 >gi|256545301|ref|ZP_05472665.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC 51170] gi|256398982|gb|EEU12595.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC 51170] Length = 614 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 142/250 (56%), Positives = 196/250 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + + +A+ AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ Sbjct: 365 VKRLNRAIFDANRAKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDY 424 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ E Sbjct: 425 NRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNE 484 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ + VE V+++ KI +EP+SLETPIG+E+ SHLGDFIED A++P D+A + LR Sbjct: 485 EIAEQMGIEVEKVQEIRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLR 544 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL+ L RE+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P Sbjct: 545 DQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSP 604 Query: 671 SRSKKLRSFL 680 ++S+ L+ FL Sbjct: 605 NKSELLKDFL 614 Score = 42.0 bits (97), Expect = 0.38, Method: Compositional matrix adjust. Identities = 17/32 (53%), Positives = 25/32 (78%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G ++LL EI +AK++E G Sbjct: 128 DDPVKMYLKEIGKVKLLDAHEEIFLAKKMELG 159 >gi|212697198|ref|ZP_03305326.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM 7454] gi|212675973|gb|EEB35580.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM 7454] Length = 617 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 142/250 (56%), Positives = 196/250 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + + +A+ AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ Sbjct: 368 VKRLNRAIFDANRAKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDY 427 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ E Sbjct: 428 NRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNE 487 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ + VE V+++ KI +EP+SLETPIG+E+ SHLGDFIED A++P D+A + LR Sbjct: 488 EIAEQMGIEVEKVQEIRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLR 547 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL+ L RE+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P Sbjct: 548 DQLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSP 607 Query: 671 SRSKKLRSFL 680 ++S+ L+ FL Sbjct: 608 NKSELLKDFL 617 Score = 41.6 bits (96), Expect = 0.41, Method: Compositional matrix adjust. Identities = 17/32 (53%), Positives = 25/32 (78%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G ++LL EI +AK++E G Sbjct: 131 DDPVKMYLKEIGKVKLLDAHEEIFLAKKMELG 162 >gi|254434698|ref|ZP_05048206.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] gi|207091031|gb|EDZ68302.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] Length = 595 Score = 301 bits (770), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 143/266 (53%), Positives = 201/266 (75%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + VE G+ + E + I + + + +A AK +MVEANLRLV+SVAKKY NRGL FLDLIQ Sbjct: 329 VEVEAGLPLDELKAIHQRLVRSQFQAQRAKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQ 388 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KFD+ GYKFSTYA WW++QAITR+I DQS TIRIPVH+ +K+ K+ R Sbjct: 389 EGNIGLMKAVDKFDYHRGYKFSTYAHWWIRQAITRAIDDQSRTIRIPVHVMEKLSKLNRA 448 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + ++ + RE PEE+A++LA+ + + ++ +I K+PISLETP+G ++ S LG+ +ED+ Sbjct: 449 SYQLRQEKGREGRPEELAERLALSEQQIHRMHEIAKQPISLETPLGKDEDSQLGELMEDE 508 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +P++ AI A L+ ++LA+L+PRE +V+ MRFGIGM+TDHTL EV +QF ++RER Sbjct: 509 QVPNPMEVAITAGLQTGAQQLLAALSPREAQVVAMRFGIGMDTDHTLGEVAQQFDLSRER 568 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEA+A+ KL+ SK LR+FL+ Sbjct: 569 IRQIEAQALGKLRRLGHSKALRNFLE 594 Score = 52.4 bits (124), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 44/166 (26%), Positives = 79/166 (47%), Gaps = 7/166 (4%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 S+ F+ + K++I + +G +T EEL ++ + S++ E + + G Sbjct: 16 SMDFEMRQEELKRLILKGKAQGLLTEEELQDYIIQEVEDSDEAETMAHLFHHH-----QG 70 Query: 81 DDLEDEEGSEDSLDLASSASNS-SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 D E E + +L L +S+ + L + + + D V Y+REMG+ LL+RE E Sbjct: 71 LD-EFNEALDSTLLLKNSSEEEIAETLPTLEGESTGAVSDMVYAYMREMGAHALLTREEE 129 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 I +AK IE G + +L P L+ W +E+ G L++ + Sbjct: 130 ITLAKAIETGLSQSTEALGNCPAAVAELVRWAEEVATGKGRLKDWL 175 >gi|308182264|ref|YP_003926391.1| RNA polymerase sigma factor RpoD [Helicobacter pylori PeCan4] gi|308064449|gb|ADO06341.1| RNA polymerase sigma factor RpoD [Helicobacter pylori PeCan4] Length = 682 Score = 301 bits (770), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 193/575 (33%), Positives = 320/575 (55%), Gaps = 72/575 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L + Sbjct: 167 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALIN 226 Query: 177 GTTLLREII-----DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++E+ D E + K E + +KR + EK+R V++ + + Sbjct: 227 RERRVKELFRSFDDDDENSVSDSKKDDDSEEDEENEERKR--AVSEKDRKRVEKVQESFK 284 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS-AMEDQLRPKVMCALDEIAEV 290 + K K+ +++P +DE ED+ L+ A + Q + L+ +++ Sbjct: 285 ALDKAKKEWLKALEAP----------VDEKEDELVRLLTLAYKRQTLKDRLYDLEPTSKL 334 Query: 291 YREL-RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 EL ++++ +G EK K L+ KL +L N +I + + +++K Sbjct: 335 INELVKTMETTLKSGDGFEKE---LKRLEYKLPLFNDTLIANHKKI---LANITNMTKED 388 Query: 350 MHNEGELLRLAQSYGIKRDVFLERH---QGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 + + + Y + +FL + +G +LDP+ Sbjct: 389 IIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLDPN------------------------ 424 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + + I+ +++G+ + AK +M ++NLRLV+S+AK++T+R Sbjct: 425 -------------------KLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSR 465 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 466 GLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMI 525 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D I+++ + R+ + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D Sbjct: 526 DTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDG 585 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEV 645 GDF+EDKN VS +D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+ Sbjct: 586 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEI 645 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 GK+ VTRER+RQIE+ AI+KL+ P + LR++L Sbjct: 646 GKELNVTRERVRQIESSAIKKLRSPQYGRILRNYL 680 >gi|46445811|ref|YP_007176.1| RNA polymerase sigma factor [Candidatus Protochlamydia amoebophila UWE25] gi|46399452|emb|CAF22901.1| probable transcription initiation factor sigma 70 [Candidatus Protochlamydia amoebophila UWE25] Length = 554 Score = 301 bits (770), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 146/262 (55%), Positives = 199/262 (75%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G S+ +F+ V M+++ ++ AK+EMVE+NLRLVIS+AKKYTNRGL FLDLIQEGN+ Sbjct: 288 AGRSLDDFKKDVKMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNM 347 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+++ Sbjct: 348 GLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKL 407 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + REP+PEE+AK+L + E VR++ KI + PISL+ +GD S GDF+ED A S Sbjct: 408 MMETGREPSPEELAKELGITAERVREIYKIAQHPISLQAEVGDGGESQFGDFLEDTGADS 467 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P ++ + L++ VL++L+ RE +VL RFG+ TLEEVG +F VTRERIRQI Sbjct: 468 PAEATGYSILKDKMGEVLSTLSDRERKVLIQRFGLLDGKPKTLEEVGVEFNVTRERIRQI 527 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RK++HP RSK+L++FLD Sbjct: 528 EAKALRKMRHPIRSKQLKAFLD 549 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ +++ +G++T EE+N LP S++Q++ + LS M I V++ +++ +E +++ Sbjct: 21 LVAISKDQGFITYEEINEILPMSFDSADQIDQILIFLSGMDIQVLNQSEVDRQKERKKEA 80 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L S S + S DDPVRMYL+EMGS+ LLSRE E+ I+KRIE + Sbjct: 81 KELESMPKRS-----------EGSPDDPVRMYLKEMGSVPLLSREEEVEISKRIEKAQVQ 129 Query: 153 M 153 + Sbjct: 130 I 130 >gi|332295554|ref|YP_004437477.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermodesulfobium narugense DSM 14796] gi|332178657|gb|AEE14346.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermodesulfobium narugense DSM 14796] Length = 356 Score = 300 bits (768), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 141/237 (59%), Positives = 188/237 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ EANLRLV+S+AKKYT RGL FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 119 AKKKLAEANLRLVVSIAKKYTKRGLLFLDLIQEGNMGLLRAVEKFDYRKGYKFSTYATWW 178 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IADQ+ TIRIPVHM + I+K +T R +S ++ R+PT EEIA+K+ + VE + Sbjct: 179 IRQAVTRAIADQARTIRIPVHMVETINKYKKTVRNLSQQLSRKPTDEEIAEKMEVNVEKI 238 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +I++EPIS+ETPIG ++ SHLGDFI D++ SP+++ L+E V+ L PR Sbjct: 239 HEIKRISQEPISIETPIGKDEDSHLGDFIADESISSPMEAVTYRLLKEDLEEVIKDLQPR 298 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KLR +L Sbjct: 299 ERDVVRLRFGLVDGHARTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSRKLRDYL 355 >gi|320527310|ref|ZP_08028495.1| RNA polymerase sigma factor RpoD [Solobacterium moorei F0204] gi|320132334|gb|EFW24879.1| RNA polymerase sigma factor RpoD [Solobacterium moorei F0204] Length = 468 Score = 300 bits (768), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 142/239 (59%), Positives = 187/239 (78%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ +NLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 229 ARNILISSNLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 288 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-AMPVEG 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R++ ++ R+P+ EEI++++ + E Sbjct: 289 IRQAITRAIADQARTIRIPVHMVETINKLTRVQRQLVQELGRDPSAEEISQRMEGISPEK 348 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI EP+SLETPIG+ED SHLGDFIEDK A+SP A L++ VL+ LT Sbjct: 349 VREIQKIALEPVSLETPIGEEDDSHLGDFIEDKEALSPDQYASNQLLKDEINSVLSGLTE 408 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKLKHPSRSK+L+ F D Sbjct: 409 REEKVLRLRFGLYDGRTRTLEEVGREFSVTRERIRQIEAKALRKLKHPSRSKRLKDFFD 467 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 38/149 (25%), Positives = 64/149 (42%), Gaps = 47/149 (31%) Query: 37 LARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE------ 90 +A++ G + +++ A L ++S + M++ + I +V+ DD+E+ +E Sbjct: 88 IAKKSGSIAQKDIMASLEHLDMSDDDMDELWDWFNTENIQIVEDDDIEELTATEDDDLDL 147 Query: 91 ------------------------------DSLDLASSASNSSVFLQKRKDSADRSTDDP 120 + LDL S +S +V L +DP Sbjct: 148 LDDDVDNEEDENVDDKDHDLDEDDEEKPLSNLLDLTSFSSGGNVQL-----------NDP 196 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAG 149 V+MYL+E+G + LL E E IAKRIE G Sbjct: 197 VKMYLKEIGRVPLLKPEDEPEIAKRIEEG 225 >gi|206889536|ref|YP_002248786.1| RNA polymerase sigma factor RpoD [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741474|gb|ACI20531.1| RNA polymerase sigma factor RpoD [Thermodesulfovibrio yellowstonii DSM 11347] Length = 479 Score = 300 bits (767), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 141/269 (52%), Positives = 194/269 (72%), Gaps = 1/269 (0%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I EIK I E+G+ I E ++I + K +C K E++ NLRLV+++AK Y RGL Sbjct: 201 IHAEIKKIENESGLKIDELKNIWQKIYKAKCLVEDTKNELITRNLRLVVNIAKNYVGRGL 260 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGNIGLMKA +KF + G+KFSTYA WW++QAITR++ DQ+ TIR+PVHM + Sbjct: 261 PLLDLIEEGNIGLMKAVDKFKYEKGFKFSTYATWWIRQAITRALIDQTKTIRVPVHMMEF 320 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++V + +R ++ ++ REP EEIA+KL +PV V +V + ++PI L+TPIGDEDT L Sbjct: 321 YNRVTKASRELTQQLGREPNNEEIAEKLGVPVRKVEEVFRAIQDPIGLQTPIGDEDT-EL 379 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 DFI DK + SP+ A + L E R+L +LTP+EE+V++MRFGIG + DHTLEEVG+ Sbjct: 380 EDFIGDKTSPSPVSEAERTELSEHIQRILKTLTPKEEKVIKMRFGIGEDRDHTLEEVGRY 439 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +TRER+RQIE KA+RKLKHPSR + L+ Sbjct: 440 LSITRERVRQIETKALRKLKHPSRMRLLK 468 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 38/155 (24%), Positives = 80/155 (51%), Gaps = 19/155 (12%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++++ L ++RG +T +E+N LP + S E++ED + +LS+MG+ VVD Sbjct: 5 DIFEEIVNLGKKRGKLTYDEINEALPSEYYSPEEIEDLIDVLSDMGVRVVD--------- 55 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 ++ + + +D V+ Y MG I +L++E E+ +AK+++ Sbjct: 56 ---------EDEEEVFLEEEEEIEEEEHVEDLVQAYFNSMGDIPILTKEEEVELAKKLQE 106 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 G++++ ++ L +Q ++ ++ D TL E Sbjct: 107 GKSIIKETVMGLSL-YQKILEEINKEEDSETLTEE 140 >gi|295098975|emb|CBK88064.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium cylindroides T2-87] Length = 368 Score = 300 bits (767), Expect = 7e-79, Method: Compositional matrix adjust. Identities = 148/263 (56%), Positives = 195/263 (74%), Gaps = 5/263 (1%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E + I E + + S+V GE AK+ ++ +NLRLV+S+AKKY RG+ FLDLIQEGN Sbjct: 108 EPDLDIEERKKLASVVADGEE----AKQVLISSNLRLVVSIAKKYVGRGMLFLDLIQEGN 163 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 GL+KA EKFD+ G+KFSTYA WW++Q+ITR+IADQ+ TIRIPVHM + I+K+ R R+ Sbjct: 164 CGLIKAVEKFDYTKGFKFSTYATWWIRQSITRAIADQARTIRIPVHMVETINKLTRIQRQ 223 Query: 539 MSNKIKREPTPEEIAKKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 + + R+P PEEIA+K+ + + VR++ KI +P+SLETPIG+ED SHLGDFIEDK Sbjct: 224 LVQDLGRDPLPEEIAEKMENITADKVREIQKIALDPVSLETPIGEEDDSHLGDFIEDKET 283 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +SP D L++ VL LT REE+VLR+RFG+ TLEEVGK+F VTRERIR Sbjct: 284 LSPDDYTNNQLLKDEINNVLQGLTEREEKVLRLRFGLMDGRTRTLEEVGKEFNVTRERIR 343 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QIEAKA+RKLKHP+RSK+L+ F+ Sbjct: 344 QIEAKALRKLKHPNRSKRLKDFV 366 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 28/80 (35%), Positives = 44/80 (55%) Query: 72 NMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 +M V+D D + + +D++D S S Q +++ +DPV+MYL+E+G I Sbjct: 22 DMEEEVIDDVDEDLDSRIDDAVDENSIEDEISQLEQTFANASHTKINDPVKMYLKEIGQI 81 Query: 132 ELLSREGEIAIAKRIEAGRA 151 LL + E IAKRI+ G A Sbjct: 82 PLLDPKEEPIIAKRIQDGEA 101 >gi|109948008|ref|YP_665236.1| RNA polymerase sigma factor RpoD [Helicobacter acinonychis str. Sheeba] gi|109715229|emb|CAK00237.1| RNA polymerase sigma-70 factor [Helicobacter acinonychis str. Sheeba] Length = 659 Score = 300 bits (767), Expect = 7e-79, Method: Compositional matrix adjust. Identities = 191/575 (33%), Positives = 322/575 (56%), Gaps = 72/575 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVR+YLREMG+I+LL +E EI ++K+I G +++ ++C P + ++D L + Sbjct: 144 SDSPVRVYLREMGNIDLLKKEEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALIN 203 Query: 177 GTTLLREII-----DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++E+ D E + K E + +K+ S + K+R V++ + + Sbjct: 204 RERRVKELFRSFDDDDENSVSDSKKDDDNEEDEENEERKKVVSERNKKR--VEKVQESFK 261 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS-AMEDQLRPKVMCALDEIAEV 290 + K K+ +++P +DE ED+ L+ A + Q + L+ +++ Sbjct: 262 ALDKAKKEWLKALEAP----------IDEKEDELVRLLTLAHKRQTLKDRLYDLEPTSKL 311 Query: 291 YREL-RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 EL ++++ +G EK + K L+ KL +L N +I + + +++K Sbjct: 312 INELVKTMETTLKSGDGFEK---ELKRLEYKLPLFNDTLIANHQKI---LSNITNMTKED 365 Query: 350 MHNEGELLRLAQSYGIKRDVFLERH---QGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 + + + Y + +FL + +G +LDP+ Sbjct: 366 IIAQVPETTMVSVYMDLKKLFLTKEASEEGFDLDPN------------------------ 401 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + + I+ +++G+ + AK +M ++NLRLV+S+AK++T+R Sbjct: 402 -------------------KLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSR 442 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +KF++ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 443 GLPFLDLIQEGNIGLMKAVDKFEYEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMI 502 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D I+++ + R+ + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D Sbjct: 503 DTINRINKVMRKHMQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDG 562 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEV 645 GDF+EDKN VS +D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+ Sbjct: 563 KFGDFVEDKNIVSSIDHIMREDLKVQIEGVLDQLNEREKAVIRMRFGLLDDESDRTLEEI 622 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 GK+ VTRER+RQIE+ AI+KL+ P + LR++L Sbjct: 623 GKELNVTRERVRQIESSAIKKLRSPQYGRILRNYL 657 >gi|218288616|ref|ZP_03492893.1| RNA polymerase, sigma 70 subunit, RpoD family [Alicyclobacillus acidocaldarius LAA1] gi|258511944|ref|YP_003185378.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|218241273|gb|EED08448.1| RNA polymerase, sigma 70 subunit, RpoD family [Alicyclobacillus acidocaldarius LAA1] gi|257478670|gb|ACV58989.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 368 Score = 299 bits (766), Expect = 8e-79, Method: Compositional matrix adjust. Identities = 155/273 (56%), Positives = 203/273 (74%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGRVPLLSAQEEIELAKRIEQGDEEA---KQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 LFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REPTPEEIA ++ + E VR++ KI +EP+SLETPIG+ED SHL Sbjct: 216 INKLIRVSRQLLQELGREPTPEEIAAEMDLTPEKVREIQKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D A +P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 276 GDFIPDDEAPAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKV 335 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 336 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 368 Score = 54.3 bits (129), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 45/152 (29%), Positives = 79/152 (51%), Gaps = 15/152 (9%) Query: 11 SDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAML 70 ++ E D D + ++ +++I+L +++G +T EE++ L ++ ++ M+D L Sbjct: 4 TNDEIRDEDQGITLQ---EAKQQLIELGKKQGSLTYEEISDRLSSFDMDADAMDDFFEQL 60 Query: 71 SNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 + +GI+VV+ DEEG + D + ++ DPVRMYL+E+G Sbjct: 61 AELGIDVVNE---RDEEGGREDDDYDLDDLSVPPGVK---------ISDPVRMYLKEIGR 108 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + LLS + EI +AKRIE G L E+ L Sbjct: 109 VPLLSAQEEIELAKRIEQGDEEAKQRLAEANL 140 >gi|256827331|ref|YP_003151290.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Cryptobacterium curtum DSM 15641] gi|256583474|gb|ACU94608.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Cryptobacterium curtum DSM 15641] Length = 422 Score = 299 bits (766), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 138/238 (57%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 184 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 243 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ REPTPEEIA+++ + + V Sbjct: 244 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPEEIAEEMDLTPDRV 303 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV P D+A + L+E T+VL L R Sbjct: 304 REIQKISQEPVSLETPIGEEEDSQLGDFIEDDAAVVPPDAASFSMLQEQLTKVLDGLAER 363 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 364 ERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 421 Score = 42.4 bits (98), Expect = 0.27, Method: Compositional matrix adjust. Identities = 19/33 (57%), Positives = 25/33 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G + LL+ EI +A +IEAG Sbjct: 116 TGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAG 148 >gi|156740279|ref|YP_001430408.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156231607|gb|ABU56390.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 541 Score = 299 bits (765), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 145/267 (54%), Positives = 195/267 (73%), Gaps = 8/267 (2%) Query: 423 SISEFRHIVSMVRKGEC--------EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 S+ E +H+ + VR + A++++ +ANLRLV+SVAKKY RGLQ LDLI Sbjct: 275 SVEEVQHMCADVRDQLWRDWNLAIEQGKTAREDLTQANLRLVVSVAKKYIGRGLQLLDLI 334 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGN+GL++A EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I++++R Sbjct: 335 QEGNVGLIRAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLMR 394 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 +RRM ++ REPT EE+++ L +PV+ VR + K + EP+SLETP+G E+ S LGDFIED Sbjct: 395 ESRRMLQELGREPTDEELSRALGIPVDKVRSIRKTSLEPVSLETPVGQEEDSQLGDFIED 454 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 ++P D+A LRE +VL LT RE RVL++RFG+ TLEEVGK+F VTRE Sbjct: 455 SKVLAPSDAASHQMLREQVEQVLNQLTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRE 514 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIE KA+RKL+HP KKLR +L+ Sbjct: 515 RIRQIEVKALRKLRHPRLGKKLRDYLE 541 Score = 46.6 bits (109), Expect = 0.013, Method: Compositional matrix adjust. Identities = 36/128 (28%), Positives = 60/128 (46%), Gaps = 25/128 (19%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-----GDDLE 84 S ++ + +QRG+VT E+ L + S+++ + L + GI D G +++ Sbjct: 38 SLSDLLAIGKQRGFVTEGEIAQLLAGSDADSDRLAEIQQALQSAGIATRDEMIAGGAEID 97 Query: 85 ---DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +EEG D L + + N D VRMYLRE+G + LL+ E Sbjct: 98 VHFEEEGDLDDLSVEGISIN-----------------DTVRMYLREIGRVPLLTARQETL 140 Query: 142 IAKRIEAG 149 +A++IE G Sbjct: 141 LAQKIEIG 148 >gi|257063660|ref|YP_003143332.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256791313|gb|ACV21983.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 394 Score = 299 bits (765), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 190/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 156 AKDQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 215 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+P+PEEI +K+ + E V Sbjct: 216 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGEKMGLSAERV 275 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ K+++EP+SLETPIG+E+ S LGDFIED +A+ P+D+A A ++E ++VL +L R Sbjct: 276 REIQKLSQEPVSLETPIGEEEDSQLGDFIEDDSAIVPVDAASFAMMQEQLSKVLDTLGER 335 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ RFG+ HTLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 336 ERNVVIKRFGLEDGQPHTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 393 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 19/35 (54%), Positives = 26/35 (74%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 T DPVRMYL+E+G + LL+ E+ +A +IEAG A Sbjct: 89 TGDPVRMYLKEIGKVPLLTPSEEVDLAMKIEAGVA 123 >gi|148654464|ref|YP_001274669.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148566574|gb|ABQ88719.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 541 Score = 298 bits (764), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 140/242 (57%), Positives = 186/242 (76%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + A++++ +ANLRLV+SVAKKY RGLQ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 300 QGKTAREDLTQANLRLVVSVAKKYIGRGLQLLDLIQEGNVGLIRAVEKFDYRKGFKFSTY 359 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I++++R +RRM ++ REPT EE+++ L +P Sbjct: 360 ATWWIRQAITRAIADQARTIRIPVHMVETINRLMRESRRMLQELGREPTDEELSRALGIP 419 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V+ VR + K + EP+SLETP+G E+ S LGDFIED ++P D+A LRE +VL Sbjct: 420 VDKVRSIRKTSLEPVSLETPVGQEEDSQLGDFIEDSKVLAPSDAASHQMLREQVEQVLNQ 479 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE RVL++RFG+ TLEEVGK+F VTRERIRQIE KA+RKL+HP KKLR + Sbjct: 480 LTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRERIRQIEVKALRKLRHPRLGKKLRDY 539 Query: 680 LD 681 L+ Sbjct: 540 LE 541 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 37/128 (28%), Positives = 61/128 (47%), Gaps = 25/128 (19%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-----GDDLE 84 S ++ + +QRG+VT E+ L + S+++ + L GI D G +++ Sbjct: 38 SLSDLLAIGKQRGFVTEGEIAQLLANSDADSDRLAEIQQALQAAGIATRDEMITGGAEID 97 Query: 85 ---DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +EEG D L++ + N D VRMYLRE+G + LL+ EI Sbjct: 98 IPFEEEGDFDDLNVEGISVN-----------------DTVRMYLREIGRVPLLNARQEIL 140 Query: 142 IAKRIEAG 149 +A++IE G Sbjct: 141 LAQKIEIG 148 >gi|330836587|ref|YP_004411228.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta coccoides DSM 17374] gi|329748490|gb|AEC01846.1| RNA polymerase, sigma 70 subunit, RpoD [Spirochaeta coccoides DSM 17374] Length = 685 Score = 298 bits (764), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 206/579 (35%), Positives = 312/579 (53%), Gaps = 90/579 (15%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL-------T 163 + +D + DDP+R+YLR++G LL+ E E +A+++E G +M + +S + Sbjct: 188 EKSDSTIDDPIRLYLRDIGKESLLTAEQERELAQKMEEGSGIMRDVILKSGMMVTCFGDI 247 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDV 223 FQ + + DE + + L DL+ I + + F+ +D + Sbjct: 248 FQKMTLKIDEADPESLPLMTSKDLKDLISEQKRYAQFY------------------KDGL 289 Query: 224 QETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCA 283 ++ +G +++ + K+ K+D+ ++ DE NL + LS +E L+P+ + A Sbjct: 290 KDIQGAMKAYLALKKE---KIDTSGDSIFTDE-NLVKKRHALMKKLSLIE--LQPEEITA 343 Query: 284 LDE-IAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQL 342 E + R++ SLQ KSS++ ++ + + L Q DL+ Sbjct: 344 FTEKFMDAERKISSLQAK--------KSSLEAQL------GVSSTRELRQMGRDLVTP-- 387 Query: 343 YDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGREL-DPHWVSYAKDFPEGEWKNFVAC 401 +KR++ L + + + DV E+ + +L + DF E Sbjct: 388 ---AKRVL--------LEEKFAMSADVIKEKIRDIQLTEKKLHEIESDFEEN-------- 428 Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 IL+ EIK +G + AK + +ANLRLV+S+AK Sbjct: 429 -TQVILEHAKEIK---------------------RGRIMMTAAKDRLTQANLRLVVSIAK 466 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGL F DL+QEGNIGL+KA EKF++ +KFSTYA WW++QAITR+I+DQ TIR+ Sbjct: 467 KYTNRGLPFNDLVQEGNIGLIKAVEKFEFRKNFKFSTYATWWIRQAITRAISDQGRTIRV 526 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 PVHM ++I+KV + + + R PT EEIAKKL P E V+ V + +EPISLETP+G Sbjct: 527 PVHMIEQINKVKKEENALIQSLGRNPTDEEIAKKLGWPEEKVKGVKNVAREPISLETPVG 586 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 +E+ S L DFIEDK+A +P L+E + LA+L PRE+ VL+MRFG+ T Sbjct: 587 EEEDSLLSDFIEDKDAENPASQTSYMLLQEQLQKELATLPPREKDVLKMRFGLDDGFALT 646 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEEVG F VTRERIRQIEAK++R+++HP RS+KLR FL Sbjct: 647 LEEVGLSFKVTRERIRQIEAKSLRRMRHPKRSRKLRDFL 685 >gi|189219555|ref|YP_001940196.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] gi|189186413|gb|ACD83598.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] Length = 623 Score = 298 bits (764), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 167/380 (43%), Positives = 240/380 (63%), Gaps = 24/380 (6%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYD----------ISKRIMHNEGELLRLAQSYGIKRDV 369 KL +L+ L L ++D L QL D + K + +G L ++ + + K+ V Sbjct: 245 KLPELIERLELLIEKVDSLYSQLLDCPEKSKERKSLEKELQRQKGCLEKIYEKFYFKQKV 304 Query: 370 FLERHQGRELDPHWVSYAKDFP--EGEWKNFVACEVD------SILKIRNEIKSISVETG 421 + Q E SY ++ E +NF E D ++ + ++++ + + Sbjct: 305 IEDFVQTSE------SYYREIISLEQNLENFEKEEADPQEREKNLKAVHSKLRELEKQIQ 358 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + F+ +++ EA AK EMVEANLRLVIS+AKKY+NRGL FLDLIQEGN+GL Sbjct: 359 LPLPVFKEKHQELKQWLNEAIKAKSEMVEANLRLVISIAKKYSNRGLSFLDLIQEGNMGL 418 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA EKF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K++R +++ Sbjct: 419 MKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLIQ 478 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REPTPEEIA + M V+ +R ++K+ + PISL+ +G+ + + GDFIEDK A +P Sbjct: 479 ELGREPTPEEIADETQMSVDRIRTIIKMAQHPISLQAQVGESEDTTFGDFIEDKAAENPS 538 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + LRE VL +LT RE V+ RFG+ TLEEVGKQF VTRERIRQIEA Sbjct: 539 EMTGYSLLREKIKDVLGTLTERERTVIEQRFGLLDGYPRTLEEVGKQFRVTRERIRQIEA 598 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RK++HP+R + L+ FL+ Sbjct: 599 KALRKMRHPTRLRHLKGFLE 618 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 46/140 (32%), Positives = 74/140 (52%), Gaps = 32/140 (22%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL----- 83 + + +IKLA+++GY+T +++N LP +SE++E L + I+++D D+ Sbjct: 85 EKLRTLIKLAKEQGYLTYDDINEALPESVNNSEEIEAVYDFLRTLEIDIIDSSDVDNAKA 144 Query: 84 ------EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 E+ EG E LD+ DDPVRMYL++MG + LL+RE Sbjct: 145 VTALDAEEIEGKESKLDI---------------------VDDPVRMYLKQMGQVPLLTRE 183 Query: 138 GEIAIAKRIEAGRAMMMASL 157 E+ I+KRIE AM+ + L Sbjct: 184 QEVEISKRIEQSEAMVKSCL 203 >gi|307243281|ref|ZP_07525452.1| RNA polymerase sigma factor RpoD [Peptostreptococcus stomatis DSM 17678] gi|306493409|gb|EFM65391.1| RNA polymerase sigma factor RpoD [Peptostreptococcus stomatis DSM 17678] Length = 384 Score = 298 bits (764), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 145/239 (60%), Positives = 195/239 (81%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA W Sbjct: 146 FAKQKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATW 205 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P P+EIAK++ M E Sbjct: 206 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPDEIAKEMNMTEEK 265 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+++KI ++P+SLETPIG+E+ SHLGDFI D++A +P ++A + L+E VL +L Sbjct: 266 VREIMKIAQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAYSLLKEQIEDVLNTLND 325 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE+ VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR FLD Sbjct: 326 REQNVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDFLD 384 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 40/145 (27%), Positives = 68/145 (46%), Gaps = 12/145 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE-- 86 ++ KK+ + ++ G VT+ ++ +++ E+ L N+GI VVD +++ + Sbjct: 13 EAQKKLFEKGKKDGTVTLIDIMEAFQDNDMDKGVAENLYETLGNLGIEVVDDKEVKADID 72 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSRE 137 D LD+ + + +S+D S DDPVRMYL+E+G I LL Sbjct: 73 LSKPDDLDIQAIDEEEDK-EEIVAESSDPVEIAVPKGISIDDPVRMYLKEIGKIPLLKPH 131 Query: 138 GEIAIAKRIEAGRAMMMASLCESPL 162 E+ AKR+ G L E+ L Sbjct: 132 EEVEYAKRMAEGDEFAKQKLVEANL 156 >gi|312898762|ref|ZP_07758151.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis F0359] gi|310620193|gb|EFQ03764.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis F0359] Length = 437 Score = 298 bits (764), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 139/240 (57%), Positives = 188/240 (78%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +IAKK++ +ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA Sbjct: 198 GNIAKKKLTDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYA 257 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ REP PEEIA+K+ +PV Sbjct: 258 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPLPEEIAEKMGVPV 317 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E VR+++KI +EP+SLETPIG+E+ SHLGDFIED+ A++P D+A L+E V + L Sbjct: 318 ERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQEAIAPDDAASFILLKEQIEDVFSCL 377 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T RE +VL +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + +K++ FL Sbjct: 378 TDRERKVLYLRFGLKDGRPRTLEEVGQHFNVTRERIRQIEGKALSKLRNWGKREKIKDFL 437 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 37/115 (32%), Positives = 65/115 (56%), Gaps = 4/115 (3%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSEDSLDLA 96 +Q+G ++ E+ + ++++++M+ ++ G++V+ + + L + E D D Sbjct: 76 GKQQGSLSYSEIMNAMGDCDMTADEMDRMYEHFTDNGVDVLGESEQLNENESLNDDADDD 135 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S +V L + + DDPVRMYL+E+G + LLS E EI +AKRIEAG A Sbjct: 136 SENETVNVNLSVPEGV---NIDDPVRMYLKEIGRVPLLSAEEEITLAKRIEAGSA 187 >gi|227486750|ref|ZP_03917066.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] gi|227235220|gb|EEI85235.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] Length = 601 Score = 298 bits (763), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 141/237 (59%), Positives = 185/237 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ E NLRLV+S+AKKY RG+ FLDLIQEGN+GLMKA +K+D+ G+KFSTYA WW Sbjct: 365 AKEKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWW 424 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+P+ EEIA + + VE V Sbjct: 425 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIADIMGIEVEKV 484 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ KI +EP+SLETPIG+ED SHLGDFIED A+ P ++A LRE VL+ L R Sbjct: 485 SEIRKIAQEPVSLETPIGEEDDSHLGDFIEDDTAIDPGEAANYTMLREQLNDVLSCLGAR 544 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+RVL++RFG+ T TLEEVGK+F VTRERIRQIEAKA+RKLK P++S+ L+ FL Sbjct: 545 EKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLKSPNKSELLKDFL 601 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 17/32 (53%), Positives = 26/32 (81%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPV+MYL+E+G ++LL+ EI +A+R+E G Sbjct: 115 DDPVKMYLKEIGKVDLLTATEEIILARRMETG 146 >gi|328915181|gb|AEB56014.1| transcription initiation factor sigma 70 [Chlamydophila psittaci 6BC] Length = 561 Score = 298 bits (763), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 259 AERNKFAAAKLDAA---KRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 315 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 316 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 375 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 376 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 435 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 436 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 495 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 496 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 544 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 16 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQADVERQKERKKEA 75 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 76 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 124 Query: 153 M 153 + Sbjct: 125 I 125 >gi|62185569|ref|YP_220354.1| RNA polymerase sigma factor [Chlamydophila abortus S26/3] gi|62148636|emb|CAH64409.1| major sigma factor [Chlamydophila abortus S26/3] Length = 571 Score = 298 bits (763), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 269 AERNKFAAAKLDAA---KRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 325 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 326 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 385 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 386 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 445 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 446 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 505 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 506 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 554 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 26 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|253573701|ref|ZP_04851044.1| LOW QUALITY PROTEIN: DNA-directed RNA polymerase [Paenibacillus sp. oral taxon 786 str. D14] gi|251847229|gb|EES75234.1| LOW QUALITY PROTEIN: DNA-directed RNA polymerase [Paenibacillus sp. oral taxon 786 str. D14] Length = 325 Score = 298 bits (763), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 144/238 (60%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+A++Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 88 AKRRLAEANLRLVVSIARRYVGRGMVFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ +I REPTPEEIAK++ + + V Sbjct: 148 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEIGREPTPEEIAKEMDLTPDKV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ S+LGDFIED +A +P ++A L+E VL +LT R Sbjct: 208 REIMKIAQEPVSLETPIGEENDSNLGDFIEDHDAPAPAEAAAYELLKEQLEEVLDTLTER 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSK+L+ F++ Sbjct: 268 EENVLRLRFGMDDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKRLKDFME 325 Score = 46.6 bits (109), Expect = 0.016, Method: Compositional matrix adjust. Identities = 24/45 (53%), Positives = 30/45 (66%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DDPVRMYL+E+G + LLS E EI +A+RIE G L E+ L Sbjct: 53 DDPVRMYLKEIGRVPLLSAEEEIELAQRIENGDEEAKRRLAEANL 97 >gi|329943340|ref|ZP_08292114.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10] gi|332287916|ref|YP_004422817.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC] gi|313848489|emb|CBY17493.1| major sigma factor [Chlamydophila psittaci RD1] gi|325507028|gb|ADZ18666.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC] gi|328814887|gb|EGF84877.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10] Length = 571 Score = 298 bits (763), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 269 AERNKFAAAKLDAA---KRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 325 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 326 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 385 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 386 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 445 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 446 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 505 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 506 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 554 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 26 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|89897819|ref|YP_514929.1| RNA polymerase sigma factor [Chlamydophila felis Fe/C-56] gi|89331191|dbj|BAE80784.1| DNA-directed RNA polymerase sigma 70 [Chlamydophila felis Fe/C-56] Length = 570 Score = 298 bits (762), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 267 AERNKFAAAKLDAA---KRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 323 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 324 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 383 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 384 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 443 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 444 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 503 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 504 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 552 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 24 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLAGMDIQVLNQADVERQKERKKEA 83 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 84 KELEGLARRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 132 Query: 153 M 153 + Sbjct: 133 I 133 >gi|255994475|ref|ZP_05427610.1| RNA polymerase sigma factor RpoD [Eubacterium saphenum ATCC 49989] gi|255993188|gb|EEU03277.1| RNA polymerase sigma factor RpoD [Eubacterium saphenum ATCC 49989] Length = 447 Score = 298 bits (762), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 149/288 (51%), Positives = 204/288 (70%) Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E + +A +V L +NEI+ + ++ + ++ + + + + A ++ EANL Sbjct: 160 EEEKILATQVKHALAKQNEIRERLERLKEGSATYKKEMKLLDEYKQDYNKAMHQLCEANL 219 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK + +RG+ FLDLIQEGN+GLMKA +KFD +KFSTYA WW++QAITR+IA Sbjct: 220 RLVVSIAKNHKDRGMHFLDLIQEGNLGLMKAVDKFDVDRNFKFSTYATWWIRQAITRAIA 279 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + IHK+ R +R + ++ REP PEEIAK++ + E VR +L+I++EP Sbjct: 280 DQARTIRIPVHMVETIHKLTRISRTLLQELGREPKPEEIAKEMDITTEKVRDILRISQEP 339 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLE PIG+E+ SHLGDFI D SPLD A + LR+ VL +L RE VL++RFG Sbjct: 340 VSLEKPIGEEEDSHLGDFIPDTEVPSPLDVAFSSMLRDELLEVLNTLGERERNVLKLRFG 399 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 + TLEEVGKQF VTRERIRQIE+KAIRKLKHP+ SKKLR ++D Sbjct: 400 LVDGKQRTLEEVGKQFDVTRERIRQIESKAIRKLKHPNMSKKLRDYID 447 Score = 38.1 bits (87), Expect = 4.7, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 25/34 (73%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 DDPV+MYL+E+G + LL+RE E +A +++ A Sbjct: 141 DDPVKMYLKEIGQVPLLTREEEKILATQVKHALA 174 >gi|304437691|ref|ZP_07397643.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304369324|gb|EFM22997.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 370 Score = 298 bits (762), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 120 VALAQRMEAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ R+P PE Sbjct: 180 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRISRQLLQELGRDPRPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + V V +++KI +EP+SLETPIG+E+ SHLGDFIED+ A +P ++A LR Sbjct: 240 EIAKEMGISVARVHEIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAAPAPAEAASFMLLR 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+ VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEEVLETLTDREKNVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRSK LR FL+ Sbjct: 360 SRSKVLRDFLE 370 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 21/34 (61%), Positives = 29/34 (85%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S DDPVRMYL+E+G + LL+ E E+A+A+R+EAG Sbjct: 96 SLDDPVRMYLKEIGHVPLLTAEEEVALAQRMEAG 129 >gi|238927758|ref|ZP_04659518.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] gi|238884474|gb|EEQ48112.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] Length = 383 Score = 298 bits (762), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 147/251 (58%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 133 VALAQRMEAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 192 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ R+P PE Sbjct: 193 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRISRQLLQELGRDPHPE 252 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK++ + V V +++KI +EP+SLETPIG+E+ SHLGDFIED+ A +P ++A LR Sbjct: 253 EIAKEMGITVARVHEIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAAPAPAEAASFMLLR 312 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+ VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 313 EQLEEVLETLTDREKNVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 372 Query: 671 SRSKKLRSFLD 681 SRSK LR FL+ Sbjct: 373 SRSKVLRDFLE 383 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 36/108 (33%), Positives = 60/108 (55%), Gaps = 7/108 (6%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T E+ L ++S ++M+D S+ G+ +VD D+ +E +ED Sbjct: 42 GSLTFGEIIDALQKQDMSPDEMDDMYQRFSDEGVEIVD--DVATDERAEDEKPEKEEEVE 99 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + + S DDPVRMYL+E+G + LL+ E E+A+A+R+EAG Sbjct: 100 IDLTVPE-----GISLDDPVRMYLKEIGHVPLLTAEEEVALAQRMEAG 142 >gi|300113721|ref|YP_003760296.1| RNA polymerase sigma 70 subunit RpoD [Nitrosococcus watsonii C-113] gi|299539658|gb|ADJ27975.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosococcus watsonii C-113] Length = 578 Score = 298 bits (762), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 142/266 (53%), Positives = 200/266 (75%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + E G+ ++E + I + + + +A AK +MVEANLRLV+SVAKKY NRGL FLDLIQ Sbjct: 312 VEAEAGLPLAELKVIHQRLVQSQFQAQRAKAQMVEANLRLVVSVAKKYRNRGLTFLDLIQ 371 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLMKA +KFD+ GYKFSTYA WW++QAITR+I DQS TIRIPVH+ +K+ K+ R Sbjct: 372 EGNIGLMKAVDKFDYHRGYKFSTYAHWWIRQAITRAIDDQSRTIRIPVHVMEKLSKLNRA 431 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + ++ + RE PEE+A++L + + + ++ +I K+PISLETP+G ++ S LG+ +ED+ Sbjct: 432 SYQLRQEKGREGRPEELAERLDLSEQQIHRMHEIAKQPISLETPLGKDEDSQLGELMEDE 491 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +P++ AI A L+ R+LA+L+PRE +V+ MRFGIGM+TDHTL EV +QF ++RER Sbjct: 492 QVPNPMEVAITAGLQTGAQRLLAALSPREAQVVAMRFGIGMDTDHTLGEVARQFDLSRER 551 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEA+A+ KL+ SK LR+FL+ Sbjct: 552 IRQIEAQALGKLRRLGHSKALRNFLE 577 Score = 54.7 bits (130), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 43/161 (26%), Positives = 73/161 (45%), Gaps = 8/161 (4%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 F+ + K++I + +G +T EEL ++ + S++ E + + G++ D Sbjct: 3 FEVRQEELKRLILKGKAQGLLTEEELQEYIIQEVEDSDEAETMANLFHHQGLDEFD---- 58 Query: 84 EDEEGSEDSLDLASSASNS-SVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 E + +L L A + + + + D V Y+REMGS LL+RE EI + Sbjct: 59 ---ETLDSTLLLKHGAEEEIAEAVPSLEGEGTGTVSDMVYAYMREMGSHALLTREEEITL 115 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 AK IE G +L P L+ W DE+ G L++ Sbjct: 116 AKAIETGLNQSTEALGGCPAAVAELLRWTDEVAAGKGRLKD 156 >gi|29840756|ref|NP_829862.1| RNA polymerase sigma factor [Chlamydophila caviae GPIC] gi|29835106|gb|AAP05740.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila caviae GPIC] Length = 572 Score = 298 bits (762), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 269 AERNKFAAAKLDAA---KRRLHKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 325 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 326 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 385 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 386 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 445 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 446 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 505 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 506 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 554 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 26 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|520418|gb|AAA50747.1| major sigma factor [Chlamydophila psittaci] Length = 571 Score = 298 bits (762), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 150/289 (51%), Positives = 205/289 (70%), Gaps = 3/289 (1%) Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 E F A ++D+ + + V G ++ EF+ V M+++ ++ AKKEMVE+N Sbjct: 269 AERNKFAAAKLDAA---KRRLYKREVAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESN 325 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLVIS+AKKYTNRGL FLDLIQEGN+GLMKA EKF++ GYKFSTYA WW++QA+TR+I Sbjct: 326 LRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAI 385 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 ADQ+ TIRIPVHM + I+KV+R A+++ + +EPTPEE+A++L + + VR++ KI + Sbjct: 386 ADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEELGLTPDRVREIYKIAQH 445 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISL+ +G+ S GDF+ED SP ++ + L++ VL +LT RE VL RF Sbjct: 446 PISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRF 505 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G+ TLEEVG F VTRERIRQIEAKA+RK++HP RSK+LR+FLD Sbjct: 506 GLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLRAFLD 554 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LP + EQ++ + L+ M I V++ D+E +E +++ Sbjct: 26 LVSLAKDQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|15644718|ref|NP_206888.1| RNA polymerase sigma factor RpoD [Helicobacter pylori 26695] gi|2500785|sp|P55993|RPOD_HELPY RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|2313167|gb|AAD07156.1| RNA polymerase sigma-70 factor (rpoD) [Helicobacter pylori 26695] Length = 671 Score = 297 bits (761), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 193/575 (33%), Positives = 323/575 (56%), Gaps = 72/575 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L + Sbjct: 156 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALIN 215 Query: 177 GTTLLREII-----DLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIE 231 ++E+ D E + K E + +K+ S ++K+R V++ + + Sbjct: 216 RERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKR--VEKVQESFK 273 Query: 232 SAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLS-AMEDQLRPKVMCALDEIAEV 290 + K K+ +++P +DE ED+ +L+ A + Q + L+ +++ Sbjct: 274 ALDKAKKEWLKALEAP----------IDEREDELVRSLTLAYKRQTLKDRLYDLEPTSKL 323 Query: 291 YREL-RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 EL ++++ +G EK + K L+ KL +L N +I + + +++K Sbjct: 324 INELVKTMETTLKSGDGFEK---ELKRLEYKLPLFNDTLIANHKKI---LANITNMTKED 377 Query: 350 MHNEGELLRLAQSYGIKRDVFLER---HQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 + + + Y + +FL + +G +L P Sbjct: 378 IIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAP------------------------- 412 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N++K I + +++G+ + AK +M ++NLRLV+S+AK++T+R Sbjct: 413 ----NKLKEI--------------LEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSR 454 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL FLDLIQEGNIGLMKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM Sbjct: 455 GLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMI 514 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D I+++ + R+ + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D Sbjct: 515 DTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDG 574 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEV 645 GDF+EDKN VS +D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+ Sbjct: 575 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEI 634 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 GK+ VTRER+RQIE+ AI+KL+ P + LR++L Sbjct: 635 GKELNVTRERVRQIESSAIKKLRSPQYGRILRNYL 669 >gi|257784627|ref|YP_003179844.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Atopobium parvulum DSM 20469] gi|257473134|gb|ACV51253.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Atopobium parvulum DSM 20469] Length = 455 Score = 297 bits (761), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 186/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 217 AKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 276 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ R+PTPEEI ++ M + V Sbjct: 277 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFGRDPTPEEIGSEMGMSPDRV 336 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV+P D+A + LRE +VL SL R Sbjct: 337 REIQKISQEPVSLETPIGEEEDSQLGDFIEDSTAVAPPDAASDSMLREQLEQVLDSLADR 396 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V++ RFG+ TLEEVGK+F VTRERIRQIE+K + KL+HPSRS +L+ +++ Sbjct: 397 ERKVIKFRFGLEDGHPRTLEEVGKEFGVTRERIRQIESKTLAKLRHPSRSGRLKDYME 454 Score = 44.3 bits (103), Expect = 0.075, Method: Compositional matrix adjust. Identities = 19/35 (54%), Positives = 27/35 (77%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 T DPVRMYL+E+G ++LL+ E+ +A +IEAG A Sbjct: 150 TGDPVRMYLKEIGKVDLLTASEEVHLAMKIEAGTA 184 >gi|320530863|ref|ZP_08031900.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] gi|320136897|gb|EFW28842.1| RNA polymerase sigma factor RpoD [Selenomonas artemidis F0399] Length = 370 Score = 297 bits (760), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 133 ARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ R+P PEEIAK++ + V V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVRISRQLLQELGRDPRPEEIAKEMGISVARV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++KI +EP+SLETPIG+E+ SHLGDFIED+ A +P ++A LRE VL +LT R Sbjct: 253 HEIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAAPAPAEAASFMLLREQLEEVLETLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+ VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK LR FL+ Sbjct: 313 EKNVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPSRSKVLRDFLE 370 Score = 43.9 bits (102), Expect = 0.082, Method: Compositional matrix adjust. Identities = 33/108 (30%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T EL L ++S ++M+D ++ G+++VD E + D A Sbjct: 28 GSLTYGELIDALQKQDMSPDEMDDMYQRFTDEGVDIVD------EASAADEPAPEEPAEK 81 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S DDPVRMYL+E+G + LL+ E E+ +A+ +EAG Sbjct: 82 EEEVEIDLSIPEGVSLDDPVRMYLKEIGHVPLLTAEEEVELAQLMEAG 129 >gi|313897089|ref|ZP_07830636.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] gi|312974536|gb|EFR40004.1| RNA polymerase sigma factor RpoD [Selenomonas sp. oral taxon 137 str. F0430] Length = 370 Score = 297 bits (760), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 189/238 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 133 ARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ R+P PEEIAK++ + V V Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVRISRQLLQELGRDPRPEEIAKEMGISVARV 252 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++KI +EP+SLETPIG+E+ SHLGDFIED+ A +P ++A LRE VL +LT R Sbjct: 253 HEIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAAPAPAEAASFMLLREQLEEVLETLTDR 312 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+ VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK LR FL+ Sbjct: 313 EKNVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPSRSKVLRDFLE 370 Score = 43.9 bits (102), Expect = 0.088, Method: Compositional matrix adjust. Identities = 33/108 (30%), Positives = 53/108 (49%), Gaps = 6/108 (5%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T EL L ++S ++M+D ++ G+++VD E + D A Sbjct: 28 GSLTYGELIDALQKQDMSPDEMDDMYQRFADEGVDIVD------EASAADEPAPEEPAEK 81 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S DDPVRMYL+E+G + LL+ E E+ +A+ +EAG Sbjct: 82 EEEVEIDLSIPEGVSLDDPVRMYLKEIGHVPLLTAEEEVELAQLMEAG 129 >gi|295695448|ref|YP_003588686.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus tusciae DSM 2912] gi|295411050|gb|ADG05542.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus tusciae DSM 2912] Length = 379 Score = 297 bits (760), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 207/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA A +++ANLRLV+S+AK+Y RG+ Sbjct: 110 VRMYLKEIGRVPLLSAEEEIELAKRIEQGDEEAKAA---LIKANLRLVVSIAKRYVGRGM 166 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 167 LFLDLIQEGNLGLIKAVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 226 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ R+PTPEEIA+++ M + VR+++KI +EP+SLETPIG+ED SHL Sbjct: 227 INKLIRVSRQLLQELGRDPTPEEIAEEMDMSPDKVREIMKIAQEPVSLETPIGEEDDSHL 286 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A++P D+A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 287 GDFIPDDDALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKV 346 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 347 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 379 Score = 66.6 bits (161), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 45/131 (34%), Positives = 71/131 (54%), Gaps = 1/131 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++++ R+RG +T E+ L P E +QM++ LS GI V++ ++ ED ED Sbjct: 22 QQLVETGRKRGALTYHEIMDRLAPFEQDPDQMDEFFDYLSEQGIEVLNENE-EDLVLEED 80 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + A + L+ +DPVRMYL+E+G + LLS E EI +AKRIE G Sbjct: 81 NEHPAEEEDHEEYDLEDLSVPPGVKINDPVRMYLKEIGRVPLLSAEEEIELAKRIEQGDE 140 Query: 152 MMMASLCESPL 162 A+L ++ L Sbjct: 141 EAKAALIKANL 151 >gi|315651467|ref|ZP_07904490.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium saburreum DSM 3986] gi|315486287|gb|EFU76646.1| DNA-directed RNA polymerase sigma subunit RpoD [Eubacterium saburreum DSM 3986] Length = 389 Score = 297 bits (760), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 187/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K+M E+NLRLV+S+AK+Y RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 152 ARKQMAESNLRLVVSIAKRYMGRGMQFLDLIQEGNLGLLRAVEKFDYQKGFKFSTYATWW 211 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+++++ R++ + REP P+E+AK + +PV V Sbjct: 212 IRQAITRSIADQARTIRIPVHMVETINRLIKIQRKLVQEFGREPRPDEVAKVMGIPVSKV 271 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ EP+S+ETPIGDED SHLGDF++D NA P++ A+ L + V+ SLT R Sbjct: 272 REIMSFALEPVSMETPIGDEDDSHLGDFLQDSNAKIPVNFAMDVLLHDQLMEVIKSLTER 331 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++V+ +RFG+ TLEEVGK F +TRERIRQIEAK++RKL++PS+ ++L+ FL+ Sbjct: 332 EQKVILLRFGLEDGKPRTLEEVGKVFGITRERIRQIEAKSLRKLRNPSKVRRLKDFLE 389 >gi|296269171|ref|YP_003651803.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296091958|gb|ADG87910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 367 Score = 297 bits (760), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 192/238 (80%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 131 AKQRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + REPTPEEIAK++ +PVE V Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLHQDLGREPTPEEIAKEMDLPVERV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +I +EP+SL++PIG+ED S LGDFIED +AV PL++A L++ +L++L+ R Sbjct: 251 VEIQRIAQEPVSLQSPIGEED-SDLGDFIEDADAVVPLEAAAFILLQDHLDDILSTLSER 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+R++++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HP+R++ LR +LD Sbjct: 310 EQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPTRAQVLRDYLD 367 Score = 45.1 bits (105), Expect = 0.037, Method: Compositional matrix adjust. Identities = 36/121 (29%), Positives = 57/121 (47%), Gaps = 19/121 (15%) Query: 39 RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASS 98 R RG V I+++ E S + ++ V ML++ + V+ +D + E+ D + Sbjct: 9 RTRGGVAIDDVAVAADRTEPSDDALDRVVQMLADEDLEVLAAEDEDPIRFDEEDFDSGAP 68 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLC 158 T+D VR+YLRE+G + LL+ E E+ +AK IEAG LC Sbjct: 69 ------------------TNDLVRIYLREIGKVPLLTAEEEVELAKAIEAG-LFAEDKLC 109 Query: 159 E 159 E Sbjct: 110 E 110 >gi|292670108|ref|ZP_06603534.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] gi|292648296|gb|EFF66268.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas noxia ATCC 43541] Length = 370 Score = 297 bits (760), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 145/251 (57%), Positives = 195/251 (77%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ ++ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 120 VALAQRMEAGDEEARHRLEEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDY 179 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ R+P PE Sbjct: 180 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRISRQLLQELGRDPHPE 239 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+++ + V V +++KI +EP+SLETPIG+E+ SHLGDFIED+ A +P ++A LR Sbjct: 240 EVAREMGISVARVHEIMKIAQEPVSLETPIGEEEDSHLGDFIEDEAAPAPAEAASFMLLR 299 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE+ VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 300 EQLEEVLETLTDREKNVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHP 359 Query: 671 SRSKKLRSFLD 681 SRSK LR FL+ Sbjct: 360 SRSKVLRDFLE 370 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 36/108 (33%), Positives = 56/108 (51%), Gaps = 6/108 (5%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASN 101 G +T EL L ++S ++M+D S+ G+ +VD G + A Sbjct: 28 GTLTYGELIDALQKQDMSPDEMDDMYQRFSDEGVEIVDD---AATAGEPAEEEPAEKEEE 84 Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + L + S DDPVRMYL+E+G + LL+ E E+A+A+R+EAG Sbjct: 85 VEIDLSVPEGV---SLDDPVRMYLKEIGHVPLLTAEEEVALAQRMEAG 129 >gi|323142246|ref|ZP_08077080.1| RNA polymerase sigma factor RpoD [Phascolarctobacterium sp. YIT 12067] gi|322413309|gb|EFY04194.1| RNA polymerase sigma factor RpoD [Phascolarctobacterium sp. YIT 12067] Length = 546 Score = 297 bits (760), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 146/238 (61%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ G+KFSTYA WW Sbjct: 309 AKQCLSEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYNKGFKFSTYATWW 368 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK++ V+ V Sbjct: 369 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKEMDTSVDRV 428 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED +A +P D+A LRE VL +LT R Sbjct: 429 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDHDAPAPADAASFTLLREQLEEVLETLTIR 488 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+RVL +RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSKKL+ FL+ Sbjct: 489 EKRVLELRFGLEDGRSRTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFLE 546 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 33/100 (33%), Positives = 57/100 (57%), Gaps = 10/100 (10%) Query: 56 DEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE-----GSEDSLDLASSASNSSVFLQKRK 110 ++++ E +E +++ G+ +VD D+ DE+ G+++ D SS+ L+ Sbjct: 51 EDITPEDVEHIYEVITRKGLELVDDDNASDEDILPLVGNDEDNDEPSSSE-----LENMS 105 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 S DDPVRMYL+E+G + LL E E+ +AKR++ GR Sbjct: 106 VPEGISIDDPVRMYLKEIGRVPLLIGEDEVKLAKRMDKGR 145 >gi|114567027|ref|YP_754181.1| sigma 38 (RpoS) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337962|gb|ABI68810.1| sigma 38 (RpoS) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 358 Score = 296 bits (758), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 191/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ GYKFSTYA WW Sbjct: 121 AKRQLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLMKAVEKFDYRKGYKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R + + REPTP E+A+++ + V+ V Sbjct: 181 IRQAITRAIADQARTIRIPVHMVETINKLSRVQRSLLQILGREPTPAEVAEEMDIAVDRV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++K+ +EP+SLETPIG+ED SHLGDFI D+ A SP +SA LRE +L +LT R Sbjct: 241 IEIMKVAQEPVSLETPIGEEDDSHLGDFITDEEAESPEESASFVLLREHLDGILNTLTER 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKKL+ +++ Sbjct: 301 EEKVLRLRFGLDDGRPRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYIE 358 Score = 44.3 bits (103), Expect = 0.061, Method: Compositional matrix adjust. Identities = 35/116 (30%), Positives = 54/116 (46%), Gaps = 16/116 (13%) Query: 47 EELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFL 106 EEL +F + ++Q++D L ++GI + G+E +L + Sbjct: 31 EELQSF----NLEADQIDDIFEHLQSLGITI----------GTEQDAELDEENESIETEE 76 Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 D + DDPVRMYL+E+G + LL EI +A+RIE G L E+ L Sbjct: 77 VVIPDGIE--IDDPVRMYLKEIGRVPLLIAAQEIDLAQRIEEGDEEAKRQLVEANL 130 >gi|289423762|ref|ZP_06425557.1| RNA polymerase sigma factor RpoD [Peptostreptococcus anaerobius 653-L] gi|289155801|gb|EFD04471.1| RNA polymerase sigma factor RpoD [Peptostreptococcus anaerobius 653-L] Length = 385 Score = 296 bits (758), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 143/238 (60%), Positives = 195/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 148 SKQKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWW 207 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ R+P PEEIAK + M + V Sbjct: 208 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKVMNMSEDKV 267 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI ++P+SLETPIG+E+ SHLGDFI D++A +P ++A + L+E VL +L R Sbjct: 268 REIMKIAQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAEAAAYSLLKEQIEEVLNTLNDR 327 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKLR +LD Sbjct: 328 EQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDYLD 385 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 36/115 (31%), Positives = 51/115 (44%), Gaps = 23/115 (20%) Query: 64 EDTVAMLSNMGINVVDG------------DDLE----DEEGSEDSLDLASSASNSSVFLQ 107 E+ L N+GI V++ DDL+ DEE SED+ + + +V Sbjct: 50 ENLYETLGNLGIEVINDKEFKADINLNEPDDLDIKSIDEESSEDTETAETETAEIAV--- 106 Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S DDPVRMYL+E+G I LL E+ A+ + G L E+ L Sbjct: 107 ----PKGISIDDPVRMYLKEIGKIPLLKPHEEVEFARLMSEGDERSKQKLVEANL 157 >gi|282856776|ref|ZP_06266037.1| RNA polymerase sigma factor RpoD [Pyramidobacter piscolens W5455] gi|282585399|gb|EFB90706.1| RNA polymerase sigma factor RpoD [Pyramidobacter piscolens W5455] Length = 642 Score = 296 bits (758), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 144/254 (56%), Positives = 193/254 (75%), Gaps = 3/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + V G+ EA K+++++ANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EK Sbjct: 392 RELAIKVEAGDAEA---KQQIIDANLRLVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEK 448 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ K+ REP Sbjct: 449 FDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMVRISRQLVQKLGREP 508 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + EEIA ++ + V ++ +I + P+SLETPIG+E+ S LGDFIED+N SP D+A Sbjct: 509 SDEEIAHEMEIESGRVEEIRRIAQLPVSLETPIGEEEDSQLGDFIEDRNMPSPEDAAAGN 568 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E +L +L+ RE VLR RFG+ +TLEEVG++F VTRERIRQIEAKA+RKL Sbjct: 569 LLHEQIEEMLDALSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIRQIEAKALRKL 628 Query: 668 KHPSRSKKLRSFLD 681 +HPSRSKKLR FL+ Sbjct: 629 RHPSRSKKLRDFLE 642 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 47/147 (31%), Positives = 72/147 (48%), Gaps = 29/147 (19%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-------------- 79 +I R+ GYVT +++ ++P D SSE +++ L+ +GI V+D Sbjct: 257 LIVQGRKNGYVTHKDIEKYIPADYWSSEILDNVFINLTELGIQVLDDSAQVSSKDGSSAK 316 Query: 80 -----------GDDLE--DEEGSEDSL-DLASSASNSSV-FLQKRKDSADRSTDDPVRMY 124 D+ E D G +DS D ASS + + + ++ D DPVRMY Sbjct: 317 SKRPSRSRTKISDERESPDVPGDDDSASDFASSGGDEAPGYGEELGRMEDVPLSDPVRMY 376 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRA 151 LRE+G + LLS E E +A ++EAG A Sbjct: 377 LREIGKVPLLSGEKERELAIKVEAGDA 403 >gi|15835519|ref|NP_297278.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg] gi|270285702|ref|ZP_06195096.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg] gi|270289710|ref|ZP_06196012.1| RNA polymerase sigma factor [Chlamydia muridarum Weiss] gi|301337097|ref|ZP_07225299.1| RNA polymerase sigma factor [Chlamydia muridarum MopnTet14] gi|7388084|sp|P56835|RPOD_CHLMU RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|7190932|gb|AAF39698.1| RNA polymerase sigma factor RpoD [Chlamydia muridarum Nigg] Length = 571 Score = 296 bits (758), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 194/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 43/121 (35%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP S EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|268610742|ref|ZP_06144469.1| RNA polymerase sigma factor RpoD [Ruminococcus flavefaciens FD-1] Length = 360 Score = 296 bits (758), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 143/238 (60%), Positives = 192/238 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AKKY RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 123 AKKRLSEANLRLVVSIAKKYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 182 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I KV + + ++ ++ +P+PEEIA KL MPV+ V Sbjct: 183 IRQAITRAIADQARTIRIPVHMVETITKVKKVSSQLLHENGHDPSPEEIADKLNMPVDKV 242 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++++ ++P+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL++LT R Sbjct: 243 REIMRVAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAASHTLLKEQLNEVLSTLTDR 302 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VL++RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKK++ FLD Sbjct: 303 EAKVLKLRFGLEDGKSRTLEEVGQRFDVTRERIRQIEAKALRKLRHPSRSKKVKDFLD 360 Score = 41.2 bits (95), Expect = 0.65, Method: Compositional matrix adjust. Identities = 19/47 (40%), Positives = 30/47 (63%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPV++YL+E+G + LL+ E EI +A+R+ G L E+ L Sbjct: 86 AIDDPVKIYLKEIGRVPLLTTEEEIELAQRMAKGDRYAKKRLSEANL 132 >gi|328955627|ref|YP_004372960.1| RNA polymerase, sigma 70 subunit, RpoD [Coriobacterium glomerans PW2] gi|328455951|gb|AEB07145.1| RNA polymerase, sigma 70 subunit, RpoD [Coriobacterium glomerans PW2] Length = 442 Score = 296 bits (758), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 204 AKQALISANLRLVVSIAKRYVGRGMHFLDLIQEGNLGLIRAVEKFDYEKGFKFSTYATWW 263 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+PTPEEI ++ M + V Sbjct: 264 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQELGRDPTPEEIGAEMEMSADRV 323 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV P D+A + LRE +VL SL R Sbjct: 324 REIQKISQEPVSLETPIGEEEDSQLGDFIEDAQAVVPPDAASFSMLREQLVQVLDSLADR 383 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG+ F VTRERIRQIE+K + KL+HPSRS KL+ +++ Sbjct: 384 ERKVIELRFGLNDGHPRTLEEVGRDFGVTRERIRQIESKTLAKLRHPSRSSKLKDYIE 441 Score = 42.7 bits (99), Expect = 0.19, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 137 TGDPVRMYLKEIGKVDLLTAADEVDLAMKIEAG 169 >gi|291542495|emb|CBL15605.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Ruminococcus bromii L2-63] Length = 367 Score = 296 bits (757), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 142/238 (59%), Positives = 193/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 129 AKQRLSEANLRLVVSIAKRYLGRGMQFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 188 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+KV + ++ ++ EP+ +EIA ++ MPV+ V Sbjct: 189 IRQAITRAIADQARTIRIPVHMVETINKVKKVQSQLLHQNGHEPSADEIAAEIDMPVDKV 248 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++++ +EP+SLETPIG+E+ SHLGDFI D +A +P D+A LRE + VL++LTPR Sbjct: 249 REIMRVAQEPVSLETPIGEEEDSHLGDFIPDNDAPAPADAASHTMLREQLSDVLSTLTPR 308 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VL++RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRS+KL+ +LD Sbjct: 309 EAKVLKLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 366 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 37/132 (28%), Positives = 68/132 (51%), Gaps = 6/132 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 +++++L +Q+G +T +++ + + EQ+E L+ +GI +V D D++ Sbjct: 12 RELVELGKQKGQLTNQDILDAIGEIDFDPEQLEKLYDSLAQLGIEIVEDSGDIKI----- 66 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D +DL + ++ S DDPV++YL+E+G + LLS + EI +A RI G Sbjct: 67 DDIDLGFDEGKDGDSHAQIAETGSVSVDDPVKVYLKEIGRVPLLSSDEEINLAIRIADGD 126 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 127 VAAKQRLSEANL 138 >gi|288574624|ref|ZP_06392981.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570365|gb|EFC91922.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] Length = 381 Score = 296 bits (757), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 142/250 (56%), Positives = 189/250 (75%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK +++EANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EKFD+ Sbjct: 131 VELAKRVEMGDDEAKSQLIEANLRLVVSIAKKYMGRGMLFLDLIQEGNLGLIRAVEKFDY 190 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV+R +R + + REPT E Sbjct: 191 SRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVMRASRNLVQSLGREPTDE 250 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + V ++ K+ +EPISLE+P+G+ED S LGDFIEDK+ +SP DS LR Sbjct: 251 EIAAEMGIEPAKVVQIRKVAQEPISLESPVGEEDDSELGDFIEDKDMISPDDSTSMEFLR 310 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + VL LT RE++VLR+RFG +TLE+VG++F VTRERIRQIEAKA+RKL+HP Sbjct: 311 DQLDDVLEGLTDREKQVLRLRFGFDDGQCYTLEDVGRRFGVTRERIRQIEAKALRKLRHP 370 Query: 671 SRSKKLRSFL 680 SRS LR ++ Sbjct: 371 SRSVTLRDYM 380 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/141 (27%), Positives = 69/141 (48%), Gaps = 10/141 (7%) Query: 22 LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD 81 +V D D K ++ + +G+VT E++ + P ++ +E L +GI++ Sbjct: 23 IVLDQYLDKIKDILLEGQSKGFVTKEDIKRHMTPQTLNEVLLEKIYDNLRALGIDI---- 78 Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 +G +D + +S + + S DPVRMYLRE+G+I LL++ E+ Sbjct: 79 -----QGIDDEDEKKGDDPSSRI-SGESVSSDSGGGGDPVRMYLREIGTIPLLNQPQEVE 132 Query: 142 IAKRIEAGRAMMMASLCESPL 162 +AKR+E G + L E+ L Sbjct: 133 LAKRVEMGDDEAKSQLIEANL 153 >gi|162447798|ref|YP_001620930.1| DNA-directed RNA polymerase subunit D [Acholeplasma laidlawii PG-8A] gi|161985905|gb|ABX81554.1| DNA-directed RNA polymerase subunit D [Acholeplasma laidlawii PG-8A] Length = 419 Score = 296 bits (757), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 142/261 (54%), Positives = 196/261 (75%), Gaps = 4/261 (1%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E +S + + + +RKG AK+++VEAN RLV+S+AKKYT RGL FLDLIQEGN Sbjct: 158 EVDLSDEDVQSLEDTIRKGHY----AKEKLVEANYRLVVSIAKKYTQRGLLFLDLIQEGN 213 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GLM+A +KFD+ G+KFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K++R R+ Sbjct: 214 MGLMRAVDKFDYEKGFKFSTYATWWIRQAITRAVADQARTIRIPVHMVETINKMIRIQRQ 273 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + ++ R+ T EEIA+K+ + E V+ + +I KEPISLE P+G+E+ S LGDFI D NA+ Sbjct: 274 LVQELGRDATIEEIAEKMDITPEKVQNIQRIAKEPISLEAPVGEEEDSSLGDFISDPNAL 333 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D +Q +++T VL +LT REE+VLR+R+G+ HTLEEVG++F VTRERIRQ Sbjct: 334 NPHDYMMQEMVKKTLDEVLETLTDREEKVLRLRYGLLDGKTHTLEEVGREFGVTRERIRQ 393 Query: 659 IEAKAIRKLKHPSRSKKLRSF 679 IEAKA+RKL+ P R KL+ F Sbjct: 394 IEAKALRKLRSPQRQNKLKEF 414 >gi|16752284|ref|NP_445653.1| RNA polymerase sigma factor [Chlamydophila pneumoniae AR39] gi|7190028|gb|AAF38883.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pneumoniae AR39] Length = 591 Score = 296 bits (757), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 196/264 (74%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 310 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 369 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 370 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 429 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+A++L + + VR++ KI + PISL+ +G+ S GDF+ED Sbjct: 430 KLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAV 489 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 490 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIR 549 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 550 QIEAKALRKMRHPIRSKQLRAFLD 573 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 41/127 (32%), Positives = 73/127 (57%), Gaps = 10/127 (7%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S ++++ LA+++G++T EE+N LP + EQ++ + L+ M I V++ D+E + Sbjct: 38 SQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQ 97 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + L +R + + DDPVRMYL+EMG++ LL+RE E+ I+KRI Sbjct: 98 KEKKKEAKELEG-------LARRTEG---TPDDPVRMYLKEMGTVPLLTREEEVEISKRI 147 Query: 147 EAGRAMM 153 E + + Sbjct: 148 EKAQVQI 154 >gi|221195781|ref|ZP_03568834.1| RNA polymerase sigma factor RpoD [Atopobium rimae ATCC 49626] gi|221184255|gb|EEE16649.1| RNA polymerase sigma factor RpoD [Atopobium rimae ATCC 49626] Length = 455 Score = 296 bits (757), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 186/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 217 AKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 276 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + R+PTPEEI ++ M + V Sbjct: 277 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPTPEEIGAEMGMSPDRV 336 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED A++P D+A + LRE +VL L R Sbjct: 337 REIQKISQEPVSLETPIGEEEDSQLGDFIEDSTAIAPPDAASDSMLREQLEQVLDGLADR 396 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V++ RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS +L+ +++ Sbjct: 397 ERKVIKFRFGLEDGRPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSRLKDYME 454 Score = 43.1 bits (100), Expect = 0.16, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 150 TGDPVRMYLKEIGKVDLLTASEEVNLAMKIEAG 182 >gi|218673095|ref|ZP_03522764.1| RNA polymerase sigma factor RpoD [Rhizobium etli GR56] Length = 355 Score = 296 bits (757), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 190/379 (50%), Positives = 241/379 (63%), Gaps = 51/379 (13%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGSDDDDAGGDEDSEGGE----LAPSG-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDSSQEKERDD 222 FQALIIWRDELN+GTTLLREIIDLE GPE+K + S +K E + K +D Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKA----APQFQSPEKIE--ADRKAAED 228 Query: 223 VQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRPK 279 +++T A+ DD + V PPE E DE S +L+AME +LRP+ Sbjct: 229 IEKTR-----RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRPQ 276 Query: 280 VMCALDEIAEVYRELRSLQDNAV------NGQKDEKSSVKCKVLKEKLVKLVGSLSLNQS 333 VM LD IAE Y++LR LQD V +G + K LK++L+K V SLSLNQ+ Sbjct: 277 VMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSTAQERRYKELKDELIKAVKSLSLNQN 336 Query: 334 RIDLLVEQLYDISKRIMHN 352 RID LVEQLYDI+KR++ N Sbjct: 337 RIDALVEQLYDINKRLVSN 355 >gi|144616|gb|AAA23168.1| sigma-A protein (sigA) [Chlamydia muridarum] Length = 571 Score = 295 bits (756), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 145/264 (54%), Positives = 195/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AK+EMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKQEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ +VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKKVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 43/121 (35%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP S EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDSPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|15618665|ref|NP_224951.1| RNA polymerase sigma factor [Chlamydophila pneumoniae CWL029] gi|15836289|ref|NP_300813.1| RNA polymerase sigma factor [Chlamydophila pneumoniae J138] gi|33242115|ref|NP_877056.1| RNA polymerase sigma factor [Chlamydophila pneumoniae TW-183] gi|6831651|sp|Q9Z7F0|RPOD_CHLPN RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|4377063|gb|AAD18894.1| RNA Polymerase Sigma-66 [Chlamydophila pneumoniae CWL029] gi|8979129|dbj|BAA98964.1| RNA polymerase sigma-66 [Chlamydophila pneumoniae J138] gi|33236625|gb|AAP98713.1| sigma factor 70 [Chlamydophila pneumoniae TW-183] Length = 572 Score = 295 bits (756), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 196/264 (74%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+A++L + + VR++ KI + PISL+ +G+ S GDF+ED Sbjct: 411 KLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 41/127 (32%), Positives = 73/127 (57%), Gaps = 10/127 (7%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S ++++ LA+++G++T EE+N LP + EQ++ + L+ M I V++ D+E + Sbjct: 19 SQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQ 78 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + L +R + + DDPVRMYL+EMG++ LL+RE E+ I+KRI Sbjct: 79 KEKKKEAKELEG-------LARRTEG---TPDDPVRMYLKEMGTVPLLTREEEVEISKRI 128 Query: 147 EAGRAMM 153 E + + Sbjct: 129 EKAQVQI 135 >gi|269302545|gb|ACZ32645.1| RNA polymerase sigma factor RpoD [Chlamydophila pneumoniae LPCoLN] Length = 570 Score = 295 bits (756), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 196/264 (74%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 289 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 348 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 349 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 408 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+A++L + + VR++ KI + PISL+ +G+ S GDF+ED Sbjct: 409 KLMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTAV 468 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 469 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIR 528 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 529 QIEAKALRKMRHPIRSKQLRAFLD 552 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 41/127 (32%), Positives = 73/127 (57%), Gaps = 10/127 (7%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S ++++ LA+++G++T EE+N LP + EQ++ + L+ M I V++ D+E + Sbjct: 17 SQKKLEELVALAKEQGFITYEEINEILPMSFDTPEQIDQVLIFLTGMDIQVLNQIDVERQ 76 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + L +R + + DDPVRMYL+EMG++ LL+RE E+ I+KRI Sbjct: 77 KEKKKEAKELEG-------LARRTEG---TPDDPVRMYLKEMGTVPLLTREEEVEISKRI 126 Query: 147 EAGRAMM 153 E + + Sbjct: 127 EKAQVQI 133 >gi|152993293|ref|YP_001359014.1| RNA polymerase sigma factor RpoD [Sulfurovum sp. NBC37-1] gi|151425154|dbj|BAF72657.1| RNA polymerase sigma 70 factor [Sulfurovum sp. NBC37-1] Length = 612 Score = 295 bits (756), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 138/264 (52%), Positives = 198/264 (75%), Gaps = 3/264 (1%) Query: 421 GISISE--FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 G +SE + I+ +R+G+ ++ +AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGN Sbjct: 348 GFDLSEEKLQAILEQIRQGKAKSEVAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGN 407 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ Sbjct: 408 IGLMKAVDKFEYEKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRK 467 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + +EP E IAK++ + V+ V+ V+KITKEP+SLETP+GDED GDFIEDK + Sbjct: 468 HLQETGKEPDLETIAKEVGLTVDKVKNVIKITKEPVSLETPVGDEDDGRFGDFIEDKTTL 527 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIR 657 SP D+ ++ +L VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+R Sbjct: 528 SPTDAVLKDDLNNQIDEVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVR 587 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIE+ AI+KLKHP +KL+++++ Sbjct: 588 QIESSAIKKLKHPKVGRKLKNYIE 611 Score = 58.2 bits (139), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 40/58 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E E+ ++KRIE G +++ ++C P ++ +++ L Sbjct: 101 SDSPVRMYLREMGKIPLLTKEEEVDLSKRIEEGEDIIIDAICSVPYLIGYILNYKEPL 158 >gi|210633964|ref|ZP_03297935.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279] gi|210159008|gb|EEA89979.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279] Length = 445 Score = 295 bits (756), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 206 AKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEKGFKFSTYATWW 265 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+PTPEEI ++ M + V Sbjct: 266 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEIGAEMDMSADRV 325 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV P D+A + L+E T+VL L R Sbjct: 326 REIQKISQEPVSLETPIGEEEDSQLGDFIEDAQAVVPADAASFSMLQEQLTQVLDGLAER 385 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 386 ERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 443 Score = 44.3 bits (103), Expect = 0.067, Method: Compositional matrix adjust. Identities = 39/159 (24%), Positives = 67/159 (42%), Gaps = 37/159 (23%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD----- 82 D + +K++ L + G VT +E+ L +V+ Q+ L + G+ +V ++ Sbjct: 13 DTTIEKLLNLGSKAGSVTEDEIQIVLKDVDVTDAQLTSIYQFLRDRGVEIVSANEDDESE 72 Query: 83 --------------LEDEEGSEDSLDLASSASNSSVFLQKRKDSA--------------D 114 DE + L +A A + +K + D Sbjct: 73 LVVDDDDRDAMDDLDGDESDEDHDLKMAKQADAEMASTKSKKKARTVRTTRSRSRTRGID 132 Query: 115 RST----DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ST DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 133 ASTVMLTGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAG 171 >gi|257457793|ref|ZP_05622954.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] gi|257444843|gb|EEV19925.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] Length = 607 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 146/256 (57%), Positives = 190/256 (74%), Gaps = 7/256 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E RH +M++K AK +++ ANLRLV+S+AKKYTNRGL F DL+QEGNIGL+KA Sbjct: 358 EIRHGHAMLKK-------AKDKLINANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAV 410 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R +R++ K R Sbjct: 411 EKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLMQKFGR 470 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPT EEIA +L VE V++V + +EPISLETPIG+E+ S LGDFIEDK+ +P + Sbjct: 471 EPTDEEIAVQLGWNVERVKQVKNVAREPISLETPIGEEEDSSLGDFIEDKDVENPSNLTE 530 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L+E VL+ L RE+ VL+MRFG+ TLEEVG F VTRERIRQIEAKA+R Sbjct: 531 YILLQEQLRSVLSCLPLREQEVLKMRFGLDEGYALTLEEVGLYFNVTRERIRQIEAKALR 590 Query: 666 KLKHPSRSKKLRSFLD 681 +L+HP +S KL+ +LD Sbjct: 591 RLRHPKQSTKLKDYLD 606 Score = 47.0 bits (110), Expect = 0.009, Method: Compositional matrix adjust. Identities = 40/160 (25%), Positives = 75/160 (46%), Gaps = 22/160 (13%) Query: 23 VFDFSDDSWK-KMIKLARQRGYVTIEELNAFLPPDEVSSEQ-MEDTVAMLSNMGINVVDG 80 + D S+D K+I A++ +T +EL+ LP SSE M++ + +L I V+D Sbjct: 1 MIDISEDPIIIKLIAHAKEHKTLTWDELSDLLPEKMTSSETVMDEILDLLEQEQIQVIDD 60 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRS--------------------TDDP 120 E+++ D LD + +F + +S + DDP Sbjct: 61 AVEENDDVFADELDEVELEAEEQLFEEAELESGNEPEFSKPEDTHKKLLNNDREAIVDDP 120 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 +++YLR++G LL+ E E+ ++K +E G ++ ++ S Sbjct: 121 IKLYLRDIGKENLLTAEQEVILSKAMEDGENIIKNAIKNS 160 >gi|261407775|ref|YP_003244016.1| RpoD subfamily RNA polymerase sigma-70 factor [Paenibacillus sp. Y412MC10] gi|329927238|ref|ZP_08281536.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] gi|261284238|gb|ACX66209.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus sp. Y412MC10] gi|328938638|gb|EGG35021.1| RNA polymerase sigma factor RpoD [Paenibacillus sp. HGF5] Length = 316 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+A++Y RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 79 AKRRLAEANLRLVVSIARRYAGRGMQFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+VR +R++ ++ REPTPEEI K++ + E V Sbjct: 139 IRQAITRSIADQARTIRIPVHMVETINKLVRVSRQLLQELGREPTPEEIGKEMDISPEKV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ K+++EP+SLETP+G+E S+LGDFIED++A++P D+A L+E VL +LT R Sbjct: 199 REIQKVSQEPVSLETPVGEESDSNLGDFIEDQDALAPADAAAFELLKEQLEEVLDTLTER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 259 EENVLRLRFGLEDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 316 Score = 42.4 bits (98), Expect = 0.25, Method: Compositional matrix adjust. Identities = 21/44 (47%), Positives = 29/44 (65%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DPVRMYL+E+G + LLS + E+ ++KRIE G L E+ L Sbjct: 45 DPVRMYLKEIGRVPLLSADEEVELSKRIEEGDEEAKRRLAEANL 88 >gi|315647917|ref|ZP_07901018.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] gi|315276563|gb|EFU39906.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein [Paenibacillus vortex V453] Length = 316 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 145/238 (60%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + EANLRLV+S+A++Y RG+QFLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 79 AKRRLAEANLRLVVSIARRYAGRGMQFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+K+VR +R++ ++ REPTPEEI K++ + E V Sbjct: 139 IRQAITRSIADQARTIRIPVHMVETINKLVRVSRQLLQELGREPTPEEIGKEMDITPEKV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ K+++EP+SLETP+G+E S+LGDFIED++A++P D+A L+E VL +LT R Sbjct: 199 REIQKVSQEPVSLETPVGEESDSNLGDFIEDQDALAPADAAAFELLKEQLEEVLDTLTER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 259 EENVLRLRFGLEDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 316 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 21/44 (47%), Positives = 29/44 (65%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DPVRMYL+E+G + LLS + E+ ++KRIE G L E+ L Sbjct: 45 DPVRMYLKEIGRVPLLSADEEVELSKRIEEGDEEAKRRLAEANL 88 >gi|332975851|gb|EGK12729.1| DNA-directed RNA polymerase sigma subunit SigA [Desmospora sp. 8437] Length = 372 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 152/273 (55%), Positives = 206/273 (75%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 103 VRMYLKEIGRVPLLSAEEEVELAKRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 159 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 160 LFLDLIQEGNMGLIKAVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 219 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R +R++ ++ REP+PEEIA+++ + E VR+++KI +EP+SLETPIG+ED SHL Sbjct: 220 INKLIRVSRQLLQELGREPSPEEIAEEMDLSPEKVREIMKIAQEPVSLETPIGEEDDSHL 279 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFI D +A +P D+A L+E VL +L+ REE VLR+RFG+ TLEEVGK Sbjct: 280 GDFIPDDDAQAPADAAAYELLKEQLKDVLDTLSDREENVLRLRFGLDDGRTRTLEEVGKV 339 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 340 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 37/132 (28%), Positives = 66/132 (50%), Gaps = 10/132 (7%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++ L ++RG +T +E+ + + +Q+++ L+ GI V++ DD + Sbjct: 21 RLTDLGKKRGVLTYKEITEKMSVFDQEPQQVDEFFEALNEQGIEVLNEDD--------EP 72 Query: 93 LDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ + + L + S +DPVRMYL+E+G + LLS E E+ +AKRIE G Sbjct: 73 MEFSDEEEEENDELLEDDLSVPPGVKINDPVRMYLKEIGRVPLLSAEEEVELAKRIEEGD 132 Query: 151 AMMMASLCESPL 162 L E+ L Sbjct: 133 EEAKRRLAEANL 144 >gi|291543225|emb|CBL16334.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Ruminococcus sp. 18P13] Length = 360 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 144/240 (60%), Positives = 192/240 (80%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S AKK + EANLRLV+S+AKKY RG+QFLDLIQEGN+GL+KA +KFD+ G+KFSTYA Sbjct: 121 SYAKKRLSEANLRLVVSIAKKYVGRGMQFLDLIQEGNLGLIKAVDKFDYTKGFKFSTYAT 180 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ+ TIRIPVHM + I KV + ++ ++ EPT +EIA++L MPVE Sbjct: 181 WWIRQAITRAIADQARTIRIPVHMVETITKVKKIISQLLHETGHEPTADEIAERLEMPVE 240 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR++++I ++P+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL++LT Sbjct: 241 KVREIMRIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAASLILLKEQLNEVLSTLT 300 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +VL++RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HPSRSKK++ FLD Sbjct: 301 EREAKVLKLRFGLEDGRSRTLEEVGREFEVTRERIRQIEAKALRKLRHPSRSKKVKDFLD 360 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 39/139 (28%), Positives = 68/139 (48%), Gaps = 15/139 (10%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG----DDL 83 ++S +I+ A+ G ++ ELN ++ +EQ++ N I +V+ DL Sbjct: 5 NESIDALIERAKASGKLSTRELNDAFERFDLDAEQIDSFYETCINNNIEIVEDFMPDTDL 64 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 + S+ S DL + S + + DDPV++YL+E+G + LLS E EI +A Sbjct: 65 KLGLDSDLSDDLEMALSTEGI-----------AIDDPVKIYLKEIGRVPLLSAEEEIELA 113 Query: 144 KRIEAGRAMMMASLCESPL 162 +R+ G + L E+ L Sbjct: 114 QRMSKGDSYAKKRLSEANL 132 >gi|271963879|ref|YP_003338075.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270507054|gb|ACZ85332.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 392 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 138/268 (51%), Positives = 203/268 (75%), Gaps = 8/268 (2%) Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 K SV + ++ EF+ +V + + AK+ ++EANLRLV+S+AK+Y RG+ FLDL Sbjct: 133 KLTSVVSRLAFPEFKELV-------WQGTRAKQRLIEANLRLVVSIAKRYVGRGMLFLDL 185 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGN+GL++A EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+V Sbjct: 186 IQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLV 245 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 R R++ + REP PEEIA ++ +P++ V ++ +I +EP+SL++PIG+ED S LGDFIE Sbjct: 246 RVQRQLHQDLGREPAPEEIALEMDLPIDRVIEIQRIAQEPVSLQSPIGEED-SDLGDFIE 304 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 D +AV P+++A L++ +LA+L+ RE+R++++RFG+ TLEEVG++F VTR Sbjct: 305 DADAVVPMEAAAFIMLQDQLDDILATLSDREQRIIQLRFGLADGHPRTLEEVGREFGVTR 364 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ERIRQIE+K + KL+HP+R++ LR +LD Sbjct: 365 ERIRQIESKTLAKLRHPTRAQMLRDYLD 392 Score = 59.3 bits (142), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 41/123 (33%), Positives = 63/123 (51%), Gaps = 17/123 (13%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S D ++ R+RG VT++++ A L E+ S+ +E V ML+ G+ V++ E+E Sbjct: 22 SVDQVADLVAKGRERGSVTVDDVAAALDKSELPSDALERVVRMLAEHGVEVLEPQG-EEE 80 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 D D+ A S D VR+YLRE+G + LL+ E E+ +AK I Sbjct: 81 TTRSDEEDVGKRAPTS----------------DLVRIYLREIGRVPLLTAEEEVELAKSI 124 Query: 147 EAG 149 EAG Sbjct: 125 EAG 127 >gi|254302832|ref|ZP_04970190.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323024|gb|EDK88274.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 418 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 152/306 (49%), Positives = 210/306 (68%), Gaps = 10/306 (3%) Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSM 433 E +P ++ +D E E N + + K+ IK E G ++ E Sbjct: 116 EFNPEYI---EDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYAKR 172 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +G+ EAS K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ G Sbjct: 173 AYEGDEEAS---KKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKG 229 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A Sbjct: 230 YKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILA 289 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L M VE ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE Sbjct: 290 ERLGMEVEKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREEL 349 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR Sbjct: 350 DAVLKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRK 409 Query: 674 KKLRSF 679 KKL F Sbjct: 410 KKLEDF 415 Score = 45.8 bits (107), Expect = 0.023, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ + EI A Sbjct: 127 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHDEEIEYA 170 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KR G L ES L + I + N G LL I E IG F T Sbjct: 171 KRAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 227 Query: 204 EGHSY 208 +G+ + Sbjct: 228 KGYKF 232 >gi|139436983|ref|ZP_01771143.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC 25986] gi|133776630|gb|EBA40450.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC 25986] Length = 454 Score = 295 bits (755), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 186/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 216 AKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYQKGFKFSTYATWW 275 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+PTPEEI ++ M + V Sbjct: 276 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEIGAEMDMSADRV 335 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED A+ P D+A + L+E T+VL SL R Sbjct: 336 REIQKISQEPVSLETPIGEEEDSQLGDFIEDSQAIVPPDAASFSMLQEQLTQVLDSLADR 395 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +++ Sbjct: 396 ERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYIE 453 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 149 TGDPVRMYLKEIGKVDLLTASEEVDLAMKIEAG 181 >gi|159896548|ref|YP_001542795.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159889587|gb|ABX02667.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 400 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 138/238 (57%), Positives = 183/238 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + ANLRLV+SVAKKY RGL LDLIQEGN+GL++A EKF++ G+KFSTYA WW Sbjct: 163 AREHLTTANLRLVVSVAKKYIGRGLSLLDLIQEGNVGLIRAVEKFNYTKGFKFSTYATWW 222 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I++++RTARR++ + REP+ EE+A+ L + VE V Sbjct: 223 IRQAITRAIADQARTIRIPVHMVETINRMMRTARRLTQENGREPSDEELAQALDLTVEKV 282 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + EP+SLETP+G E+ S LGDF+ D+ +P D+A LRE +VL LT R Sbjct: 283 RSIRKTSMEPVSLETPVGQEEDSQLGDFLPDEKLEAPSDAASHQMLREQVAQVLDQLTER 342 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+RVL++RFG+ T TLEEVGK+F VTRERIRQIE KA+RKL+HP KKLR +L+ Sbjct: 343 EKRVLKLRFGLEDGTQRTLEEVGKEFGVTRERIRQIEVKALRKLRHPRFGKKLRDYLE 400 Score = 44.7 bits (104), Expect = 0.049, Method: Compositional matrix adjust. Identities = 39/137 (28%), Positives = 64/137 (46%), Gaps = 20/137 (14%) Query: 19 DDSLVFDFSDD-----SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 D L D +DD + ++ ++RGYVT E+ + +Q+E+ L Sbjct: 9 DSELAGDETDDFPALRTLSDLLATGKKRGYVTPGEIQQIIDSQRDEDKQLEEIRDTLQKA 68 Query: 74 GINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIE 132 I V + GDD ++ SE+ + SN + S +D VR+YLRE+G + Sbjct: 69 NIRVEETGDDDDEITVSENP---EADFSNEGI-----------SVNDTVRLYLREIGLVP 114 Query: 133 LLSREGEIAIAKRIEAG 149 LL E E+ +A+ +E G Sbjct: 115 LLKGEQEVELARAMEDG 131 >gi|229815176|ref|ZP_04445512.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM 13280] gi|229809186|gb|EEP44952.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM 13280] Length = 448 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 209 AKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEKGFKFSTYATWW 268 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+PTPEEI ++ M + V Sbjct: 269 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEIGAEMDMSADRV 328 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV P D+A + L+E T+VL L R Sbjct: 329 REIQKISQEPVSLETPIGEEEDSQLGDFIEDAQAVVPADAASFSMLQEQLTQVLDGLAER 388 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+ +RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS KL+ +L+ Sbjct: 389 ERKVIELRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSSKLKDYLE 446 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 142 TGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAG 174 >gi|237804965|ref|YP_002889119.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT] gi|231273265|emb|CAX10180.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT] Length = 571 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 194/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDGGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP + EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDTPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|315638945|ref|ZP_07894116.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter upsaliensis JV21] gi|315480974|gb|EFU71607.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter upsaliensis JV21] Length = 657 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 137/259 (52%), Positives = 197/259 (76%), Gaps = 1/259 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 397 SRLKEILEQIKRGKKISDEAKGRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKA 456 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R K Sbjct: 457 VDKFEYKRGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINQINKIIREHLQKNG 516 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP +IAK++ + V+ V++V+KITKEPISLE PIG ED GDF+EDKN++SP+D+ Sbjct: 517 KEPDVNDIAKEVGLSVDKVKQVIKITKEPISLEAPIGSEDDGKFGDFVEDKNSLSPMDNI 576 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+E VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 577 LKDDLKEQIDEVLDQLNDREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSA 636 Query: 664 IRKLKHPSRSKKLRSFLDG 682 I+KLKHP +KL+++++G Sbjct: 637 IKKLKHPKVGRKLKNYIEG 655 >gi|15605346|ref|NP_220132.1| RNA polymerase sigma factor [Chlamydia trachomatis D/UW-3/CX] gi|76789354|ref|YP_328440.1| RNA polymerase sigma factor [Chlamydia trachomatis A/HAR-13] gi|166154830|ref|YP_001654948.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu] gi|166155705|ref|YP_001653960.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|255311437|ref|ZP_05354007.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276] gi|255317738|ref|ZP_05358984.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276s] gi|255348997|ref|ZP_05381004.1| RNA polymerase sigma factor [Chlamydia trachomatis 70] gi|255503536|ref|ZP_05381926.1| RNA polymerase sigma factor [Chlamydia trachomatis 70s] gi|255507214|ref|ZP_05382853.1| RNA polymerase sigma factor [Chlamydia trachomatis D(s)2923] gi|301336109|ref|ZP_07224353.1| RNA polymerase sigma factor [Chlamydia trachomatis L2tet1] gi|1710679|sp|P18333|RPOD_CHLTR RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Sigma-66; AltName: Full=Sigma-70 gi|144609|gb|AAA23165.1| RNA polymerase sigma-subunit [Chlamydia trachomatis] gi|3329060|gb|AAC68218.1| RNA Polymerase Sigma-66 [Chlamydia trachomatis D/UW-3/CX] gi|76167884|gb|AAX50892.1| RpoD [Chlamydia trachomatis A/HAR-13] gi|165930818|emb|CAP04316.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu] gi|165931693|emb|CAP07270.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|289525658|emb|CBJ15139.1| RNA polymerase sigma factor [Chlamydia trachomatis Sweden2] gi|296435222|gb|ADH17400.1| RNA polymerase sigma factor [Chlamydia trachomatis E/150] gi|296436151|gb|ADH18325.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9768] gi|296438011|gb|ADH20172.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11074] gi|296438941|gb|ADH21094.1| RNA polymerase sigma factor [Chlamydia trachomatis E/11023] gi|297140513|gb|ADH97271.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9301] gi|297748745|gb|ADI51291.1| RpoD [Chlamydia trachomatis D-EC] gi|297749625|gb|ADI52303.1| RpoD [Chlamydia trachomatis D-LC] Length = 571 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 194/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDGGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP + EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDTPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|296437079|gb|ADH19249.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11222] Length = 571 Score = 295 bits (754), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 194/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDGGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP + EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDTPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|256027745|ref|ZP_05441579.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] gi|260494274|ref|ZP_05814405.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_33] gi|289765702|ref|ZP_06525080.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] gi|260198420|gb|EEW95936.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_33] gi|289717257|gb|EFD81269.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D11] Length = 416 Score = 294 bits (753), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 150/298 (50%), Positives = 206/298 (69%), Gaps = 7/298 (2%) Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVRKGECEA 441 Y +D E E N + + K+ IK E G ++ E +G+ EA Sbjct: 119 YIEDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYAKRAYEGDEEA 178 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA Sbjct: 179 S---KKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYAT 235 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L M V+ Sbjct: 236 WWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVD 295 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE VL +L+ Sbjct: 296 KIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDAVLKTLS 355 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 356 PREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLEDF 413 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ + EI A Sbjct: 125 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHDEEIEYA 168 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KR G L ES L + I + N G LL I E IG F T Sbjct: 169 KRAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 225 Query: 204 EGHSY 208 +G+ + Sbjct: 226 KGYKF 230 >gi|331001843|ref|ZP_08325365.1| hypothetical protein HMPREF0491_00227 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412817|gb|EGG92200.1| hypothetical protein HMPREF0491_00227 [Lachnospiraceae oral taxon 107 str. F0167] Length = 389 Score = 294 bits (753), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 186/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K M E+NLRLV+S+AK+Y RG+Q LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 152 AAKRMAESNLRLVVSIAKRYMGRGMQLLDLIQEGNLGLLRAVEKFDYKKGFKFSTYATWW 211 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + I+++++T R++ + REP+PEE+AK++ + V V Sbjct: 212 IRQAITRSIADQARTIRIPVHMVETINRLIKTQRKLVQILGREPSPEEVAKEMNISVPKV 271 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ EP+S+ETPIGDED SHLGDF++D NA P++ A+ L + V+ LT R Sbjct: 272 REIMSFALEPVSMETPIGDEDDSHLGDFLQDYNAKVPVNFAMDVLLHDQLMDVIKLLTER 331 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++V+ +RFG+ TLEEVGK F +TRERIRQIEAK++RKL++PS+SK+LR FL+ Sbjct: 332 EQKVILLRFGLEDGKPRTLEEVGKVFGITRERIRQIEAKSLRKLRNPSKSKRLRDFLE 389 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 43/136 (31%), Positives = 58/136 (42%), Gaps = 19/136 (13%) Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 DGD +DE ED DL N L D S +DP++MYL+E+G I LL+ + Sbjct: 80 DGD-FDDEFNEEDIKDLRDIDLN---VLDDLNDYV--SIEDPIKMYLKEIGKIPLLNVDD 133 Query: 139 EIAIAKRI----EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPE 194 E+ +AK+I E+ R + ES L I R + G LL I E Sbjct: 134 EMDLAKKISDPDESIRKEAAKRMAESNLRLVVSIAKR-YMGRGMQLLDLI--------QE 184 Query: 195 SKGGFFHGTEGHSYQK 210 G E Y+K Sbjct: 185 GNLGLLRAVEKFDYKK 200 >gi|313113550|ref|ZP_07799138.1| RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] gi|310624065|gb|EFQ07432.1| RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] Length = 377 Score = 294 bits (753), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 142/249 (57%), Positives = 191/249 (76%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R + A++++ EANLRLV+SVAK+Y RGL FLDLIQEGN+GLMKAAEKF+ Sbjct: 128 LARAAQAGDEDARRKLSEANLRLVVSVAKRYAGRGLPFLDLIQEGNLGLMKAAEKFEPER 187 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++Q+ITR+IADQ TIRIPVH+ + I++V + + K REPT EEI Sbjct: 188 GFKFSTYATWWIRQSITRAIADQGRTIRIPVHLVESINRVKKMTGDLLRKNGREPTAEEI 247 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L M + VR++L++ ++PISLETP+G+E+ +HL DFI+D++A P+D A + LR Sbjct: 248 AVQLDMEPDRVRELLQLAQDPISLETPVGEEEDAHLEDFIQDEDAGVPVDEAGRQLLRRE 307 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL SLTPREERV+ +RFG+ HTLEE+GK+F VTRER+RQIEAKA+RKL+HPSR Sbjct: 308 LFSVLKSLTPREERVIALRFGLEDGRAHTLEELGKEFNVTRERVRQIEAKALRKLRHPSR 367 Query: 673 SKKLRSFLD 681 +K+LR +LD Sbjct: 368 AKRLRDYLD 376 >gi|237744142|ref|ZP_04574623.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 7_1] gi|229431371|gb|EEO41583.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 7_1] Length = 417 Score = 294 bits (753), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 150/298 (50%), Positives = 206/298 (69%), Gaps = 7/298 (2%) Query: 386 YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVRKGECEA 441 Y +D E E N + + K+ IK E G ++ E +G+ EA Sbjct: 120 YIEDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYAKRAYEGDEEA 179 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA Sbjct: 180 S---KKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYAT 236 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L M V+ Sbjct: 237 WWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVD 296 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE VL +L+ Sbjct: 297 KIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDAVLKTLS 356 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 357 PREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLEDF 414 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ + EI A Sbjct: 126 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHDEEIEYA 169 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 KR G L ES L + I + N G LL I E IG F T Sbjct: 170 KRAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 226 Query: 204 EGHSY 208 +G+ + Sbjct: 227 KGYKF 231 >gi|257438255|ref|ZP_05614010.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] gi|257199332|gb|EEU97616.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] Length = 359 Score = 294 bits (752), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 142/251 (56%), Positives = 192/251 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R + + A++++ EANLRLV+SVAK+Y RGL FLDLIQEGN+GLMKAAEKF+ Sbjct: 108 LELARAAQAGDADARRKLSEANLRLVVSVAKRYAGRGLPFLDLIQEGNLGLMKAAEKFEP 167 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q+ITR+IADQ IRIPVH+ + I++V +TA + K REPT E Sbjct: 168 DRGFRFSTYATWWIRQSITRAIADQGRVIRIPVHLVESINRVKKTAGELLRKNGREPTAE 227 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA +L M + VR++L++ ++PISLETP+G+E+ +HL DFI+D+ A P+D A + LR Sbjct: 228 EIAVRLDMEPDRVRELLQLAQDPISLETPVGEEEDAHLEDFIQDEEAGVPVDEAGRELLR 287 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 VL SLTPREERVL +RFG+ TLEE+GK+F VTRERIRQIEAKA+RKL+HP Sbjct: 288 RELANVLKSLTPREERVLTLRFGLEDGQARTLEELGKEFNVTRERIRQIEAKALRKLRHP 347 Query: 671 SRSKKLRSFLD 681 SR+K+LR +L+ Sbjct: 348 SRAKRLRDYLE 358 Score = 38.1 bits (87), Expect = 4.5, Method: Compositional matrix adjust. Identities = 19/49 (38%), Positives = 30/49 (61%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 + DDPV+ YL+E+G + LL+ E E+ +A+ +AG A L E+ L Sbjct: 84 ALDDPVKAYLKEIGRVPLLTMEQELELARAAQAGDADARRKLSEANLRL 132 >gi|256845590|ref|ZP_05551048.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_36A2] gi|294785121|ref|ZP_06750409.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_27] gi|256719149|gb|EEU32704.1| RNA polymerase sigma factor RpoS [Fusobacterium sp. 3_1_36A2] gi|294486835|gb|EFG34197.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_27] Length = 418 Score = 294 bits (752), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 151/306 (49%), Positives = 210/306 (68%), Gaps = 10/306 (3%) Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSM 433 E +P ++ +D E E N + + K+ IK E G ++ E Sbjct: 116 EFNPEYI---EDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYAKK 172 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +G+ EAS K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ G Sbjct: 173 AYEGDEEAS---KKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKG 229 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A Sbjct: 230 YKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILA 289 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L M V+ ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE Sbjct: 290 ERLGMEVDKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREEL 349 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR Sbjct: 350 DAVLKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRK 409 Query: 674 KKLRSF 679 KKL F Sbjct: 410 KKLEDF 415 Score = 44.7 bits (104), Expect = 0.048, Method: Compositional matrix adjust. Identities = 39/125 (31%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ + EI A Sbjct: 127 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHDEEIEYA 170 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 K+ G L ES L + I + N G LL I E IG F T Sbjct: 171 KKAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 227 Query: 204 EGHSY 208 +G+ + Sbjct: 228 KGYKF 232 >gi|218282286|ref|ZP_03488585.1| hypothetical protein EUBIFOR_01167 [Eubacterium biforme DSM 3989] gi|218216721|gb|EEC90259.1| hypothetical protein EUBIFOR_01167 [Eubacterium biforme DSM 3989] Length = 409 Score = 294 bits (752), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 141/238 (59%), Positives = 184/238 (77%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ +NLRLV+S+AKKY RG+ FLDLIQEGN GL+KA EKFD+ G+KFSTYA WW Sbjct: 171 AKQTLISSNLRLVVSIAKKYVGRGMLFLDLIQEGNCGLIKAVEKFDYTKGFKFSTYATWW 230 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++Q+ITR+IADQ+ TIRIPVHM + I+K+ R R++ + R+P PEEIA+K+ + E Sbjct: 231 IRQSITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPMPEEIAEKMENISAEK 290 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR++ KI +P+SLETPIG+ED SHLGDFIEDK+ +SP D L++ VL LT Sbjct: 291 VREIQKIALDPVSLETPIGEEDDSHLGDFIEDKDTLSPDDYTNNQLLKDEINAVLQGLTE 350 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKLK+P+R K+LR F+ Sbjct: 351 REEKVLRLRFGLLDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKNPNRCKRLRDFV 408 >gi|237803044|ref|YP_002888238.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT] gi|231274278|emb|CAX11073.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT] Length = 571 Score = 294 bits (752), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 146/264 (55%), Positives = 193/264 (73%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 291 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 350 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 351 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 410 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EPTPEE+ ++L + VR++ KI + PISL+ +GD S GDF+ED Sbjct: 411 KLMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDGGESSFGDFLEDTAV 470 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP + + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 471 ESPAEVTGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERIR 530 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 531 QIEAKALRKMRHPIRSKQLRAFLD 554 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 42/121 (34%), Positives = 73/121 (60%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+ +G++T EE+N LPP + EQ++ + L+ M + V++ D+E +E +++ Sbjct: 26 LVTLAKDQGFITYEEINEILPPSFDTPEQIDQVLIFLAGMDVQVLNQADVERQKERKKEA 85 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A S + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 86 KELEGLAKRS-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 134 Query: 153 M 153 + Sbjct: 135 I 135 >gi|291522892|emb|CBK81185.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7] Length = 366 Score = 293 bits (751), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 137/250 (54%), Positives = 189/250 (75%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK ++EANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 115 VELSKRAEAGDQKAKDRIIEANLRLVVSIAKKYVGRGIPFLDLIQEGNMGLIKAVEKFDY 174 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++Q+ITR IAD+ TIR+PVHM + I+K +R +R + ++ REPT E Sbjct: 175 AKGFKFSTYATWWIRQSITRGIADKGKTIRVPVHMVETINKTLRMSRNLLQELGREPTSE 234 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L + V + L+I+++P+S+++PIG+E+ S LGDFIED+N +SP DSA L+ Sbjct: 235 EIAERLGTTKQKVEEALEISRDPVSMDSPIGEEEDSSLGDFIEDENMLSPSDSADYQMLK 294 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + L +LT RE +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 295 KELVNALDTLTDRERKVIELRFGLIDGQARTLEEVGKEFKVTRERIRQIEAKALRKLRHP 354 Query: 671 SRSKKLRSFL 680 SRS+KL+ FL Sbjct: 355 SRSRKLKDFL 364 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 21/34 (61%), Positives = 29/34 (85%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S +DPVRMYL+E+GS++LLS E E+ ++KR EAG Sbjct: 91 SLEDPVRMYLKEIGSVKLLSPEEEVELSKRAEAG 124 >gi|330444010|ref|YP_004376996.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pecorum E58] gi|328807120|gb|AEB41293.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pecorum E58] Length = 562 Score = 293 bits (751), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 145/264 (54%), Positives = 196/264 (74%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G ++ EF+ V M+++ ++ AKKEMVE+NLRLVIS+AKKYTNRGL FLDLIQEG Sbjct: 281 VAAGRTLEEFKKDVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEG 340 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N+GLMKA EKF++ GYKFSTYA WW++QA+TR+IADQ+ TIRIPVHM + I+KV+R A+ Sbjct: 341 NMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAK 400 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + +EP+PEE+A++L + + VR++ KI + PISL+ +G+ S GDF+ED Sbjct: 401 KLMMETGKEPSPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESAFGDFLEDTAV 460 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP ++ + L++ VL +LT RE VL RFG+ TLEEVG F VTRERIR Sbjct: 461 ESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIR 520 Query: 658 QIEAKAIRKLKHPSRSKKLRSFLD 681 QIEAKA+RK++HP RSK+LR+FLD Sbjct: 521 QIEAKALRKMRHPIRSKQLRAFLD 544 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 41/121 (33%), Positives = 72/121 (59%), Gaps = 12/121 (9%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE-DEEGSEDS 92 ++ LA+++G++T EE+N LP S EQ++ + L+ M I +++ D+E +E ++ Sbjct: 16 LVSLAKEQGFITYEEINEILPMSFDSPEQIDQVLIFLAGMDIQILNQIDVERQKERKKEV 75 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +L A + + + DDPVRMYL+EMG++ LL+RE E+ I+KRIE + Sbjct: 76 KELEGLAKRT-----------EGTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQ 124 Query: 153 M 153 + Sbjct: 125 I 125 >gi|51244645|ref|YP_064529.1| RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] gi|50875682|emb|CAG35522.1| probable RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] Length = 534 Score = 293 bits (751), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 143/262 (54%), Positives = 196/262 (74%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E+G S+ ++ V +G + AK+ +V ANLRLVISV+K++ NRGLQF DLIQEGN Sbjct: 271 ESGSSLQSLNELLKEVEEGRFISKEAKEALVRANLRLVISVSKRFVNRGLQFSDLIQEGN 330 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGLMKA EKFD+ G+KFSTYA WW++Q+ITR IADQ TIR+PVHM + I++++R ++ Sbjct: 331 IGLMKAVEKFDYRRGFKFSTYATWWIRQSITRGIADQGRTIRLPVHMIETINRMLRVSKD 390 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 + REP+ EE+A +L V+ V+ LKI K+ ISL+TP+GD+ ++LGDFI DKN + Sbjct: 391 FYLEEHREPSVEEVAGQLGTEVDKVKSALKIAKDAISLDTPVGDDGETYLGDFIVDKNCL 450 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P A+ A+L+E ++VL+SL+PREE+VL+MR+GI ++TLEEVG+ F VTRERIRQ Sbjct: 451 GPDGFAMVASLKECLSQVLSSLSPREEKVLKMRYGILEKREYTLEEVGRCFNVTRERIRQ 510 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 IEA+AI KLKHPSR L+ F+ Sbjct: 511 IEAQAISKLKHPSRCGDLKVFM 532 Score = 37.7 bits (86), Expect = 5.7, Method: Compositional matrix adjust. Identities = 19/61 (31%), Positives = 35/61 (57%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 +RK + D + +Y+REMGS++LL + E +A+ IE G+ + ++ +S L L Sbjct: 67 QRKQGDSTAAADSMNIYMREMGSLKLLKYDDERKLAQTIEKGKKQVQFAVLQSTLAMPIL 126 Query: 168 I 168 + Sbjct: 127 L 127 >gi|296327931|ref|ZP_06870466.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|296154887|gb|EFG95669.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 418 Score = 293 bits (751), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 148/303 (48%), Positives = 207/303 (68%), Gaps = 4/303 (1%) Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRK 436 E +P ++ +D E E N + + K+ IK E G + + + +K Sbjct: 116 EFNPEYI---EDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHEEEIDYAKK 172 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 A K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKF Sbjct: 173 AYEGDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKF 232 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L Sbjct: 233 STYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERL 292 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 M V+ ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE V Sbjct: 293 GMEVDKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDAV 352 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL Sbjct: 353 LKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKL 412 Query: 677 RSF 679 F Sbjct: 413 EDF 415 Score = 45.8 bits (107), Expect = 0.024, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ E EI A Sbjct: 127 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHEEEIDYA 170 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 K+ G L ES L + I + N G LL I E IG F T Sbjct: 171 KKAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 227 Query: 204 EGHSY 208 +G+ + Sbjct: 228 KGYKF 232 >gi|254750874|ref|ZP_05202913.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Vollum] Length = 359 Score = 293 bits (750), Expect = 7e-77, Method: Compositional matrix adjust. Identities = 146/259 (56%), Positives = 191/259 (73%), Gaps = 3/259 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 104 VRMYLKEIGRVDLLSAEEEIRLATRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 161 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 220 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 221 INKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHL 280 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIED+ A SP D A L+E VL +LT REE VLR+RFG+ TLEEVGK Sbjct: 281 GDFIEDQEATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 340 Query: 649 FCVTRERIRQIEAKAIRKL 667 F VTRERIRQIEAKA+RKL Sbjct: 341 FGVTRERIRQIEAKALRKL 359 Score = 60.8 bits (146), Expect = 8e-07, Method: Compositional matrix adjust. Identities = 44/139 (31%), Positives = 70/139 (50%), Gaps = 23/139 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG--- 88 +++ +L ++RG +T EE+ + E+ S+QM++ L GI++V +D EG Sbjct: 22 EQLTELGKKRGVLTYEEIAERMNGFEIESDQMDEYYEYLGEQGIDLVGDND----EGPNN 77 Query: 89 -----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 +E+ DL + V +DPVRMYL+E+G ++LLS E EI +A Sbjct: 78 HQITKTEEEFDLNDLSVPPGV-----------KINDPVRMYLKEIGRVDLLSAEEEIRLA 126 Query: 144 KRIEAGRAMMMASLCESPL 162 RIE G L E+ L Sbjct: 127 TRIEEGDEEAKRRLAEANL 145 >gi|260890619|ref|ZP_05901882.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] gi|260859664|gb|EEX74164.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] Length = 392 Score = 293 bits (749), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 140/246 (56%), Positives = 187/246 (76%), Gaps = 3/246 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V GE EA K++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGN+GLMKA EKF++ G Sbjct: 148 VLNGEEEA---KQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKG 204 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + + +EPT EE+A Sbjct: 205 FKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELA 264 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +KL +PVE V+ +L++ ++PISLETP+G E+ S LGDF+ED +P D+ + L+E Sbjct: 265 EKLELPVEKVKSILEMNQDPISLETPVGSEEDSELGDFVEDDKFANPYDATTRVLLKEQL 324 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L REE VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR Sbjct: 325 DEVLKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRR 384 Query: 674 KKLRSF 679 KKL + Sbjct: 385 KKLEDY 390 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 62/207 (29%), Positives = 91/207 (43%), Gaps = 38/207 (18%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG-------- 80 +S IK AR++ V+ EE+N+ L S+E+++ + L++ G+ +VD Sbjct: 10 NSLANFIKQAREQKVVSYEEINSVLSIG-FSTEKIDQLIKKLTDDGVQIVDTAREKEDLL 68 Query: 81 ---DDLE--------DEEGSEDSLDLASSASNSSV--FLQ----KRKDSADRSTDDPVRM 123 D +E D E S D + S +S V LQ K +S D D+P++M Sbjct: 69 KVPDSIEAIEKMEISDFEDSHDEF-VESEIDDSEVDKLLQTDLLKMAESMD--VDEPIKM 125 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLRE+G I LLS E EI A+R+ G L ES L + I + N G +L Sbjct: 126 YLREIGQIPLLSYEEEIDYAQRVLNGEEEAKQKLIESNLRL-VVSIAKKHTNRGLKMLDL 184 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQK 210 I E G E Y+K Sbjct: 185 I--------QEGNMGLMKAVEKFEYEK 203 >gi|325473907|gb|EGC77095.1| RNA polymerase sigma-70 factor family protein [Treponema denticola F0402] Length = 619 Score = 293 bits (749), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 148/290 (51%), Positives = 201/290 (69%), Gaps = 4/290 (1%) Query: 397 NFVACEVDSILK----IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 N A EV I + +I+ I + ++ E + S ++ G+ AK +++ AN Sbjct: 330 NISANEVKDIYTQIQVLTRKIRKIEYDFEATVDEVIDLTSEIKNGQRMLKNAKDKLINAN 389 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+S+AKKY NRGLQF DL+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI Sbjct: 390 LRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSI 449 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +DQ+ TIR+PVHM ++I+KV R +R++ K+ REP +EIA +L +E V++V + +E Sbjct: 450 SDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQVKNVARE 509 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETPIG+E+ + LGD IEDK +P + L+E VL+SL RE+ VL+MRF Sbjct: 510 PISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLLQEQLEMVLSSLPEREQEVLKMRF 569 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GI TLEEVG F VTRERIRQIEAK +R+L+HP RS+KL+ +LD Sbjct: 570 GIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRHPKRSRKLKDYLDN 619 Score = 38.5 bits (88), Expect = 4.3, Method: Compositional matrix adjust. Identities = 15/44 (34%), Positives = 32/44 (72%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 + S + DDP+++YL+E+G +LL+ + E++++K +E G A++ Sbjct: 122 RTSHEAGVDDPIKLYLQEIGKEDLLTADEEVSLSKSMEDGEAII 165 >gi|303233350|ref|ZP_07320019.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4] gi|302480479|gb|EFL43570.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4] Length = 441 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 185/237 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + ANLRL +S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 203 AKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 262 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ ++ R+P+PEEI K++ M + + Sbjct: 263 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGKEMNMSPDKI 322 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV+P D+A + LRE +VL SL R Sbjct: 323 REIQKISQEPVSLETPIGEEEDSSLGDFIEDSTAVAPPDAASDSMLREQLNQVLDSLADR 382 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V++ RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS +L+ ++ Sbjct: 383 ERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSARLKDYV 439 Score = 44.3 bits (103), Expect = 0.075, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 27/33 (81%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ + E+ +A +IEAG Sbjct: 136 TGDPVRMYLKEIGKVDLLTADDEVHLAMKIEAG 168 >gi|160945279|ref|ZP_02092505.1| hypothetical protein FAEPRAM212_02798 [Faecalibacterium prausnitzii M21/2] gi|158443010|gb|EDP20015.1| hypothetical protein FAEPRAM212_02798 [Faecalibacterium prausnitzii M21/2] gi|295105509|emb|CBL03053.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 360 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 142/234 (60%), Positives = 185/234 (79%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + EANLRLV+SVAK+Y RGL FLDLIQEGN+GLMKAAEKF+ G+KFSTYA WW++Q+ Sbjct: 126 LSEANLRLVVSVAKRYAGRGLPFLDLIQEGNLGLMKAAEKFEPERGFKFSTYATWWIRQS 185 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IADQ TIRIPVH+ + I++V +TA + +K REPT EEIA L M + VR++L Sbjct: 186 ITRAIADQGRTIRIPVHLVESINRVKKTAGDLLHKNGREPTVEEIAAALDMEPDKVRELL 245 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++++EPISLETP+G+E+ +HL DFI+D++A P+D A + LR VL SLTPREERV Sbjct: 246 QLSQEPISLETPVGEEEDAHLEDFIQDEDAGVPVDEAGRQLLRRELLHVLKSLTPREERV 305 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 + +RFG+ TLEE+GK+F VTRER+RQIEAKA+RKL+HPSR+K LR +LD Sbjct: 306 ITLRFGLEDGRARTLEELGKEFNVTRERVRQIEAKALRKLRHPSRAKLLRDYLD 359 >gi|290967746|ref|ZP_06559301.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str. 28L] gi|290782262|gb|EFD94835.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str. 28L] Length = 423 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 137/237 (57%), Positives = 187/237 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++ +ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW Sbjct: 187 AKKKLTDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVDKFDYSKGYKFSTYATWW 246 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ + R+P PEEIA+K+ +PVE V Sbjct: 247 IRQAITRAIADQARTIRIPVHMVETINKLIRISRQLIQEKGRDPLPEEIAEKMEIPVERV 306 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFIED+ AV+P D+A L+E V + LT R Sbjct: 307 REIMKIAQEPVSLETPIGEEEDSHLGDFIEDQEAVAPDDAASFILLKEQIEEVFSCLTDR 366 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +VL +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + +K++ FL Sbjct: 367 ERKVLYLRFGLKDGRPRTLEEVGQYFNVTRERIRQIEGKALGKLRNWGKREKIKDFL 423 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 37/120 (30%), Positives = 67/120 (55%), Gaps = 9/120 (7%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++++L +++G +T E+ + DE+++EQ++ ++ GI+++ EE + + Sbjct: 58 QLLRLGQKQGSLTYTEIMNVMEEDELTTEQIDKMYETFADKGIDIIG------EESNGNE 111 Query: 93 LDLASSASNSSVFLQKRKDSA---DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D S N V + D + + DDPVRMYL+E+G + LLS + EI +AK IE G Sbjct: 112 HDEISDTENEHVPDLRTVDLSVPEGINIDDPVRMYLKEIGRVPLLSADEEITLAKAIEKG 171 >gi|319789700|ref|YP_004151333.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] gi|317114202|gb|ADU96692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] Length = 563 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 177/437 (40%), Positives = 264/437 (60%), Gaps = 16/437 (3%) Query: 250 NAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEK 309 N E R++ DD A E Q R K +++I E+ E LQ +++ Sbjct: 137 NGEIKVRDIMRSPDDFAE---GGESQRRKKFFSIVEQIKELLPEFNRLQKQYYRNKRN-- 191 Query: 310 SSVKCKVLKE--KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA---QSYG 364 + VK LK K+ L+ L L+ S + L + +Y+ K + +E L +L+ G Sbjct: 192 AEVKRAYLKTWAKINGLLRQLPLSYSIYERLADDIYNKYKLLKKSERSLQKLSGKLSFLG 251 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI 424 + + R E+ A + E + V +D+ R+ ++S+ + + Sbjct: 252 LPIEEICHRLDDDEIREKID--ASRYTTREIRKMVKKYLDTKETYRSVLESLDMPRN-AF 308 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 E + +K EA K+ +V +NLRLV+S+AKKY NRGL FLDLIQEGNIGLMKA Sbjct: 309 YELAEKIYFYKKDSQEA---KQILVRSNLRLVVSIAKKYINRGLHFLDLIQEGNIGLMKA 365 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV++ +R+M ++ Sbjct: 366 VDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKVIKISRQMFQEMG 425 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REP PEEIA++L MP VR +L++ +EP+SLETPIGD++ S LG+FIED + P Sbjct: 426 REPKPEEIAERLKMPASKVRSILQLAQEPVSLETPIGDDEDSTLGNFIEDTKSPIPEQEV 485 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I+ +L+E +++L+ L+ RE VL++RFG+ +HTLE+VGK+ VTRERIRQIE+KA+ Sbjct: 486 IKKDLQEKVSQLLSQLSEREALVLKLRFGLDGYPEHTLEQVGKELKVTRERIRQIESKAL 545 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL++ + L FL+ Sbjct: 546 RKLRNSGLNIDLSIFLE 562 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 47/156 (30%), Positives = 87/156 (55%), Gaps = 14/156 (8%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 +++++I L +++GY+T +EL L + ++ E +E+ + L I ++ +EG Sbjct: 5 NFEEIIALGKEKGYITFDELMEHLDEEVLTPELIEELITQLDEYDIQIIP------KEG- 57 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ED +DL S + + D+ RS DDP+R+YLREM I LL R EI++AKR+E G Sbjct: 58 EDHVDL------SKLQITIAPDTIPRS-DDPIRLYLREMSGISLLKRHEEISLAKRVELG 110 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 R ++ L ++ ++ + + +G +R+I+ Sbjct: 111 RKALVRYLLKTSAVLNYVLEAEERIRNGEIKVRDIM 146 >gi|257126628|ref|YP_003164742.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptotrichia buccalis C-1013-b] gi|257050567|gb|ACV39751.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptotrichia buccalis C-1013-b] Length = 392 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 136/236 (57%), Positives = 183/236 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGN+GLMKA EKF++ G+KFSTYA WW Sbjct: 155 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 214 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + + +EPT EE+A+KL +PVE V Sbjct: 215 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAEKLELPVEKV 274 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L++ ++PISLETP+G E+ S LGDF+ED +P D+ + L+E VL +L R Sbjct: 275 KSILEMNQDPISLETPVGSEEDSELGDFVEDDKFANPYDATTRILLKEQLDEVLKTLNER 334 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL + Sbjct: 335 EEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLEDY 390 Score = 58.9 bits (141), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 64/206 (31%), Positives = 93/206 (45%), Gaps = 36/206 (17%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD------- 81 +S IK AR++ V+ EE+N+ L S+E++E + L++ G+ +VD Sbjct: 10 NSLANFIKQAREQKVVSYEEINSVLSIG-FSTEKIEQLIKKLTDDGVQIVDTKKEKEDLL 68 Query: 82 -------DLEDEEGS--EDSLD--LASSASNSSV--FLQ----KRKDSADRSTDDPVRMY 124 D+E E S ED+ D + S +S V LQ K +S D D+P++MY Sbjct: 69 KVPETLADIEKMEISDFEDTHDEFVESEIDDSEVDKLLQTDLLKMAESMD--VDEPIKMY 126 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 LRE+G I LLS E EI A+R+ G L ES L + I + N G +L I Sbjct: 127 LREIGQIPLLSYEEEIDYAQRVLDGEEEAKQKLIESNLRL-VVSIAKKHTNRGLKMLDLI 185 Query: 185 IDLEACIGPESKGGFFHGTEGHSYQK 210 E G E Y+K Sbjct: 186 --------QEGNMGLMKAVEKFEYEK 203 >gi|34763652|ref|ZP_00144580.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|237742311|ref|ZP_04572792.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 4_1_13] gi|27886661|gb|EAA23826.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|229429959|gb|EEO40171.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 4_1_13] Length = 340 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/306 (49%), Positives = 210/306 (68%), Gaps = 10/306 (3%) Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIVSM 433 E +P ++ +D E E N + + K+ IK E G ++ E Sbjct: 38 EFNPEYI---EDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYAKK 94 Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +G+ EAS K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ G Sbjct: 95 AYEGDEEAS---KKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKG 151 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A Sbjct: 152 YKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILA 211 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L M V+ ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE Sbjct: 212 ERLGMEVDKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREEL 271 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR Sbjct: 272 DAVLKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRK 331 Query: 674 KKLRSF 679 KKL F Sbjct: 332 KKLEDF 337 Score = 44.7 bits (104), Expect = 0.049, Method: Compositional matrix adjust. Identities = 39/125 (31%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ + EI A Sbjct: 49 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHDEEIEYA 92 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 K+ G L ES L + I + N G LL I E IG F T Sbjct: 93 KKAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 149 Query: 204 EGHSY 208 +G+ + Sbjct: 150 KGYKF 154 >gi|320355021|ref|YP_004196360.1| RpoD subfamily RNA polymerase sigma-70 factor [Desulfobulbus propionicus DSM 2032] gi|320123523|gb|ADW19069.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobulbus propionicus DSM 2032] Length = 533 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 142/260 (54%), Positives = 189/260 (72%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GIS F + + G A AK+ +V ANLRLVISV+KK+ NRG+Q DLIQEGNIG Sbjct: 272 GISWPAFIEVQQEIEIGRETARQAKETLVRANLRLVISVSKKFMNRGMQLPDLIQEGNIG 331 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA EK+D+ GYKFSTYA WW++QA+TR IADQ TIR+PVHM + I++++R ++ Sbjct: 332 LMKAVEKYDYKRGYKFSTYATWWIRQAVTRGIADQGRTIRLPVHMIETINRMLRFSKDFQ 391 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 REPTPEE+AK+L VE V+ LK K+ ISL+ P+ DE+ + L DFIED P Sbjct: 392 RIESREPTPEEMAKQLGTDVEKVQVALKTAKDAISLDAPVNDEEDTLLSDFIEDHAHPDP 451 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + +I +L+ +V+ SLTPREE+VLRMR+GI + DHTLEEVG+ F VTRERIRQIE Sbjct: 452 QEHSITESLKRCLCKVMGSLTPREEKVLRMRYGIEIGCDHTLEEVGQCFAVTRERIRQIE 511 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 A+A++KL+HP+RS+ L++F+ Sbjct: 512 AQALKKLRHPARSQDLQAFI 531 Score = 38.9 bits (89), Expect = 3.1, Method: Compositional matrix adjust. Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%) Query: 112 SADR----STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 S DR S+ DP+ +YLREMG+ LL E E+ +A+ +E G + +++ L AL Sbjct: 58 SGDRRGMGSSIDPMNIYLREMGNQRLLKHEEEMELARMVEEGETRIQSAVLRLTLGITAL 117 Query: 168 IIWRDELNDGTTLLREII 185 + L G + +I Sbjct: 118 NDLAENLLRGNVRINSVI 135 >gi|294782673|ref|ZP_06747999.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA] gi|294481314|gb|EFG29089.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA] Length = 500 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 153/308 (49%), Positives = 210/308 (68%), Gaps = 10/308 (3%) Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG----ISISEFRHIV 431 G E +P Y +D E E N + + K+ IK E G ++ E Sbjct: 196 GDEFNP---DYIEDINEEELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHDEEIEYA 252 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 +G+ EAS ++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ Sbjct: 253 KKAYEGDEEAS---QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYT 309 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE Sbjct: 310 KGYKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEI 369 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A++L M VE ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE Sbjct: 370 LAERLGMEVEKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILRE 429 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 VL +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPS Sbjct: 430 ELDGVLKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPS 489 Query: 672 RSKKLRSF 679 R KKL F Sbjct: 490 RKKKLEDF 497 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 31/91 (34%), Positives = 44/91 (48%), Gaps = 3/91 (3%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 D+P++MYLRE+G + LL+ + EI AK+ G L ES L + I + N G Sbjct: 227 DEPIKMYLREIGQVPLLTHDEEIEYAKKAYEGDEEASQKLIESNLRL-VVSIAKKHTNRG 285 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 LL I E IG F T+G+ + Sbjct: 286 LKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 314 >gi|262038195|ref|ZP_06011589.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] gi|261747776|gb|EEY35221.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] Length = 393 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 138/246 (56%), Positives = 189/246 (76%), Gaps = 3/246 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V KG+ EA K++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGN+GLMKA EKF++ G Sbjct: 149 VLKGDEEA---KQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKG 205 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + + +EPT EE++ Sbjct: 206 FKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELS 265 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 KKL +PV+ V+ +L++ ++PISLETP+G E+ S LGDF+ED ++P D+ + L+E Sbjct: 266 KKLEIPVDKVKNILEMNQDPISLETPVGSEEDSELGDFVEDDKFLNPYDATTRVLLKEQL 325 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L +L REE VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR Sbjct: 326 DEILKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRR 385 Query: 674 KKLRSF 679 KKL + Sbjct: 386 KKLEDY 391 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 59/203 (29%), Positives = 91/203 (44%), Gaps = 39/203 (19%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-------------- 79 ++K A++ V+ EE+N+ L S+++++ + L + G+N+VD Sbjct: 15 LMKQAKEEKIVSYEEINSILSVG-FSTQKIDQLIKKLQDDGVNIVDTLKDKQELLKVNKI 73 Query: 80 -GDDLE-----DEEGSEDSLDLASSASNSSV--FLQ----KRKDSADRSTDDPVRMYLRE 127 +DLE D + SED + + +S V LQ K +S D D+P++MYLRE Sbjct: 74 LSEDLEKVEVVDFDDSEDEF-VENEIDDSEVDKLLQTDLLKMAESMD--VDEPIKMYLRE 130 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDL 187 +G I LLS E EI A+R+ G L ES L + I + N G +L I Sbjct: 131 IGQIPLLSYEEEIDYAQRVLKGDEEAKQKLIESNLRL-VVSIAKKHTNRGLKMLDLI--- 186 Query: 188 EACIGPESKGGFFHGTEGHSYQK 210 E G E Y+K Sbjct: 187 -----QEGNMGLMKAVEKFEYEK 204 >gi|320537364|ref|ZP_08037319.1| RNA polymerase sigma factor RpoD [Treponema phagedenis F0421] gi|320145829|gb|EFW37490.1| RNA polymerase sigma factor RpoD [Treponema phagedenis F0421] Length = 604 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 145/277 (52%), Positives = 196/277 (70%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I KI ++ I + +I + + + +G AK +++ ANLRLV+S+AKKYTN Sbjct: 328 IQKITRRLRKIEYDFENNIDDIIVMAREIHRGHTMLKKAKDKLINANLRLVVSIAKKYTN 387 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL F DL+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM Sbjct: 388 RGLLFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM 447 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 ++I+KV R +R++ K+ R+PT EEIA +L VE V++V + +EPISLETPIG+E+ Sbjct: 448 IEQINKVARESRQLLQKLGRDPTDEEIATQLCWTVEKVKQVKNVAREPISLETPIGEEED 507 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDFI D +P + + LRE VL++L RE VL+MRFG+ + TLEEV Sbjct: 508 SSLGDFIPDTEIENPSNVTEKILLREEVQSVLSTLPSREHEVLKMRFGLDGDYSQTLEEV 567 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 G F VTRERIRQIEAKA+R+L+HP S++L+ FLD Sbjct: 568 GLYFDVTRERIRQIEAKALRRLRHPRHSRRLKDFLDN 604 Score = 43.9 bits (102), Expect = 0.092, Method: Compositional matrix adjust. Identities = 32/136 (23%), Positives = 69/136 (50%), Gaps = 13/136 (9%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVA-MLSNMGINVVDGDDLEDE--- 86 + +++ A+++ +T +E+ FLP SE + D +A L+ I ++ ++ E+E Sbjct: 10 FTELLVYAKEKKSITWDEIYKFLPDGMAVSEDLMDEIAEFLTQKKIYILSNNEDENEIDF 69 Query: 87 -------EGSEDSLDLASSASNSSVFLQKR--KDSADRSTDDPVRMYLREMGSIELLSRE 137 + + + + QKR ++ D DDP+++YLR++G LL+ + Sbjct: 70 DQNEEELDYESEEFENEDESGEEKEETQKRLLVNTKDSLIDDPIKLYLRDIGQERLLTAK 129 Query: 138 GEIAIAKRIEAGRAMM 153 E+ ++KR+E G ++ Sbjct: 130 QEVILSKRMEDGENII 145 >gi|308233952|ref|ZP_07664689.1| RNA polymerase, sigma 70 subunit, RpoD [Atopobium vaginae DSM 15829] gi|328943964|ref|ZP_08241429.1| putative DNA-directed RNA polymerase sigma subunit RpoD [Atopobium vaginae DSM 15829] gi|327491933|gb|EGF23707.1| putative DNA-directed RNA polymerase sigma subunit RpoD [Atopobium vaginae DSM 15829] Length = 441 Score = 292 bits (748), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 182/237 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + ANLRL +S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 203 AKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 262 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR + + + REPTPEEI +++ M + V Sbjct: 263 IRQAITRAIADQARTIRIPVHMVETINKLVRVQKELLQDLGREPTPEEIGEQMKMSADRV 322 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED AV+P D+A + LRE +VL L R Sbjct: 323 REIQKISQEPVSLETPIGEEEDSSLGDFIEDSTAVAPPDAASDSMLREQLNQVLDGLADR 382 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V++ RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS +L+ ++ Sbjct: 383 ERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSGRLKDYI 439 Score = 42.0 bits (97), Expect = 0.39, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +I+AG Sbjct: 136 TGDPVRMYLKEIGKVDLLNASEEVHLAMKIQAG 168 >gi|325677627|ref|ZP_08157279.1| RNA polymerase sigma factor RpoD [Ruminococcus albus 8] gi|324110595|gb|EGC04759.1| RNA polymerase sigma factor RpoD [Ruminococcus albus 8] Length = 366 Score = 292 bits (747), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 143/242 (59%), Positives = 194/242 (80%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +AS A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTY Sbjct: 125 DASKARKRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLIKAVEKFDYKKGFKFSTY 184 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I KV + + ++ +K +P+PEEIA+ L M Sbjct: 185 ATWWIRQAITRAIADQARTIRIPVHMVETITKVKKASSQLLHKNGHDPSPEEIAEDLDMS 244 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE VR++++I ++P+SLETPIG+E+ SHLGDFI D +A +P ++A L+E +VL++ Sbjct: 245 VEKVREIMRIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAASLVLLKEQIDQVLST 304 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT REE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP+RS K+R + Sbjct: 305 LTEREEKVLRLRFGLEDGRSRTLEEVGQEFKVTRERIRQIEAKALRKLRHPNRSNKVRDY 364 Query: 680 LD 681 LD Sbjct: 365 LD 366 Score = 38.1 bits (87), Expect = 4.7, Method: Compositional matrix adjust. Identities = 30/119 (25%), Positives = 57/119 (47%), Gaps = 23/119 (19%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV---------DGDDLE 84 +++ +Q G +T +E+ L +QM+ S + I ++ D ++ E Sbjct: 11 LLEHGKQTGKLTTKEITDALEKLNFDVDQMDGVYEKCSELNIEIIDDVVVDDTLDFNNPE 70 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 D+ ED +D++ S ++ DDPV++YL+E+G + LL+ E EI +A Sbjct: 71 DDLEQED-VDISLSTDGIAI-------------DDPVKIYLKEIGRVPLLTSEEEIQLA 115 >gi|319957164|ref|YP_004168427.1| RNA polymerase, sigma 70 subunit, rpod [Nitratifractor salsuginis DSM 16511] gi|319419568|gb|ADV46678.1| RNA polymerase, sigma 70 subunit, RpoD [Nitratifractor salsuginis DSM 16511] Length = 618 Score = 292 bits (747), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 134/253 (52%), Positives = 193/253 (76%), Gaps = 1/253 (0%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I+ +R G+ ++ AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF+ Sbjct: 365 ILEQIRIGKAKSEKAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFE 424 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP Sbjct: 425 YQKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKHLQETGKEPDL 484 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E IA+++ + V+ V+ V+KITKEP+SLETP+GDED GDFIEDKN++SP ++ + +L Sbjct: 485 ETIAEEVGLSVDKVKNVIKITKEPVSLETPVGDEDDGRFGDFIEDKNSISPTEAVLNDDL 544 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+KLK Sbjct: 545 NQQIDEVLGQLNEREQAVIRMRFGLLEDMSDRTLEEIGKELNVTRERVRQIESSAIKKLK 604 Query: 669 HPSRSKKLRSFLD 681 HP +KL+++++ Sbjct: 605 HPKVGRKLKNYIE 617 >gi|42526854|ref|NP_971952.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35405] gi|41817169|gb|AAS11863.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] Length = 619 Score = 292 bits (747), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 148/290 (51%), Positives = 201/290 (69%), Gaps = 4/290 (1%) Query: 397 NFVACEVDSILK----IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 N A EV I + +I+ I + ++ E + S ++ G+ AK +++ AN Sbjct: 330 NISANEVKDIYTQIQVLTRKIRKIEYDFEATVDEVIDLTSEIKNGQRMLKNAKDKLINAN 389 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+S+AKKY NRGLQF DL+QEGNIGL+KA EKF++ GYKFSTYA WW++QAITRSI Sbjct: 390 LRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWIRQAITRSI 449 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +DQ+ TIR+PVHM ++I+KV R +R++ K+ REP +EIA +L +E V++V + +E Sbjct: 450 SDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQVKNVARE 509 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 PISLETPIG+E+ + LGD IEDK +P + L+E VL+SL RE+ VL+MRF Sbjct: 510 PISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLLQEQLEMVLSSLPEREQEVLKMRF 569 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 GI TLEEVG F VTRERIRQIEAK +R+L+HP RS+KL+ +LD Sbjct: 570 GIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRHPKRSRKLKDYLDN 619 Score = 38.1 bits (87), Expect = 4.5, Method: Compositional matrix adjust. Identities = 15/44 (34%), Positives = 32/44 (72%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 + S + DDP+++YL+E+G +LL+ + E++++K +E G A++ Sbjct: 122 RTSHEAGVDDPIKLYLQEIGKEDLLTADEEVSLSKSMEDGEAII 165 >gi|262068176|ref|ZP_06027788.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC 33693] gi|291378119|gb|EFE85637.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC 33693] Length = 502 Score = 292 bits (747), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 139/243 (57%), Positives = 188/243 (77%), Gaps = 3/243 (1%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EAS ++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKF Sbjct: 260 GDEEAS---QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKF 316 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L Sbjct: 317 STYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERL 376 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 M VE ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE V Sbjct: 377 GMEVEKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGV 436 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL Sbjct: 437 LKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKL 496 Query: 677 RSF 679 F Sbjct: 497 EDF 499 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 31/92 (33%), Positives = 44/92 (47%), Gaps = 3/92 (3%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 D+P++MYLRE+G + LL+ + EI AK+ G L ES L + I + N Sbjct: 228 VDEPIKMYLREIGQVPLLTHDEEIEYAKKAYEGDEEASQKLIESNLRL-VVSIAKKHTNR 286 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G LL I E IG F T+G+ + Sbjct: 287 GLKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 316 >gi|302335781|ref|YP_003800988.1| RNA polymerase, sigma 70 subunit, RpoD [Olsenella uli DSM 7084] gi|301319621|gb|ADK68108.1| RNA polymerase, sigma 70 subunit, RpoD [Olsenella uli DSM 7084] Length = 453 Score = 292 bits (747), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 186/238 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ ANLRL +S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 215 AKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + R+PTPEEI ++ + + V Sbjct: 275 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEIGAEMGISADRV 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI++EP+SLETPIG+E+ S LGDFIED +AV+P ++A + LRE +VL SL R Sbjct: 335 REIQKISQEPVSLETPIGEEEDSSLGDFIEDSSAVAPPEAASDSMLREQLEQVLDSLADR 394 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V++ RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSRS +L+ +++ Sbjct: 395 ERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRSGRLKDYME 452 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVRMYL+E+G ++LL+ E+ +A +IEAG Sbjct: 148 TGDPVRMYLKEIGKVDLLTASEEVHLAMKIEAG 180 >gi|19704653|ref|NP_604215.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|19714957|gb|AAL95514.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] Length = 331 Score = 291 bits (746), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 148/303 (48%), Positives = 207/303 (68%), Gaps = 4/303 (1%) Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRK 436 E +P ++ +D E E N + + K+ IK E G + + + +K Sbjct: 29 EFNPEYI---EDVSEDELSNEKLLNLGNSAKVDEPIKMYLREIGQVPLLTHEEEIDYAKK 85 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 A K+++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKF Sbjct: 86 AYEGDEEASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKF 145 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L Sbjct: 146 STYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERL 205 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 M V+ ++ + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE V Sbjct: 206 GMEVDKIKAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDAV 265 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +L+PREE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL Sbjct: 266 LKTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKL 325 Query: 677 RSF 679 F Sbjct: 326 EDF 328 Score = 45.8 bits (107), Expect = 0.023, Method: Compositional matrix adjust. Identities = 40/125 (32%), Positives = 55/125 (44%), Gaps = 19/125 (15%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE +E L+L +SA D+P++MYLRE+G + LL+ E EI A Sbjct: 40 EDELSNEKLLNLGNSAK----------------VDEPIKMYLREIGQVPLLTHEEEIDYA 83 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGT 203 K+ G L ES L + I + N G LL I E IG F T Sbjct: 84 KKAYEGDEEASKKLIESNLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKFEYT 140 Query: 204 EGHSY 208 +G+ + Sbjct: 141 KGYKF 145 >gi|168335371|ref|ZP_02693465.1| RNA polymerase, sigma 70 subunit, RpoD family protein [Epulopiscium sp. 'N.t. morphotype B'] Length = 364 Score = 291 bits (746), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 139/251 (55%), Positives = 199/251 (79%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ E A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 114 IKLAKRMESGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDY 173 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ ++ R+P PE Sbjct: 174 TKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLMRIQRQLLQELGRDPQPE 233 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ + V VR+++KI++EP++LETPIG+E+ ++LGDF+ D++A +P ++A L+ Sbjct: 234 EIAREMELSVNKVREIMKISQEPVALETPIGEEEDTNLGDFLADEDAPAPAEAAAFTLLK 293 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT RE++VL++RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 294 EQLIEVLDTLTDREQKVLKLRFGLDDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHP 353 Query: 671 SRSKKLRSFLD 681 SRSKKLR +L+ Sbjct: 354 SRSKKLRDYLE 364 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 36/114 (31%), Positives = 57/114 (50%), Gaps = 16/114 (14%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSEDSLDLASSASNSSVFLQK 108 +AFL E+ ++E L I+++ + ++E+E +ED +D S Sbjct: 38 DAFLDL-ELEPTKIEQVYEFLEAQSIDIIGEISNIENENLNEDIIDFTLPEGVS------ 90 Query: 109 RKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DDPVRMYL+E+G + LLS + EI +AKR+E+G L E+ L Sbjct: 91 --------IDDPVRMYLKEIGKVPLLSADDEIKLAKRMESGDEEARKRLAEANL 136 >gi|223936990|ref|ZP_03628898.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223894271|gb|EEF60724.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 614 Score = 291 bits (745), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 138/243 (56%), Positives = 184/243 (75%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AK EM EANLRLVIS+ KKYTNRGL FLD+IQEGN+GLMK EKF++ GYKFST Sbjct: 367 AKAHQAKTEMAEANLRLVISIGKKYTNRGLAFLDIIQEGNMGLMKGVEKFEYRRGYKFST 426 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQ+ TIRIPVHM + I K++R +++ + RE TPEEIA ++ + Sbjct: 427 YATWWIRQAITRAIADQARTIRIPVHMIEIIGKLMRAQKQLLQEFGREATPEEIADEMQI 486 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE V+ +LK+ ++PIS++ +GD D + GDFIEDK+A +P D + L++ VLA Sbjct: 487 SVERVKSILKMAQQPISMQASVGDSDDATFGDFIEDKSAENPSDMTSYSLLKDKLNDVLA 546 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +LT RE R++ +RFG+ TLEEVGKQ+ VTRERIRQIEAKA+RKL+HP+R + L+ Sbjct: 547 TLTERERRIVELRFGLVDGYARTLEEVGKQYKVTRERIRQIEAKALRKLRHPTRVRHLKG 606 Query: 679 FLD 681 FL+ Sbjct: 607 FLE 609 Score = 69.7 bits (169), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 42/127 (33%), Positives = 67/127 (52%), Gaps = 35/127 (27%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL-------- 83 K+++ LA+++G++T +++N LP V+ + ++ L+N+ I +VD ++ Sbjct: 83 KELVLLAKEQGHLTYDDINDALPDTVVTPDDLDQVYTKLNNLEIEIVDAAEVDRVKQPEA 142 Query: 84 ---EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 EDE+G D LD DPVRMYLR+MG + LL+RE E+ Sbjct: 143 EEQEDEKGRLDILD------------------------DPVRMYLRQMGKVPLLTREQEV 178 Query: 141 AIAKRIE 147 AI KRIE Sbjct: 179 AICKRIE 185 >gi|295101750|emb|CBK99295.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 359 Score = 291 bits (744), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 139/238 (58%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + EANLRLV+SVAK+Y RGL FLDLIQEGN+GLMKAAEKF+ G+KFSTYA WW Sbjct: 121 ARRRLSEANLRLVVSVAKRYAGRGLPFLDLIQEGNLGLMKAAEKFEPDRGFKFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR+IADQ TIRIPVH+ + I++V +TA + + REPT EEIA +L M V Sbjct: 181 IRQSITRAIADQGRTIRIPVHLVESINRVKKTAGELLRRTGREPTAEEIAAQLDMEPARV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++++ ++PISLETP+G+E+ +HL DFI+D A P D A + LR VL SLTPR Sbjct: 241 RELIQLAQDPISLETPVGEEEDAHLEDFIQDDEAGVPADEAGRQLLRRELMNVLKSLTPR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EERV+ +RFG+ TLEE+G++F VTRER+RQIEAKA+RKL+HPSR+K+LR +LD Sbjct: 301 EERVIALRFGLEDGRARTLEELGREFNVTRERVRQIEAKALRKLRHPSRAKRLRDYLD 358 >gi|288574317|ref|ZP_06392674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570058|gb|EFC91615.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio peptidovorans DSM 11002] Length = 381 Score = 291 bits (744), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 140/251 (55%), Positives = 193/251 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E +AK+++++ANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EKFD+ Sbjct: 131 VELAKRVEDGDQVAKQKIIDANLRLVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEKFDY 190 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REPT E Sbjct: 191 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMVRVSRQLVQRMGREPTDE 250 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI++ + + V ++ +I + P+SLETPIG+E+ S LGDFIED++ SP D+A L Sbjct: 251 EISEAMEIESTKVEEIRRIAQLPVSLETPIGEEEDSQLGDFIEDRDMPSPEDAASCNLLH 310 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L +L+ RE VLR RFG+ +TLEEVG++F VTRERIRQIEAKA+RKL+HP Sbjct: 311 EQIEDMLDALSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIRQIEAKALRKLRHP 370 Query: 671 SRSKKLRSFLD 681 SRSKKLR FL+ Sbjct: 371 SRSKKLRDFLE 381 Score = 68.6 bits (166), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 42/119 (35%), Positives = 68/119 (57%), Gaps = 6/119 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSE 90 +++I R+ GYVT +++ F+P + S++ +E+ L +GI V+ DGD + SE Sbjct: 27 RQLIMQGRKNGYVTQKDIEKFIPIEFWSTDVLENVFDNLMELGIEVIEDGDPRLKSDKSE 86 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ASS+ V++ + D DPVRMYLRE+G ++LL E+ +AKR+E G Sbjct: 87 -----ASSSDEEHVYVDELGKLDDIPLTDPVRMYLREIGKVDLLDASEEVELAKRVEDG 140 >gi|294790965|ref|ZP_06756123.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304] gi|294458862|gb|EFG27215.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304] Length = 588 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 349 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 408 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 409 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 468 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E T+VL +L+PR Sbjct: 469 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFTQVLETLSPR 528 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 529 EAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 586 Score = 38.5 bits (88), Expect = 3.6, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 30/42 (71%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ +T DPV+ YL+++G + LL+ + E+ +++RIEAG Sbjct: 275 KRRVVTTGATADPVKDYLKQIGRVNLLNAQQEVDLSERIEAG 316 >gi|317056182|ref|YP_004104649.1| RpoD subfamily RNA polymerase sigma-70 subunit [Ruminococcus albus 7] gi|315448451|gb|ADU22015.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ruminococcus albus 7] Length = 366 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 143/242 (59%), Positives = 194/242 (80%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA A+K + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTY Sbjct: 125 EAVKARKRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLIKAVEKFDYKKGFKFSTY 184 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I KV + + ++ +K +P+PEEIA++L M Sbjct: 185 ATWWIRQAITRAIADQARTIRIPVHMVETITKVKKVSSQLLHKNGHDPSPEEIAEELDMS 244 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE VR++++I ++P+SLETPIG+E+ SHLGDFI D +A +P ++A L+E +VL++ Sbjct: 245 VERVREIMRIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAASLVLLKEQIDQVLST 304 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT REE+VLR+RFG+ TLEEVG++F VTRERIRQIEAKA+RKL+HP+RS K+R + Sbjct: 305 LTEREEKVLRLRFGLQDGRSRTLEEVGQEFKVTRERIRQIEAKALRKLRHPNRSNKVRDY 364 Query: 680 LD 681 LD Sbjct: 365 LD 366 >gi|327398426|ref|YP_004339295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hippea maritima DSM 10411] gi|327181055|gb|AEA33236.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hippea maritima DSM 10411] Length = 491 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 141/234 (60%), Positives = 188/234 (80%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M++ANLRLV+S+AKK+ NRGL FLDLIQEGNIGLMK+ +KFD+ G+KFSTYA WW++Q+ Sbjct: 258 MIKANLRLVVSIAKKHLNRGLSFLDLIQEGNIGLMKSVDKFDYKKGFKFSTYATWWIRQS 317 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I+R+IADQ+ TIRIPVHM + I+K+VR ++ + + +EPT +E+A+ L M E ++ ++ Sbjct: 318 ISRAIADQARTIRIPVHMIETINKIVRASKLLIQENGKEPTAQELAEYLGMDEEKIKSII 377 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPISLETPIGD++ +HL DFIED + SPLD I++NL+E VL++LT RE +V Sbjct: 378 KIAKEPISLETPIGDDNDTHLEDFIEDTKSESPLDYVIKSNLKEKVEEVLSTLTDRERKV 437 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 L MR+GIG DHTLEEVGK VTRER+RQIEAKA+RKL+HP RS+ L SF++ Sbjct: 438 LMMRYGIGDGFDHTLEEVGKVLGVTRERVRQIEAKALRKLRHPKRSRVLASFVE 491 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 48/160 (30%), Positives = 87/160 (54%), Gaps = 18/160 (11%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + +DD+ ++++ +++GYVT +E+N LP + +S ++++D + ++ I++VD D + Sbjct: 4 NLNDDAIRRILSEGKKKGYVTYDEINDILP-EGISVDEIDDIIRQCDDLDIDIVDTDKVS 62 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 E+ E+ S++ RMYLREMG+I LLSRE EI IAK Sbjct: 63 SEKNIEEFELEEDEEVGSAI-----------------RMYLREMGNIPLLSREEEIEIAK 105 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 +IE + + L E P T +A+ R ++ +G ++ I Sbjct: 106 KIEEHKNNLTRKLIEMPFTCEAIEELRQKIIEGEEKVKNI 145 >gi|15894582|ref|NP_347931.1| RNA polymerase sigma factor RpoD [Clostridium acetobutylicum ATCC 824] gi|464686|sp|P33656|RPOD_CLOAB RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|15024230|gb|AAK79271.1|AE007642_3 RNA polymerase sigma factor RPOD [Clostridium acetobutylicum ATCC 824] gi|312373|emb|CAA80625.1| major vegetative sigma factor [Clostridium acetobutylicum ATCC 824] gi|325508714|gb|ADZ20350.1| major vegetative sigma factor [Clostridium acetobutylicum EA 2018] Length = 378 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 149/238 (62%), Positives = 196/238 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K++ EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 141 ARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDFKKGFKFSTYATWW 200 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ ++ REP PEEIAK + MPV+ V Sbjct: 201 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKIMDMPVDKV 260 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++KI +EP+SLETPIG+E+ SHLGDFI D A +P D+A L+E ++L +LTPR Sbjct: 261 REIMKIAQEPVSLETPIGEEEDSHLGDFIPDDEAPAPADAAAFRMLKEQLLKILNTLTPR 320 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +LD Sbjct: 321 EEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 378 Score = 57.0 bits (136), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 44/140 (31%), Positives = 69/140 (49%), Gaps = 16/140 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I ++ G +T +E+ L ++ EQ+E +L ++G++VV D+ + E E+ Sbjct: 36 KNLIDKGKKSGSLTYKEIMDELQEVDLGPEQIEKIYEVLESVGVDVVG--DMHEIEVEEE 93 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL + DDPVRMYL+E+G + LLS E EI +A+RI+ G Sbjct: 94 DLDLTIPEGIA--------------IDDPVRMYLKEIGKVPLLSPEEEIDLAQRIKNGDR 139 Query: 152 MMMASLCESPLTFQALIIWR 171 L E+ L I R Sbjct: 140 SARKKLAEANLRLVVSIAKR 159 >gi|311064624|ref|YP_003971349.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum PRL2010] gi|310866943|gb|ADP36312.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum PRL2010] Length = 506 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 328 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 387 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 388 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 447 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 448 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 505 Score = 40.0 bits (92), Expect = 1.2, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 195 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 236 >gi|224283384|ref|ZP_03646706.1| RNA polymerase sigma factor [Bifidobacterium bifidum NCIMB 41171] Length = 506 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 328 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 387 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 388 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 447 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 448 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 505 Score = 40.0 bits (92), Expect = 1.2, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 195 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 236 >gi|303229406|ref|ZP_07316196.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-134-V-Col7a] gi|303230872|ref|ZP_07317619.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-049-V-Sch6] gi|302514632|gb|EFL56627.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-049-V-Sch6] gi|302515942|gb|EFL57894.1| RNA polymerase sigma factor RpoD [Veillonella atypica ACS-134-V-Col7a] Length = 388 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 137/237 (57%), Positives = 184/237 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++V+ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW Sbjct: 152 AKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWW 211 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ REPTPEEIA+ + + E V Sbjct: 212 IRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPTPEEIAEGMGITAERV 271 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFIED++AV+P D+A L+E V LT R Sbjct: 272 REIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAVAPDDAASYILLQEQIEDVFTCLTDR 331 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++VL +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + K++ FL Sbjct: 332 EQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLRNRGKRDKIKDFL 388 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 43/126 (34%), Positives = 72/126 (57%), Gaps = 14/126 (11%) Query: 33 KMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-- 89 ++++ R+ G +T E+ +A E+++EQ++D + + I VV + +D++ + Sbjct: 16 QLLEKGRKSGVLTQSEISDALHEQSELTAEQLDDIYVTFNKLNIEVVPDVEDDDKDDAIE 75 Query: 90 ----EDSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIA 143 D+ A+S N S+ L S D S DDPVRMYL+E+G + LLS + EI +A Sbjct: 76 PDDDVDNDRDAASEKNISIDL-----SVDASVNIDDPVRMYLKEIGRVPLLSADEEIVLA 130 Query: 144 KRIEAG 149 K+IEAG Sbjct: 131 KQIEAG 136 >gi|269798255|ref|YP_003312155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Veillonella parvula DSM 2008] gi|282850493|ref|ZP_06259872.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745] gi|294792116|ref|ZP_06757264.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27] gi|294793987|ref|ZP_06759124.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44] gi|269094884|gb|ACZ24875.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Veillonella parvula DSM 2008] gi|282579986|gb|EFB85390.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745] gi|294455557|gb|EFG23929.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44] gi|294457346|gb|EFG25708.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27] Length = 386 Score = 290 bits (743), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 136/237 (57%), Positives = 184/237 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK++V+ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW Sbjct: 150 AKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWW 209 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R +R++ REP PEEIA+ + + VE V Sbjct: 210 IRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERV 269 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ KI +EP+SLETPIG+E+ SHLGDFIED++A++P D+A L+E V LT R Sbjct: 270 REIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDR 329 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++VL +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + K++ FL Sbjct: 330 EQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLRNRGKRDKIKDFL 386 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 69/125 (55%), Gaps = 14/125 (11%) Query: 33 KMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVV---DGDDLEDE-- 86 ++++ R+ G +T E+ +A E+++EQ++D L + + +V D DD + Sbjct: 16 QLLEKGRKSGVLTQSEISDALHEQTEITAEQLDDIYTTLGKLNVEIVADIDADDTDSHTI 75 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRST--DDPVRMYLREMGSIELLSREGEIAIAK 144 E ED D SS S+ L S D DDPVRMYL+E+G + LLS + EI +AK Sbjct: 76 ETDEDE-DEVSSEKKISIDL-----SVDSGVNIDDPVRMYLKEIGRVPLLSADEEIVLAK 129 Query: 145 RIEAG 149 +IEAG Sbjct: 130 QIEAG 134 >gi|57168867|ref|ZP_00367997.1| RNA polymerase sigma factor RpoD [Campylobacter coli RM2228] gi|305431982|ref|ZP_07401149.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter coli JV20] gi|57019703|gb|EAL56389.1| RNA polymerase sigma factor RpoD [Campylobacter coli RM2228] gi|304445066|gb|EFM37712.1| DNA-directed RNA polymerase sigma subunit RpoD [Campylobacter coli JV20] Length = 621 Score = 290 bits (743), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 135/257 (52%), Positives = 194/257 (75%), Gaps = 1/257 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 363 LKEILEQIKRGKKISDEAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 422 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R K +E Sbjct: 423 KFEYKRGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINQINKIIREHLQKDGKE 482 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P IAK++ + V+ V++V+KITKEPISLE PIG ED GDF+ED+N++SP+D ++ Sbjct: 483 PDVSVIAKEVGLSVDKVKQVIKITKEPISLEAPIGSEDDGKFGDFVEDRNSLSPMDHILK 542 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +L+E VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+ Sbjct: 543 DDLKEQIDEVLDQLNDREKAVIRMRFGLMDDESDRTLEEIGKELNVTRERVRQIESSAIK 602 Query: 666 KLKHPSRSKKLRSFLDG 682 KLKHP +KL+++++G Sbjct: 603 KLKHPKVGRKLKNYIEG 619 >gi|257467207|ref|ZP_05631518.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] gi|315918337|ref|ZP_07914577.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] gi|313692212|gb|EFS29047.1| RNA polymerase sigma factor rpoD [Fusobacterium gonidiaformans ATCC 25563] Length = 352 Score = 290 bits (742), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 146/280 (52%), Positives = 198/280 (70%), Gaps = 1/280 (0%) Query: 401 CEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 E+ + +K+ IK E G I + + + + +K A K ++EANLRLV+S+ Sbjct: 70 AELSNGMKVDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRLVVSI 129 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW++QAITR+IADQ TI Sbjct: 130 AKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTI 189 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+ + AR + ++ TPE +A++L M VE V+ + ++ ++PISLETP Sbjct: 190 RIPVHMIETINKIKKEARIYLQETGKDATPEILAERLGMEVEKVKSIQEMNQDPISLETP 249 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G E+ S LGDF+ED+ ++P + ++ LRE VL SL+ REE+VLR R+G+ + Sbjct: 250 VGSEEDSELGDFVEDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDDGSP 309 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 310 KTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 349 Score = 42.0 bits (97), Expect = 0.31, Method: Compositional matrix adjust. Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 3/92 (3%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 D+P++MYLRE+G I LL+ + E+ +AK+ G L E+ L + I + N Sbjct: 78 VDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRL-VVSIAKKHTNR 136 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G LL I E IG F T+G+ + Sbjct: 137 GLKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 166 >gi|257453204|ref|ZP_05618503.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] gi|317059738|ref|ZP_07924223.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] gi|313685414|gb|EFS22249.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 3_1_5R] Length = 436 Score = 290 bits (742), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 146/280 (52%), Positives = 198/280 (70%), Gaps = 1/280 (0%) Query: 401 CEVDSILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 E+ + +K+ IK E G I + + + + +K A K ++EANLRLV+S+ Sbjct: 154 AELSNGMKVDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRLVVSI 213 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW++QAITR+IADQ TI Sbjct: 214 AKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTI 273 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K+ + AR + ++ TPE +A++L M VE V+ + ++ ++PISLETP Sbjct: 274 RIPVHMIETINKIKKEARIYLQETGKDATPEILAERLGMEVEKVKSIQEMNQDPISLETP 333 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G E+ S LGDF+ED+ ++P + ++ LRE VL SL+ REE+VLR R+G+ + Sbjct: 334 VGSEEDSELGDFVEDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDDGSP 393 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 394 KTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 433 Score = 42.4 bits (98), Expect = 0.26, Method: Compositional matrix adjust. Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 3/92 (3%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 D+P++MYLRE+G I LL+ + E+ +AK+ G L E+ L + I + N Sbjct: 162 VDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRL-VVSIAKKHTNR 220 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G LL I E IG F T+G+ + Sbjct: 221 GLKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 250 >gi|310287737|ref|YP_003938995.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17] gi|309251673|gb|ADO53421.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17] Length = 506 Score = 290 bits (742), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 268 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 327 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 328 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 387 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 388 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 447 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 448 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 505 Score = 40.0 bits (92), Expect = 1.2, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 195 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 236 >gi|283783165|ref|YP_003373919.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05] gi|283441732|gb|ADB14198.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05] Length = 489 Score = 290 bits (742), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 311 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 370 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L PR Sbjct: 371 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLAPR 430 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 431 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 488 Score = 40.8 bits (94), Expect = 0.79, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 178 KRRVIATGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 219 >gi|213691851|ref|YP_002322437.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. infantis ATCC 15697] gi|213523312|gb|ACJ52059.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. infantis ATCC 15697] gi|320457946|dbj|BAJ68567.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 464 Score = 290 bits (742), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 226 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 285 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 286 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 345 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 346 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 405 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 406 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 463 Score = 40.4 bits (93), Expect = 0.96, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 153 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 194 >gi|313140538|ref|ZP_07802731.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum NCIMB 41171] gi|313133048|gb|EFR50665.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum NCIMB 41171] Length = 500 Score = 290 bits (742), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 262 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 321 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 322 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 381 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 382 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 441 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 442 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 499 Score = 40.0 bits (92), Expect = 1.3, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 189 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 230 >gi|296454312|ref|YP_003661455.1| RpoD family RNA polymerase sigma-70 factor [Bifidobacterium longum subsp. longum JDM301] gi|296183743|gb|ADH00625.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium longum subsp. longum JDM301] Length = 474 Score = 290 bits (741), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 236 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 295 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 296 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 355 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 356 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 415 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 416 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 473 Score = 40.4 bits (93), Expect = 0.99, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 163 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 204 >gi|291457726|ref|ZP_06597116.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213] gi|291380779|gb|EFE88297.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213] Length = 472 Score = 290 bits (741), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 234 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 293 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 294 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 353 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 354 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 413 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 414 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 471 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 161 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 202 >gi|297243591|ref|ZP_06927522.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis AMD] gi|296888342|gb|EFH27083.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis AMD] Length = 489 Score = 290 bits (741), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 311 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 370 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L PR Sbjct: 371 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLAPR 430 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 431 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 488 Score = 40.8 bits (94), Expect = 0.77, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 178 KRRVIATGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 219 >gi|227547666|ref|ZP_03977715.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis ATCC 55813] gi|227211921|gb|EEI79817.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis ATCC 55813] Length = 464 Score = 290 bits (741), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 226 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 285 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 286 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 345 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 346 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 405 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 406 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 463 Score = 40.4 bits (93), Expect = 1.00, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 153 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 194 >gi|23465986|ref|NP_696589.1| RNA polymerase sigma factor [Bifidobacterium longum NCC2705] gi|46191322|ref|ZP_00206768.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Bifidobacterium longum DJO10A] gi|189439160|ref|YP_001954241.1| RNA polymerase sigma factor [Bifidobacterium longum DJO10A] gi|312132592|ref|YP_003999931.1| rpod [Bifidobacterium longum subsp. longum BBMN68] gi|317482450|ref|ZP_07941467.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA] gi|322689398|ref|YP_004209132.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis 157F] gi|322691364|ref|YP_004220934.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. longum JCM 1217] gi|23326702|gb|AAN25225.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium longum NCC2705] gi|189427595|gb|ACD97743.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium longum DJO10A] gi|311773536|gb|ADQ03024.1| RpoD [Bifidobacterium longum subsp. longum BBMN68] gi|316916110|gb|EFV37515.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA] gi|320456220|dbj|BAJ66842.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. longum JCM 1217] gi|320460734|dbj|BAJ71354.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp. infantis 157F] Length = 474 Score = 290 bits (741), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 236 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 295 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 296 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 355 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 356 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 415 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 416 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 473 Score = 40.4 bits (93), Expect = 1.00, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 163 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 204 >gi|239621277|ref|ZP_04664308.1| RNA polymerase principal sigma factor [Bifidobacterium longum subsp. infantis CCUG 52486] gi|239515738|gb|EEQ55605.1| RNA polymerase principal sigma factor [Bifidobacterium longum subsp. infantis CCUG 52486] Length = 488 Score = 290 bits (741), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 250 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 309 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 310 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 369 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 370 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 429 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 430 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 487 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 177 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 218 >gi|221633686|ref|YP_002522912.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM 5159] gi|221156620|gb|ACM05747.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM 5159] Length = 509 Score = 290 bits (741), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 135/253 (53%), Positives = 192/253 (75%), Gaps = 4/253 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + R GE A++++ EANLRLV+S+AK+YT RGL LDLIQEGN+GLM+A +KF Sbjct: 261 HWQRLRRDGEA----ARRKLTEANLRLVVSIAKRYTGRGLTLLDLIQEGNLGLMRAVDKF 316 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 G+KFSTYA WW++QAITR++AD + TIR+PVH+ + +++V R AR+++ ++ REPT Sbjct: 317 QTHKGFKFSTYATWWIRQAITRALADHARTIRLPVHLVETLNRVSRVARQLTQELGREPT 376 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 E+A + MP++ +R++L+ ++P+SLE P+G E+ S LGDF+ED+ AV+PLD+A + Sbjct: 377 TSELAAAVNMPLDRLRELLQAAQDPVSLEAPVGQEEESTLGDFLEDERAVAPLDAAALSL 436 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE +LA+LT RE RVL MRFG+ +TLEEVG+ F VTRER+RQIEAKA+RKL+ Sbjct: 437 LREQVQSLLATLTERERRVLAMRFGLEDGQTYTLEEVGRAFGVTRERVRQIEAKALRKLR 496 Query: 669 HPSRSKKLRSFLD 681 HP R++ LR FL+ Sbjct: 497 HPQRARALRDFLE 509 Score = 41.2 bits (95), Expect = 0.52, Method: Compositional matrix adjust. Identities = 36/142 (25%), Positives = 64/142 (45%), Gaps = 19/142 (13%) Query: 6 KRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMED 65 KR+R+ + S D V +D ++ AR G +T E+ A + D + + E Sbjct: 11 KRSREVVTRANGSVDLPVLAGAD----AILATARLHGRLTREQWLALI--DTLGPDAAET 64 Query: 66 TVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 +A L G+ V + LE + S + +++ D +DPVR+YL Sbjct: 65 ALAELQAEGVPVAIEEALEPD-------------GTSRSWEPEKEADPDLLVEDPVRLYL 111 Query: 126 REMGSIELLSREGEIAIAKRIE 147 E+G + LL+ E E+ + + +E Sbjct: 112 AEIGRVPLLTAEQEVELGRAVE 133 >gi|237740231|ref|ZP_04570712.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31] gi|229422248|gb|EEO37295.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31] Length = 269 Score = 290 bits (741), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 136/236 (57%), Positives = 184/236 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW Sbjct: 31 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ +PE +A++L M VE + Sbjct: 91 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + ++ +EPISLETP+G E+ S LGDF+ED+ SP ++ +A LRE VL +L+PR Sbjct: 151 KAIQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGVLKTLSPR 210 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE+VLR R+G+ ++ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 211 EEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLEDF 266 >gi|257464031|ref|ZP_05628416.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] Length = 436 Score = 290 bits (741), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 145/274 (52%), Positives = 195/274 (71%), Gaps = 1/274 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +K+ IK E G I + + + + +K A K ++EANLRLV+S+AKK+TN Sbjct: 160 MKVDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRLVVSIAKKHTN 219 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW++QAITR+IADQ TIRIPVHM Sbjct: 220 RGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHM 279 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ + AR + ++ TPE +A++L M VE V+ + ++ ++PISLETP+G E+ Sbjct: 280 IETINKIKKEARIYLQETGKDATPEILAERLGMEVEKVKSIQEMNQDPISLETPVGSEED 339 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDF+ED+ ++P + ++ LRE VL SL+ REE+VLR R+G+ + TLEEV Sbjct: 340 SELGDFVEDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDDGSPKTLEEV 399 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 GK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 400 GKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 433 Score = 44.3 bits (103), Expect = 0.078, Method: Compositional matrix adjust. Identities = 38/128 (29%), Positives = 58/128 (45%), Gaps = 3/128 (2%) Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +DL D+E D+ DL + + S D+P++MYLRE+G I LL+ + E+ Sbjct: 126 EDLLDKEEDFDASDLEELPEEELSNEELAELSNGMKVDEPIKMYLREIGQIPLLTHKEEL 185 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 +AK+ G L E+ L + I + N G LL I E IG F Sbjct: 186 ELAKKALEGDEFANKRLIEANLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKF 242 Query: 201 HGTEGHSY 208 T+G+ + Sbjct: 243 EYTKGYKF 250 >gi|317061552|ref|ZP_07926037.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] gi|313687228|gb|EFS24063.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. D12] Length = 363 Score = 289 bits (740), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 145/274 (52%), Positives = 195/274 (71%), Gaps = 1/274 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +K+ IK E G I + + + + +K A K ++EANLRLV+S+AKK+TN Sbjct: 87 MKVDEPIKMYLREIGQIPLLTHKEELELAKKALEGDEFANKRLIEANLRLVVSIAKKHTN 146 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW++QAITR+IADQ TIRIPVHM Sbjct: 147 RGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIRQAITRAIADQGRTIRIPVHM 206 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K+ + AR + ++ TPE +A++L M VE V+ + ++ ++PISLETP+G E+ Sbjct: 207 IETINKIKKEARIYLQETGKDATPEILAERLGMEVEKVKSIQEMNQDPISLETPVGSEED 266 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDF+ED+ ++P + ++ LRE VL SL+ REE+VLR R+G+ + TLEEV Sbjct: 267 SELGDFVEDQKMLTPYELTNRSLLREQLDSVLGSLSSREEKVLRYRYGLDDGSPKTLEEV 326 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 GK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 327 GKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 360 Score = 43.9 bits (102), Expect = 0.087, Method: Compositional matrix adjust. Identities = 38/128 (29%), Positives = 58/128 (45%), Gaps = 3/128 (2%) Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +DL D+E D+ DL + + S D+P++MYLRE+G I LL+ + E+ Sbjct: 53 EDLLDKEEDFDASDLEELPEEELSNEELAELSNGMKVDEPIKMYLREIGQIPLLTHKEEL 112 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFF 200 +AK+ G L E+ L + I + N G LL I E IG F Sbjct: 113 ELAKKALEGDEFANKRLIEANLRL-VVSIAKKHTNRGLKLLDLI--QEGNIGLMKAVEKF 169 Query: 201 HGTEGHSY 208 T+G+ + Sbjct: 170 EYTKGYKF 177 >gi|269127406|ref|YP_003300776.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268312364|gb|ACY98738.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 385 Score = 289 bits (740), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 132/242 (54%), Positives = 189/242 (78%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + AK+ ++EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 145 EGARAKQRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTY 204 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVHM + I+K+VR R++ + REPTP EI ++ +P Sbjct: 205 ATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLHQDLGREPTPAEIGAEMGLP 264 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V ++ +I +EP+SL++PIG+ED S LGDFIED +AV PL++A L++ +L + Sbjct: 265 AERVVEIQRIAQEPVSLQSPIGEED-SDLGDFIEDADAVVPLEAAAFILLQDQLEDILCT 323 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE+R++++RFG+ TLEEVG++F VTRERIRQIE+K + KL+HPSR++ LR + Sbjct: 324 LSEREQRIIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHPSRAQMLREY 383 Query: 680 LD 681 L+ Sbjct: 384 LE 385 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 36/123 (29%), Positives = 58/123 (47%), Gaps = 16/123 (13%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S D ++ R+ G VT++++ A + E+ ++ +E V L+ G+ V++ E Sbjct: 12 SVDQVADLVVRGREHGGVTVDDVAAAIDRSELPADSLERVVLALAEQGVEVLESPGETGE 71 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 D DL S D VR+YLRE+G + LL+ E E+ +AK I Sbjct: 72 LSRADEDDLGKRVPTS----------------DLVRIYLREIGRVPLLTAEEEVELAKTI 115 Query: 147 EAG 149 EAG Sbjct: 116 EAG 118 >gi|298253932|ref|ZP_06977519.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis 5-1] gi|297532075|gb|EFH71050.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gardnerella vaginalis 5-1] Length = 489 Score = 289 bits (740), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 251 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 310 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 311 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 370 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L PR Sbjct: 371 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLAPR 430 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 431 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 488 Score = 40.8 bits (94), Expect = 0.78, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 178 KRRVIATGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 219 >gi|304437692|ref|ZP_07397644.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304369325|gb|EFM22998.1| DNA-directed RNA polymerase sigma subunit SigA [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 381 Score = 289 bits (740), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 142/252 (56%), Positives = 190/252 (75%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + R+ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 130 VDLARRMEAGDETARHRLEEANLRLVVSIAKRYVGRGMMFLDLIQEGNLGLLKAVEKFDY 189 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K +R +R++ ++ R+PTPE Sbjct: 190 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKYIRVSRQLLQELGRDPTPE 249 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + V VR+++KI++EP+SLETPIG+E+ +HL DFIED+ A P D+A L+ Sbjct: 250 EIAHRMGLSVARVREIMKISQEPVSLETPIGEEEDTHLSDFIEDEAAPDPADAASMLLLK 309 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +L PRE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 310 EQISEVLTTLAPREAEVLRLRFGLVDGRSRTLEEVGQNFGVTRERIRQIEAKALRKLRHP 369 Query: 671 SRSKKLRSFLDG 682 R +KL+ D Sbjct: 370 VRLRKLQGNFDA 381 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 35/123 (28%), Positives = 57/123 (46%), Gaps = 29/123 (23%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL---------------EDE 86 G +T EL L D V+ + M+ + GI ++D D+ +DE Sbjct: 31 GTLTCSELMDALAQDSVTPDAMDALYQRCMDEGIEIIDDADVGAEDDAADFADDLEDKDE 90 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 ++ +DL+ + DDPVRMYL+E+G + LL+ E E+ +A+R+ Sbjct: 91 TDADVDIDLSVPEGVA--------------LDDPVRMYLKEIGRVPLLTAEEEVDLARRM 136 Query: 147 EAG 149 EAG Sbjct: 137 EAG 139 >gi|15639484|ref|NP_218934.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum str. Nichols] gi|189025724|ref|YP_001933496.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum SS14] gi|6094131|sp|O83506|RPOD_TREPA RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A; AltName: Full=Major vegetative sigma factor gi|3322782|gb|AAC65480.1| RNA polymerase sigma-70 factor (rpoD) [Treponema pallidum subsp. pallidum str. Nichols] gi|189018299|gb|ACD70917.1| RNA polymerase sigma-70 factor [Treponema pallidum subsp. pallidum SS14] Length = 611 Score = 289 bits (739), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 141/255 (55%), Positives = 189/255 (74%), Gaps = 3/255 (1%) Query: 430 IVSMVR---KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM R +G AK +++ ANLRLV+S+AKKYTNRGL F DL+QEGNIGL+KA E Sbjct: 356 ILSMARAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVE 415 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R +R++ K RE Sbjct: 416 KFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGRE 475 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P+ EEIA++L VE V++V + +EPISLETPIG+E+ S LGDF+ D + +P + Sbjct: 476 PSDEEIAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTER 535 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L+E +L++L RE VLRMRFG+ + TLEEVG F VTRERIRQIEAKA+++ Sbjct: 536 VLLKEEVRSILSALPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKR 595 Query: 667 LKHPSRSKKLRSFLD 681 L+HP S++L+ FLD Sbjct: 596 LRHPRHSRRLKDFLD 610 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 38/156 (24%), Positives = 74/156 (47%), Gaps = 28/156 (17%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINV-------------- 77 ++++ AR++ +T +E+ L V +E++ D + ML I V Sbjct: 12 RLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSSEEEELEDEVFA 71 Query: 78 -VDGDDLEDEEGS--------EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 + G +D +GS D L +S + ++ R + + DDPV++YLR++ Sbjct: 72 GLKGPAADDGDGSFPLSTERVRDKLCDSSRGARQNLLSNAR----NIALDDPVKLYLRDI 127 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 G +LL+ E E+ ++KR+E G ++ + +S L Sbjct: 128 GQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSGLLL 163 >gi|291059871|gb|ADD72606.1| RNA polymerase sigma factor RpoD [Treponema pallidum subsp. pallidum str. Chicago] Length = 610 Score = 289 bits (739), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 141/255 (55%), Positives = 189/255 (74%), Gaps = 3/255 (1%) Query: 430 IVSMVR---KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM R +G AK +++ ANLRLV+S+AKKYTNRGL F DL+QEGNIGL+KA E Sbjct: 355 ILSMARAIHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVE 414 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R +R++ K RE Sbjct: 415 KFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGRE 474 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P+ EEIA++L VE V++V + +EPISLETPIG+E+ S LGDF+ D + +P + Sbjct: 475 PSDEEIAQQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSLGDFVPDADVENPSRVTER 534 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L+E +L++L RE VLRMRFG+ + TLEEVG F VTRERIRQIEAKA+++ Sbjct: 535 VLLKEEVRSILSALPAREHEVLRMRFGLDGDYSQTLEEVGLYFDVTRERIRQIEAKALKR 594 Query: 667 LKHPSRSKKLRSFLD 681 L+HP S++L+ FLD Sbjct: 595 LRHPRHSRRLKDFLD 609 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 38/156 (24%), Positives = 74/156 (47%), Gaps = 28/156 (17%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQM-EDTVAMLSNMGINV-------------- 77 ++++ AR++ +T +E+ L V +E++ D + ML I V Sbjct: 11 RLLEYAREKKAITHDEVENILAHYGVETEELLHDVLDMLEQENIKVFSSEEEELEDEVFA 70 Query: 78 -VDGDDLEDEEGS--------EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 + G +D +GS D L +S + ++ R + + DDPV++YLR++ Sbjct: 71 GLKGPAADDGDGSFPLSTERVRDKLCDSSRGARQNLLSNAR----NIALDDPVKLYLRDI 126 Query: 129 GSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 G +LL+ E E+ ++KR+E G ++ + +S L Sbjct: 127 GQEKLLTAEQEVMLSKRMEEGEGIIKDIITQSGLLL 162 >gi|212715646|ref|ZP_03323774.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM 16992] gi|212661013|gb|EEB21588.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM 16992] Length = 448 Score = 289 bits (739), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 210 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 269 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 270 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 329 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 330 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLSPR 389 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 390 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 447 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 137 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 178 >gi|229817449|ref|ZP_04447731.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM 20098] gi|229785238|gb|EEP21352.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM 20098] Length = 482 Score = 288 bits (738), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 244 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 303 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 304 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 363 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L++ +VL +L+PR Sbjct: 364 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQDQFKQVLETLSPR 423 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 424 ESGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 481 Score = 38.9 bits (89), Expect = 3.1, Method: Compositional matrix adjust. Identities = 18/42 (42%), Positives = 30/42 (71%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 171 KRRVVTAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 212 >gi|308234847|ref|ZP_07665584.1| RNA polymerase sigma factor [Gardnerella vaginalis ATCC 14018] gi|311114490|ref|YP_003985711.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella vaginalis ATCC 14019] gi|310945984|gb|ADP38688.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella vaginalis ATCC 14019] Length = 434 Score = 288 bits (738), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 196 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 255 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 256 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 315 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 316 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLSPR 375 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 376 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 433 Score = 40.8 bits (94), Expect = 0.77, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 123 KRRVIATGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 164 >gi|309801431|ref|ZP_07695558.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium JCVIHMP022] gi|308221946|gb|EFO78231.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium JCVIHMP022] Length = 461 Score = 288 bits (738), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 223 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 282 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 283 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 342 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 343 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 402 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 403 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 460 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 150 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 191 >gi|171742642|ref|ZP_02918449.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC 27678] gi|171278256|gb|EDT45917.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC 27678] Length = 461 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 223 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 282 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 283 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 342 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 343 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 402 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 403 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 460 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 150 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 191 >gi|154509177|ref|ZP_02044819.1| hypothetical protein ACTODO_01698 [Actinomyces odontolyticus ATCC 17982] gi|153798811|gb|EDN81231.1| hypothetical protein ACTODO_01698 [Actinomyces odontolyticus ATCC 17982] Length = 561 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 324 AKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 383 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 384 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTAEKV 443 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 444 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHHVLDTLSER 503 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+G TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 504 EAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 561 Score = 40.8 bits (94), Expect = 0.71, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A+RIEAG Sbjct: 259 ATADPVKDYLKQIGKVSLLNAEQEVDLARRIEAG 292 >gi|119026029|ref|YP_909874.1| RNA polymerase sigma factor [Bifidobacterium adolescentis ATCC 15703] gi|118765613|dbj|BAF39792.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium adolescentis ATCC 15703] Length = 479 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 241 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 300 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 301 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 360 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 361 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 420 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 421 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 478 Score = 40.4 bits (93), Expect = 0.96, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 168 KRRVIAAGATADPVKDYLKQIGRVNLLNAEQEVDLSERIEAG 209 >gi|154488794|ref|ZP_02029643.1| hypothetical protein BIFADO_02101 [Bifidobacterium adolescentis L2-32] gi|154082931|gb|EDN81976.1| hypothetical protein BIFADO_02101 [Bifidobacterium adolescentis L2-32] Length = 478 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 240 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 299 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 300 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 359 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 360 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 419 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 420 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 477 Score = 40.4 bits (93), Expect = 0.98, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 167 KRRVIAAGATADPVKDYLKQIGRVNLLNAEQEVDLSERIEAG 208 >gi|320096194|ref|ZP_08027783.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 178 str. F0338] gi|319976875|gb|EFW08629.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 178 str. F0338] Length = 543 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 306 AKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 365 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 366 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 425 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 426 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHHVLDTLSER 485 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+G TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 486 EAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 543 Score = 38.5 bits (88), Expect = 3.5, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +A+RIEAG Sbjct: 241 ATADPVKDYLKQIGKVSLLNAAQEVDLARRIEAG 274 >gi|306822519|ref|ZP_07455897.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium dentium ATCC 27679] gi|304554064|gb|EFM41973.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium dentium ATCC 27679] Length = 472 Score = 288 bits (736), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 234 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 293 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 294 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 353 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 354 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 413 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 414 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 471 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 161 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 202 >gi|315604554|ref|ZP_07879617.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 180 str. F0310] gi|315313566|gb|EFU61620.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp. oral taxon 180 str. F0310] Length = 516 Score = 287 bits (735), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 279 AKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 338 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 339 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTAEKV 398 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 399 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHHVLDTLSER 458 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+G TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 459 EAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 516 Score = 40.8 bits (94), Expect = 0.70, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A+RIEAG Sbjct: 214 ATADPVKDYLKQIGKVSLLNAEQEVDLARRIEAG 247 >gi|225351336|ref|ZP_03742359.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium pseudocatenulatum DSM 20438] gi|225157680|gb|EEG70963.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 472 Score = 287 bits (735), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 234 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 293 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 294 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 353 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 354 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFRQVLETLSPR 413 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 414 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 471 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 161 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 202 >gi|283456279|ref|YP_003360843.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium Bd1] gi|283102913|gb|ADB10019.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium Bd1] Length = 328 Score = 287 bits (735), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 90 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 150 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 210 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 270 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 327 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 19/42 (45%), Positives = 31/42 (73%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ A +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 17 KRRVIAAGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 58 >gi|293189827|ref|ZP_06608541.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces odontolyticus F0309] gi|292821242|gb|EFF80187.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces odontolyticus F0309] Length = 561 Score = 287 bits (735), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 324 AKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 383 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 384 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTAEKV 443 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 444 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHHVLDTLSER 503 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+G TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 504 EAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 561 Score = 40.8 bits (94), Expect = 0.74, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A+RIEAG Sbjct: 259 ATADPVKDYLKQIGKVSLLNAEQEVDLARRIEAG 292 >gi|152990473|ref|YP_001356195.1| RNA polymerase sigma factor RpoD [Nitratiruptor sp. SB155-2] gi|151422334|dbj|BAF69838.1| RNA polymerase sigma 70 factor [Nitratiruptor sp. SB155-2] Length = 608 Score = 287 bits (735), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 132/253 (52%), Positives = 194/253 (76%), Gaps = 1/253 (0%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF+ Sbjct: 355 ILEQIKRGKKISEEAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFE 414 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP Sbjct: 415 YKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIVRKHLQETGKEPDV 474 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E IA+++ MPVE V+ V+KITKEP+SLE PIG+E+ GDFIEDKNA +PL+ ++ ++ Sbjct: 475 ETIAEEVGMPVEKVKNVIKITKEPVSLEAPIGNEEDGKFGDFIEDKNAPNPLEVIMKEDM 534 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L +L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+KLK Sbjct: 535 KSKIEEILENLNEREKAVVRMRFGLMPDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 594 Query: 669 HPSRSKKLRSFLD 681 HP +K++++++ Sbjct: 595 HPKVGRKIKNYIE 607 >gi|224418172|ref|ZP_03656178.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|253827499|ref|ZP_04870384.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|313141707|ref|ZP_07803900.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|253510905|gb|EES89564.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] gi|313130738|gb|EFR48355.1| RNA polymerase sigma factor RpoD [Helicobacter canadensis MIT 98-5491] Length = 616 Score = 287 bits (734), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 161/381 (42%), Positives = 245/381 (64%), Gaps = 28/381 (7%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG---ELLRLAQSYGIKRDV 369 K + LKEKL+ L G S L+ E + + I +EG EL RL + D+ Sbjct: 251 KKQFLKEKLLDL-GPTS------KLITELVKAMENTIKSDEGFDRELKRLEYRLPLFNDI 303 Query: 370 FLERHQG-----RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG--- 421 L H+ E++ + A PE A V + ++I+ ++ G Sbjct: 304 LLANHKKILDNITEMNKSDIIAA--VPE-------ATMVSTYMEIKKLFQTKLASEGSFD 354 Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + + I+ +++G+ A AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGL Sbjct: 355 LEPEKLKQILEQIKRGKDIADRAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGL 414 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ Sbjct: 415 MKAVDKFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKYLQ 474 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP ++IA+++ +PV+ V+ V+KITKEPISLE PIG+ + GDF+EDK +V P+ Sbjct: 475 EEGKEPDIDKIAEEVGLPVDKVKNVIKITKEPISLEAPIGNGEDGKFGDFVEDKGSVGPM 534 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIE 660 +S ++ +L+E VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE Sbjct: 535 ESILKEDLKEQIDDVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIE 594 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 + AI+KLKHP +KL+++++ Sbjct: 595 SSAIKKLKHPKVGRKLKNYIE 615 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 26/70 (37%), Positives = 45/70 (64%) Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 F+++R+ +D PVRMYLREMG I LL+RE E+ ++K IE G +++ ++C P Sbjct: 89 FMKERELLEWSRSDSPVRMYLREMGQIPLLTREDEVELSKNIELGENIILDAICSVPYLI 148 Query: 165 QALIIWRDEL 174 ++ +++ L Sbjct: 149 DFILDYKEAL 158 >gi|183601374|ref|ZP_02962744.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp. lactis HN019] gi|219683429|ref|YP_002469812.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis AD011] gi|241191127|ref|YP_002968521.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis Bl-04] gi|241196533|ref|YP_002970088.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis DSM 10140] gi|183218980|gb|EDT89621.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp. lactis HN019] gi|219621079|gb|ACL29236.1| principal sigma factor RpoD [Bifidobacterium animalis subsp. lactis AD011] gi|240249519|gb|ACS46459.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis Bl-04] gi|240251087|gb|ACS48026.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis DSM 10140] gi|295794116|gb|ADG33651.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis subsp. lactis V9] Length = 488 Score = 287 bits (734), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 250 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 309 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 310 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 369 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E +VL +L+PR Sbjct: 370 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFRQVLETLSPR 429 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 430 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 487 Score = 39.3 bits (90), Expect = 2.4, Method: Compositional matrix adjust. Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 30/92 (32%) Query: 58 VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 V S+ ED A+L+N G+N KR+ +T Sbjct: 157 VVSDNDEDDEALLANPGVN------------------------------PKRRVVTTGAT 186 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 187 ADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 218 >gi|237751866|ref|ZP_04582346.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Helicobacter winghamensis ATCC BAA-430] gi|229376742|gb|EEO26833.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Helicobacter winghamensis ATCC BAA-430] Length = 615 Score = 287 bits (734), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 159/376 (42%), Positives = 245/376 (65%), Gaps = 22/376 (5%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 K + LKEKL+ L + L I+ LV+ + + K + EL RL + D+ LE Sbjct: 253 KKQFLKEKLLDLGPTSKL----INELVKAMENTIKSDEGFDKELKRLEYRLPLFNDMLLE 308 Query: 373 RHQG-----RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG---ISI 424 H+ E++ ++ A PE A V + ++I+ ++ + G + Sbjct: 309 NHKKILENITEMNKTEITAA--VPE-------ATMVSTYMEIKKLFQTKAASEGSFDLEP 359 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I+ +++G+ A AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 360 EKLKQILEQIKRGKDIADKAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKA 419 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GY+FSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + Sbjct: 420 VDKFEYKKGYRFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKCLQEEG 479 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E+IA+++ +P++ V+ V+KITKEPISLE PIG+ + GDF+EDK+AV P+D Sbjct: 480 KEPDLEKIAEEVGLPLDKVKNVIKITKEPISLEAPIGNGEDGKFGDFVEDKSAVGPMDHI 539 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 540 LKEDLKSQIDDVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 599 Query: 664 IRKLKHPSRSKKLRSF 679 I+KLKHP +KL+++ Sbjct: 600 IKKLKHPKVGRKLKNY 615 >gi|269121540|ref|YP_003309717.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sebaldella termitidis ATCC 33386] gi|268615418|gb|ACZ09786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sebaldella termitidis ATCC 33386] Length = 387 Score = 286 bits (733), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 135/236 (57%), Positives = 184/236 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGN+GLMKA EKF++ G+KFSTYA WW Sbjct: 150 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 209 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + + +E T EE+AKKL +PV+ V Sbjct: 210 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEATAEELAKKLEIPVDKV 269 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L++ ++PISLETP+G E+ S LGDF+ED ++P D+ + L+E VL +L+ R Sbjct: 270 KSILEMNQDPISLETPVGSEEDSELGDFVEDDKFLNPYDATTRVLLKEQLDGVLKTLSER 329 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL + Sbjct: 330 EEMVLRYRYGLDDGSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLEDY 385 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 48/199 (24%), Positives = 86/199 (43%), Gaps = 27/199 (13%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG-----DDL 83 D +++K A++ G ++ EE+N +P D E+++ + + + GI++VD D + Sbjct: 10 DKLLELVKQAKEDGVISYEEINGVIPED-FPVEKIDQLIRGIEDKGISIVDTLVEKKDYM 68 Query: 84 EDEEGSEDS------------LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 E + + ++ + N + K + D+P++MYLRE+G I Sbjct: 69 ESNSTKKSAKIPEIEEEEFNEEEIDETEVNELLHTDLIKLAEIMDVDEPIKMYLREIGQI 128 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI 191 LL+ E EIA+A+++ L ES L + I + N G +L I Sbjct: 129 PLLTYEEEIALAQKVLENDEEAKQKLIESNLRL-VVSIAKKHTNRGLKMLDLI------- 180 Query: 192 GPESKGGFFHGTEGHSYQK 210 E G E Y+K Sbjct: 181 -QEGNMGLMKAVEKFEYEK 198 >gi|289178873|gb|ADC86119.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12] Length = 522 Score = 286 bits (733), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 284 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 343 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 344 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 403 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E +VL +L+PR Sbjct: 404 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFRQVLETLSPR 463 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 464 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 521 Score = 39.3 bits (90), Expect = 2.4, Method: Compositional matrix adjust. Identities = 18/42 (42%), Positives = 30/42 (71%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 211 KRRVVTTGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 252 >gi|237736224|ref|ZP_04566705.1| RNA polymerase sigma factor rpoD [Fusobacterium mortiferum ATCC 9817] gi|229421777|gb|EEO36824.1| RNA polymerase sigma factor rpoD [Fusobacterium mortiferum ATCC 9817] Length = 351 Score = 286 bits (733), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 137/236 (58%), Positives = 181/236 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++EANLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW Sbjct: 114 ASQQLIEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 173 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + AR + ++ TPE +A++L M VE V Sbjct: 174 IRQAITRAIADQGRTIRIPVHMIETINKIKKEARIYLQETGKDATPEVLAERLGMEVEKV 233 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + ++ ++PISLETP+G E+ S LGDF+ED ++P + ++ LRE VL SL+ R Sbjct: 234 KAIQEMNQDPISLETPVGSEEDSELGDFVEDNKMLNPYELTNRSLLREQLDGVLNSLSSR 293 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE+VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 294 EEKVLRYRYGLDDGSPKTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 349 Score = 46.6 bits (109), Expect = 0.013, Method: Compositional matrix adjust. Identities = 34/97 (35%), Positives = 46/97 (47%), Gaps = 3/97 (3%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 S D D+P++MYLRE+G I LLS + E+ AKR G L E+ L + I + Sbjct: 73 SGDMKVDEPIKMYLREIGQIPLLSHDEELEYAKRALEGDEWASQQLIEANLRL-VVSIAK 131 Query: 172 DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 N G LL I E IG F T+G+ + Sbjct: 132 KHTNRGLKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 166 >gi|23295779|gb|AAN12882.1| principal sigma factor RpoD [Bifidobacterium animalis subsp. lactis] Length = 508 Score = 286 bits (733), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 270 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 329 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 330 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 389 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E +VL +L+PR Sbjct: 390 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFRQVLETLSPR 449 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 450 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 507 Score = 39.3 bits (90), Expect = 2.5, Method: Compositional matrix adjust. Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 30/92 (32%) Query: 58 VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRST 117 V S+ ED A+L+N G+N KR+ +T Sbjct: 177 VVSDNDEDDEALLANPGVN------------------------------PKRRVVTTGAT 206 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 207 ADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 238 >gi|325971191|ref|YP_004247382.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta sp. Buddy] gi|324026429|gb|ADY13188.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta sp. Buddy] Length = 685 Score = 286 bits (733), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 137/247 (55%), Positives = 182/247 (73%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G+ AK ++ ANLRLV+S+AKKYTNRGL F DL+QEGNIGL+KA EKF++ G Sbjct: 439 IKYGQKMMKDAKDRLIRANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKG 498 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KVVR +R + + REPT EE+A Sbjct: 499 FKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVVRESRMLMQSLGREPTDEEVA 558 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +KL V+ V + +EPISLETP+G+E+ S L DFIEDK +P + L+E Sbjct: 559 EKLGWTESKVKAVKNVAREPISLETPVGEEEDSLLSDFIEDKEVENPATQTAYSLLQEQL 618 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VLA+L RE+ VL+MRFG+ TLEEVG F +TRERIRQIEAKA+R+L+HP RS Sbjct: 619 KDVLATLPAREQEVLKMRFGLEDGYSLTLEEVGLYFELTRERIRQIEAKALRRLRHPKRS 678 Query: 674 KKLRSFL 680 +KL+ F+ Sbjct: 679 RKLKDFI 685 Score = 45.4 bits (106), Expect = 0.036, Method: Compositional matrix adjust. Identities = 20/50 (40%), Positives = 34/50 (68%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 D +D S DDP+R+YLRE+G LL+ + E+ ++K++E G ++ + ES Sbjct: 193 DKSDSSGDDPIRLYLREIGKENLLTADQEVELSKKMEDGALIIKEVIQES 242 >gi|315226631|ref|ZP_07868419.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia denticolens DSM 10105] gi|315120763|gb|EFT83895.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia denticolens DSM 10105] Length = 690 Score = 286 bits (732), Expect = 8e-75, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 451 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 510 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 511 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 570 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E +VL +L+PR Sbjct: 571 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFKQVLETLSPR 630 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G + VTRERIRQIE+K + KL+HPSRS+ L+ FLD Sbjct: 631 EAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLRHPSRSQTLQDFLD 688 Score = 39.7 bits (91), Expect = 1.6, Method: Compositional matrix adjust. Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 2/64 (3%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCESPLTFQALIIWRDE 173 +T DPV+ YL+++G + LL+ + E+ +++RIEAG ++ + +TFQ + Sbjct: 385 ATSDPVKDYLKQIGRVNLLNAQQEVDLSERIEAGLYAQHLLDTTPADQMTFQRKRELKWA 444 Query: 174 LNDG 177 NDG Sbjct: 445 ANDG 448 >gi|291522137|emb|CBK80430.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7] Length = 365 Score = 286 bits (731), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 179/238 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+M EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EK+D+ GYKFSTYA WW Sbjct: 127 AAKKMAEANLRLVVSIAKRYVGRGMQFLDLIQEGNVGLIKAIEKYDYTKGYKFSTYATWW 186 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + ++K+ + R ++ ++ REP+ EEIA+ + M V V Sbjct: 187 IRQAITRSIADQARTIRIPVHMVETMNKLTKVQRSLTQELGREPSVEEIAENVHMDVNRV 246 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++LK+ +E +SLETP+G E+ SHL DFIED + P D A L++ VL L R Sbjct: 247 REILKLVQETVSLETPVGSEEESHLADFIEDDHTPLPSDEAAFGQLKDDIRSVLDKLNER 306 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++VLRMRFG+ +HTLEEVG++ VTRERIRQIEAKA+RKL+ +S L +L+ Sbjct: 307 EQKVLRMRFGLDDGKEHTLEEVGQELHVTRERIRQIEAKALRKLRQSGKSAGLEGYLN 364 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 39/138 (28%), Positives = 68/138 (49%), Gaps = 15/138 (10%) Query: 29 DSWKKMIKLARQRGY-VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE- 86 D K+++ A++R +T + ++ F ++ EQME L + GI V +D D Sbjct: 10 DKLKELVPFAKEREQELTSDMISDFFGHMPLTEEQMEKIYDYLESNGIFVDRSNDEPDRR 69 Query: 87 --EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +E+ +D + + TDDPVRMYL+E+G+I LL+ E E+ +AK Sbjct: 70 MLDEAEEEIDPNDISVPEGI-----------RTDDPVRMYLKEIGNIPLLTPEEEVELAK 118 Query: 145 RIEAGRAMMMASLCESPL 162 ++ G + E+ L Sbjct: 119 EMKEGSKQAAKKMAEANL 136 >gi|159901184|ref|YP_001547431.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159894223|gb|ABX07303.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 375 Score = 286 bits (731), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 132/243 (54%), Positives = 185/243 (76%), Gaps = 1/243 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ A++ +++ANLRLV+S+AKKY RG+ FLDLIQEGNIGLM+A EKFD+ G+KFSTY Sbjct: 133 ESEAARQHLIQANLRLVVSIAKKYVGRGMSFLDLIQEGNIGLMRATEKFDYHKGFKFSTY 192 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSI+D S TIR+PVH+ + I++V RTA ++ ++REP+ EEI + L +P Sbjct: 193 ATWWIRQAITRSISDHSRTIRLPVHVGETINRVKRTAHKLQQALEREPSAEEIGEALGLP 252 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + VR+VL++ ++P+SLETP+G+E S LGDFIED + PLD A + LRE VL Sbjct: 253 ADKVRRVLEVARQPVSLETPVGNEGDSVLGDFIEDDRSSEPLDHATEHLLREQLDEVLCK 312 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS-RSKKLRS 678 L RE R++ +R+G+ TLEEVG++F +TRERIRQIEAK +RKL+HP+ +KLR+ Sbjct: 313 LDERERRIIELRYGLVDGKYRTLEEVGREFGITRERIRQIEAKVLRKLRHPAFGGRKLRA 372 Query: 679 FLD 681 +L+ Sbjct: 373 YLE 375 Score = 46.2 bits (108), Expect = 0.016, Method: Compositional matrix adjust. Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 9/117 (7%) Query: 38 ARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 ARQ Y+T +++ LPP + ++ ++ I ++ EE ++ L S Sbjct: 4 ARQHRYLTHDQVLLHLPPSDKNTALFDELCVRCQAEDIPIL-------EEPPTAAVHLRS 56 Query: 98 SASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-RAMM 153 + L++ S DDPVRMYLRE+G + LL+ E +AK++E G RAM+ Sbjct: 57 RDVDDD-DLERSLIREGVSLDDPVRMYLREIGQVHLLTAHEETMLAKQLERGERAMI 112 >gi|238927759|ref|ZP_04659519.1| possible DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] gi|238884475|gb|EEQ48113.1| possible DNA-directed RNA polymerase sigma subunit SigA [Selenomonas flueggei ATCC 43531] Length = 382 Score = 286 bits (731), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 141/251 (56%), Positives = 189/251 (75%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + R+ E A+ + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ Sbjct: 131 VELARRMEAGDEAARHRLEEANLRLVVSIAKRYAGRGMMFLDLIQEGNLGLLKAVEKFDY 190 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K +R +R++ ++ R+PTPE Sbjct: 191 SKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKYIRISRQLLQELGRDPTPE 250 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + V VR+++KI++EP+SLETPIG+E+ + L DFIED+ A P D+A L+ Sbjct: 251 EIAHRMGLSVARVREIMKISQEPVSLETPIGEEEDTRLSDFIEDEAAPDPADAASMLLLK 310 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + VL +L PRE VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HP Sbjct: 311 EQISEVLTTLAPREAEVLRLRFGLVDGRSRTLEEVGQNFGVTRERIRQIEAKALRKLRHP 370 Query: 671 SRSKKLRSFLD 681 R +KL+ D Sbjct: 371 VRLRKLQGNFD 381 Score = 46.2 bits (108), Expect = 0.016, Method: Compositional matrix adjust. Identities = 35/113 (30%), Positives = 56/113 (49%), Gaps = 8/113 (7%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL-----A 96 G +T EL L + V+ + M++ I +VD D+ +E D D+ Sbjct: 31 GTLTCSELMEALVQEGVTPDAMDELYQHCMEENIEIVDDADVGADEELSDFTDIEDKDET 90 Query: 97 SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + L + A DDPVRMYL+E+G + LL+ E E+ +A+R+EAG Sbjct: 91 DADVDVDTVLSVPEGVA---LDDPVRMYLKEIGRVPLLTAEEEVELARRMEAG 140 >gi|332980900|ref|YP_004462341.1| RNA polymerase sigma-70 subunit RpoD [Mahella australiensis 50-1 BON] gi|332698578|gb|AEE95519.1| RNA polymerase, sigma 70 subunit, RpoD [Mahella australiensis 50-1 BON] Length = 356 Score = 285 bits (730), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 147/238 (61%), Positives = 194/238 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA EKFD+ GYKFSTYA WW Sbjct: 119 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 178 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+VR +R++ ++ REP PEE+A+++ + V+ V Sbjct: 179 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLMQELGREPAPEEVAEEMGISVDKV 238 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++KI +EP+SLETPIG+E+ SHLGDFI D +A +P ++A L+E VL +LTPR Sbjct: 239 RDIMKIAQEPVSLETPIGEEEDSHLGDFIPDDDAPAPAEAAAFTLLKEQLMDVLDTLTPR 298 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HPSRSKKL+ +L+ Sbjct: 299 EEKVLRLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYLE 356 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 40/131 (30%), Positives = 68/131 (51%), Gaps = 14/131 (10%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I+ + +G +T +E+ L ++ +Q++ L +GI+V++ + +E E+ + Sbjct: 12 KQLIETGKSKGVLTYKEIMDMLEDVDIDPDQIDKLYDTLETLGIDVIE-EPIEHEDNVVE 70 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 DL + + DDPVRMYL+E+G I LLS + EI +AKRIE G Sbjct: 71 E-DLEAGLPEGV------------NIDDPVRMYLKEIGKIPLLSSDEEIELAKRIEQGDE 117 Query: 152 MMMASLCESPL 162 L E+ L Sbjct: 118 EAKKRLAEANL 128 >gi|257470878|ref|ZP_05634968.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] gi|317065080|ref|ZP_07929565.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] gi|313690756|gb|EFS27591.1| RNA polymerase sigma factor rpoD [Fusobacterium ulcerans ATCC 49185] Length = 418 Score = 285 bits (730), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 136/236 (57%), Positives = 180/236 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++EANLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW Sbjct: 181 ASKQLIEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYSKGYKFSTYATWW 240 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + AR + ++ TPE + ++L M V+ V Sbjct: 241 IRQAITRAIADQGRTIRIPVHMIETINKIKKEARIYLQETGKDATPEVLGERLGMEVDKV 300 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + ++ ++PISLETP+G E+ S LGDF+ED ++P + ++ LRE VL +L+ R Sbjct: 301 KAIQEMNQDPISLETPVGSEEDSELGDFVEDHKMLNPYELTNRSLLREQLNGVLNTLSSR 360 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EERVLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 361 EERVLRYRYGLDDGSPKTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 416 Score = 45.4 bits (106), Expect = 0.036, Method: Compositional matrix adjust. Identities = 33/97 (34%), Positives = 46/97 (47%), Gaps = 3/97 (3%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 S D D+P++MYLRE+G I LLS + E+ AKR G L E+ L + I + Sbjct: 140 SGDMKVDEPIKMYLREIGQIPLLSHDEELEYAKRALEGDDWASKQLIEANLRL-VVSIAK 198 Query: 172 DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 N G LL I E IG F ++G+ + Sbjct: 199 KHTNRGLKLLDLI--QEGNIGLMKAVEKFEYSKGYKF 233 >gi|157164653|ref|YP_001467098.1| RNA polymerase sigma factor RpoD [Campylobacter concisus 13826] gi|112799942|gb|EAT97286.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter concisus 13826] Length = 617 Score = 285 bits (730), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 132/259 (50%), Positives = 195/259 (75%), Gaps = 1/259 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 359 ARLKEILEQIKRGKKISDEAKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKA 418 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + Sbjct: 419 VDKFEYRKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKINRKYLQEEG 478 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP IAK++ + V+ V++V+KITKEPISLE PI +E+ GDF+EDK ++SP+D Sbjct: 479 KEPDVSVIAKEVGLSVDKVKQVIKITKEPISLEAPIANEEDGKFGDFVEDKTSLSPIDQI 538 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 ++++LRE VL+ L RE+ V+ MRFG+ + +D TLEE+GK VTRER+RQIE+ A Sbjct: 539 LKSDLREQIDDVLSQLNEREKAVISMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSA 598 Query: 664 IRKLKHPSRSKKLRSFLDG 682 I+KLKHP +KL+++++G Sbjct: 599 IKKLKHPKVGRKLKNYIEG 617 >gi|158316157|ref|YP_001508665.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158111562|gb|ABW13759.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 400 Score = 285 bits (730), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 130/243 (53%), Positives = 185/243 (76%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ LDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 157 EQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYTKGYKFS 216 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QA+TR+IADQ TIRIPVHM + I+KV R R++ + REP+PEEIA ++ Sbjct: 217 TYATWWIRQAVTRAIADQGRTIRIPVHMVETINKVTRIQRQLLQDLGREPSPEEIATQVD 276 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V ++LK+ + P++LETPIG+E S LGDFIED +A+ P ++A L+E VL Sbjct: 277 LAPHRVEEILKVGQTPVALETPIGEEQDSQLGDFIEDNDAIVPFEAASFVLLQEQIDSVL 336 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE++V+++RFG+ TLE+VG++F VTRERIRQIE++ + KL HP+RS++LR Sbjct: 337 HTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIESRTLAKLSHPARSQRLR 396 Query: 678 SFL 680 +L Sbjct: 397 DYL 399 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 45/145 (31%), Positives = 71/145 (48%), Gaps = 30/145 (20%) Query: 15 HED---SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 HED +D S + +++ + +I ++ G+VT +++ A L E+ E + + +L+ Sbjct: 8 HEDAPPTDLSAPDEAAEEKIRSLIARGKENGFVTPDDIAAALLAAELPPESSDVVLRLLA 67 Query: 72 NMGINVVD--GDDLED-----EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 GI V+D G D D EG E +L S DPVRMY Sbjct: 68 EDGIEVLDEVGGDASDMPSRRREGEELALTTPPS--------------------DPVRMY 107 Query: 125 LREMGSIELLSREGEIAIAKRIEAG 149 L+ +G + LL+ E E+ +AKRIEAG Sbjct: 108 LKAIGRVRLLTAEEEVDLAKRIEAG 132 >gi|253581343|ref|ZP_04858569.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] gi|251836707|gb|EES65241.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium varium ATCC 27725] Length = 414 Score = 285 bits (729), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 136/236 (57%), Positives = 180/236 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++EANLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW Sbjct: 177 ASKQLIEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYSKGYKFSTYATWW 236 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + AR + ++ TPE + ++L M V+ V Sbjct: 237 IRQAITRAIADQGRTIRIPVHMIETINKIKKEARIYLQETGKDATPEVLGERLGMEVDKV 296 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + ++ ++PISLETP+G E+ S LGDF+ED ++P + ++ LRE VL +L+ R Sbjct: 297 KAIQEMNQDPISLETPVGSEEDSELGDFVEDHKMLNPYELTNRSLLREQLNGVLNTLSSR 356 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EERVLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 357 EERVLRYRYGLDDGSPKTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 412 Score = 45.8 bits (107), Expect = 0.023, Method: Compositional matrix adjust. Identities = 33/97 (34%), Positives = 46/97 (47%), Gaps = 3/97 (3%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 S D D+P++MYLRE+G I LLS + E+ AKR G L E+ L + I + Sbjct: 136 SGDMKVDEPIKMYLREIGQIPLLSHDEELEYAKRALEGDEWASKQLIEANLRL-VVSIAK 194 Query: 172 DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 N G LL I E IG F ++G+ + Sbjct: 195 KHTNRGLKLLDLI--QEGNIGLMKAVEKFEYSKGYKF 229 >gi|270283843|ref|ZP_05965086.2| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium gallicum DSM 20093] gi|270277549|gb|EFA23403.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium gallicum DSM 20093] Length = 485 Score = 285 bits (729), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 247 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 306 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 307 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 366 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ GD IED +A++P D+ + L+E +VL +L+PR Sbjct: 367 QEVQKYGREPISLHTPLGEDGDPEFGDLIEDTDAIAPSDAVAFSLLQEQFKQVLETLSPR 426 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G+ + VTRERIRQIE+K + KL+HPSRS+ LR FLD Sbjct: 427 EAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFLD 484 Score = 39.3 bits (90), Expect = 2.3, Method: Compositional matrix adjust. Identities = 18/42 (42%), Positives = 30/42 (71%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 KR+ +T DPV+ YL+++G + LL+ E E+ +++RIEAG Sbjct: 174 KRRVVTTGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAG 215 >gi|269837239|ref|YP_003319467.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269786502|gb|ACZ38645.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 390 Score = 285 bits (728), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 180/238 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ANLRLV+SVAKKY RGL FLDLIQEGNIGLMKA +KFD+ G+KFSTYA WW Sbjct: 153 ARAHLIQANLRLVVSVAKKYVGRGLSFLDLIQEGNIGLMKATDKFDYKRGFKFSTYATWW 212 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+I+DQS TIR+PVH+ + I++V +T++R+ +REPT EE+A+ + +P E V Sbjct: 213 IRQAITRAISDQSRTIRLPVHVGETINRVKKTSQRLQQIFEREPTFEEVARAMDIPEEKV 272 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL ++ P+SLE P+G E + LGDFIED PL+ A Q L+ + L+ LT R Sbjct: 273 RQVLDASRHPVSLEAPVGQEGDAFLGDFIEDDTMPPPLELASQELLKHQISDALSKLTER 332 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E R++ +RFG+ TLEEVG++F +TRERIRQIEAKA+RKL+HP+ S +LR +LD Sbjct: 333 ERRIIILRFGLEDGQFRTLEEVGREFGITRERIRQIEAKALRKLRHPTYSHRLRGYLD 390 Score = 59.3 bits (142), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 41/120 (34%), Positives = 67/120 (55%), Gaps = 4/120 (3%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I + RGY+ +E+ A P E + E +++ + L GI V+D + + G+ SL Sbjct: 5 LIARGKDRGYLLSDEIIAAFPNAEENVESLDEFYSTLVEQGIEVLDQEPT-NGNGTTASL 63 Query: 94 D--LASSASNSSVFLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 AS + +S + R+D AD S D VR+YL+E+G LL+ E E+ +AKR+E G+ Sbjct: 64 SERTASQPAPASPTIDTRQDVADAVSVSDSVRLYLQEIGETSLLTMEEEVWLAKRMERGK 123 >gi|34558185|ref|NP_908000.1| RNA polymerase sigma factor RpoD [Wolinella succinogenes DSM 1740] gi|34483904|emb|CAE10900.1| RNA POLYMERASE SIGMA FACTOR [Wolinella succinogenes] Length = 620 Score = 285 bits (728), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 161/383 (42%), Positives = 248/383 (64%), Gaps = 28/383 (7%) Query: 311 SVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG---ELLRLAQSYGIKR 367 + K + LKE+L+ L G S L+ E + + + ++EG EL RL + Sbjct: 253 AYKKQTLKERLLDL-GPTS------KLINELVKAMENTLRNDEGFDRELKRLEYKLPLFN 305 Query: 368 DVFLERHQG-----RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRN--EIKSISVET 420 + LE HQ E+ + ++ A PE A V + ++I+ + K S E+ Sbjct: 306 ETLLENHQKILENITEMSKNDIASA--VPE-------ATMVSTYMEIKKLFQTKQASEES 356 Query: 421 -GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 + + + I+ +++G+ A AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNI Sbjct: 357 FDLEPEKLKEILEQIKRGKDIADKAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNI 416 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ Sbjct: 417 GLMKAVDKFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKY 476 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + +EP E I++++ +PV+ V+ V+KITKEPISLE PIG ++ GDF+EDK++V Sbjct: 477 LQEEGKEPDVETISEEVGLPVDKVKNVIKITKEPISLEAPIGSDEDGKFGDFVEDKSSVG 536 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQ 658 P+D ++ +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQ Sbjct: 537 PMDHILKEDLKTQIDEVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQ 596 Query: 659 IEAKAIRKLKHPSRSKKLRSFLD 681 IE+ AI+KLKHP +KL+++++ Sbjct: 597 IESSAIKKLKHPKVGRKLKNYIE 619 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 25/70 (35%), Positives = 45/70 (64%) Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 F+++R+ +D PVRMYLREMG I LL+++ EI ++K IE G +++ ++C P Sbjct: 90 FMKERELLEWSRSDSPVRMYLREMGQIPLLTKDEEIELSKNIELGENIILDAICSVPYLI 149 Query: 165 QALIIWRDEL 174 ++ +++ L Sbjct: 150 DFILDYKEAL 159 >gi|218515736|ref|ZP_03512576.1| RNA polymerase sigma factor RpoD [Rhizobium etli 8C-3] Length = 191 Score = 285 bits (728), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 141/192 (73%), Positives = 161/192 (83%), Gaps = 5/192 (2%) Query: 493 GYKFSTYAMWWVK---QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 GYK YA WW+ + R R VHM + I+K+VRT+R+M ++I REPTP Sbjct: 1 GYKVLDYATWWMPSGDHPLDRRTRPARSAFR--VHMIETINKIVRTSRQMLHEIGREPTP 58 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+KLAMP+E VRKVLKI KEPISLETP+GDE+ SHLGDFIEDKNA+ P+D+AIQANL Sbjct: 59 EELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANL 118 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIEAKA+RKLKH Sbjct: 119 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKH 178 Query: 670 PSRSKKLRSFLD 681 PSRS+KLRSFLD Sbjct: 179 PSRSRKLRSFLD 190 >gi|242310656|ref|ZP_04809811.1| RNA polymerase sigma factor [Helicobacter pullorum MIT 98-5489] gi|239523054|gb|EEQ62920.1| RNA polymerase sigma factor [Helicobacter pullorum MIT 98-5489] Length = 615 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 132/256 (51%), Positives = 195/256 (76%), Gaps = 1/256 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ A AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 359 LKQILEQIKRGKDIADRAKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 418 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +E Sbjct: 419 KFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKYLQEEGKE 478 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P E+IA+++ +PV+ V+ V+KITKEPISLE PIG+ + GDF+EDK ++ P+DS ++ Sbjct: 479 PDIEKIAEEVGLPVDKVKNVIKITKEPISLEAPIGNGEDGKFGDFVEDKASLGPMDSILK 538 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+ Sbjct: 539 EDLKAQIDDVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIK 598 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHP +KL+++++ Sbjct: 599 KLKHPKVGRKLKNYIE 614 Score = 58.2 bits (139), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 26/70 (37%), Positives = 45/70 (64%) Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 F+++R+ +D PVRMYLREMG I LL+RE E+ ++K IE G +++ ++C P Sbjct: 89 FMKERELLEWSRSDSPVRMYLREMGQIPLLTREDEVELSKNIELGENIILDAICSVPYLI 148 Query: 165 QALIIWRDEL 174 ++ +++ L Sbjct: 149 DFILDYKEAL 158 >gi|294786990|ref|ZP_06752244.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens F0305] gi|294485823|gb|EFG33457.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens F0305] Length = 403 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 184/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFDW G+KFSTYA WW Sbjct: 164 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWKKGFKFSTYATWW 223 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L MPVE V Sbjct: 224 IRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDELARELDMPVEKV 283 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V K +EPISL TP+G++ S GD IED +A++P ++ + L+E +VL +L+PR Sbjct: 284 QEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQEQFKQVLETLSPR 343 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V++MR+G+ TL+++G + VTRERIRQIE+K + KL+HPSRS+ L+ FLD Sbjct: 344 EAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLRHPSRSQTLQDFLD 401 Score = 39.3 bits (90), Expect = 2.3, Method: Compositional matrix adjust. Identities = 20/60 (33%), Positives = 37/60 (61%), Gaps = 2/60 (3%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCESPLTFQ 165 KR+ +T DPV+ YL+++G + LL+ + E+ +++RIEAG ++ + +TFQ Sbjct: 90 KRRILTTGATSDPVKDYLKQIGRVNLLNAQQEVDLSERIEAGLYAQHLLDTTPADQMTFQ 149 >gi|91203809|emb|CAJ71462.1| strongly similar to transcription initiation factor sigma RpoD [Candidatus Kuenenia stuttgartiensis] Length = 551 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 135/239 (56%), Positives = 182/239 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ ANLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +K+++ GYKFSTYA WW Sbjct: 308 AKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 367 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQ+ TIRIPVHM + + K+ ++++ REPT EEIA+++ + V Sbjct: 368 IRQAITRSIADQARTIRIPVHMIETMSKIRNISKKLLQDKGREPTIEEIAREVKISVPEA 427 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VLKI++ ISL+ P+G+ + S GDFIED+ A SP+ +A Q L++ VL +LT R Sbjct: 428 RRVLKISRHQISLDRPVGESEDSSFGDFIEDEKAESPVAAATQEMLKDKIESVLETLTYR 487 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E ++++R+GIG +TLEEVGK F VTRER+RQIEAKA+RKL+HP RS+KL FLDG Sbjct: 488 EREIIKLRYGIGDGYTYTLEEVGKIFKVTRERVRQIEAKAVRKLQHPIRSRKLEGFLDG 546 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 49/147 (33%), Positives = 82/147 (55%), Gaps = 4/147 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD-EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K + + +++GY+T EELN LP D E+ +++D + ML +GI+++D D+E E + Sbjct: 9 KLLTQKGKEKGYLTYEELNDMLPDDAEIPPGKIDDILMMLDELGIDLIDEADIEGREVVD 68 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 + + S F + DDPVRMYL +MG I LL+R+ EI +AK+IE R Sbjct: 69 SE---EAEHYSESEFGFGEVSTVTEKIDDPVRMYLTQMGEIPLLTRDEEIMLAKKIEITR 125 Query: 151 AMMMASLCESPLTFQALIIWRDELNDG 177 + + S L+ Q + +++N+G Sbjct: 126 RGFLKKVLHSDLSLQTCLKIVEDVNNG 152 >gi|226327187|ref|ZP_03802705.1| hypothetical protein PROPEN_01052 [Proteus penneri ATCC 35198] gi|225204405|gb|EEG86759.1| hypothetical protein PROPEN_01052 [Proteus penneri ATCC 35198] Length = 201 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 137/200 (68%), Positives = 165/200 (82%) Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 1 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQ 60 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REP+PEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED PL Sbjct: 61 EMGREPSPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPL 120 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 DSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEA Sbjct: 121 DSATSESLRSATHEVLAGLTLREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 180 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HPSRS+ LRSFLD Sbjct: 181 KALRKLRHPSRSEVLRSFLD 200 >gi|313893234|ref|ZP_07826811.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158 str. F0412] gi|313442587|gb|EFR61002.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158 str. F0412] Length = 386 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 133/232 (57%), Positives = 179/232 (77%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V+ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW++QAI Sbjct: 155 VDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAI 214 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQ+ TIRIPVHM + I+K++R +R++ REP PEEIA+ + + VE VR++ K Sbjct: 215 TRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQK 274 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I +EP+SLETPIG+E+ SHLGDFIED++A++P D+A L+E V LT RE++VL Sbjct: 275 IAQEPVSLETPIGEEEDSHLGDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDREQQVL 334 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + K++ FL Sbjct: 335 ILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLRNRGKRDKIKDFL 386 Score = 62.4 bits (150), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 43/125 (34%), Positives = 72/125 (57%), Gaps = 8/125 (6%) Query: 32 KKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 +++++ R+ G +T E+ +A E+++EQ++D L + I VV D++ E+ E Sbjct: 15 EQLLEKGRKTGVLTQSEISDALHEQAEITAEQLDDIYTTLGKLNIEVVA--DIDAEDVDE 72 Query: 91 DSL----DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + D S S+ + DS + DDPVRMYL+E+G + LLS + EI +AK+I Sbjct: 73 NPIVPEEDAEEVVSEKSISIDLSVDSG-VNIDDPVRMYLKEIGRVPLLSADEEIVLAKQI 131 Query: 147 EAGRA 151 EAG A Sbjct: 132 EAGAA 136 >gi|157364824|ref|YP_001471591.1| RpoD family RNA polymerase sigma factor [Thermotoga lettingae TMO] gi|157315428|gb|ABV34527.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga lettingae TMO] Length = 400 Score = 284 bits (727), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 184/248 (74%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++E+NLRLV+S+AK+Y RGL FLDLIQEGNIGL+KA EKFDW Sbjct: 146 LARRAQIGNKRAKEKLIESNLRLVVSIAKRYIGRGLPFLDLIQEGNIGLLKAVEKFDWKK 205 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K +P+ EE+ Sbjct: 206 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRITREYYQKHGEQPSLEEL 265 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + PV+ V ++L+ +KE +SLE P+G+++ S +GDF+ D+N SP A++ +RE Sbjct: 266 AKLMDKPVDKVEEILQASKETVSLEAPVGEDEDSTVGDFVADENITSPKKEAMRMLMREE 325 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L PRE VL+MR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 326 LEKVLKTLNPREAMVLKMRYGLLDGKAKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 385 Query: 673 SKKLRSFL 680 SK L+S + Sbjct: 386 SKYLKSLI 393 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 35/133 (26%), Positives = 65/133 (48%), Gaps = 8/133 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDE--VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 + +IK +++G++T ++++ PPD + +E L IN+ +D E Sbjct: 40 RNLIKTGKKKGFITYDDIDKAFPPDYDGFDTSLIEHIYEELEKNKINI------QDTEPI 93 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 E+ +D + S+ + + + + DP++MYLRE+G I LL+ E +A+R + G Sbjct: 94 EEIIDEDVESEIPSLLEEGPEIYDNVALKDPIKMYLREIGKIPLLTPSQERELARRAQIG 153 Query: 150 RAMMMASLCESPL 162 L ES L Sbjct: 154 NKRAKEKLIESNL 166 >gi|224438138|ref|ZP_03659073.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] gi|313144578|ref|ZP_07806771.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] gi|313129609|gb|EFR47226.1| RNA polymerase sigma factor RpoD [Helicobacter cinaedi CCUG 18818] Length = 623 Score = 284 bits (726), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 129/257 (50%), Positives = 194/257 (75%), Gaps = 1/257 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + I+ +++G+ + AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 366 KLKEILEQIKRGKSISDKAKAKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAV 425 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ G+KFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + + Sbjct: 426 DKFEYKKGFKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRIHKIMRKHIQETGK 485 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP E IAK++ +P++ V+ V+KITKEP+SL+ PIG +D GDF+EDK++V P+D + Sbjct: 486 EPDIEYIAKEVGLPIDKVKNVIKITKEPVSLDAPIGSDDDGKFGDFVEDKSSVGPMDYIL 545 Query: 606 QANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ AI Sbjct: 546 KEDLKVQIDDVLEQLNDREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAI 605 Query: 665 RKLKHPSRSKKLRSFLD 681 +KLKHP +KL+++++ Sbjct: 606 KKLKHPKVGRKLKNYIE 622 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 38/58 (65%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E E++++K IE G ++ ++C P + ++D L Sbjct: 111 SDSPVRMYLREMGQIPLLTKEEEVSLSKNIELGENTILDAICSVPYLIDFIYDYKDAL 168 >gi|221632805|ref|YP_002522027.1| sigma factor MysA [Thermomicrobium roseum DSM 5159] gi|221156346|gb|ACM05473.1| sigma factor MysA [Thermomicrobium roseum DSM 5159] Length = 369 Score = 284 bits (726), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 140/272 (51%), Positives = 194/272 (71%), Gaps = 2/272 (0%) Query: 410 RNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 R +I + +E G SE + + K + E A+ +++ANLRLV+SVAKKY RGL Sbjct: 100 RGKIAKVRLERGDYKSEDERLALVADKEDGER--ARAHLIQANLRLVVSVAKKYVGRGLS 157 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 FLDLIQEGNIGLMKA EKFD+ GYKFSTYA WW++QAITR+I+DQS TIR+PVH+ + I Sbjct: 158 FLDLIQEGNIGLMKATEKFDYKRGYKFSTYATWWIRQAITRAISDQSRTIRLPVHVGETI 217 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +++ + + R+ ++REPT E+A+ L MP E +R++L+ + P+SLE PIG + + LG Sbjct: 218 NRIKKISHRLQQILEREPTQLEVARALDMPEEKIRQILEAARLPVSLEAPIGQDGDAFLG 277 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIED+ +PL+ A Q LR+ L+ LT RE R++ +R+G+ TLEEVG++F Sbjct: 278 DFIEDETQPAPLEIASQQLLRQQLEEALSRLTERERRIIILRYGLEDGQFRTLEEVGREF 337 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +TRERIRQIEAKA+RKL+HPS S+ LR +LD Sbjct: 338 GITRERIRQIEAKALRKLRHPSCSRFLRGYLD 369 Score = 37.7 bits (86), Expect = 6.6, Method: Compositional matrix adjust. Identities = 19/43 (44%), Positives = 29/43 (67%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 +R D ST D VR+YL+E+G LL+ + E+ +A+RIE G+ Sbjct: 60 ERFDDDGLSTSDTVRLYLQEIGETALLTPQEEVWLAQRIERGK 102 >gi|227495524|ref|ZP_03925840.1| sigma factor [Actinomyces coleocanis DSM 15436] gi|226831071|gb|EEH63454.1| sigma factor [Actinomyces coleocanis DSM 15436] Length = 505 Score = 284 bits (726), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 180/242 (74%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + ++K ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 264 DGQLSKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 323 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M Sbjct: 324 ATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMT 383 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E +VL + Sbjct: 384 PEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPTDAVSFTLLQEQLHKVLDT 443 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+G TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 444 LSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 503 Query: 680 LD 681 LD Sbjct: 504 LD 505 Score = 39.3 bits (90), Expect = 2.2, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +A+RIEAG Sbjct: 203 ATTDPVKDYLKQIGKVSLLTAADEVDLARRIEAG 236 >gi|238018971|ref|ZP_04599397.1| hypothetical protein VEIDISOL_00831 [Veillonella dispar ATCC 17748] gi|237864455|gb|EEP65745.1| hypothetical protein VEIDISOL_00831 [Veillonella dispar ATCC 17748] Length = 387 Score = 283 bits (725), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 133/232 (57%), Positives = 179/232 (77%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V+ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA WW++QAI Sbjct: 156 VDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAI 215 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQ+ TIRIPVHM + I+K++R +R++ REP PEEIA+ + + VE VR++ K Sbjct: 216 TRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQK 275 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I +EP+SLETPIG+E+ SHLGDFIED++A++P D+A L+E V LT RE++VL Sbjct: 276 IAQEPVSLETPIGEEEDSHLGDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDREQQVL 335 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +RFG+ TLEEVG+ F VTRERIRQIE KA+ KL++ + K++ FL Sbjct: 336 ILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLRNRGKRDKIKDFL 387 Score = 56.6 bits (135), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 40/124 (32%), Positives = 71/124 (57%), Gaps = 5/124 (4%) Query: 32 KKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMGINVV---DGDDLEDEE 87 +++++ R+ G +T E+ +A ++++EQ++D + I VV DG+D + Sbjct: 15 EQLLEKGRKTGVLTQSEISDALHEQTDLTAEQLDDIYTTFGKLNIEVVADIDGEDADANP 74 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D ++S ++ + DS + DDPVRMYL+E+G + LLS + EI +AK+IE Sbjct: 75 IEPEEEDEEDTSSEKNISIDLSVDSG-VNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIE 133 Query: 148 AGRA 151 AG A Sbjct: 134 AGAA 137 >gi|310777992|ref|YP_003966325.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] gi|309747315|gb|ADO81977.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] Length = 408 Score = 283 bits (725), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 136/236 (57%), Positives = 179/236 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++VEANLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF++ GYKFSTYA WW Sbjct: 171 ATQQLVEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 230 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + ++ TPE +A++L M E + Sbjct: 231 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDATPEVLAERLGMESEKI 290 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L++ ++PISLETP+G E+ S LGDF+ED +SP + + L+E VL SL+ R Sbjct: 291 KAILEMNQDPISLETPVGSEEDSELGDFVEDNKMLSPYEQTNRNLLKEQLDDVLQSLSER 350 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE+VLR R+G+ TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL F Sbjct: 351 EEKVLRFRYGLDDGCPRTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLEDF 406 Score = 41.6 bits (96), Expect = 0.47, Method: Compositional matrix adjust. Identities = 31/97 (31%), Positives = 45/97 (46%), Gaps = 3/97 (3%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 S+ D+P++MYLRE+G + LL+ + EI AK G L E+ L + I + Sbjct: 130 SSGVDVDEPIKMYLREIGQVPLLTHKQEIEHAKNSAEGDEWATQQLVEANLRL-VVSIAK 188 Query: 172 DELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 N G LL I E IG F T+G+ + Sbjct: 189 KHTNRGLKLLDLI--QEGNIGLMKAVEKFEYTKGYKF 223 >gi|294102609|ref|YP_003554467.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Aminobacterium colombiense DSM 12261] gi|293617589|gb|ADE57743.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Aminobacterium colombiense DSM 12261] Length = 377 Score = 283 bits (725), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 141/251 (56%), Positives = 192/251 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E AK+++++ANLRLV+S+AKKY RG+ FLDLIQEGN+GL++A EKFD+ Sbjct: 127 VELAKRVEAGEEEAKQQIIDANLRLVVSIAKKYIGRGMLFLDLIQEGNLGLIRAVEKFDY 186 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIR+PVHM + I+K+VR +R++ K+ REPT E Sbjct: 187 RKGFKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKMVRVSRQLVQKLGREPTDE 246 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA ++ + V ++ +I + P+SLETPIG+E+ S LGDFIED++ SP ++A L Sbjct: 247 EIAAEMEIEPSKVEEIRRIAQLPVSLETPIGEEEDSQLGDFIEDRDLPSPEEAAASHLLH 306 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +L +L+ RE VL+ RFG+ +TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 307 EQIDEMLEALSEREREVLQYRFGLEDGRSYTLEEVGKRFGVTRERIRQIEAKALRKLRHP 366 Query: 671 SRSKKLRSFLD 681 SRSKKLR FLD Sbjct: 367 SRSKKLRDFLD 377 Score = 65.9 bits (159), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 40/116 (34%), Positives = 65/116 (56%), Gaps = 6/116 (5%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I+ + +G+VT +++ F+P + S++ +ED V+ L MGI V + EEG E + Sbjct: 27 LIQEGQTKGFVTQKDIEKFIPVEFWSADVLEDVVSNLMEMGIEVTE------EEGKERAQ 80 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A + + + D DPVRMYLRE+G + LL E+ +AKR+EAG Sbjct: 81 HIAEEEALAQPADGEIGKLDDIPLTDPVRMYLREIGKVPLLEPAQEVELAKRVEAG 136 >gi|254457867|ref|ZP_05071294.1| sigma 28 [Campylobacterales bacterium GD 1] gi|207085260|gb|EDZ62545.1| sigma 28 [Campylobacterales bacterium GD 1] Length = 623 Score = 283 bits (725), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 134/253 (52%), Positives = 194/253 (76%), Gaps = 1/253 (0%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I+ +++G+ + I+K +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF+ Sbjct: 370 ILEQIKRGKNISEISKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFE 429 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP Sbjct: 430 YQKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKHLQEHGKEPDV 489 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E IA ++ + VE V+ V+KITKEPISLE PIG+ED GDFIEDK+++SP D+ ++ +L Sbjct: 490 EVIALEVGLSVEKVKNVIKITKEPISLEAPIGNEDDGRFGDFIEDKSSISPSDAILKDDL 549 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R VL L RE+ V+++RFGI + +D TLEE+G++ VTRER+RQIE+ AI+KLK Sbjct: 550 RVQIEGVLEQLNEREKAVIKLRFGIMDDESDRTLEEIGRELNVTRERVRQIESSAIKKLK 609 Query: 669 HPSRSKKLRSFLD 681 HP +KL+S+++ Sbjct: 610 HPKVGRKLKSYIE 622 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 26/58 (44%), Positives = 42/58 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E EI I+K+IE G ++++ ++C P + ++ +R+ L Sbjct: 103 SDSPVRMYLREMGQIPLLTKEEEIEISKKIEGGESIIIDAICSVPYLIRFILDYREPL 160 >gi|149175263|ref|ZP_01853885.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] gi|148845872|gb|EDL60213.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] Length = 561 Score = 283 bits (725), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 151/368 (41%), Positives = 232/368 (63%), Gaps = 41/368 (11%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + K+ L+ LSL R+ + +++L IS+R+ E ++ R Sbjct: 209 RRKMATLIEELSLRTQRLQIGMKRLEQISQRMTELEDQI--------------------R 248 Query: 378 ELDPHWVSYAKD---FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 ++ + +KD E E ++ VA +++ +R IK+ V Sbjct: 249 DMSDMRIKNSKDDRANLERELQDLVAMTMETPETLRERIKA------------------V 290 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 ++ + A +E+ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +K+++ GY Sbjct: 291 KQRYLDYETAMRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGY 350 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 KFSTYA WW++QAITR+IADQ+ TIRIPVHM + + K+ + ++++ + REPT EE A+ Sbjct: 351 KFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRKVSKQLLQENGREPTLEETAE 410 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + +E R+VLKI++ PISL+ P+G+ + S+ GDFIED ++ SP+++A Q L++ Sbjct: 411 VAGISLEETRRVLKISRHPISLDRPVGESEDSYFGDFIEDSDSDSPVNTASQEMLKDKID 470 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL +LT RE ++++RFG+G +TLEEVG+ F VTRER+RQIEAKA+RKL+HP RSK Sbjct: 471 HVLKTLTYREREIIKLRFGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSK 530 Query: 675 KLRSFLDG 682 +L+ F++G Sbjct: 531 QLQGFIEG 538 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 39/133 (29%), Positives = 72/133 (54%), Gaps = 12/133 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 D ++I+ +++GY+T ++++A+LP + ++ E++++ + + I ++ D + D+ Sbjct: 5 DARLNELIENGKKQGYLTYDQVSAYLPDEALNPEKLDNLL-----LTIEEIELDIIPDQI 59 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + S +S D R DDPVRMYL +MG I LL+R+ EI +AK+IE Sbjct: 60 ITILQPEKPKGRSRTS-------DDLSRRIDDPVRMYLTQMGEIPLLTRDEEIRLAKKIE 112 Query: 148 AGRAMMMASLCES 160 R L S Sbjct: 113 ITRRRFRRELLSS 125 >gi|32266044|ref|NP_860076.1| RNA polymerase sigma factor RpoD [Helicobacter hepaticus ATCC 51449] gi|32262093|gb|AAP77142.1| RNA polymerase sigma 70 factor [Helicobacter hepaticus ATCC 51449] Length = 623 Score = 283 bits (724), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 165/417 (39%), Positives = 264/417 (63%), Gaps = 27/417 (6%) Query: 279 KVMCALDEIAEVYRE-LRSLQDNAVNGQKDEKSSV-----KCKVLKEKLVKLVGSLSLNQ 332 KVM + + + +E L+ L+ V G+ DE + + K +LK KL+ L + L Sbjct: 219 KVMESFKALDKAKKEWLKVLETPIVEGE-DELAHILLLSHKKHILKMKLLDLGPTSKL-- 275 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKD--- 389 I LV+ + + K E EL RL + D+ +E HQ ++ + + ++D Sbjct: 276 --IGELVKAMENTLKSGDGFERELKRLEYKLPLFNDMLVENHQ--KILANITTMSRDEIA 331 Query: 390 --FPEGEWKNFVACEVDSILKIRNEIKSISVETGISIS--EFRHIVSMVRKGECEASIAK 445 PE + V E+ + + + + E G ++ + + I+ +++G+ + AK Sbjct: 332 AMVPETTMVS-VYVELKKLFQTKE-----ASEGGFNLEPEKLKEILEQIKRGKSISDKAK 385 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF++ G+KFSTYA WW++ Sbjct: 386 AKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGFKFSTYATWWIR 445 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP + IAK++ +P++ V+ Sbjct: 446 QAISRAIADQARTIRIPIHMIETINRIHKIMRKHVQETGKEPDIDFIAKEVGLPIDKVKN 505 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 V+KITKEP+SL+ PIG +D GDF+EDK++V P+D ++ +L+ VL L RE+ Sbjct: 506 VIKITKEPVSLDAPIGSDDDGKFGDFVEDKSSVGPMDYILKEDLKVQIDEVLEQLNDREK 565 Query: 626 RVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+KLKHP +KL+++++ Sbjct: 566 AVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRKLKNYIE 622 Score = 59.3 bits (142), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E EI+++K+IE G ++ ++C P + ++D L Sbjct: 111 SDSPVRMYLREMGQISLLTKEEEISLSKKIELGENTILDAICSVPYLIDFIYDYKDAL 168 >gi|225018167|ref|ZP_03707359.1| hypothetical protein CLOSTMETH_02104 [Clostridium methylpentosum DSM 5476] gi|224949164|gb|EEG30373.1| hypothetical protein CLOSTMETH_02104 [Clostridium methylpentosum DSM 5476] Length = 372 Score = 283 bits (724), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 146/251 (58%), Positives = 196/251 (78%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + +K A+K + EANLRLV+S+AK+Y RG+QFLDLIQEGN+GL+KA EKFD+ Sbjct: 122 IDLAQKMSAGDPYARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDY 181 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+KV + + ++ +K E + E Sbjct: 182 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSQLLHKNGHEASAE 241 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L MPV+ VR+++++++EP+SLETPIG+E+ SHL DFI D +A +P ++A LR Sbjct: 242 EIAEELDMPVDKVREIMRVSQEPVSLETPIGEEEDSHLSDFIPDDDAPAPAEAASHTLLR 301 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +LT REE+VLR+RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL+HP Sbjct: 302 EQLGDVLGTLTEREEKVLRLRFGLEDGRSRTLEEVGKEFNVTRERIRQIEAKALRKLRHP 361 Query: 671 SRSKKLRSFLD 681 SRSKKL+ FLD Sbjct: 362 SRSKKLKDFLD 372 Score = 41.6 bits (96), Expect = 0.49, Method: Compositional matrix adjust. Identities = 19/47 (40%), Positives = 31/47 (65%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 + DDPV++YL+E+G + LL+ E EI +A+++ AG L E+ L Sbjct: 98 NIDDPVKVYLKEIGKVPLLTAEEEIDLAQKMSAGDPYARKRLSEANL 144 >gi|304389369|ref|ZP_07371334.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|304327487|gb|EFL94720.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. curtisii ATCC 35241] Length = 564 Score = 283 bits (724), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 135/256 (52%), Positives = 187/256 (73%), Gaps = 4/256 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + R + +V+ G+ +AK ++EANLRLV+++AKKYT RG+ FLDLIQEGN+GL++A Sbjct: 313 QIRELHYVVQDGQ----MAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAV 368 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + R Sbjct: 369 EKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 428 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTP+E+A++L M E V +V K +EPISL TP+G++ S GD IED AV P D+ Sbjct: 429 EPTPDELAQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 488 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L+E RVL +L+ RE V+ MRFG+ TL+E+G+++ VTRERIRQIEAK + Sbjct: 489 FMMLQEQLQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMS 548 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HP+RS+ LR +L+ Sbjct: 549 KLRHPARSQSLRDYLN 564 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 10/74 (13%) Query: 86 EEGSEDS-LDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLS 135 E+ S+D+ L + +S S+ + KD AD +T DPV+ YL+++G + LL+ Sbjct: 222 EDKSKDTKLGSKAKSSTSAEYTLSEKDDADEPAQKVTVAGATSDPVKDYLKQIGKVALLN 281 Query: 136 REGEIAIAKRIEAG 149 E E+ ++KRIEAG Sbjct: 282 AEQEVDLSKRIEAG 295 >gi|255322395|ref|ZP_05363541.1| RNA polymerase sigma factor RpoD [Campylobacter showae RM3277] gi|255300768|gb|EET80039.1| RNA polymerase sigma factor RpoD [Campylobacter showae RM3277] Length = 627 Score = 283 bits (724), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 130/257 (50%), Positives = 193/257 (75%), Gaps = 1/257 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 371 LKEILEQIKRGKKISDEAKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 430 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +E Sbjct: 431 KFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKINRKYLQEEGKE 490 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P IA ++ + + +++V+KITKEPISLE PIG+ED GDF+ED++++SP+D ++ Sbjct: 491 PDINVIAAEVGLSADKIKQVIKITKEPISLEAPIGNEDDGKFGDFVEDRSSLSPMDHILK 550 Query: 607 ANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +L+E VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ AI+ Sbjct: 551 NDLKEQIDEVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIK 610 Query: 666 KLKHPSRSKKLRSFLDG 682 KLKHP +KL+++++G Sbjct: 611 KLKHPKVGRKLKNYIEG 627 >gi|296120487|ref|YP_003628265.1| RNA polymerase sigma factor RpoD [Planctomyces limnophilus DSM 3776] gi|296012827|gb|ADG66066.1| RNA polymerase sigma factor RpoD [Planctomyces limnophilus DSM 3776] Length = 550 Score = 283 bits (724), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 130/239 (54%), Positives = 183/239 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +K+++ GYKFSTYA WW Sbjct: 305 AMRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 364 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + + K+ + A+++ ++ REPT EE A+ + +E Sbjct: 365 IRQAITRAIADQARTIRIPVHMIETMSKLRKVAKKLLQEMGREPTLEETAEAAGVSLEET 424 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+V+KI++ PISL+ P+G+ + S+ GDFIED N SP+ +A Q L++ VL +LT R Sbjct: 425 RRVMKISRHPISLDRPVGESEDSYFGDFIEDDNTESPVMAATQEMLKDKIDNVLKTLTYR 484 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E ++++R+G+G +TLEEVG+ F VTRER+RQIEAKA+RKL+HP RSK+L+ FLDG Sbjct: 485 EREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSKQLKGFLDG 543 Score = 63.9 bits (154), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 42/152 (27%), Positives = 77/152 (50%), Gaps = 9/152 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 D ++I +++G++T ++N +LP + ++ E++++ + + G+ +V +D+ Sbjct: 5 DQGLHELIVRGKKQGFLTYSQINDYLPDEAMNPEKLDELLGSIWEEGLKIVT----DDQV 60 Query: 88 GS--EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 G E+ + A N + + K + DDPVRMYL +MG I LL+RE EI++AK Sbjct: 61 GMIVEEKKKPRTRAKNGKEVVVEEKS---KKIDDPVRMYLTQMGEIPLLTREKEISLAKT 117 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 IE R L E + ++N G Sbjct: 118 IEVTRNQFREELLECDYALKMAFDTLSKVNSG 149 >gi|298346920|ref|YP_003719607.1| RNA polymerase sigma factor SigA [Mobiluncus curtisii ATCC 43063] gi|298236981|gb|ADI68113.1| RNA polymerase sigma factor SigA [Mobiluncus curtisii ATCC 43063] Length = 563 Score = 283 bits (723), Expect = 8e-74, Method: Compositional matrix adjust. Identities = 135/256 (52%), Positives = 187/256 (73%), Gaps = 4/256 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + R + +V+ G+ +AK ++EANLRLV+++AKKYT RG+ FLDLIQEGN+GL++A Sbjct: 312 QIRELHYVVQDGQ----MAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAV 367 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + R Sbjct: 368 EKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 427 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTP+E+A++L M E V +V K +EPISL TP+G++ S GD IED AV P D+ Sbjct: 428 EPTPDELAQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 487 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L+E RVL +L+ RE V+ MRFG+ TL+E+G+++ VTRERIRQIEAK + Sbjct: 488 FMMLQEQLQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMS 547 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HP+RS+ LR +L+ Sbjct: 548 KLRHPARSQSLRDYLN 563 Score = 42.7 bits (99), Expect = 0.19, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 9/62 (14%) Query: 97 SSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +S S+ + KD AD +T DPV+ YL+++G + LL+ E E+ ++KRIE Sbjct: 233 AKSSTSAEYTLSEKDDADEPAQKVTVAGATSDPVKDYLKQIGKVALLNAEQEVDLSKRIE 292 Query: 148 AG 149 AG Sbjct: 293 AG 294 >gi|315656627|ref|ZP_07909514.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. holmesii ATCC 35242] gi|315492582|gb|EFU82186.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii subsp. holmesii ATCC 35242] Length = 564 Score = 283 bits (723), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 135/256 (52%), Positives = 187/256 (73%), Gaps = 4/256 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + R + +V+ G+ +AK ++EANLRLV+++AKKYT RG+ FLDLIQEGN+GL++A Sbjct: 313 QIRELHYVVQDGQ----MAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAV 368 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + R Sbjct: 369 EKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 428 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTP+E+A++L M E V +V K +EPISL TP+G++ S GD IED AV P D+ Sbjct: 429 EPTPDELAQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 488 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L+E RVL +L+ RE V+ MRFG+ TL+E+G+++ VTRERIRQIEAK + Sbjct: 489 FMMLQEQLQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMS 548 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HP+RS+ LR +L+ Sbjct: 549 KLRHPARSQSLRDYLN 564 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 9/62 (14%) Query: 97 SSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + +S S+ + KD AD +T DPV+ YL+++G + LL+ E E+ ++KRIE Sbjct: 234 AKSSTSAEYTLSEKDDADEPAQKVTVAGATSDPVKDYLKQIGKVALLNAEQEVDLSKRIE 293 Query: 148 AG 149 AG Sbjct: 294 AG 295 >gi|157737257|ref|YP_001489940.1| RNA polymerase sigma factor RpoD [Arcobacter butzleri RM4018] gi|157699111|gb|ABV67271.1| RNA polymerase sigma 70 factor [Arcobacter butzleri RM4018] Length = 626 Score = 283 bits (723), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 128/258 (49%), Positives = 195/258 (75%), Gaps = 1/258 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +++G+ +K M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 369 ELKAVLEQIKRGKQITDTSKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAV 428 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + + Sbjct: 429 DKFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKGVQENGK 488 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP EEIAK++ +PV+ V++V+KITKEP+SLE PIG ++ GDF+ D+ A +P+D+ + Sbjct: 489 EPDIEEIAKEVGLPVDKVKQVIKITKEPVSLEAPIGSDEDGKFGDFVPDEKAPTPIDNIM 548 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L+ ++L+ L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI Sbjct: 549 KEDLQGQIDQILSQLNEREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESSAI 608 Query: 665 RKLKHPSRSKKLRSFLDG 682 +KLKHP K L+++++ Sbjct: 609 KKLKHPKVGKNLKNYVES 626 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 40/58 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E E+ I+K+IE G +++ ++C P ++ +R+ L Sbjct: 101 SDSPVRMYLREMGQIPLLTKEEEVEISKKIETGEDIILDAICYVPYLIDFILEYREPL 158 >gi|268680166|ref|YP_003304597.1| RNA polymerase sigma factor RpoD [Sulfurospirillum deleyianum DSM 6946] gi|268618197|gb|ACZ12562.1| RNA polymerase sigma factor RpoD [Sulfurospirillum deleyianum DSM 6946] Length = 617 Score = 283 bits (723), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 131/257 (50%), Positives = 193/257 (75%), Gaps = 1/257 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ A +K M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 361 LKEILEQIKRGKKIADESKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 420 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +E Sbjct: 421 KFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKHLQEEGKE 480 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P E IA ++ + + V+ V+KITKEPISLE PIG+ED GDF+EDK +++PL+ ++ Sbjct: 481 PDIETIALEVGLSADKVKNVIKITKEPISLEAPIGNEDDGKFGDFVEDKTSIAPLEHILK 540 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++L+E VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+ Sbjct: 541 SDLKEQIDDVLDQLNDREKAVIRMRFGLMHDESDRTLEEIGKELNVTRERVRQIESSAIK 600 Query: 666 KLKHPSRSKKLRSFLDG 682 KLKHP +KL+++++ Sbjct: 601 KLKHPKVGRKLKNYIES 617 >gi|315655467|ref|ZP_07908366.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii ATCC 51333] gi|315490122|gb|EFU79748.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus curtisii ATCC 51333] Length = 553 Score = 283 bits (723), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 189/260 (72%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ + R + +V+ G+ +AK ++EANLRLV+++AKKYT RG+ FLDLIQEGN+GL Sbjct: 298 MTPKQIRELHYVVQDGQ----MAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGL 353 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M Sbjct: 354 IRAVEKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQ 413 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTP+E+A++L M E V +V K +EPISL TP+G++ S GD IED AV P Sbjct: 414 DLGREPTPDELAQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPA 473 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L+E RVL +L+ RE V+ MRFG+ TL+E+G+++ VTRERIRQIEA Sbjct: 474 DAVSFMMLQEQLQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEA 533 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HP+RS+ LR +L+ Sbjct: 534 KTMSKLRHPARSQSLRDYLN 553 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 23/59 (38%), Positives = 35/59 (59%), Gaps = 9/59 (15%) Query: 100 SNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S S+ + KD AD +T DPV+ YL+++G + LL+ E E+ ++KRIEAG Sbjct: 226 STSAEYTLSEKDDADEPAQKVTVAGATSDPVKDYLKQIGKVALLNAEQEVDLSKRIEAG 284 >gi|315636974|ref|ZP_07892198.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri JV22] gi|315478804|gb|EFU69513.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri JV22] Length = 626 Score = 283 bits (723), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 128/258 (49%), Positives = 195/258 (75%), Gaps = 1/258 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +++G+ +K M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 369 ELKAVLEQIKRGKQITDTSKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAV 428 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + + Sbjct: 429 DKFEYKKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKGVQENGK 488 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP EEIAK++ +PV+ V++V+KITKEP+SLE PIG ++ GDF+ D+ A +P+D+ + Sbjct: 489 EPDIEEIAKEVGLPVDKVKQVIKITKEPVSLEAPIGSDEDGKFGDFVPDEKAPTPIDNIM 548 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L+ ++L+ L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI Sbjct: 549 KEDLQGQIDQILSQLNEREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESSAI 608 Query: 665 RKLKHPSRSKKLRSFLDG 682 +KLKHP K L+++++ Sbjct: 609 KKLKHPKVGKNLKNYVES 626 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 40/58 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E E+ I+K+IE G +++ ++C P ++ +R+ L Sbjct: 101 SDSPVRMYLREMGQIPLLTKEEEVEISKKIETGEDIILDAICYVPYLIDFILEYREPL 158 >gi|297625160|ref|YP_003706594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Truepera radiovictrix DSM 17093] gi|297166340|gb|ADI16051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Truepera radiovictrix DSM 17093] Length = 446 Score = 282 bits (722), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 144/259 (55%), Positives = 186/259 (71%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + +V GE +A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 192 EQRALKRIVEDGE----MARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 247 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ YKFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 248 EKFEYRRRYKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSR 307 Query: 546 EPTPEEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+ EE+A+ + E V +V K+++EP+SLETPIGDE S GDFI D N SP+D Sbjct: 308 EPSYEEVAEAMGPGWSAEKVEEVFKVSQEPVSLETPIGDEKDSFYGDFIPDDNVESPVDQ 367 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A + L E + L LT RE VL+ R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 368 ASKTLLSEELEKALDKLTERESMVLKFRKGLVDGREHTLEEVGAHFGVTRERIRQIENKA 427 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FLD Sbjct: 428 LRKLKYHESRTRKLRDFLD 446 Score = 46.6 bits (109), Expect = 0.013, Method: Compositional matrix adjust. Identities = 42/139 (30%), Positives = 67/139 (48%), Gaps = 21/139 (15%) Query: 32 KKMIKLARQRGYVTIEELN-AFLPPDEVSSE-----QMEDTVAMLSNMGINVVDGDDLED 85 +++++ A + G V EE+ A +E +E +D + +L G+ + D ED Sbjct: 40 QRLLEAATRDGSVNTEEMTTALTAANEALAEGDTEISFDDLMKVLEARGVEIADL--AED 97 Query: 86 EEGSEDSLD----LASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIE 132 E ED D L ++ R++ R ST+DPVR YL E+G + Sbjct: 98 EVLDEDEFDEVDALGDLDEPEDELVRDREEIEARAEAMAGSRLSTNDPVRQYLHEIGRVS 157 Query: 133 LLSREGEIAIAKRIEAGRA 151 LL+ E EI++A+RIE G A Sbjct: 158 LLTLEEEISLARRIEEGEA 176 >gi|320449783|ref|YP_004201879.1| RNA polymerase sigma factor RpoD [Thermus scotoductus SA-01] gi|320149952|gb|ADW21330.1| RNA polymerase sigma factor RpoD [Thermus scotoductus SA-01] Length = 494 Score = 282 bits (722), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 144/259 (55%), Positives = 189/259 (72%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 240 ELKRYLHLAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 295 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR + ++ R Sbjct: 296 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARSLQQELGR 355 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EPT EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D+N SP+D+ Sbjct: 356 EPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVDA 415 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 416 AAQSLLAEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 475 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FLD Sbjct: 476 LRKLKYHESRTRKLRDFLD 494 >gi|154148465|ref|YP_001406295.1| RNA polymerase sigma factor RpoD [Campylobacter hominis ATCC BAA-381] gi|153804474|gb|ABS51481.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter hominis ATCC BAA-381] Length = 624 Score = 282 bits (722), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 129/257 (50%), Positives = 190/257 (73%), Gaps = 1/257 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 368 LKQILEQIKRGKKISDEAKSLMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 427 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +E Sbjct: 428 KFEYRKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKINRKYVQENGKE 487 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P +AK++ + ++ +++V+KITKEPISLE P+G+ED GDF+EDK +SP+D ++ Sbjct: 488 PDITILAKEVGLSIDKIKQVIKITKEPISLEAPVGNEDDGKFGDFVEDKGTISPIDQILK 547 Query: 607 ANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +L+E +VL L RE V+RMRFG + +D TLEE+GK+ VTRER+RQIEA AI+ Sbjct: 548 NDLKEQIDKVLDQLNERERAVIRMRFGLLDDESDRTLEEIGKELSVTRERVRQIEASAIK 607 Query: 666 KLKHPSRSKKLRSFLDG 682 KLKHP + L+ +++ Sbjct: 608 KLKHPKVGRDLKKYIES 624 Score = 65.9 bits (159), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 42/146 (28%), Positives = 72/146 (49%), Gaps = 14/146 (9%) Query: 40 QRGYVTIEELNAFL--PPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLAS 97 Q+ YVT E L F P +++ED + N I ++ ++ + ED + Sbjct: 19 QKNYVTFERLIKFFDKAPTSTQVKKIED---LAKNFKIKLISSAEIAKIKNIEDLKRIKE 75 Query: 98 SASNSSVFLQKRKD---SADRS------TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + L+K D ++D +D PVRMYLREMG+++LL +E EI I+K+IE Sbjct: 76 REKKAKSELEKNDDFDIASDNELLEWSRSDSPVRMYLREMGAVDLLKKEEEIEISKKIEL 135 Query: 149 GRAMMMASLCESPLTFQALIIWRDEL 174 G +++ + C P ++ + + L Sbjct: 136 GEDIIIDAFCSVPFLIDFILAYEEPL 161 >gi|295394756|ref|ZP_06804971.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium mcbrellneri ATCC 49030] gi|294972352|gb|EFG48212.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium mcbrellneri ATCC 49030] Length = 473 Score = 282 bits (722), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 136/239 (56%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA W Sbjct: 235 IAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATW 294 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E Sbjct: 295 WIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPER 354 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +V K +EPISL TP+G++ S GD IED AV P DS L+E VL +L+ Sbjct: 355 VVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADSVSFTLLQEQLHSVLDTLSE 414 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 415 REAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLRHPSRSQVLRDYLD 473 Score = 40.0 bits (92), Expect = 1.5, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 172 ATADPVKDYLKQIGKVALLNAAEEVDLAKRIEAG 205 >gi|78777303|ref|YP_393618.1| RNA polymerase sigma factor RpoD [Sulfurimonas denitrificans DSM 1251] gi|78497843|gb|ABB44383.1| sigma 28 (Flagella/Sporulation) [Sulfurimonas denitrificans DSM 1251] Length = 623 Score = 282 bits (722), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 134/253 (52%), Positives = 192/253 (75%), Gaps = 1/253 (0%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I+ +++G+ + I+K +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF+ Sbjct: 370 ILEQIKRGKNISEISKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFE 429 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP Sbjct: 430 YQKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKHLQEHGKEPDV 489 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E IA ++ + VE V+ V+KITKEPISLE PIG ED GDFIEDK ++SP D+ ++ +L Sbjct: 490 EVIALEVGLSVEKVKNVIKITKEPISLEAPIGSEDDGRFGDFIEDKTSLSPSDAILKDDL 549 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R VL L RE+ V+++RFGI + +D TLEE+GK+ VTRER+RQIE+ AI+KLK Sbjct: 550 RVQIESVLEQLNEREKAVIKLRFGIMDDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 609 Query: 669 HPSRSKKLRSFLD 681 HP +KL+++++ Sbjct: 610 HPKVGRKLKNYIE 622 Score = 61.6 bits (148), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 26/58 (44%), Positives = 41/58 (70%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E EI I+K+IE G ++++ ++C P ++ +R+ L Sbjct: 103 SDSPVRMYLREMGQIPLLTKEEEIEISKKIEGGESIIIDAICSVPYLIDFILDYREPL 160 >gi|313680173|ref|YP_004057912.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Oceanithermus profundus DSM 14977] gi|313152888|gb|ADR36739.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oceanithermus profundus DSM 14977] Length = 484 Score = 282 bits (721), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 161/354 (45%), Positives = 224/354 (63%), Gaps = 32/354 (9%) Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE------RHQGRELDPHWVSYAKDF 390 L +E+ D+++R+ E + RLA+ G++ D+ + RH GR PH Y + Sbjct: 154 LTLEEEIDLARRVEEGEAAVERLAEFTGLEADLIKKVIRAQVRHGGR--VPHIPGYEAE- 210 Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + D+I + ++++ + + + R GE IA++ ++E Sbjct: 211 ---------RVDEDTIQAVDARLRALP-------KPQKRYLHIARDGE----IARQHLIE 250 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTYA WW++QAI R Sbjct: 251 ANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRYKFSTYATWWIRQAINR 310 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL--AMPVEGVRKVLK 568 +IADQ+ TIRIPVHM + I+K+ RTAR++ ++ RE T EIA + + V + K Sbjct: 311 AIADQARTIRIPVHMVETINKLTRTARQLQQELGREATYAEIADAMGPGWDAKKVEETFK 370 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 I +EP+SLETPIGDE S GDFI D++ SP+DSA Q+ L E + L+ L+ RE VL Sbjct: 371 IAQEPVSLETPIGDEKDSFYGDFIPDEHLASPVDSAAQSLLSEELEKALSKLSEREAMVL 430 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKLRSFLD 681 ++R G+ +HTLEEVG F VTRERIRQIE KA+RKLK H SR++KLR FLD Sbjct: 431 KLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLD 484 Score = 43.9 bits (102), Expect = 0.085, Method: Compositional matrix adjust. Identities = 20/38 (52%), Positives = 27/38 (71%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 ST DPVR YL E+G + LL+ E EI +A+R+E G A + Sbjct: 136 STSDPVRQYLHEIGQVPLLTLEEEIDLARRVEEGEAAV 173 >gi|256390959|ref|YP_003112523.1| RNA polymerase sigma factor [Catenulispora acidiphila DSM 44928] gi|256357185|gb|ACU70682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] Length = 559 Score = 281 bits (720), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 322 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 381 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 382 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 441 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 442 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 501 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 502 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 559 Score = 42.0 bits (97), Expect = 0.35, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 258 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 291 >gi|297566693|ref|YP_003685665.1| RpoD subfamily RNA polymerase sigma-70 subunit [Meiothermus silvanus DSM 9946] gi|296851142|gb|ADH64157.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Meiothermus silvanus DSM 9946] Length = 483 Score = 281 bits (720), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 146/258 (56%), Positives = 189/258 (73%), Gaps = 10/258 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH+ + R GE +A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EK Sbjct: 232 RHL-HIARDGE----LARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEK 286 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ YKFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR+M ++ REP Sbjct: 287 FEYKRRYKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQMQQELGREP 346 Query: 548 TPEEIAKKLAMP---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 T EEI++ + P + V + KI +EP+SLETPIGDE S GDFI D++ SP+DSA Sbjct: 347 TYEEISEAMG-PGWDAKKVEETFKIAQEPVSLETPIGDEKDSFYGDFIPDEHMASPVDSA 405 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 Q+ L E + L L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA+ Sbjct: 406 AQSMLSEELEKALGKLSDREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKAL 465 Query: 665 RKLK-HPSRSKKLRSFLD 681 RKLK H SR++KLR FLD Sbjct: 466 RKLKYHESRTRKLRDFLD 483 Score = 43.1 bits (100), Expect = 0.15, Method: Compositional matrix adjust. Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 8/84 (9%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA----MMMASLCESPLTFQALIIWR 171 ST DPVR YL E+G + LL+ E EI +A+R+E G A + + E+ L Q L R Sbjct: 136 STSDPVRQYLHEIGQVPLLTLEEEIDLARRVEDGVASAQFLAQETGLETDLIRQVL---R 192 Query: 172 DELNDGTTLLREIIDLEACIGPES 195 ++ G + ++ +E + PE+ Sbjct: 193 AQVQGGAR-IHQVPGMEVKLDPET 215 >gi|170691127|ref|ZP_02882293.1| sigma-70 region 3 domain protein [Burkholderia graminis C4D1M] gi|170144376|gb|EDT12538.1| sigma-70 region 3 domain protein [Burkholderia graminis C4D1M] Length = 202 Score = 281 bits (720), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 132/201 (65%), Positives = 166/201 (82%) Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ Sbjct: 1 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQ 60 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP P +A+K+ MP + +RK++KI KEPIS+ETPIGD+D SHLGDFIED N V+P Sbjct: 61 ETGLEPDPATLAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDTNTVAPA 120 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+A+ A++R+ VL SLTPRE +VLRMRFGI M+TDHTLEEVGKQF VTRERIRQIEA Sbjct: 121 DAALHASMRDVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIRQIEA 180 Query: 662 KAIRKLKHPSRSKKLRSFLDG 682 KA+RKL+HPSRS KL+SFL+G Sbjct: 181 KALRKLRHPSRSDKLKSFLEG 201 >gi|148658692|ref|YP_001278897.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148570802|gb|ABQ92947.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 401 Score = 281 bits (720), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 132/242 (54%), Positives = 178/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A++ +++ANLRLV+S+AKKY RG+ LDLIQEGNIGLM+A EKFD+ GYKFSTY Sbjct: 160 EGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKFSTY 219 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR IADQS TIR+PVH+ + I++V+R + R+ R+PTP+EIA +L +P Sbjct: 220 ATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRASNRIQQTTGRDPTPDEIALELGIP 279 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE VR+VL+ ++ ISLETPIG E + L DFIED V+P+DSA LRE L Sbjct: 280 VEKVRRVLEAARQTISLETPIGTEGDTVLADFIEDGKGVTPMDSASHHILREQIDSALEK 339 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L RE R++++R+G+ TLEEVG++F +TRERIRQIEA+ +RKL+HP + LR + Sbjct: 340 LPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHPHYGRGLRGY 399 Query: 680 LD 681 L+ Sbjct: 400 LE 401 Score = 41.6 bits (96), Expect = 0.48, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVR+YLRE+G + LL+ + EI +A+++E G Sbjct: 101 GVDDPVRVYLREIGRVNLLTAQEEIMLAQQVERG 134 >gi|308177806|ref|YP_003917212.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117] gi|307745269|emb|CBT76241.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117] Length = 403 Score = 281 bits (720), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 135/242 (55%), Positives = 178/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + IAK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 162 DGKIAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTY 221 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M Sbjct: 222 ATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMT 281 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL + Sbjct: 282 PEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDT 341 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 342 LSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 401 Query: 680 LD 681 LD Sbjct: 402 LD 403 Score = 42.0 bits (97), Expect = 0.30, Method: Compositional matrix adjust. Identities = 30/82 (36%), Positives = 42/82 (51%), Gaps = 9/82 (10%) Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR-------STDDPVRMYLRE 127 + D DD D E S DS D S + L D A + +T DPV+ YL++ Sbjct: 55 VASTDADD--DAEPSTDSKDSKSEDDSKGFTLSSGDDDAPQQQVMVAGATADPVKDYLKQ 112 Query: 128 MGSIELLSREGEIAIAKRIEAG 149 +G + LL+ E E+ +A RIEAG Sbjct: 113 IGKVALLNAEQEVDLALRIEAG 134 >gi|325295045|ref|YP_004281559.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065493|gb|ADY73500.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] Length = 563 Score = 281 bits (719), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 185/238 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V +NLRLV+S+AKKY NRGL FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW Sbjct: 325 AKQILVRSNLRLVVSIAKKYINRGLHFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 384 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+KV++ +R+M + REP PEEIA++L MP V Sbjct: 385 IRQAITRAIADQARTIRIPVHMIETINKVIKASRQMFLEKGREPRPEEIAERLRMPASKV 444 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++++ +EP+SLETPIGD++ S LG+FIED + P I+ +L+E +++L++L+ R Sbjct: 445 RSIIQLAQEPVSLETPIGDDEDSTLGNFIEDSKSPIPEHEVIKKDLQEKVSQLLSTLSER 504 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E VL++RFG+ +HTLE+VG++ VTRERIRQIE+KA+RKLK+ L FL+ Sbjct: 505 EALVLKLRFGLDGYPEHTLEQVGRELKVTRERIRQIESKALRKLKNCGLDIDLSIFLE 562 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 49/156 (31%), Positives = 88/156 (56%), Gaps = 14/156 (8%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 +++++I L R +GY+T +EL L + ++ E +E+ + L I+++ +EG Sbjct: 5 NFEEIIALGRDKGYITFDELMEHLDEEVLTPELIEELITQLDEFDIHIIP------KEG- 57 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ED +DL S + + D+ RS DDP+R+YLREM I LL R EIA+AKR+E G Sbjct: 58 EDHVDL------SKLQITIAPDTMPRS-DDPIRLYLREMSGISLLKRHEEIALAKRVELG 110 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 R ++ L ++ ++ +++ +G +R+I+ Sbjct: 111 RKALLRYLLKTNAVLDYILNVEEKIKNGELKVRDIM 146 >gi|282854019|ref|ZP_06263356.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J139] gi|282583472|gb|EFB88852.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J139] gi|314922986|gb|EFS86817.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL001PA1] gi|314966763|gb|EFT10862.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL082PA2] gi|314981097|gb|EFT25191.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA3] gi|315091922|gb|EFT63898.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA4] gi|315093321|gb|EFT65297.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL060PA1] gi|327327588|gb|EGE69364.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL103PA1] Length = 510 Score = 281 bits (719), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 269 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 328 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 329 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELANELDMT 388 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 389 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 448 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 449 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 508 Query: 680 LD 681 LD Sbjct: 509 LD 510 Score = 38.9 bits (89), Expect = 2.9, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 208 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 241 >gi|328907303|gb|EGG27069.1| RNA polymerase sigma factor RpoD [Propionibacterium sp. P08] Length = 506 Score = 281 bits (719), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 265 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 324 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 325 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELANELDMT 384 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 385 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 444 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 445 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 504 Query: 680 LD 681 LD Sbjct: 505 LD 506 Score = 38.9 bits (89), Expect = 3.0, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 204 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 237 >gi|50842515|ref|YP_055742.1| RNA polymerase sigma factor [Propionibacterium acnes KPA171202] gi|289425323|ref|ZP_06427100.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK187] gi|289427207|ref|ZP_06428923.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J165] gi|295130592|ref|YP_003581255.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK137] gi|50840117|gb|AAT82784.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes KPA171202] gi|289154301|gb|EFD02989.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK187] gi|289159676|gb|EFD07864.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes J165] gi|291377120|gb|ADE00975.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes SK137] gi|332675432|gb|AEE72248.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes 266] Length = 506 Score = 281 bits (719), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 265 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 324 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 325 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 384 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 385 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 444 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 445 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 504 Query: 680 LD 681 LD Sbjct: 505 LD 506 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 204 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 237 >gi|315078017|gb|EFT50068.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL053PA2] Length = 511 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 270 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 329 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 330 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 389 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 390 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 449 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 450 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 509 Query: 680 LD 681 LD Sbjct: 510 LD 511 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|314960003|gb|EFT04105.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA2] Length = 511 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 270 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 329 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 330 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 389 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 390 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 449 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 450 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 509 Query: 680 LD 681 LD Sbjct: 510 LD 511 Score = 38.9 bits (89), Expect = 2.7, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|315103424|gb|EFT75400.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA2] Length = 510 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 269 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 328 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 329 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELANELDMT 388 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 389 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 448 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 449 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 508 Query: 680 LD 681 LD Sbjct: 509 LD 510 Score = 38.9 bits (89), Expect = 2.9, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 208 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 241 >gi|313838731|gb|EFS76445.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL086PA1] Length = 511 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 270 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 329 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 330 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 389 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 390 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 449 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 450 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 509 Query: 680 LD 681 LD Sbjct: 510 LD 511 Score = 38.9 bits (89), Expect = 2.6, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|313812944|gb|EFS50658.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL025PA1] Length = 511 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 270 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 329 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 330 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 389 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 390 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 449 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 450 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 509 Query: 680 LD 681 LD Sbjct: 510 LD 511 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|313764456|gb|EFS35820.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL013PA1] gi|313772162|gb|EFS38128.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL074PA1] gi|313792142|gb|EFS40243.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA1] gi|313801905|gb|EFS43139.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL110PA2] gi|313807517|gb|EFS46004.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA2] gi|313815995|gb|EFS53709.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL059PA1] gi|313818559|gb|EFS56273.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL046PA2] gi|313820326|gb|EFS58040.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA1] gi|313822867|gb|EFS60581.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA2] gi|313825201|gb|EFS62915.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL063PA1] gi|313827777|gb|EFS65491.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL063PA2] gi|313830354|gb|EFS68068.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL007PA1] gi|313833727|gb|EFS71441.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL056PA1] gi|314915449|gb|EFS79280.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA4] gi|314918269|gb|EFS82100.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA1] gi|314920081|gb|EFS83912.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL050PA3] gi|314925214|gb|EFS89045.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL036PA3] gi|314931603|gb|EFS95434.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL067PA1] gi|314955756|gb|EFT00156.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL027PA1] gi|314958170|gb|EFT02273.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA1] gi|314962801|gb|EFT06901.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL082PA1] gi|314967832|gb|EFT11931.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA1] gi|314973358|gb|EFT17454.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL053PA1] gi|314976037|gb|EFT20132.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL045PA1] gi|314978425|gb|EFT22519.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL072PA2] gi|314983942|gb|EFT28034.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA1] gi|314988126|gb|EFT32217.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA2] gi|314989931|gb|EFT34022.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL005PA3] gi|315080641|gb|EFT52617.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL078PA1] gi|315084314|gb|EFT56290.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL027PA2] gi|315085657|gb|EFT57633.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL002PA3] gi|315088921|gb|EFT60897.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL072PA1] gi|315095903|gb|EFT67879.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL038PA1] gi|315098534|gb|EFT70510.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL059PA2] gi|315101108|gb|EFT73084.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL046PA1] gi|315105654|gb|EFT77630.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL030PA1] gi|315108328|gb|EFT80304.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL030PA2] gi|327326185|gb|EGE67975.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL096PA2] gi|327330255|gb|EGE72004.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL097PA1] gi|327331940|gb|EGE73677.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL096PA3] gi|327443141|gb|EGE89795.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL013PA2] gi|327445925|gb|EGE92579.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL043PA2] gi|327448095|gb|EGE94749.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL043PA1] gi|327450784|gb|EGE97438.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA3] gi|327453139|gb|EGE99793.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL092PA1] gi|327453872|gb|EGF00527.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL083PA2] gi|328753472|gb|EGF67088.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL020PA1] gi|328754202|gb|EGF67818.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL087PA1] gi|328754546|gb|EGF68162.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL025PA2] gi|328760854|gb|EGF74420.1| RNA polymerase principal sigma factor HrdB [Propionibacterium acnes HL099PA1] Length = 511 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 270 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 329 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 330 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMT 389 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 390 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 449 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 450 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 509 Query: 680 LD 681 LD Sbjct: 510 LD 511 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|239626174|ref|ZP_04669205.1| DNA-directed RNA polymerase sigma subunit [Clostridiales bacterium 1_7_47_FAA] gi|239520404|gb|EEQ60270.1| DNA-directed RNA polymerase sigma subunit [Clostridiales bacterium 1_7_47FAA] Length = 409 Score = 281 bits (719), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 143/280 (51%), Positives = 197/280 (70%), Gaps = 6/280 (2%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 D I + EI SIS+ T ++ RK E +A A +++VEANLRLV+S+AK+ Sbjct: 136 ADPIREYLKEIGSISLLTPEEETDLAR-----RKSEGDAE-AGRQLVEANLRLVVSIAKR 189 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YT RG+ FLDL+QEGN+GLMKA EKFD+ GY+ STYA WWVKQ+ITRS+ADQS TIR+P Sbjct: 190 YTGRGMGFLDLVQEGNLGLMKAVEKFDYSKGYRLSTYATWWVKQSITRSLADQSRTIRLP 249 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + ++K+ R R +S ++ REP+ EEIA+++ MP + V ++++ + + +SLETP+GD Sbjct: 250 VHMVEAVNKIRRAQRSLSVRLGREPSTEEIAEEVGMPEKRVTELIQASGDTVSLETPVGD 309 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 E+ S+LGDF+ D S D A LRE +L L PRE V+ +RFG+ TL Sbjct: 310 EEGSNLGDFVADDANASTEDKAESFLLREEIDAMLQGLNPREREVIILRFGLETGHPLTL 369 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EEVG++F VTRERIRQIE A+RKL++PS+S+K+R FL G Sbjct: 370 EEVGRRFNVTRERIRQIETAALRKLRNPSKSRKIRDFLPG 409 Score = 41.6 bits (96), Expect = 0.46, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 32/47 (68%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKR-----IEAGRAMMMASL 157 ST DP+R YL+E+GSI LL+ E E +A+R EAGR ++ A+L Sbjct: 134 STADPIREYLKEIGSISLLTPEEETDLARRKSEGDAEAGRQLVEANL 180 >gi|297626466|ref|YP_003688229.1| RNA polymerase principal sigma factor HrdB [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922231|emb|CBL56801.1| RNA polymerase principal sigma factor HrdB [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 509 Score = 281 bits (718), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 136/238 (57%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 331 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 332 IKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 391 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 392 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVNFTLLQEQLHDVLDTLSER 451 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 452 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 509 Score = 40.0 bits (92), Expect = 1.3, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 207 ATADPVKDYLKQIGKVALLNAAQEVDLAKRIEAG 240 >gi|291277050|ref|YP_003516822.1| RNA polymerase sigma-70 factor [Helicobacter mustelae 12198] gi|290964244|emb|CBG40093.1| RNA polymerase sigma factor (sigma-70) [Helicobacter mustelae 12198] Length = 614 Score = 281 bits (718), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 130/256 (50%), Positives = 191/256 (74%), Gaps = 1/256 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + I+ +++G+ + AK +M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA + Sbjct: 358 LKEILEQIKRGKIISDKAKNKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVD 417 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD+ +KFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +E Sbjct: 418 KFDYKRNFKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRIHKIMRKYIQETGKE 477 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P E IA+K+ + V+ V+ V+KITKEP+SLE PIG ++ GDF+EDKN+ + +D ++ Sbjct: 478 PDVEIIAEKVGLSVDKVKHVIKITKEPVSLEAPIGSDEDGKFGDFVEDKNSTNTMDQIMK 537 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +LR VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+ Sbjct: 538 EDLRAQIFEVLDQLNEREQAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIK 597 Query: 666 KLKHPSRSKKLRSFLD 681 KLKHP +KLR++++ Sbjct: 598 KLKHPKVGRKLRNYIE 613 Score = 57.4 bits (137), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 27/70 (38%), Positives = 46/70 (65%), Gaps = 1/70 (1%) Query: 106 LQKRKDSADRS-TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 L K +D + S +D PVRMYLREMG IELL++E E+ ++++I+ G +++ ++C P Sbjct: 90 LMKERDLLEWSRSDSPVRMYLREMGQIELLTKEDEVELSRQIKLGENIILDAICSVPYLI 149 Query: 165 QALIIWRDEL 174 + +R+ L Sbjct: 150 DFIYDYREAL 159 >gi|313837136|gb|EFS74850.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA2] gi|314927842|gb|EFS91673.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL044PA1] gi|314971907|gb|EFT16005.1| RNA polymerase sigma factor RpoD [Propionibacterium acnes HL037PA3] Length = 370 Score = 281 bits (718), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 134/242 (55%), Positives = 177/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 129 DGKVAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 188 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M Sbjct: 189 ATWWIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELANELDMT 248 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL + Sbjct: 249 AEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQEQLHDVLDT 308 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR + Sbjct: 309 LSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDY 368 Query: 680 LD 681 LD Sbjct: 369 LD 370 Score = 38.5 bits (88), Expect = 3.4, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 68 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 101 >gi|309812669|ref|ZP_07706413.1| RNA polymerase sigma factor RpoD [Dermacoccus sp. Ellin185] gi|308433364|gb|EFP57252.1| RNA polymerase sigma factor RpoD [Dermacoccus sp. Ellin185] Length = 550 Score = 281 bits (718), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 313 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 372 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 373 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 432 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 433 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 492 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 493 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 550 Score = 42.4 bits (98), Expect = 0.30, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 249 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 282 >gi|154173683|ref|YP_001408074.1| RNA polymerase sigma factor RpoD [Campylobacter curvus 525.92] gi|112802903|gb|EAU00247.1| RNA polymerase sigma factor RpoD (Sigma-A) (Major vegetative sigmafactor) [Campylobacter curvus 525.92] Length = 614 Score = 281 bits (718), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 131/259 (50%), Positives = 195/259 (75%), Gaps = 1/259 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + + I+ +++G+ + AK M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 356 ARLKEILEQIKRGKKISDEAKARMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKA 415 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF++ GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + Sbjct: 416 VDKFEYRKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKINRKYLQEEG 475 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP IAK++ + V+ V++V+KITKEPISLE PI +E+ GDF+EDK+++SP++ Sbjct: 476 KEPDVSVIAKEVGLSVDKVKQVIKITKEPISLEAPIANEEDGKFGDFVEDKSSLSPIEQI 535 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +LRE VL+ L RE+ V+ MRFG+ + +D TLEE+GK VTRER+RQIE+ A Sbjct: 536 LKGDLREQIDDVLSQLNDREKAVICMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSA 595 Query: 664 IRKLKHPSRSKKLRSFLDG 682 I+KLKHP +KL+++++G Sbjct: 596 IKKLKHPKVGRKLKNYIEG 614 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 23/58 (39%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL+++ E+ I+K+IE G +++ + C P ++ +++ L Sbjct: 102 SDSPVRMYLREMGQISLLTKDEEVEISKKIELGEDIIIDAFCSVPFLIDFILDYKEPL 159 >gi|257068601|ref|YP_003154856.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM 4810] gi|256559419|gb|ACU85266.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM 4810] Length = 433 Score = 281 bits (718), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 196 AKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYAKGYKFSTYATWW 255 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 256 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 315 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 316 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 375 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 376 EAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 433 Score = 38.1 bits (87), Expect = 4.5, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +A+RIEAG Sbjct: 126 ATADPVKDYLKQIGKVALLNAAQEVELAERIEAG 159 >gi|291295726|ref|YP_003507124.1| RNA polymerase sigma 70 subunit, RpoD subfamily [Meiothermus ruber DSM 1279] gi|290470685|gb|ADD28104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Meiothermus ruber DSM 1279] Length = 507 Score = 280 bits (717), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 162/349 (46%), Positives = 220/349 (63%), Gaps = 23/349 (6%) Query: 337 LLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWK 396 L +E+ D+++R+ RLA+ G+ D L RH R + + Sbjct: 178 LTLEEEIDLARRVEEGVAAAQRLAEETGL--DAELIRHVLRS-------------QVQGS 222 Query: 397 NFVACEVDSILKIRNE-IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 + VA + L+I E I ++ E + + + R GE I ++ ++EANLRL Sbjct: 223 SRVASIPGTDLRIDPETIAAVDARLRALPREVKRYLHIARDGE----ICRQHLIEANLRL 278 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+S+AKKYT RGL FLDLIQEGN GL++A EKF++ +KFSTYA WW++QAI R+IADQ Sbjct: 279 VVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEFKRRFKFSTYATWWIRQAINRAIADQ 338 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--VEGVRKVLKITKEP 573 + TIRIPVHM + I+K+ RTAR+M ++ REP+ EEIA + + V + KI +EP Sbjct: 339 ARTIRIPVHMVETINKLTRTARQMQQELGREPSYEEIADAMGPGWDAKKVEETFKIAQEP 398 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLETPIGDE S GDFI D++ SP+DSA Q+ L E + L L+ RE VL++R G Sbjct: 399 VSLETPIGDEKDSFYGDFIPDEHMASPVDSAAQSMLSEELEKALGKLSEREAMVLKLRKG 458 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKLRSFLD 681 + +HTLEEVG F VTRERIRQIE KA+RKLK H SR++KLR FLD Sbjct: 459 LIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLD 507 Score = 43.1 bits (100), Expect = 0.16, Method: Compositional matrix adjust. Identities = 20/36 (55%), Positives = 26/36 (72%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 ST DPVR YL E+G + LL+ E EI +A+R+E G A Sbjct: 160 STSDPVRQYLHEIGQVPLLTLEEEIDLARRVEEGVA 195 >gi|332670669|ref|YP_004453677.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas fimi ATCC 484] gi|332339707|gb|AEE46290.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas fimi ATCC 484] Length = 538 Score = 280 bits (717), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 301 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 360 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 361 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 420 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 421 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHQVLDTLSER 480 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 481 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 538 Score = 42.0 bits (97), Expect = 0.39, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 237 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 270 >gi|256832655|ref|YP_003161382.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Jonesia denitrificans DSM 20603] gi|256686186|gb|ACV09079.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Jonesia denitrificans DSM 20603] Length = 504 Score = 280 bits (717), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 267 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 326 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 327 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 386 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 387 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHQVLDTLSER 446 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 447 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 504 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 202 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 235 >gi|317124635|ref|YP_004098747.1| RNA polymerase, sigma 70 subunit, RpoD [Intrasporangium calvum DSM 43043] gi|315588723|gb|ADU48020.1| RNA polymerase, sigma 70 subunit, RpoD [Intrasporangium calvum DSM 43043] Length = 587 Score = 280 bits (717), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 350 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 409 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 410 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 469 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 470 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 529 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 530 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 587 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 12/81 (14%) Query: 81 DDLEDEEGSEDS---LDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREM 128 D E +G +D+ D A+ A + S F+ + D D +T DPV+ YL+++ Sbjct: 239 DVAESADGDDDAAPVTDKAAEAEDESGFVIRDDDEDDAPAQQVVTAGATADPVKDYLKQI 298 Query: 129 GSIELLSREGEIAIAKRIEAG 149 G + LL+ E E+ +AKRIEAG Sbjct: 299 GKVALLNAEQEVELAKRIEAG 319 >gi|269956779|ref|YP_003326568.1| RpoD subfamily RNA polymerase sigma-70 subunit [Xylanimonas cellulosilytica DSM 15894] gi|269305460|gb|ACZ31010.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Xylanimonas cellulosilytica DSM 15894] Length = 549 Score = 280 bits (717), Expect = 4e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 312 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 371 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 372 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 431 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 432 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHQVLDTLSER 491 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 492 EAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 549 Score = 42.0 bits (97), Expect = 0.31, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 239 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 272 >gi|302522320|ref|ZP_07274662.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302431215|gb|EFL03031.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 514 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 277 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 336 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 337 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 396 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 397 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 456 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 457 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 514 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 209 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 246 >gi|297191610|ref|ZP_06909008.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297151002|gb|EFH30922.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 516 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 279 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 338 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 339 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 398 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 399 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 458 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 459 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 516 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 215 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 248 >gi|300871651|ref|YP_003786524.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli 95/1000] gi|300689352|gb|ADK32023.1| RNA polymerase sigma factor rpoD (Sigma-70) [Brachyspira pilosicoli 95/1000] Length = 568 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 166/382 (43%), Positives = 231/382 (60%), Gaps = 32/382 (8%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 +KE +VKL+ + LN+ ID + E+L RI E +L + YG Sbjct: 203 IKENIVKLLSKVKLNRMEIDRIAEKLKFYLHRINQIEEYFEKLKKRYG------------ 250 Query: 377 RELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH------- 429 +E+ + +Y + G K + VD IK+ V T S+ R Sbjct: 251 KEISD-FENYYNEIESGNKKIYTRL-VDEFNITPEAIKA--VLTSFHNSQVRMADIYDEV 306 Query: 430 ------IVSMVRKGEC---EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 +V VRK + + + AK +V+ANLRLVIS+AKKYTNRGL F DL+QEGNIG Sbjct: 307 RTDKETLVEWVRKIDSSRRKIAQAKDHIVKANLRLVISIAKKYTNRGLHFFDLVQEGNIG 366 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L+KA +KF++ GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R R+ Sbjct: 367 LIKAVDKFEYKKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRVLRQYM 426 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + REP+ +EIA+ L+ P V+ V + K+P+SL PIGDE+ + LG+ IEDK SP Sbjct: 427 QQYGREPSIQEIARALSWPESRVKSVRNVAKDPVSLNAPIGDEEDTILGELIEDKEFESP 486 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + LR+ +L +L RE++V+RMR+G+ +HTLEEVG F VTRERIRQIE Sbjct: 487 QNITTFKILRKHIDSLLDNLPEREQKVIRMRYGLDDGYNHTLEEVGYVFKVTRERIRQIE 546 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 AKAIR+L+ S+ K+L+ FLD Sbjct: 547 AKAIRRLRATSKKKELKEFLDS 568 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 35/154 (22%), Positives = 79/154 (51%), Gaps = 11/154 (7%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLEDEEGSEDS 92 M++ Y+T +E+NA + D + ++ M+ +L+ I +V D + E +++ Sbjct: 1 MLEKGNANKYLTFKEINAAI--DNMDTDVMDILFQLLNARKIVIVEDKREFESLSKNQNK 58 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 +D A+ F+ + DDP+R+YL+E+G ++LL+ + E+ +K+IE G + Sbjct: 59 IDDAAR------FIHVEDKVGN--NDDPIRLYLKEIGKVDLLTHDDEVEYSKKIELGESE 110 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 + + + + L ++ ++ G + EI++ Sbjct: 111 IESIILNTHLVVGEVLNTIKCVHSGKVSIHEILE 144 >gi|283781338|ref|YP_003372093.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283439791|gb|ADB18233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 524 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 136/271 (50%), Positives = 192/271 (70%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +E++SI V T + + + V M+++ + AK+E+ E NLRLV+S+AKKY NRGL F Sbjct: 254 SELRSILVATQETPASMQKRVDMLKRVYTDYQQAKRELSEGNLRLVVSIAKKYRNRGLSF 313 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGN GLM+A +KF++ G+KF TYA WW++QAITR++ADQS TIRIPVHM + + Sbjct: 314 LDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWWIRQAITRAVADQSRTIRIPVHMVETMS 373 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 +V +R++ ++ REPT EE A+K V+ R+VL +++ PISL+ P+G+ + SH GD Sbjct: 374 RVRNVSRQLLQELGREPTLEETARKAKTTVDEARRVLAMSRYPISLDRPVGNSEDSHFGD 433 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + D A SP A Q LR +VL +L+ RE ++++R+G+G +TLEEVG F Sbjct: 434 LLPDGTAESPATGASQEMLRTRINKVLKTLSYREREIIKLRYGLGDGYSYTLEEVGHIFK 493 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKL+ PSRS++L FLD Sbjct: 494 VTRERIRQIEAKAVRKLQQPSRSQELVGFLD 524 Score = 48.9 bits (115), Expect = 0.002, Method: Compositional matrix adjust. Identities = 24/49 (48%), Positives = 29/49 (59%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQ 165 +DDPVRMYL +MG I LL+R EI +AK+IE R L E Q Sbjct: 71 SDDPVRMYLTQMGEIPLLTRAQEIYLAKKIEVTRRRFRTKLLECDYVIQ 119 >gi|318059566|ref|ZP_07978289.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318075441|ref|ZP_07982773.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] Length = 446 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 209 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 268 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 269 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 328 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 329 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 388 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 389 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 446 Score = 42.4 bits (98), Expect = 0.23, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 141 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 178 >gi|333024008|ref|ZP_08452072.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071] gi|332743860|gb|EGJ74301.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071] Length = 493 Score = 280 bits (717), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 256 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 315 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 316 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 375 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 376 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 435 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 436 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 493 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 188 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 225 >gi|313682108|ref|YP_004059846.1| RNA polymerase, sigma 70 subunit, rpod [Sulfuricurvum kujiense DSM 16994] gi|313154968|gb|ADR33646.1| RNA polymerase, sigma 70 subunit, RpoD [Sulfuricurvum kujiense DSM 16994] Length = 620 Score = 280 bits (716), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 132/253 (52%), Positives = 193/253 (76%), Gaps = 1/253 (0%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I+ +++G+ + ++K M ++NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA +KF+ Sbjct: 367 ILEQIKRGKNISEVSKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFE 426 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + GYKFSTYA WW++QAI+R+IADQ+ TIRIP+HM + I+++ + R+ + +EP Sbjct: 427 YQKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRINKIMRKHLQEHGKEPDV 486 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E IA+++ + VE V+ V+KITKEPISLE PIG+E+ GDFIEDK ++SP D+ ++ +L Sbjct: 487 ETIAEEVGLSVEKVKNVIKITKEPISLEAPIGNEEDGRFGDFIEDKMSLSPSDAILKDDL 546 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL L RE+ V++MRFGI + +D TLEE+GK+ VTRER+RQIE+ AI+KLK Sbjct: 547 KVQIESVLEQLNEREKAVIKMRFGIMDDESDRTLEEIGKELNVTRERVRQIESSAIKKLK 606 Query: 669 HPSRSKKLRSFLD 681 HP +KL+++++ Sbjct: 607 HPKVGRKLKNYIE 619 Score = 60.8 bits (146), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 40/58 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL++E E+ I+KR+E G +++ ++C P ++ ++D L Sbjct: 103 SDSPVRMYLREMGQIPLLTKEEEVEISKRMEMGEGIIIDAICSVPYLIDFILDYKDPL 160 >gi|254386999|ref|ZP_05002279.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194345824|gb|EDX26790.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 520 Score = 280 bits (716), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 283 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 342 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 343 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 402 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 403 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 462 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 463 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 520 Score = 42.4 bits (98), Expect = 0.26, Method: Compositional matrix adjust. Identities = 29/86 (33%), Positives = 44/86 (51%), Gaps = 15/86 (17%) Query: 79 DGDDLEDEEGSEDSLDLASSA---------SNSSVFLQKRKDSADR------STDDPVRM 123 D D+ DEE +ED+ A + S V D+ + +T DPV+ Sbjct: 167 DADEAGDEESAEDAPGAAKAEGDEEEEGGESKGFVISDDEDDAPAQQVAVAGATADPVKD 226 Query: 124 YLREMGSIELLSREGEIAIAKRIEAG 149 YL+++G + LL+ E E+ +AKRIEAG Sbjct: 227 YLKQIGKVPLLNAEQEVELAKRIEAG 252 >gi|254391058|ref|ZP_05006266.1| RNA polymerase principal sigma factor hrdB [Streptomyces clavuligerus ATCC 27064] gi|197704753|gb|EDY50565.1| RNA polymerase principal sigma factor hrdB [Streptomyces clavuligerus ATCC 27064] Length = 514 Score = 280 bits (716), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 277 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 336 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 337 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 396 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 397 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 456 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 457 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 514 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 213 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 246 >gi|295836123|ref|ZP_06823056.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|295825874|gb|EDY42152.2| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 493 Score = 280 bits (716), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 256 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 315 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 316 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 375 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 376 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 435 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 436 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 493 Score = 42.7 bits (99), Expect = 0.23, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 188 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 225 >gi|222100016|ref|YP_002534584.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359] gi|221572406|gb|ACM23218.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359] Length = 392 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 182/248 (73%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++ +NLRLV+S+AK+Y RGL F DLIQEGNIGL+KA EKFDW Sbjct: 137 LARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRK 196 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K EP+ EE+ Sbjct: 197 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKYGEEPSVEEL 256 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + P E ++++L+ KE ISLE+PIG+++ S + DF+ D++ SP A++ +RE Sbjct: 257 AKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADESVPSPKKEAMRMLMREE 316 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 317 LEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 376 Query: 673 SKKLRSFL 680 SK L+S L Sbjct: 377 SKYLKSLL 384 Score = 44.3 bits (103), Expect = 0.072, Method: Compositional matrix adjust. Identities = 35/120 (29%), Positives = 64/120 (53%), Gaps = 9/120 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD--EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 KK+I +++GY+T E+++ PP+ E + +E L GIN+V+ D E+ E S Sbjct: 32 KKLINQGKKKGYITYEDIDKAFPPNYEEFDTNLIEKIYEELEKHGINIVESDSEEETETS 91 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + L+ + + D+++ D ++MYL+E+G I LL+ E +A+R + G Sbjct: 92 TEELEELLEKESPEIH-----DASN--VRDSIKMYLKEIGKIPLLTPAQERELARRAQMG 144 >gi|239928504|ref|ZP_04685457.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 490 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 253 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 312 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 313 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 372 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 373 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 432 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 433 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 490 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 48/84 (57%), Gaps = 14/84 (16%) Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD---------SADRSTDDPVRMYL 125 + +VD + LED + +E+ + S+ F+ +D +A +T DPV+ YL Sbjct: 144 VELVDDEVLEDTKVAEEP-----EGAESAGFVLSDEDEDDAPAQQVAAAGATADPVKDYL 198 Query: 126 REMGSIELLSREGEIAIAKRIEAG 149 +++G + LL+ E E+ +AKRIEAG Sbjct: 199 KQIGKVPLLNAEQEVELAKRIEAG 222 >gi|294631847|ref|ZP_06710407.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292835180|gb|EFF93529.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 515 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 338 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 397 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 398 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 457 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 458 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 515 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 210 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|260906542|ref|ZP_05914864.1| RNA polymerase principal sigma factor [Brevibacterium linens BL2] Length = 473 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/239 (56%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA W Sbjct: 235 IAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATW 294 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REP+PEE+AK+L M E Sbjct: 295 WIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPSPEELAKELDMTPER 354 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +V K +EPISL TP+G++ S GD IED AV P DS L+E VL +L+ Sbjct: 355 VVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDSVSFTLLQEQLHSVLDTLSE 414 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 415 REAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLRHPSRSQVLRDYLD 473 Score = 39.3 bits (90), Expect = 2.2, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 172 ATADPVKDYLKQIGKVALLNAAEEVDLAKRIEAG 205 >gi|29828986|ref|NP_823620.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29606091|dbj|BAC70155.1| RNA polymerase major sigma factor, sigma-70 family [Streptomyces avermitilis MA-4680] Length = 512 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 275 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 334 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 335 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 394 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 395 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 454 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 455 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 512 Score = 42.4 bits (98), Expect = 0.25, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 207 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 244 >gi|326443878|ref|ZP_08218612.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 537 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 300 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 359 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 360 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 419 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 420 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 479 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 480 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 537 Score = 42.0 bits (97), Expect = 0.39, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 236 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 269 >gi|239917829|ref|YP_002957387.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Micrococcus luteus NCTC 2665] gi|281413678|ref|ZP_06245420.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family protein [Micrococcus luteus NCTC 2665] gi|239839036|gb|ACS30833.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Micrococcus luteus NCTC 2665] Length = 497 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 260 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 319 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 320 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 379 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 380 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 439 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 440 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 497 Score = 39.7 bits (91), Expect = 1.9, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 196 ATADPVKDYLKQIGKVALLNAEQEVDLAMRIEAG 229 >gi|116333403|ref|YP_794930.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus brevis ATCC 367] gi|116098750|gb|ABJ63899.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus brevis ATCC 367] Length = 368 Score = 280 bits (716), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 140/259 (54%), Positives = 182/259 (70%), Gaps = 16/259 (6%) Query: 410 RNEIKSISVETGISISE-----FRHI-----------VSMVRKGECEASIAKKEMVEANL 453 + E+K S TG+ I++ + I V++ + E AK+E+ EANL Sbjct: 87 KKELKDASTTTGVKINDPVRMYLKEIGRVNLLTADEEVALALRIENGEEAAKQELAEANL 146 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IA Sbjct: 147 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 206 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 DQ+ TIRIPVHM + I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP Sbjct: 207 DQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEP 266 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLETPIG+ED SHLGDFIED++A SP D A L+E VL +LT REE VLR+RFG Sbjct: 267 VSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLESVLDTLTDREENVLRLRFG 326 Query: 634 IGMNTDHTLEEVGKQFCVT 652 + TLEEVGK F VT Sbjct: 327 LDDGRTRTLEEVGKVFGVT 345 Score = 62.4 bits (150), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 42/148 (28%), Positives = 79/148 (53%), Gaps = 9/148 (6%) Query: 18 SDDSLVFD--FSDDSWKKMIKLARQRGYVTIEEL-NAFLPPDEVSSEQMEDTVAMLSNMG 74 + D +FD + + + +IK ++ G++T ++L + P + ++QM+ + +S+ G Sbjct: 5 TTDQPMFDQKAYNKTVRALIKDTKKAGHITYDDLTDKVATPYTLDAKQMDKLLETISDAG 64 Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELL 134 I+VVD +G D+ + + + S L+ + +DPVRMYL+E+G + LL Sbjct: 65 ISVVDA------KGEPDARAVKAQKAVSKKELKDASTTTGVKINDPVRMYLKEIGRVNLL 118 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPL 162 + + E+A+A RIE G L E+ L Sbjct: 119 TADEEVALALRIENGEEAAKQELAEANL 146 >gi|291436829|ref|ZP_06576219.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC 14672] gi|291339724|gb|EFE66680.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC 14672] Length = 509 Score = 280 bits (716), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 331 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 332 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 391 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 392 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 451 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 452 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 509 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 28/84 (33%), Positives = 48/84 (57%), Gaps = 14/84 (16%) Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKD---------SADRSTDDPVRMYL 125 + +VD + LED + +E+ + S+ F+ +D +A +T DPV+ YL Sbjct: 163 VELVDDEVLEDTKVAEEP-----EGAESAGFVLSDEDEDDAPAQQVAAAGATADPVKDYL 217 Query: 126 REMGSIELLSREGEIAIAKRIEAG 149 +++G + LL+ E E+ +AKRIEAG Sbjct: 218 KQIGKVPLLNAEQEVELAKRIEAG 241 >gi|294815528|ref|ZP_06774171.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294328127|gb|EFG09770.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 529 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 292 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 351 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 352 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 411 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 412 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 471 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 472 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 529 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 228 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 261 >gi|1582791|prf||2119302A sigma factor Length = 445 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 208 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 267 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 268 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 327 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 328 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 387 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 388 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 445 Score = 42.4 bits (98), Expect = 0.29, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 144 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 177 >gi|289706929|ref|ZP_06503266.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58] gi|289556364|gb|EFD49718.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58] Length = 509 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 331 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 332 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 391 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 392 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 451 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 452 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 509 Score = 39.7 bits (91), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 208 ATADPVKDYLKQIGKVALLNAEQEVDLAMRIEAG 241 >gi|291454591|ref|ZP_06593981.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074] gi|581664|emb|CAA53564.1| sigma factor (RNA polymerase subunit) [Streptomyces griseus] gi|291357540|gb|EFE84442.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074] Length = 510 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 273 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 332 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 333 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 392 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 393 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 452 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 453 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 510 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 205 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 242 >gi|302537370|ref|ZP_07289712.1| RNA polymerase, subunit sigma [Streptomyces sp. C] gi|302446265|gb|EFL18081.1| RNA polymerase, subunit sigma [Streptomyces sp. C] Length = 526 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 289 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 348 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 349 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 408 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 409 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 468 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 469 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 526 Score = 42.0 bits (97), Expect = 0.31, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 225 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 258 >gi|296129901|ref|YP_003637151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas flavigena DSM 20109] gi|296021716|gb|ADG74952.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas flavigena DSM 20109] Length = 495 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 258 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 317 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 318 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 377 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 378 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHQVLDTLSER 437 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 438 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 495 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 193 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 226 >gi|296270363|ref|YP_003652995.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296093150|gb|ADG89102.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 555 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 318 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 377 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A++L M E V Sbjct: 378 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKV 437 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED AV P D+ L+E VL +L+ R Sbjct: 438 IEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 497 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 498 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 555 Score = 40.4 bits (93), Expect = 0.94, Method: Compositional matrix adjust. Identities = 17/31 (54%), Positives = 25/31 (80%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 256 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 286 >gi|182435494|ref|YP_001823213.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776131|ref|ZP_08235396.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|11132962|sp|P77951|HRDB_STRGR RecName: Full=RNA polymerase principal sigma factor hrdB gi|1617256|gb|AAB16905.1| principal sigma factor [Streptomyces griseus] gi|178464010|dbj|BAG18530.1| RNA polymerase principal sigma factor hrdB [Streptomyces griseus subsp. griseus NBRC 13350] gi|326656464|gb|EGE41310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 514 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 277 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 336 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 337 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 396 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 397 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 456 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 457 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 514 Score = 42.4 bits (98), Expect = 0.30, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 213 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 246 >gi|21224164|ref|NP_629943.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289768642|ref|ZP_06528020.1| transcription initiation factor sigma [Streptomyces lividans TK24] gi|12644145|sp|P18183|HRDB_STRCO RecName: Full=RNA polymerase principal sigma factor hrdB gi|3036885|emb|CAA18518.1| major vegetative sigma factor [Streptomyces coelicolor A3(2)] gi|289698841|gb|EFD66270.1| transcription initiation factor sigma [Streptomyces lividans TK24] Length = 511 Score = 280 bits (715), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 274 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 333 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 334 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 393 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 394 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 453 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 454 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 511 Score = 42.7 bits (99), Expect = 0.18, Method: Compositional matrix adjust. Identities = 30/83 (36%), Positives = 46/83 (55%), Gaps = 14/83 (16%) Query: 79 DGDDLEDE------------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 DG+ LEDE EG+E++ + S Q+ +A +T DPV+ YL+ Sbjct: 163 DGELLEDEATEEPKAATEEPEGTENAGFVLSDEDEDDAPAQQV--AAAGATADPVKDYLK 220 Query: 127 EMGSIELLSREGEIAIAKRIEAG 149 ++G + LL+ E E+ +AKRIEAG Sbjct: 221 QIGKVPLLNAEQEVELAKRIEAG 243 >gi|282862331|ref|ZP_06271393.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282562670|gb|EFB68210.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 515 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 338 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 397 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 398 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 457 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 458 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 515 Score = 42.4 bits (98), Expect = 0.30, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 214 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|239991260|ref|ZP_04711924.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] Length = 515 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 338 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 397 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 398 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 457 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 458 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 515 Score = 42.4 bits (98), Expect = 0.29, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 214 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|307325028|ref|ZP_07604232.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889174|gb|EFN20156.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 502 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 265 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 324 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 325 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 384 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 385 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 444 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 445 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 502 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 197 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 234 >gi|48745|emb|CAA37175.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 442 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 205 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 264 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 265 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 324 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 325 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 384 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 385 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 442 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 30/83 (36%), Positives = 46/83 (55%), Gaps = 14/83 (16%) Query: 79 DGDDLEDE------------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 DG+ LEDE EG+E++ + S Q+ +A +T DPV+ YL+ Sbjct: 94 DGELLEDEATEEPKAATEEPEGTENAGFVLSDEDEDDAPAQQV--AAAGATADPVKDYLK 151 Query: 127 EMGSIELLSREGEIAIAKRIEAG 149 ++G + LL+ E E+ +AKRIEAG Sbjct: 152 QIGKVPLLNAEQEVELAKRIEAG 174 >gi|159899067|ref|YP_001545314.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159892106|gb|ABX05186.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 386 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 149 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 208 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V RT+ ++ ++REPTPEEIA+ + + V Sbjct: 209 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREPTPEEIAEAMGITASKV 268 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P+D+A LRE VL L R Sbjct: 269 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRVSTPVDAAAMTMLREQIEEVLQKLPER 328 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR +LD Sbjct: 329 ERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 386 Score = 51.6 bits (122), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 38/120 (31%), Positives = 63/120 (52%), Gaps = 5/120 (4%) Query: 33 KMIKLA-RQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K+++LA + + + E++ + LP E + E +E + GI VVD D+ + + Sbjct: 4 KLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVADLDL 63 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 LDL S D +D + DDPVRMYL+E+G + LL+ E+ +AK++E A Sbjct: 64 DLDLDSDHDLDGAL----PDLSDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHA 119 >gi|288923254|ref|ZP_06417393.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288345398|gb|EFC79788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 400 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 130/271 (47%), Positives = 194/271 (71%), Gaps = 8/271 (2%) Query: 418 VETGISISE----FRHIVSMVRKG----ECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 +E G+ SE R I +R+ E + IAK+++VEANLRLV+S+AK+Y RG+ Sbjct: 129 IEAGLFASEKLAATRKISPQLRQDLQAVEQDGQIAKRKLVEANLRLVVSIAKRYVGRGML 188 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 LDLIQEGN+GL++A EKFD+ GYKFSTYA WW++QA+TR++ADQ TIRIPVHM + + Sbjct: 189 LLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAVTRALADQGRTIRIPVHMAETV 248 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +KV R R++ ++ REP+PEEI ++ + V ++LKI + P++LETPIG E S LG Sbjct: 249 NKVTRIQRQLLQELGREPSPEEIGTQIDLTAHKVEEILKIAQTPVALETPIGAEQDSQLG 308 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 DFIED +A++P ++A L++ VL +L RE++V+++RFG+ TLE++G++F Sbjct: 309 DFIEDDDAIAPFEAASSVLLQKHIESVLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREF 368 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + +ERIRQIE++ + KL HP+RS++LR +L Sbjct: 369 GIPQERIRQIESRTLAKLSHPARSQRLRDYL 399 Score = 55.1 bits (131), Expect = 4e-05, Method: Compositional matrix adjust. Identities = 38/119 (31%), Positives = 61/119 (51%), Gaps = 17/119 (14%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDDLEDEEGSE 90 + I ++ G+VT E++ L E+ E + + +L++ GI V+D DD+ D G Sbjct: 29 EFITRGKENGFVTPEDVATALLDAELPPENSDAVLRLLADDGIEVLDEIDDDVPDPPGRR 88 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + +SA +S DPVRMYL+ +G + LL+ E+ +AKRIEAG Sbjct: 89 RGPEEHASAMPTS---------------DPVRMYLKTIGRVRLLTAAEEVDLAKRIEAG 132 >gi|256784755|ref|ZP_05523186.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 492 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 255 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 314 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 315 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 374 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 375 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 434 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 435 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 492 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 30/83 (36%), Positives = 46/83 (55%), Gaps = 14/83 (16%) Query: 79 DGDDLEDE------------EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 DG+ LEDE EG+E++ + S Q+ +A +T DPV+ YL+ Sbjct: 144 DGELLEDEATEEPKAATEEPEGTENAGFVLSDEDEDDAPAQQV--AAAGATADPVKDYLK 201 Query: 127 EMGSIELLSREGEIAIAKRIEAG 149 ++G + LL+ E E+ +AKRIEAG Sbjct: 202 QIGKVPLLNAEQEVELAKRIEAG 224 >gi|50726933|gb|AAT81163.1| principal sigma factor [Streptomyces ansochromogenes] Length = 440 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 203 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 262 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 263 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 322 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 323 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQPDSVLDTLSER 382 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 383 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 440 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 135 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 172 >gi|218295160|ref|ZP_03495996.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermus aquaticus Y51MC23] gi|218244363|gb|EED10888.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermus aquaticus Y51MC23] Length = 439 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 142/259 (54%), Positives = 190/259 (73%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 185 ELKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 240 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 241 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 300 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+ EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D+N SP+++ Sbjct: 301 EPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVEA 360 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 361 AAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 420 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FLD Sbjct: 421 LRKLKYHESRTRKLRDFLD 439 Score = 41.2 bits (95), Expect = 0.58, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 25/34 (73%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ST DPVR YL E+G + LL+ E EI +A+++E G Sbjct: 92 STSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEG 125 >gi|153306|gb|AAA26763.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450078|prf||1920369B RNA polymerase:SUBUNIT=sigma Length = 525 Score = 280 bits (715), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 288 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 347 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 348 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 407 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 408 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 467 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 468 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 525 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 224 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 257 >gi|239982743|ref|ZP_04705267.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 491 Score = 280 bits (715), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 254 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 313 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 314 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 373 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 374 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 433 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 434 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 491 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 186 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 223 >gi|311898773|dbj|BAJ31181.1| putative RNA polymerase major sigma factor [Kitasatospora setae KM-6054] Length = 541 Score = 279 bits (714), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 304 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 363 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 364 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 423 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 424 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 483 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 484 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 541 Score = 42.4 bits (98), Expect = 0.29, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 240 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 273 >gi|224372659|ref|YP_002607031.1| RNA polymerase sigma factor RpoD [Nautilia profundicola AmH] gi|223588464|gb|ACM92200.1| rna polymerase sigma factor [Nautilia profundicola AmH] Length = 604 Score = 279 bits (714), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 129/263 (49%), Positives = 194/263 (73%), Gaps = 1/263 (0%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ + I+ +++G+ + AK++M ANLRLV+S+AKKYTNRGL FLDLIQEGNIG Sbjct: 342 GMEPEKLEVILEQLKRGKKITTEAKEKMARANLRLVVSIAKKYTNRGLPFLDLIQEGNIG 401 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA +KF++ GYKFSTYA WW++QAI+R+IADQ+ T+RIP+HM + I+++ + R+ Sbjct: 402 LMKAIDKFEFEKGYKFSTYATWWIRQAISRAIADQARTVRIPIHMIENINQINKIVRKYV 461 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + +EP+ E IAK++ MP+E V+++LKI+KEP+SLE P+G+E+ GDFIEDK +P Sbjct: 462 QEEGKEPSLEVIAKEMKMPIEKVKQILKISKEPVSLEAPVGEEEDGKFGDFIEDKTFTNP 521 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQI 659 + + +LR+ +L L RE V++MRFG+ + ++ TLEE+GK VTRER+RQI Sbjct: 522 YEEVVNEDLRKHIEEILEQLNERERAVIKMRFGLMPDKSERTLEEIGKALNVTRERVRQI 581 Query: 660 EAKAIRKLKHPSRSKKLRSFLDG 682 E+ AI+KL+HP+ K L+++++ Sbjct: 582 ESSAIKKLRHPNIGKFLKNYIES 604 Score = 55.5 bits (132), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 23/58 (39%), Positives = 38/58 (65%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LL ++ EI I +RI+ G +++ ++C P ++ +++ L Sbjct: 96 SDSPVRMYLREMGHIPLLDKDEEIEIFRRIQLGEEIILDAICSIPFLIDLVLKYKEPL 153 >gi|320008126|gb|ADW02976.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 515 Score = 279 bits (714), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 338 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 397 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 398 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 457 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 458 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 515 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 214 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|290956933|ref|YP_003488115.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22] gi|260646459|emb|CBG69556.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22] Length = 516 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 279 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 338 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 339 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 398 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 399 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 458 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 459 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 516 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 211 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 248 >gi|329940007|ref|ZP_08289289.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329300833|gb|EGG44729.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 512 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 275 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 334 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 335 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 394 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 395 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 454 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 455 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 512 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 207 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 244 >gi|302554625|ref|ZP_07306967.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302472243|gb|EFL35336.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 513 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 276 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 335 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 336 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 395 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 396 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 455 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 456 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 513 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 208 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 245 >gi|256825489|ref|YP_003149449.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Kytococcus sedentarius DSM 20547] gi|256688882|gb|ACV06684.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Kytococcus sedentarius DSM 20547] Length = 594 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 357 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 416 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 417 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 476 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 477 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDAVSFTLLQEQLHSVLDTLSER 536 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 537 EAGVVSMRFGLADGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 594 Score = 38.5 bits (88), Expect = 4.0, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T D V+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 293 ATADAVKDYLKQIGKVALLNAEQEVDLAKRIEAG 326 >gi|134098380|ref|YP_001104041.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291006918|ref|ZP_06564891.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133911003|emb|CAM01116.1| RNA polymerase major sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 467 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/249 (54%), Positives = 183/249 (73%), Gaps = 4/249 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ Sbjct: 223 IVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTK 278 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+ Sbjct: 279 GYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEEL 338 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ Sbjct: 339 AKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQ 398 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VLA+L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSR Sbjct: 399 LQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSR 458 Query: 673 SKKLRSFLD 681 S+ LR +LD Sbjct: 459 SQVLRDYLD 467 Score = 50.4 bits (119), Expect = 9e-04, Method: Compositional matrix adjust. Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 1/66 (1%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 EDE+G DS D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +A Sbjct: 131 EDEDGKADS-DFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELA 189 Query: 144 KRIEAG 149 KRIEAG Sbjct: 190 KRIEAG 195 >gi|297156708|gb|ADI06420.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 515 Score = 279 bits (714), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 338 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 397 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 398 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 457 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 458 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 515 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 210 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|297202863|ref|ZP_06920260.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|297148238|gb|EDY59236.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 512 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 275 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 334 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 335 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 394 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 395 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 454 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 455 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 512 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 211 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 244 >gi|237751154|ref|ZP_04581634.1| RNA polymerase sigma factor RpoD [Helicobacter bilis ATCC 43879] gi|229373599|gb|EEO23990.1| RNA polymerase sigma factor RpoD [Helicobacter bilis ATCC 43879] Length = 632 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 134/258 (51%), Positives = 188/258 (72%), Gaps = 1/258 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + I+ +++G+ + AK +M +NLRLV+S+AK+YTNRGL FLDLIQEGNIGLMKA Sbjct: 375 KLKEILEQIKRGKRISDTAKTKMSRSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAV 434 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF++ YKFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+K+ R+ + + Sbjct: 435 DKFEYRKQYKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINKIKNLMRKHAQEKGE 494 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 E E IA ++ + V+ V+ V+KITKEPISLE PIG++D GDF+EDK+ +S +D + Sbjct: 495 ELDVESIANQVGLSVDKVKNVIKITKEPISLEAPIGNDDDGKFGDFVEDKSTMSSMDIML 554 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +LRE VL L RE+ V++MRFG+ + +D TLEE+GK VTRER+RQIE+ AI Sbjct: 555 KEDLREQIDNVLDQLNEREKAVIKMRFGLLEDESDRTLEEIGKALNVTRERVRQIESSAI 614 Query: 665 RKLKHPSRSKKLRSFLDG 682 +KLKHP ++LR +L G Sbjct: 615 KKLKHPRIGRQLRQYLGG 632 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 25/58 (43%), Positives = 38/58 (65%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I LLS+E EI ++K +E G +++ ++C P + ++D L Sbjct: 107 SDSPVRMYLREMGQIPLLSKEEEINLSKDMEKGEDIIIDAICSVPYLIDFIYDYKDAL 164 >gi|271968332|ref|YP_003342528.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] gi|270511507|gb|ACZ89785.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] Length = 561 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 324 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 383 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A++L M E V Sbjct: 384 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKV 443 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED A+ P D+ L+E VL +L+ R Sbjct: 444 VEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHSVLDTLSER 503 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 504 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 561 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 255 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 292 >gi|328885546|emb|CCA58785.1| RNA polymerase sigma factor RpoD [Streptomyces venezuelae ATCC 10712] Length = 567 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 330 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 389 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 390 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 449 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 450 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 509 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 510 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 567 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 266 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 299 >gi|302542036|ref|ZP_07294378.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus ATCC 53653] gi|302459654|gb|EFL22747.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus ATCC 53653] Length = 502 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 265 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 324 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 325 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 384 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 385 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 444 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 445 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 502 Score = 42.4 bits (98), Expect = 0.24, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 197 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 234 >gi|72162538|ref|YP_290195.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71916270|gb|AAZ56172.1| carbamoyl-phosphate synthase L chain, ATP-binding [Thermobifida fusca YX] Length = 616 Score = 279 bits (713), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 379 AKKHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 438 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 439 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 498 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P ++ L+E VL +L+ R Sbjct: 499 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIQPGEAVSFTLLQEQLHSVLDTLSER 558 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 559 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 616 Score = 42.4 bits (98), Expect = 0.28, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 314 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 347 >gi|72161271|ref|YP_288928.1| sigma-70 factor [Thermobifida fusca YX] gi|71915003|gb|AAZ54905.1| sigma-70 factor [Thermobifida fusca YX] Length = 388 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 132/254 (51%), Positives = 194/254 (76%), Gaps = 5/254 (1%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F + +VR+G+ +AK+ ++E+NLRLV+SVAK+Y RGL LDLIQEGN+GL++A E Sbjct: 139 FEDLNELVREGK----LAKRRLIESNLRLVVSVAKRYLGRGLALLDLIQEGNLGLIRAVE 194 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD+ GYKFSTYA WW++QAITR+IADQ+ TIR+PVHM + I+++ RT RR+ ++ RE Sbjct: 195 KFDYTRGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVESINRLARTRRRLHQELGRE 254 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT E++++L + + V ++ ++++EPISL TPIG+ED++ GDFIED +AV P+++A Sbjct: 255 PTLHELSRELNVDHDRVVEIHRVSQEPISLHTPIGEEDSA-FGDFIEDTDAVPPVEAAAF 313 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +VL L+ RE+RV+ +RFG+ HTLEEVG++F VTRERIRQIE+K + K Sbjct: 314 VMLQDQLAQVLGGLSEREQRVITLRFGLEDGKPHTLEEVGRKFGVTRERIRQIESKTLAK 373 Query: 667 LKHPSRSKKLRSFL 680 L+ PSR++ LR +L Sbjct: 374 LRQPSRARILRDYL 387 >gi|88856913|ref|ZP_01131565.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] gi|88813881|gb|EAR23751.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] Length = 454 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 217 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 276 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE++++L M E V Sbjct: 277 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 336 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L++ +L SL+ R Sbjct: 337 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQLESLLDSLSER 396 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+G TL+++G F VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 397 EAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSRSQSLRDYLE 454 Score = 37.4 bits (85), Expect = 8.4, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 25/34 (73%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +A RIEAG Sbjct: 151 ATADPVKDYLKQIGKVALLNAAQEVELAMRIEAG 184 >gi|229820409|ref|YP_002881935.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Beutenbergia cavernae DSM 12333] gi|229566322|gb|ACQ80173.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Beutenbergia cavernae DSM 12333] Length = 499 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 262 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 321 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 322 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 381 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 382 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHAVLDTLSER 441 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 442 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 499 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 198 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 231 >gi|119717187|ref|YP_924152.1| RNA polymerase sigma factor [Nocardioides sp. JS614] gi|119537848|gb|ABL82465.1| RNA polymerase, sigma 70 subunit, RpoD [Nocardioides sp. JS614] Length = 495 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 258 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 317 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 318 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 377 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 378 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHAVLDTLSER 437 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 438 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 495 Score = 41.6 bits (96), Expect = 0.40, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 194 ATADPVKDYLKQIGKVPLLNAEMEVELAKRIEAG 227 >gi|156740438|ref|YP_001430567.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156231766|gb|ABU56549.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 405 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 132/242 (54%), Positives = 178/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A++ +++ANLRLV+S+AKKY RG+ LDLIQEGNIGLM+A EKFD+ GYKFSTY Sbjct: 164 EGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKFSTY 223 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR IADQS TIR+PVH+ + I++V+RT+ R+ R+PTP+EIA +L +P Sbjct: 224 ATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRTSNRIQQTTGRDPTPDEIALELGIP 283 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE VR+VL+ ++ ISLETPIG E S L DFIED +P++SA LRE L Sbjct: 284 VEKVRRVLEAARQTISLETPIGPEGDSVLADFIEDGKGATPMESASSHILREQIDSALEK 343 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L RE R++++R+G+ TLEEVG++F +TRERIRQIEA+ +RKL+HP + LR + Sbjct: 344 LPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHPHYGRGLRGY 403 Query: 680 LD 681 L+ Sbjct: 404 LE 405 Score = 41.6 bits (96), Expect = 0.49, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DDPVR+YLRE+G + LL+ + EI +A+++E G Sbjct: 105 GVDDPVRVYLREIGRVNLLTAQEEIMLAQQVERG 138 >gi|269794902|ref|YP_003314357.1| RNA polymerase sigma-70 subunit RpoD [Sanguibacter keddieii DSM 10542] gi|269097087|gb|ACZ21523.1| RNA polymerase, sigma 70 subunit, RpoD [Sanguibacter keddieii DSM 10542] Length = 516 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 279 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 338 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 339 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 398 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 399 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHQVLDTLSER 458 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 459 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 516 Score = 41.6 bits (96), Expect = 0.49, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 214 ATADPVKDYLKQIGKVALLNAEQEVDLAKRIEAG 247 >gi|94984583|ref|YP_603947.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] gi|94554864|gb|ABF44778.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] Length = 532 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 140/245 (57%), Positives = 185/245 (75%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTY Sbjct: 288 DGAAARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTY 347 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ REPT EEIA+ + Sbjct: 348 ATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREPTYEEIAEAMGPG 407 Query: 560 VEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V +V K+++EP+SLETPIGDE S GDFI D+N SP+D+A + L E + L Sbjct: 408 WDAAKVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDENLDSPVDNAAKTLLSEELEKAL 467 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKL 676 + LT RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA+RKLK H SR++KL Sbjct: 468 SKLTEREALVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLKYHESRTRKL 527 Query: 677 RSFLD 681 R FLD Sbjct: 528 RDFLD 532 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 19/33 (57%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++DPVR YL E+G + LL+ E EIA+A+RIE G Sbjct: 228 SNDPVRQYLHEIGRVPLLTLEEEIALARRIEEG 260 >gi|328950970|ref|YP_004368305.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinithermus hydrothermalis DSM 14884] gi|328451294|gb|AEB12195.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinithermus hydrothermalis DSM 14884] Length = 477 Score = 278 bits (712), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 141/257 (54%), Positives = 187/257 (72%), Gaps = 7/257 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + + + R GE +A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EK Sbjct: 225 KRYLHLARDGE----LARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEK 280 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ YKFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ + REP Sbjct: 281 FEYKRRYKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQEKGREP 340 Query: 548 TPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 + EEIA+ + + V + KI +EP+SLETPIGDE S GDFI D++ SP+D+A Sbjct: 341 SYEEIAEAMGPGWDAKRVEETFKIAQEPVSLETPIGDEKDSFYGDFIPDEHMASPVDAAA 400 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA+R Sbjct: 401 QSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALR 460 Query: 666 KLK-HPSRSKKLRSFLD 681 KLK H SR++KLR FLD Sbjct: 461 KLKYHESRTRKLRDFLD 477 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 34/98 (34%), Positives = 49/98 (50%), Gaps = 9/98 (9%) Query: 56 DEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR 115 D+ E E+ + +L GI+V+ EDEE E L+ S + R Sbjct: 79 DDAFEESYEEVIDLLEGEGIDVLS----EDEELEEPILEGEDDLSEDEPAIATRV----- 129 Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 S DPVR YL E+G + LL+ E EI +A+R+E G A + Sbjct: 130 SISDPVRQYLHEIGQVPLLTLEEEIDLARRVEEGEAAI 167 >gi|281412780|ref|YP_003346859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga naphthophila RKU-10] gi|281373883|gb|ADA67445.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga naphthophila RKU-10] Length = 407 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 181/248 (72%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++ +NLRLV+S+AK+Y RGL F DLIQEGNIGL+KA EKFDW Sbjct: 152 LARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRK 211 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K EP+ EE+ Sbjct: 212 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEEL 271 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + P E ++++L+ KE ISLE+PIG+++ S + DF+ D + SP A++ +RE Sbjct: 272 AKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMREE 331 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 332 LEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 391 Query: 673 SKKLRSFL 680 SK L+S L Sbjct: 392 SKYLKSLL 399 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 36/120 (30%), Positives = 63/120 (52%), Gaps = 6/120 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD--EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 KK+I L +++GY+T E+++ PPD + + +E L GIN+V+ + E+E + Sbjct: 44 KKLISLGKKKGYITYEDIDKAFPPDFEDFDTNLIERIHEELEKHGINIVENEPEEEEISA 103 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D + DS++ D ++MYL+E+G I LL+ E +A+R + G Sbjct: 104 --SSDEQELEELLERESPEIHDSSN--VRDSIKMYLKEIGKIPLLTPAQERELARRAQMG 159 >gi|55980501|ref|YP_143798.1| RNA polymerase pricipal sigma factor RpoD [Thermus thermophilus HB8] gi|209447478|pdb|3DXJ|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|209447484|pdb|3DXJ|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|55771914|dbj|BAD70355.1| RNA polymerase pricipal sigma factor (RpoD) [Thermus thermophilus HB8] Length = 423 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 143/259 (55%), Positives = 190/259 (73%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 169 EHKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 224 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 225 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 284 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EPT EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D++ SP+D+ Sbjct: 285 EPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDA 344 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 345 ATQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIENKA 404 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FLD Sbjct: 405 LRKLKYHESRTRKLRDFLD 423 >gi|46198472|ref|YP_004139.1| RNA polymerase sigma factor rpoD [Thermus thermophilus HB27] gi|21730342|pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|21730348|pdb|1IW7|P Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|49259060|pdb|1SMY|F Chain F, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|49259066|pdb|1SMY|P Chain P, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|78101162|pdb|1ZYR|F Chain F, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101168|pdb|1ZYR|P Chain P, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101224|pdb|2A68|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101230|pdb|2A68|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101236|pdb|2A69|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101242|pdb|2A69|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101248|pdb|2A6E|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101254|pdb|2A6E|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101260|pdb|2A6H|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101266|pdb|2A6H|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101762|pdb|2CW0|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|78101768|pdb|2CW0|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|83754377|pdb|2BE5|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|83754383|pdb|2BE5|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|210061069|pdb|3EQL|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|210061075|pdb|3EQL|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|4239959|dbj|BAA74758.1| principal sigma factor [Thermus thermophilus] gi|46196094|gb|AAS80512.1| RNA polymerase sigma factor rpoD [Thermus thermophilus HB27] Length = 423 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 143/259 (55%), Positives = 190/259 (73%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 169 EHKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 224 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 225 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 284 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EPT EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D++ SP+D+ Sbjct: 285 EPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDA 344 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 345 ATQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIENKA 404 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FLD Sbjct: 405 LRKLKYHESRTRKLRDFLD 423 >gi|326332703|ref|ZP_08198965.1| RNA polymerase sigma (70) factor RpoD [Nocardioidaceae bacterium Broad-1] gi|325949484|gb|EGD41562.1| RNA polymerase sigma (70) factor RpoD [Nocardioidaceae bacterium Broad-1] Length = 530 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 293 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 352 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 353 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 412 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 413 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHAVLDTLSER 472 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 473 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 530 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 229 ATADPVKDYLKQIGKVPLLNAEMEVELAKRIEAG 262 >gi|148270473|ref|YP_001244933.1| RpoD family RNA polymerase sigma factor [Thermotoga petrophila RKU-1] gi|170289132|ref|YP_001739370.1| RpoD family RNA polymerase sigma factor [Thermotoga sp. RQ2] gi|147736017|gb|ABQ47357.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga petrophila RKU-1] gi|170176635|gb|ACB09687.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga sp. RQ2] Length = 407 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 181/248 (72%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++ +NLRLV+S+AK+Y RGL F DLIQEGNIGL+KA EKFDW Sbjct: 152 LARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRK 211 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K EP+ EE+ Sbjct: 212 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEEL 271 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + P E ++++L+ KE ISLE+PIG+++ S + DF+ D + SP A++ +RE Sbjct: 272 AKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMREE 331 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 332 LEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 391 Query: 673 SKKLRSFL 680 SK L+S L Sbjct: 392 SKYLKSLL 399 Score = 45.4 bits (106), Expect = 0.035, Method: Compositional matrix adjust. Identities = 35/120 (29%), Positives = 61/120 (50%), Gaps = 6/120 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD--EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 KK+I L +++GY+T E+++ PPD + + +E L GIN+V+ + E+E Sbjct: 44 KKLISLGKKKGYITYEDIDKAFPPDFEDFDTNLIERIHEELEKHGINIVESESEEEEMSV 103 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D + DS++ D ++MYL+E+G I LL+ E +A+R + G Sbjct: 104 PG--DEQELEELLERESPEIHDSSN--VRDSIKMYLKEIGKIPLLTPAQERELARRAQMG 159 >gi|5030433|gb|AAC44889.2| sigma 70-type sigma factor SigA [Thermotoga maritima] Length = 407 Score = 278 bits (711), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 181/248 (72%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++ +NLRLV+S+AK+Y RGL F DLIQEGNIGL+KA EKFDW Sbjct: 152 LARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRK 211 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K EP+ EE+ Sbjct: 212 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEEL 271 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + P E ++++L+ KE ISLE+PIG+++ S + DF+ D + SP A++ +RE Sbjct: 272 AKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMREE 331 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 332 LEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 391 Query: 673 SKKLRSFL 680 SK L+S L Sbjct: 392 SKYLKSLL 399 Score = 46.2 bits (108), Expect = 0.021, Method: Compositional matrix adjust. Identities = 36/120 (30%), Positives = 62/120 (51%), Gaps = 6/120 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD--EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 KK+I L +++GY+T E+++ PPD + +E L GIN+V+ + E+E + Sbjct: 44 KKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENEPEEEEISA 103 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D + DS++ D ++MYL+E+G I LL+ E +A+R + G Sbjct: 104 --SSDEQELEELLEKESPEIHDSSN--VRDSIKMYLKEIGKIPLLTPAQERELARRAQMG 159 >gi|331696864|ref|YP_004333103.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951553|gb|AEA25250.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudonocardia dioxanivorans CB1190] Length = 461 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 139/267 (52%), Positives = 192/267 (71%), Gaps = 6/267 (2%) Query: 417 SVETGISISE--FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 ++E+G +S R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLI Sbjct: 199 AIESGEKVSPQLRRDLRWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLI 254 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGN+GL++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R Sbjct: 255 QEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGR 314 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 R + + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED Sbjct: 315 IQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIED 374 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 AV +D+ L++ VLA+L+ RE V+R+RFG+ TL+E+G+ + VTRE Sbjct: 375 SEAVVAVDAVSFTLLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRE 434 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 435 RIRQIESKTMSKLRHPSRSQVLRDYLD 461 Score = 44.7 bits (104), Expect = 0.048, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 142 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 189 >gi|302557983|ref|ZP_07310325.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302475601|gb|EFL38694.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 509 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 331 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 332 ICQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 391 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 392 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 451 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 452 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 509 Score = 42.7 bits (99), Expect = 0.22, Method: Compositional matrix adjust. Identities = 19/38 (50%), Positives = 29/38 (76%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 204 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 241 >gi|15644200|ref|NP_229250.1| RNA polymerase sigma-A factor [Thermotoga maritima MSB8] gi|6831649|sp|P77994|RPOD_THEMA RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|4982015|gb|AAD36519.1|AE001796_11 RNA polymerase sigma-A factor [Thermotoga maritima MSB8] Length = 399 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 135/248 (54%), Positives = 181/248 (72%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK++++ +NLRLV+S+AK+Y RGL F DLIQEGNIGL+KA EKFDW Sbjct: 144 LARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRK 203 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ R R K EP+ EE+ Sbjct: 204 GYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEEL 263 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + P E ++++L+ KE ISLE+PIG+++ S + DF+ D + SP A++ +RE Sbjct: 264 AKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMREE 323 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 324 LEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 383 Query: 673 SKKLRSFL 680 SK L+S L Sbjct: 384 SKYLKSLL 391 Score = 46.2 bits (108), Expect = 0.021, Method: Compositional matrix adjust. Identities = 36/120 (30%), Positives = 62/120 (51%), Gaps = 6/120 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPD--EVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS 89 KK+I L +++GY+T E+++ PPD + +E L GIN+V+ + E+E + Sbjct: 36 KKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENEPEEEEISA 95 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D + DS++ D ++MYL+E+G I LL+ E +A+R + G Sbjct: 96 --SSDEQELEELLEKESPEIHDSSN--VRDSIKMYLKEIGKIPLLTPAQERELARRAQMG 151 >gi|302537866|ref|ZP_07290208.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302446761|gb|EFL18577.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 481 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 244 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTKGFKFSTYATWW 303 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQS TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 304 IRQAITRAMADQSRTIRIPVHMVEIINKLARVQRQMLQDLGREPTPEELGKELDMTPEKV 363 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED AV P D+ L+E +L +L+ R Sbjct: 364 IEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTFLQEQLQSILGTLSER 423 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 424 EAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 481 Score = 40.0 bits (92), Expect = 1.3, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+ +G + LL+ E E+ +AKRIEAG Sbjct: 180 ATADPVKDYLKLIGKVPLLNAEQEVELAKRIEAG 213 >gi|152965499|ref|YP_001361283.1| RNA polymerase sigma factor [Kineococcus radiotolerans SRS30216] gi|151360016|gb|ABS03019.1| RNA polymerase, sigma 70 subunit, RpoD family [Kineococcus radiotolerans SRS30216] Length = 502 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 135/238 (56%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 265 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 324 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 325 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 384 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 385 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 444 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 445 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 502 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 201 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 234 >gi|320334918|ref|YP_004171629.1| RpoD subfamily RNA polymerase sigma-70 factor [Deinococcus maricopensis DSM 21211] gi|319756207|gb|ADV67964.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus maricopensis DSM 21211] Length = 525 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 139/245 (56%), Positives = 185/245 (75%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTY Sbjct: 281 DGAAARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTY 340 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ REPT EEIA+ + Sbjct: 341 ATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREPTYEEIAEAMGPG 400 Query: 560 VEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V +V K+++EP+SLETPIGDE S GDFI D+N SP+++A + L E + L Sbjct: 401 WDAAKVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDENLDSPVENAAKTLLSEELEKAL 460 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKL 676 + LT RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA+RKLK H SR++KL Sbjct: 461 SKLTEREAMVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLKYHESRTRKL 520 Query: 677 RSFLD 681 R FLD Sbjct: 521 RDFLD 525 Score = 42.0 bits (97), Expect = 0.33, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++DPVR YL E+G + LL+ E EI++A+RIE G Sbjct: 222 SNDPVRQYLHEIGRVPLLTLEEEISLARRIEEG 254 >gi|320104559|ref|YP_004180150.1| RNA polymerase sigma-70 subunit RpoD [Isosphaera pallida ATCC 43644] gi|319751841|gb|ADV63601.1| RNA polymerase, sigma 70 subunit, RpoD [Isosphaera pallida ATCC 43644] Length = 592 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 181/238 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +K++W G+KFSTYA WW Sbjct: 351 AKRKLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEWRRGFKFSTYATWW 410 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + + K+ +++ + REPT EE A+ + +E Sbjct: 411 IRQAITRAIADQARTIRIPVHMIETMSKLRNVNKKLLQEKGREPTIEETARAANISIEET 470 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+V+KI++ PISL+ P+G+ + S+ GDFIED A +P++SA Q L++ +VL +LT R Sbjct: 471 RRVMKISRHPISLDRPVGESEDSYFGDFIEDTTAENPINSATQEMLKDKIDQVLKTLTYR 530 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++++R+G+G +TLEEVG+ F VTRER+RQIEAKA+RKL+HP RS++L FL+ Sbjct: 531 EREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSRQLEGFLE 588 Score = 59.7 bits (143), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 46/168 (27%), Positives = 74/168 (44%), Gaps = 41/168 (24%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGD- 81 D D+ K ++ L +++G++T+ ++N LP D S ++++ L +G+ V+ D Sbjct: 1 MDMLDEGLKALLDLGKRQGFLTMSQINEVLPDDAGSQPDRLDALFNTLEELGVEVLQRDE 60 Query: 82 ----------------------------------DLEDEEGSEDSLDLASSASNSSVFLQ 107 D E + + LDL S+ + L Sbjct: 61 EADGRIAPGDDLDDESDDLMADPEDLAAVHDHELDPESDADGDPGLDLEEPGSDLDLDLD 120 Query: 108 KRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D R DDPVRMYL +MG I LL+RE EI++A+RIE+ R Sbjct: 121 GDLAVEDLDDMSRRIDDPVRMYLTQMGEIPLLTREQEISLAERIESTR 168 >gi|21466021|pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction Promoter Dna Complex At 6.5 A Resolution gi|11527292|gb|AAG36964.1|AF291720_1 sigma factor SigA [Thermus aquaticus] Length = 438 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 141/259 (54%), Positives = 190/259 (73%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 184 ELKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 239 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 240 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 299 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+ EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D+N SP+++ Sbjct: 300 EPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVEA 359 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 360 AAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 419 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FL+ Sbjct: 420 LRKLKYHESRTRKLRDFLE 438 Score = 41.2 bits (95), Expect = 0.55, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 25/34 (73%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ST DPVR YL E+G + LL+ E EI +A+++E G Sbjct: 91 STSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEG 124 >gi|153309|gb|AAA26764.1| principal sigma-like factor [Streptomyces aureofaciens] Length = 528 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTKGFKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQS TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 351 IRQAITRAMADQSRTIRIPVHMVEIINKLARVQRQMLQDLGREPTPEELGKELDMTPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED AV P D+ L+E +L +L+ R Sbjct: 411 IEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTFLQEQLQSILGTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 471 EAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRGYLD 528 Score = 40.0 bits (92), Expect = 1.4, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+ +G + LL+ E E+ +AKRIEAG Sbjct: 227 ATADPVKDYLKLIGKVPLLNAEQEVELAKRIEAG 260 >gi|297559739|ref|YP_003678713.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296844187|gb|ADH66207.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 364 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 128/237 (54%), Positives = 180/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+Y RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 126 AKRSLIEANLRLVVSIAKRYMGRGLLLLDLVQEGNLGLIRAVEKFDYGKGFKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+KVVR ++ ++ REP+ EEI+ + V Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKVVRVQHQLHQQLGREPSVEEISSAAGFVGQRV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +I +EP+SL++PIG+E+ S GDFIED +AV+P+++A L+E +L L+ R Sbjct: 246 VEIQRIAREPVSLQSPIGEEE-SDFGDFIEDSDAVAPVEAAAFTVLQEQLGAILGGLSDR 304 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E R++R+RFG+ HTLEEVG++F VTRERIRQIEAK + KL+HPSR+ LR F+ Sbjct: 305 ERRIIRLRFGMADGHPHTLEEVGREFGVTRERIRQIEAKTLAKLRHPSRAGSLRDFI 361 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 39/125 (31%), Positives = 60/125 (48%), Gaps = 21/125 (16%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 M++L G V+ E+ + L + + ++ VA L+ +G+ V +D GSED Sbjct: 1 MVRLLPDTGPVSRGEVASALERLDAPPDYLDQAVAHLARIGVEVAGPED----TGSEDPG 56 Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 +A D RS D VR+YLRE+G + LLS E E+ +AK +E G + Sbjct: 57 PVA--------------DGGRRSGSDLVRLYLREIGRVPLLSAEQEVELAKAVEVG---L 99 Query: 154 MASLC 158 A C Sbjct: 100 YAQHC 104 >gi|269125851|ref|YP_003299221.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268310809|gb|ACY97183.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 559 Score = 278 bits (710), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 322 AKAHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 381 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 382 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 441 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 442 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHSVLDTLSER 501 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 502 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 559 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 257 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 290 >gi|284031355|ref|YP_003381286.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kribbella flavida DSM 17836] gi|283810648|gb|ADB32487.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kribbella flavida DSM 17836] Length = 442 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 205 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 264 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 265 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 324 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P ++ L+E VL +L+ R Sbjct: 325 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPAEAVSFTLLQEQLHAVLDTLSER 384 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 385 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 442 Score = 42.0 bits (97), Expect = 0.31, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 140 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 173 >gi|258645217|ref|ZP_05732686.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470] gi|260402567|gb|EEW96114.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470] Length = 388 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 144/271 (53%), Positives = 191/271 (70%), Gaps = 12/271 (4%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECE---------ASIAKKEMVEANLRLVISVAKK 462 EI +I + TG S+ + +V KG + A AKK + +ANLRLV+S+AKK Sbjct: 117 EIGAIKLLTG---SQEIELAKLVEKGSFDDATGRDKMAADEAKKALSDANLRLVVSIAKK 173 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y RGLQFLDLIQEGN+GL+KA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIR+P Sbjct: 174 YLGRGLQFLDLIQEGNLGLLKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRVP 233 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R++ + RE T EE+AK + + V +R+V KI ++PISLETPIG+ Sbjct: 234 VHMVETINKLNRISRQLLQEKGREATNEELAKAMGVSVAKIREVKKIAQDPISLETPIGE 293 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED A++P D+A LRE +L LT RE +VL +RFG+ TL Sbjct: 294 KEDSHLGDFIEDHEAIAPDDAAGSILLREQIDELLRELTDRERQVLELRFGLKDGRPRTL 353 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EEVGK F VTRERIRQIE KA+ KLK ++S Sbjct: 354 EEVGKYFDVTRERIRQIEGKALTKLKKSAKS 384 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + DDPV+MYL+E+G+I+LL+ EI +AK +E G Sbjct: 106 NIDDPVKMYLKEIGAIKLLTGSQEIELAKLVEKG 139 >gi|328954372|ref|YP_004371706.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] gi|328454696|gb|AEB10525.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca acetoxidans DSM 11109] Length = 436 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 128/256 (50%), Positives = 186/256 (72%), Gaps = 1/256 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + +R+ E E A+ EM++ANLRLV+S+AKKY +RGL F DLIQEGN+GLMKA Sbjct: 182 EIKQLAKKIREKENEVVRARDEMIKANLRLVVSIAKKYLHRGLSFSDLIQEGNLGLMKAV 241 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++D+ GY+ ST+A WW++Q ITR+I D++ TIRIPVH+++ ++ R + ++ R Sbjct: 242 TRYDYTTGYRLSTFASWWIRQTITRAIYDKTRTIRIPVHLQEIRNRCYRAFYDLLKELGR 301 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP +EIA++ +P + + V ++ EPISLETP+GDE LGDFI + A+SP DS I Sbjct: 302 EPLLKEIAERSGVPEDKILVVTNLSDEPISLETPVGDEG-DRLGDFIRNDQAISPFDSII 360 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + L E T +L++LTPREE++++MRFGIG +HTLEE+G++F V+RERIRQIE KA++ Sbjct: 361 SSELSEKTDAILSTLTPREEKIMKMRFGIGAEVEHTLEEIGREFKVSRERIRQIEKKALK 420 Query: 666 KLKHPSRSKKLRSFLD 681 +LKHP+R L FL+ Sbjct: 421 RLKHPTRKATLEDFLE 436 >gi|148272828|ref|YP_001222389.1| RNA polymerase sigma factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147830758|emb|CAN01698.1| RNA polymerase principal sigma factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 492 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 255 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 314 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE++++L M E V Sbjct: 315 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 374 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L++ +L SL+ R Sbjct: 375 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQLESLLDSLSER 434 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+G TL+++G F VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 435 EAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSRSQSLRDYLE 492 >gi|15807631|ref|NP_294640.1| RNA polymerase sigma-A factor [Deinococcus radiodurans R1] Length = 360 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 139/245 (56%), Positives = 183/245 (74%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTY Sbjct: 116 DGAAARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTY 175 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ RE T EEIA+ + Sbjct: 176 ATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREATHEEIAEAMGPG 235 Query: 560 VEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V +V K+++EP+SLETPIGDE S GDFI D+N SP+D+A + L E + L Sbjct: 236 WDAAKVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDENLDSPVDNAAKTLLSEELEKAL 295 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKL 676 LT RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA+RKLK H SR++KL Sbjct: 296 GKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKALRKLKYHESRTRKL 355 Query: 677 RSFLD 681 R FLD Sbjct: 356 RDFLD 360 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 19/33 (57%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++DPVR YL E+G + LL+ E EIA+A+RIE G Sbjct: 57 SNDPVRQYLHEIGRVSLLTLEEEIALARRIEEG 89 >gi|21466008|pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466014|pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 332 Score = 277 bits (709), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 141/259 (54%), Positives = 190/259 (73%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 78 ELKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 133 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 134 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 193 Query: 546 EPTPEEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+ EEIA+ + + V + LKI +EP+SLETPIGDE S GDFI D+N SP+++ Sbjct: 194 EPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVEA 253 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A Q+ L E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 254 AAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 313 Query: 664 IRKLK-HPSRSKKLRSFLD 681 +RKLK H SR++KLR FL+ Sbjct: 314 LRKLKYHESRTRKLRDFLE 332 Score = 39.3 bits (90), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 24/33 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVR YL E+G + LL+ E EI +A+++E G Sbjct: 1 TSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEG 33 >gi|254382161|ref|ZP_04997522.1| sigma factor [Streptomyces sp. Mg1] gi|194341067|gb|EDX22033.1| sigma factor [Streptomyces sp. Mg1] Length = 416 Score = 277 bits (708), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 179 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNVGLIRAVEKFDYTKGFKFSTYATWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQS TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 239 IRQAITRAMADQSRTIRIPVHMVEIINKLARVQRQMLQDLGREPTPEELGKELDMTPEKV 298 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED AV P D+ L+E +L +L+ R Sbjct: 299 IEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTFLQEQLQSILGTLSER 358 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 359 EAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 416 Score = 40.0 bits (92), Expect = 1.3, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+ +G + LL+ E E+ +AKRIEAG Sbjct: 115 ATADPVKDYLKLIGKVPLLNAEQEVELAKRIEAG 148 >gi|37522141|ref|NP_925518.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421] gi|35213141|dbj|BAC90513.1| principal RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 400 Score = 277 bits (708), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 139/277 (50%), Positives = 196/277 (70%), Gaps = 8/277 (2%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D + + E++ + GI+ +FR ++ R+ AK +MV++NLRLV+S+AKKY Sbjct: 131 DQVTESEQELRRWAEAAGIAYEQFRDRIAYGRR-------AKDKMVQSNLRLVVSIAKKY 183 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PV Sbjct: 184 MNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV 243 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 H+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E Sbjct: 244 HLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKE 303 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLE Sbjct: 304 EDSRLGDFIE-ADGETPEDKVAKNLLREDLEAVLNTLSPRERDVLRLRYGLDDGRMKTLE 362 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 363 EIGQLFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 399 >gi|184201082|ref|YP_001855289.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201] gi|183581312|dbj|BAG29783.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201] Length = 572 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 335 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 394 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 395 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELANELDMTPEKV 454 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 455 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 514 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 515 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 572 Score = 38.9 bits (89), Expect = 2.6, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 270 ATADPVKDYLKQIGKVALLNAEQEVDLALRIEAG 303 >gi|323359909|ref|YP_004226305.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] gi|323276280|dbj|BAJ76425.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Microbacterium testaceum StLB037] Length = 436 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 199 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 258 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE++++L M E V Sbjct: 259 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 318 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+ +L SL+ R Sbjct: 319 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQRQLESLLDSLSER 378 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+G TL+++G F VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 379 EAGVIRMRFGLGDGQPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSRSQSLRDYLE 436 Score = 37.4 bits (85), Expect = 9.5, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 25/34 (73%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +A RIEAG Sbjct: 133 ATADPVKDYLKQIGKVPLLNAAEEVELAMRIEAG 166 >gi|324997280|ref|ZP_08118392.1| RNA polymerase sigma factor [Pseudonocardia sp. P1] Length = 469 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 136/254 (53%), Positives = 185/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 220 RDLRWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 275 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 276 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 335 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 336 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 395 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ VLA+L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 396 LLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 455 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 456 RHPSRSQVLRDYLD 469 Score = 45.4 bits (106), Expect = 0.031, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 34/58 (58%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 140 SADFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 197 >gi|297562250|ref|YP_003681224.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296846698|gb|ADH68718.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 571 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 334 AKKHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 393 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A++L M E V Sbjct: 394 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKV 453 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P ++ L+E VL +L+ R Sbjct: 454 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIQPGEAVSFTLLQEQLHSVLDTLSER 513 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 514 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 571 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 19/37 (51%), Positives = 28/37 (75%) Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 A +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 266 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 302 >gi|84495969|ref|ZP_00994823.1| RNA polymerase sigma factor [Janibacter sp. HTCC2649] gi|84382737|gb|EAP98618.1| RNA polymerase sigma factor [Janibacter sp. HTCC2649] Length = 546 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 134/238 (56%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 309 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 368 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 369 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAIELDMTPEKV 428 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 429 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 488 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 489 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQALRDYLD 546 Score = 42.0 bits (97), Expect = 0.36, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 245 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 278 >gi|50954703|ref|YP_061991.1| RNA polymerase sigma factor [Leifsonia xyli subsp. xyli str. CTCB07] gi|50951185|gb|AAT88886.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli str. CTCB07] Length = 440 Score = 277 bits (708), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 203 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 262 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE++K+L M E V Sbjct: 263 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSKELDMTPEKV 322 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L++ +L SL+ R Sbjct: 323 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDIEAVVPADAVGFTMLQKQLESLLDSLSER 382 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+G TL+++G F VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 383 EAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSRSQSLRDYLE 440 >gi|296127158|ref|YP_003634410.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] gi|296018974|gb|ADG72211.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] Length = 587 Score = 277 bits (708), Expect = 6e-72, Method: Compositional matrix adjust. Identities = 161/371 (43%), Positives = 223/371 (60%), Gaps = 10/371 (2%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 +KE +VKL+ + LN+ ID + E+L RI E +L + Y + F ++ Sbjct: 222 VKENIVKLLTKVRLNRMEIDRIAEKLKFYLHRINQIEEYFEKLKKRYYKEISDFENYYKE 281 Query: 377 RELDPH--WVSYAKDF---PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 E ++ +F PE + + S K + + I E I V Sbjct: 282 IESGNKDIYIRLVDEFNITPEA-----IEAVITSFHKAQVRMADIYDEVRIDKETLVEWV 336 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + + + AK +V+ANLRLVI++AKKY NRGL F DL+QEGNIGL+KA +KF++ Sbjct: 337 RKIDSARRKIAQAKDHIVKANLRLVIAIAKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYK 396 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R R+ + REP+ +E Sbjct: 397 KGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVQRVLRQYMQQHGREPSIQE 456 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 IAK L P V+ V + K+P+SL PIGDE+ + LG+ IEDK SP + LR+ Sbjct: 457 IAKALGWPESRVKSVRNVAKDPVSLNAPIGDEEDTILGELIEDKEFESPQNITTFKILRK 516 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L SL RE++V+RMRFG+ HTLEEVG F VTRERIRQIEAKAIR+L+ S Sbjct: 517 QIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAIRRLRAQS 576 Query: 672 RSKKLRSFLDG 682 + K+L+ FLD Sbjct: 577 KKKELKDFLDS 587 Score = 47.0 bits (110), Expect = 0.011, Method: Compositional matrix adjust. Identities = 33/161 (20%), Positives = 82/161 (50%), Gaps = 11/161 (6%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLED 85 +++ +K+++ Y+T +E+N + D + ++ M+ +L+ I +V D + E Sbjct: 13 NNEKIRKLLEKGNANKYLTFKEINGAI--DNMDTDVMDILFQLLNARKIVIVEDKREFES 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 +++ +D +++ F+ + DDP+R+YL+E+G + LL+ + E+ +K+ Sbjct: 71 LSKNQNKID------DTAKFIHVEDKVGN--NDDPIRLYLKEIGKVSLLTHDDEVDYSKK 122 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 IE+G + + + + L ++ + G + EI++ Sbjct: 123 IESGESEIENIILNTHLVVGEVLNTIKNVQTGKVSIHEILE 163 >gi|289642419|ref|ZP_06474565.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] gi|289507764|gb|EFD28717.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont of Datisca glomerata] Length = 425 Score = 276 bits (707), Expect = 6e-72, Method: Compositional matrix adjust. Identities = 130/254 (51%), Positives = 185/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EK Sbjct: 176 RDLQTLVRDGHA----AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEK 231 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REP Sbjct: 232 FDYAKGYKFSTYATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREP 291 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A +L MP+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A Sbjct: 292 TDEELALELDMPIEQVVELRRYAQDTVSLETAVGDDGDSVLGDFIEDADATSPADAASYG 351 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +++ VL SLTPRE V+R+RFG+ HTL EVG + +TRERIRQIE +R+L Sbjct: 352 AMQDEIEGVLNSLTPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLREL 411 Query: 668 KHPSRSKKLRSFLD 681 + P+ + +LR FLD Sbjct: 412 RKPAVAGRLREFLD 425 Score = 41.2 bits (95), Expect = 0.58, Method: Compositional matrix adjust. Identities = 20/41 (48%), Positives = 27/41 (65%) Query: 109 RKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R S T D VRMYLRE+G + LL+ E+ ++KR+EAG Sbjct: 117 RATSEHAGTADLVRMYLREIGKVPLLNAAQEVELSKRVEAG 157 >gi|119961685|ref|YP_947521.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1] gi|119948544|gb|ABM07455.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1] Length = 437 Score = 276 bits (707), Expect = 6e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 200 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 259 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 260 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDMTPEKV 319 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 320 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 379 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 380 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 437 Score = 41.2 bits (95), Expect = 0.57, Method: Compositional matrix adjust. Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 9/76 (11%) Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD-------RSTDDPVRMYLREMGSIEL 133 DD+ED G+ + D A+ + + V+ D A +T DPV+ YL+++G + L Sbjct: 95 DDVED--GATATKDKAAPSGSGFVYSDADDDDAPVQQVMSAGATADPVKDYLKQIGKVAL 152 Query: 134 LSREGEIAIAKRIEAG 149 L+ E E+ +A RIEAG Sbjct: 153 LNAEQEVDLALRIEAG 168 >gi|163841160|ref|YP_001625565.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum ATCC 33209] gi|1808669|emb|CAA71796.1| RNA polymerase [Renibacterium salmoninarum] gi|162954636|gb|ABY24151.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum ATCC 33209] Length = 462 Score = 276 bits (707), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 225 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNMGLIRAVEKFDYTKGFKFSTYATWW 284 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 285 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDMTPEKV 344 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 345 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 404 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 405 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 462 Score = 39.3 bits (90), Expect = 2.4, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 160 ATADPVKDYLKQIGKVALLNAEQEVDLALRIEAG 193 >gi|237785650|ref|YP_002906355.1| RNA polymerase sigma factor [Corynebacterium kroppenstedtii DSM 44385] gi|237758562|gb|ACR17812.1| RNA polymerase sigma factor A [Corynebacterium kroppenstedtii DSM 44385] Length = 621 Score = 276 bits (707), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 135/262 (51%), Positives = 187/262 (71%), Gaps = 4/262 (1%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T +S ++ R + S+ G AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+ Sbjct: 364 TKLSPAQSRDLRSIAHDGRK----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNL 419 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL++A EKFD+ GYKFSTYA WW++QAITRS+ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 420 GLIRAVEKFDYTKGYKFSTYATWWIRQAITRSMADQARTIRIPVHMVEVINKLGRIQREL 479 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + REPTPEE+A+++ + + V ++ + +EPISL+ IGDE S LGDFIED AV Sbjct: 480 LQDLSREPTPEELAREMDITEDKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVV 539 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +D+ L++ VL +LT RE V+R+RFG+ TL+E+G+ + VTRERIRQI Sbjct: 540 AVDAVSFTLLQDQLQDVLKTLTEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQI 599 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E+K + KL+HPSRS+ LR +LD Sbjct: 600 ESKTMSKLRHPSRSQVLRDYLD 621 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++A+RIEAG Sbjct: 302 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAQRIEAG 349 >gi|87307035|ref|ZP_01089181.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645] gi|87290408|gb|EAQ82296.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645] Length = 519 Score = 276 bits (706), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 158/391 (40%), Positives = 230/391 (58%), Gaps = 37/391 (9%) Query: 291 YRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIM 350 YR+ R + + + ++ V+ + + VKLV L L RI+ + L D SKRI Sbjct: 166 YRDYRIATSKSRSESQRAEAWVRLGRRRRRSVKLVEELGLRTQRIESKIGTLEDFSKRID 225 Query: 351 HNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIR 410 + + ++ G H+ D W++ E++N + ++ +R Sbjct: 226 ELKVRIDEHKKAKG---------HESERAD--WIA--------EYRNILVATQETPTSLR 266 Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 + + V SE++ AK+E+ E NLRLV+S+AKKY NRGL F Sbjct: 267 RRVNQLKV----IYSEYQQ--------------AKRELSEGNLRLVVSIAKKYRNRGLSF 308 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGN GLM+A +KF++ G+KF TYA WW++QAITR++ADQS TIRIPVHM + + Sbjct: 309 LDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWWIRQAITRAVADQSRTIRIPVHMVETMS 368 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 +V AR++ + REPT EE A++ VE R+VL +++ PISL+ P+G+ + S GD Sbjct: 369 RVRNVARQLLQEKGREPTLEETARRAGTTVEEARRVLAMSRYPISLDRPVGNSEDSQFGD 428 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + D A SP A Q LR +RVL +L+ RE ++++R+G+G +TLEEVG F Sbjct: 429 LLPDGEAESPAIGAAQEMLRTRISRVLKTLSYREREIIKLRYGLGDGYSYTLEEVGHIFK 488 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VTRERIRQIEAKA+RKL+ PSRS++L FLD Sbjct: 489 VTRERIRQIEAKAVRKLQQPSRSQELVGFLD 519 Score = 51.6 bits (122), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 28/67 (41%), Positives = 37/67 (55%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIW 170 D + +DDPVRMYL +MG I LL+R+ EI +A++IE RA L E Q I Sbjct: 60 DDGETWSDDPVRMYLTQMGEIPLLTRQEEIFLARKIELTRAKFRGMLLECDYVIQDAIKV 119 Query: 171 RDELNDG 177 + DG Sbjct: 120 LRRVQDG 126 >gi|227503480|ref|ZP_03933529.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC 49725] gi|227075983|gb|EEI13946.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC 49725] Length = 493 Score = 276 bits (706), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 186/260 (71%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + S+ R G AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL Sbjct: 238 LSPMEKRDLRSIARDGRK----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 293 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 294 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQ 353 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTP+E+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV + Sbjct: 354 DLGREPTPQELAKEMDITEEKVMEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAV 413 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+ Sbjct: 414 DAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIES 473 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HPSRS+ LR +LD Sbjct: 474 KTMSKLRHPSRSQVLRDYLD 493 Score = 46.2 bits (108), Expect = 0.021, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 33/48 (68%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 168 SVALRQARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 215 >gi|256375646|ref|YP_003099306.1| RNA polymerase sigma factor [Actinosynnema mirum DSM 43827] gi|255919949|gb|ACU35460.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 435 Score = 276 bits (706), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 136/254 (53%), Positives = 185/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 186 RDLRWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 241 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 242 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 301 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 302 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 361 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ VLA+L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 362 LLQDQLQSVLATLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 421 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 422 RHPSRSQVLRDYLD 435 Score = 44.7 bits (104), Expect = 0.051, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 116 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 163 >gi|22298160|ref|NP_681407.1| RNA polymerase sigma factor RpoD [Thermosynechococcus elongatus BP-1] gi|22294339|dbj|BAC08169.1| principal RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 418 Score = 276 bits (706), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 138/262 (52%), Positives = 192/262 (73%), Gaps = 8/262 (3%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E G+++ FRH + + RK AK++MV++NLRLV+S+AKKY NRGL F DLIQEG+ Sbjct: 164 ELGMTVPAFRHRLFVGRK-------AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGS 216 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + Sbjct: 217 LGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKL 276 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + Sbjct: 277 LSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGE 335 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D + LRE VL +L+PRE VL++R+G+ TLEE+G+ F VTRERIRQ Sbjct: 336 TPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 395 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 IEAKA+RKL+HP+R+ L+ ++ Sbjct: 396 IEAKALRKLRHPNRNSVLKEYI 417 Score = 42.4 bits (98), Expect = 0.27, Method: Compositional matrix adjust. Identities = 28/88 (31%), Positives = 52/88 (59%) Query: 59 SSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTD 118 ++ +ED VA+LS+ G++ V+ ++ E E+ E S DL + ++ + T+ Sbjct: 43 ATAPLEDEVALLSDYGLDAVEIEEEESEDFEEVSDDLDGKPTKGRASRRRTQVKKKHYTE 102 Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRI 146 D +R+YL+E+G I LL + EI +A++I Sbjct: 103 DSIRLYLQEIGRIRLLRADEEIELARKI 130 >gi|309791233|ref|ZP_07685765.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308226795|gb|EFO80491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 391 Score = 276 bits (706), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 128/243 (52%), Positives = 177/243 (72%), Gaps = 3/243 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE+ ++ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFST Sbjct: 152 CES---RQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFST 208 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IADQS TIR+PVHM + I +V RT+ ++ ++REPTPEEIA+ + + Sbjct: 209 YATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQSMQREPTPEEIAEAMGI 268 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VR+ L+ + P+SLE P+G E +GDFIED +P ++A A LRE VL Sbjct: 269 SAGKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPSEAAAAAMLREQIEEVLQ 328 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR Sbjct: 329 KLPERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRKLRHPHLGKKLRG 388 Query: 679 FLD 681 +LD Sbjct: 389 YLD 391 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 36/118 (30%), Positives = 63/118 (53%), Gaps = 11/118 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 ++++++AR RGY+T ++ P E+ +++ A + G+ VV E Sbjct: 17 ERLLEIARARGYLTYNDILEAFPQPELHVAEVDQLYATMQAEGLKVV-----------ES 65 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + +L + L + D D + DDPVRMYL+E+G + LL+ E E+ +AK +EAG Sbjct: 66 AAELEAPHPADEDTLTELPDLTDIAFDDPVRMYLQEIGQVPLLTAEKEVELAKSMEAG 123 >gi|227875511|ref|ZP_03993651.1| RNA polymerase sigma factor SigA [Mobiluncus mulieris ATCC 35243] gi|269977243|ref|ZP_06184216.1| RNA polymerase principal sigma factor HrdB [Mobiluncus mulieris 28-1] gi|306818820|ref|ZP_07452542.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus mulieris ATCC 35239] gi|227843847|gb|EEJ54016.1| RNA polymerase sigma factor SigA [Mobiluncus mulieris ATCC 35243] gi|269934546|gb|EEZ91107.1| RNA polymerase principal sigma factor HrdB [Mobiluncus mulieris 28-1] gi|304648506|gb|EFM45809.1| DNA-directed RNA polymerase sigma subunit RpoD [Mobiluncus mulieris ATCC 35239] Length = 614 Score = 276 bits (706), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 377 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 436 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L M E V Sbjct: 437 IRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTPEKV 496 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E RVL +L+ R Sbjct: 497 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFVMLQEQLQRVLDTLSER 556 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+++G ++ VTRERIRQIE+K + KL+HP+RS+ LR +L+ Sbjct: 557 EAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMSKLRHPARSQSLRDYLN 614 Score = 44.3 bits (103), Expect = 0.078, Method: Compositional matrix adjust. Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 9/77 (11%) Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIE 132 D+ED+ S ++ F+ KD D +T DPV+ YL+++G + Sbjct: 269 DIEDDTADYSGDSKHKKGSKTAEFVISEKDETDEPAQKVTVAGATSDPVKDYLKQIGKVA 328 Query: 133 LLSREGEIAIAKRIEAG 149 LL+ E E+ +AKRIEAG Sbjct: 329 LLNAEQEVNLAKRIEAG 345 >gi|300741779|ref|ZP_07071800.1| RNA polymerase sigma (70) factor RpoD [Rothia dentocariosa M567] gi|300380964|gb|EFJ77526.1| RNA polymerase sigma (70) factor RpoD [Rothia dentocariosa M567] Length = 468 Score = 276 bits (706), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 231 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 290 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 291 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMAPEKV 350 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 351 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 410 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 411 EAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 468 Score = 38.5 bits (88), Expect = 4.0, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+ +A RIEAG Sbjct: 167 ATADPVKDYLKQIGKVSLLNAQQEVDLAMRIEAG 200 >gi|306836272|ref|ZP_07469254.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC 49726] gi|304567864|gb|EFM43447.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC 49726] Length = 492 Score = 276 bits (706), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 186/260 (71%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + S+ R G AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL Sbjct: 237 LSPMEKRDLRSIARDGRK----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 292 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 293 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQ 352 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTP+E+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV + Sbjct: 353 DLGREPTPQELAKEMDITEEKVMEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAV 412 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+ Sbjct: 413 DAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIES 472 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HPSRS+ LR +LD Sbjct: 473 KTMSKLRHPSRSQVLRDYLD 492 Score = 46.2 bits (108), Expect = 0.021, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 33/48 (68%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 167 SVALRQARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 214 >gi|296393381|ref|YP_003658265.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus rotundus DSM 44985] gi|296180528|gb|ADG97434.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus rotundus DSM 44985] Length = 441 Score = 276 bits (706), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 204 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 263 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+ +++ +P E V Sbjct: 264 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELGREMDIPPEKV 323 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 324 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQAVLETLSER 383 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 384 EAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 441 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 23/58 (39%), Positives = 34/58 (58%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S Q RK++ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 112 SGDFVWDEDESEALRQARKNAELTASADSVRAYLKQIGKVALLNAEQEVELAKRIEAG 169 >gi|312195044|ref|YP_004015105.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311226380|gb|ADP79235.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 424 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 128/249 (51%), Positives = 183/249 (73%), Gaps = 4/249 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR GE AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EKFD+ Sbjct: 180 LVRDGEA----AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAK 235 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REPT EE+ Sbjct: 236 GYKFSTYATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEEL 295 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L MP+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A +++ Sbjct: 296 ALELDMPLEQVVELRRYAQDTVSLETTVGDDGDSVLGDFIEDSDATSPADAASYGAMQDE 355 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL +L+PRE V+R+RFG+ HTL EVG + +TRERIRQIE +R+L+ P+ Sbjct: 356 IDHVLGNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAV 415 Query: 673 SKKLRSFLD 681 + +LR FLD Sbjct: 416 AGRLREFLD 424 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 41/117 (35%), Positives = 59/117 (50%), Gaps = 14/117 (11%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I R G V+ EL L +V E + VA L G+ VV E+E+G+E Sbjct: 54 ELIARGRDSGEVSRSELREALESADVGVELLPALVARLVAAGVEVV-----EEEDGAE-- 106 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 SA+ S R + T D VRMYLRE+G + LL+ E+ ++KR+EAG Sbjct: 107 ----RSAAPSET---GRVTAEHAGTADLVRMYLREIGRVPLLNAAQEVELSKRVEAG 156 >gi|87311289|ref|ZP_01093411.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87286029|gb|EAQ77941.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 567 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 133/274 (48%), Positives = 193/274 (70%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R E++ + + T S R R+ E K+E+ NLRLV+S+AKKY NRGL Sbjct: 290 LRQELRDLMILTLESPRGLRQRCERYRRQFDEYEKVKRELSSGNLRLVVSIAKKYRNRGL 349 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN GLM+A +K+++ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM D Sbjct: 350 SFLDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDV 409 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 + K+ +R+ +++REPT +EIA++ + +E VR+V+ I ++P+SL+ PIG+ + S Sbjct: 410 LSKLRNVQKRLLQELRREPTMDEIARRAEIDLEEVRRVMDIGRQPVSLDRPIGESEDSSF 469 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 G+FIED + +P+ SA LR+ +L +LT RE ++++R+G+G +TLEEVG+ Sbjct: 470 GEFIEDSHEETPIRSASNQILRDRIQGLLKTLTYREREIIKLRYGLGDGYTYTLEEVGRI 529 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 F VTRER+RQIEAKA+RKL+HP RS++L FL G Sbjct: 530 FKVTRERVRQIEAKAVRKLQHPVRSQQLEGFLAG 563 Score = 66.6 bits (161), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 43/148 (29%), Positives = 74/148 (50%), Gaps = 23/148 (15%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 + D +++ + +GY+T +E+N +LP + S E+++ + L GI +V Sbjct: 12 ELCDQDLIALMERGKTQGYLTYDEVNNYLPDEASSPEKLDKLLTELEQKGIELVTS---- 67 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSAD--------------RSTDDPVRMYLREMGS 130 ED D A ++ S Q+ +++ D ++ DDP+RMYL +M S Sbjct: 68 ---APEDDFDDAPTSRAPSA--QEFREAIDDEEGTDTFVPEEISKANDDPIRMYLSQMAS 122 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLC 158 I LL+R+ EIA+AK+IE R S+ Sbjct: 123 IPLLTRDQEIALAKKIEITRKQFRRSVL 150 >gi|307700837|ref|ZP_07637862.1| RNA polymerase sigma factor RpoD [Mobiluncus mulieris FB024-16] gi|307613832|gb|EFN93076.1| RNA polymerase sigma factor RpoD [Mobiluncus mulieris FB024-16] Length = 614 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 377 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 436 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVHM + I+K+ R R+M + REPTP+E+A++L M E V Sbjct: 437 IRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTPEKV 496 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E RVL +L+ R Sbjct: 497 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFVMLQEQLQRVLDTLSER 556 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+++G ++ VTRERIRQIE+K + KL+HP+RS+ LR +L+ Sbjct: 557 EAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMSKLRHPARSQSLRDYLN 614 Score = 44.3 bits (103), Expect = 0.072, Method: Compositional matrix adjust. Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 9/77 (11%) Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIE 132 D+ED+ S ++ F+ KD D +T DPV+ YL+++G + Sbjct: 269 DIEDDTADYSGDSKHKKGSKTAEFVISEKDETDEPAQKVTVAGATSDPVKDYLKQIGKVA 328 Query: 133 LLSREGEIAIAKRIEAG 149 LL+ E E+ +AKRIEAG Sbjct: 329 LLNAEQEVNLAKRIEAG 345 >gi|311111671|ref|YP_003982893.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa ATCC 17931] gi|310943165|gb|ADP39459.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa ATCC 17931] Length = 468 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 231 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 290 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 291 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMAPEKV 350 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 351 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 410 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 411 EAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 468 Score = 38.5 bits (88), Expect = 4.2, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+ +A RIEAG Sbjct: 167 ATADPVKDYLKQIGKVSLLNAQQEVDLAMRIEAG 200 >gi|160941150|ref|ZP_02088487.1| hypothetical protein CLOBOL_06043 [Clostridium bolteae ATCC BAA-613] gi|158435711|gb|EDP13478.1| hypothetical protein CLOBOL_06043 [Clostridium bolteae ATCC BAA-613] Length = 406 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 142/277 (51%), Positives = 193/277 (69%), Gaps = 6/277 (2%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D I + EI SI++ T S+ RK E + +K +VEANLRLV+S+AK+Y Sbjct: 135 DPIREYLKEIGSIALLTPEEESDLAR-----RKSEGDVEAGRK-LVEANLRLVVSIAKRY 188 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 T RG+ FLDL+QEGN+GLMKA EKFD+ GY+ STYA WWVKQ+ITRS+ADQS TIR+PV Sbjct: 189 TGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWWVKQSITRSLADQSRTIRLPV 248 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + ++K+ R R +S K+ REP+ EE+A+++ M + V ++++ + + +SLETP+GDE Sbjct: 249 HMVEAVNKIRRAQRSLSVKLGREPSMEEVAEEVNMSGKRVAELIQASGDTVSLETPVGDE 308 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S+LGDF+ D S D A LRE +L L PRE V+ +RFG+ TLE Sbjct: 309 EGSNLGDFVADDANASTEDKAESFLLREEIDSMLQGLNPREREVIILRFGLETGHPLTLE 368 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EVGK+F VTRERIRQIE A+RKL++PS+SKK+R FL Sbjct: 369 EVGKRFNVTRERIRQIETAALRKLRNPSKSKKIRDFL 405 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 33/47 (70%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKR-----IEAGRAMMMASL 157 ST DP+R YL+E+GSI LL+ E E +A+R +EAGR ++ A+L Sbjct: 132 STADPIREYLKEIGSIALLTPEEESDLARRKSEGDVEAGRKLVEANL 178 >gi|255327076|ref|ZP_05368152.1| RNA polymerase sigma factor SigA [Rothia mucilaginosa ATCC 25296] gi|255296293|gb|EET75634.1| RNA polymerase sigma factor SigA [Rothia mucilaginosa ATCC 25296] Length = 457 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 220 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 279 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 280 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMTPEKV 339 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 340 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 399 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 400 EAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 457 Score = 38.5 bits (88), Expect = 4.1, Method: Compositional matrix adjust. Identities = 16/34 (47%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+ +A RIEAG Sbjct: 156 ATADPVKDYLKQIGKVSLLNAQQEVDLAMRIEAG 189 >gi|325962990|ref|YP_004240896.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Arthrobacter phenanthrenivorans Sphe3] gi|323469077|gb|ADX72762.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Arthrobacter phenanthrenivorans Sphe3] Length = 437 Score = 276 bits (705), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 200 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 259 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 260 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDMTPEKV 319 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 320 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 379 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 380 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 437 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 25/80 (31%), Positives = 43/80 (53%), Gaps = 7/80 (8%) Query: 77 VVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD-------RSTDDPVRMYLREMG 129 +++G D +E+ D + A+ + V+ D A +T DPV+ YL+++G Sbjct: 89 ILEGPDAVEEDAEADPVKGAAGSGKGFVYSDADDDDAPVQQVMSAGATADPVKDYLKQIG 148 Query: 130 SIELLSREGEIAIAKRIEAG 149 + LL+ E E+ +A RIEAG Sbjct: 149 KVALLNAEQEVDLALRIEAG 168 >gi|116670178|ref|YP_831111.1| RNA polymerase, sigma 28 subunit [Arthrobacter sp. FB24] gi|116610287|gb|ABK03011.1| RNA polymerase, sigma 70 subunit, RpoD [Arthrobacter sp. FB24] Length = 441 Score = 275 bits (704), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 204 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 263 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 264 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDMTPEKV 323 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 324 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 383 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 384 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 441 Score = 39.3 bits (90), Expect = 2.5, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 139 ATADPVKDYLKQIGKVALLNAEQEVDLALRIEAG 172 >gi|148654372|ref|YP_001274577.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148566482|gb|ABQ88627.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 402 Score = 275 bits (704), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 126/238 (52%), Positives = 174/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 165 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 224 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V RT+ ++ ++REPTPEEIA + + V Sbjct: 225 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREPTPEEIADAMGISSTKV 284 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P ++A + LRE VL L R Sbjct: 285 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPAEAAAASMLREQLEEVLQKLPER 344 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR +LD Sbjct: 345 ERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 402 Score = 64.3 bits (155), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 47/168 (27%), Positives = 79/168 (47%), Gaps = 16/168 (9%) Query: 23 VFDFSDDSWKK----MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 + + + +W + ++++ R RG++T E+ LP E ++ A L GI VV Sbjct: 14 IVEQTQQAWAQTLEYLLEIGRTRGFLTYNEILEALPQPEHHIADVDQLYASLQAEGIRVV 73 Query: 79 DGDDLEDEEGSEDSLDLASSASNSS-VFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 E LD+ + S L D D + DDPVRMYL+E+G + LLS E Sbjct: 74 -----------ETPLDIHDNGSTGDDELLADMPDLTDVALDDPVRMYLQEIGQVPLLSAE 122 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E+ +AK +EAG A E ++Q +++ ++ G + +I Sbjct: 123 QEVMLAKAMEAGHRARRALEREEYSSWQERVMYEQQVAQGNEARQHLI 170 >gi|225619915|ref|YP_002721172.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] gi|225214734|gb|ACN83468.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] Length = 587 Score = 275 bits (704), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 160/371 (43%), Positives = 224/371 (60%), Gaps = 10/371 (2%) Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQG 376 +K+ +VKL+ + LN+ ID + E+L RI E +L + Y + F ++ Sbjct: 222 VKDSIVKLLSKVRLNRMEIDRIAEKLKFYLHRINQIEEYFEKLKKRYYKEISDFENYYKE 281 Query: 377 RELDPH--WVSYAKDF---PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIV 431 E ++ +F PE + + S K + + I E I V Sbjct: 282 IESGNKDIYIRLVDEFNITPEA-----IEAVITSFHKAQVRMADIYDEVRIDKETLVEWV 336 Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + + + AK +V+ANLRLVI++AKKY NRGL F DL+QEGNIGL+KA +KF++ Sbjct: 337 RKIDSSRRKIAQAKDHIVKANLRLVIAIAKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYK 396 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+KV R R+ + REP+ +E Sbjct: 397 KGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVQRVLRQYMQQHGREPSIQE 456 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 IAK L+ P V+ V + K+P+SL PIGDE+ + LG+ IEDK SP + LR+ Sbjct: 457 IAKALSWPESRVKSVRNVAKDPVSLNAPIGDEEDTILGELIEDKEFESPQNITTFKILRK 516 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L SL RE++V+RMRFG+ HTLEEVG F VTRERIRQIEAKAIR+L+ S Sbjct: 517 QIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAIRRLRAQS 576 Query: 672 RSKKLRSFLDG 682 + K+L+ FLD Sbjct: 577 KKKELKDFLDS 587 Score = 46.6 bits (109), Expect = 0.016, Method: Compositional matrix adjust. Identities = 34/161 (21%), Positives = 81/161 (50%), Gaps = 11/161 (6%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-DGDDLED 85 +++ +K+++ Y+T +E+N + D + ++ M+ +L+ I +V D + E Sbjct: 13 NNEKIRKLLEKGNTNKYLTFKEINGAI--DNMDTDVMDILFQLLAARKIVIVEDKREFES 70 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 +++ +D A+ F+ + DDP+R+YL+E+G + LL+ + E+ +K+ Sbjct: 71 LSKNQNKIDDAAK------FIHVEDKVGN--NDDPIRLYLKEIGKVSLLTHDDEVDYSKK 122 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 IE+G + + + + L ++ + G + EI++ Sbjct: 123 IESGESEIENIILNTHLVVGEVLNTIKNVQIGKVSIHEILE 163 >gi|317506483|ref|ZP_07964284.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC BAA-974] gi|316255244|gb|EFV14513.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC BAA-974] Length = 452 Score = 275 bits (704), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 215 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+ +++ +P E V Sbjct: 275 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELGREMDIPPEKV 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 335 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQAVLETLSER 394 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 395 EAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 452 Score = 43.9 bits (102), Expect = 0.083, Method: Compositional matrix adjust. Identities = 24/66 (36%), Positives = 38/66 (57%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 ++EE + D S Q RK++ ++ D VR YL+++G + LL+ E E+ +A Sbjct: 115 DEEEPERTAGDFVWDEDESEALRQARKNAELTASADSVRAYLKQIGKVALLNAEQEVELA 174 Query: 144 KRIEAG 149 KRIEAG Sbjct: 175 KRIEAG 180 >gi|283457795|ref|YP_003362387.1| DNA-directed RNA polymerase, sigma subunit [Rothia mucilaginosa DY-18] gi|283133802|dbj|BAI64567.1| DNA-directed RNA polymerase, sigma subunit [Rothia mucilaginosa DY-18] Length = 460 Score = 275 bits (704), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 223 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 282 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+ K+L M E V Sbjct: 283 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELGKELDMTPEKV 342 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 343 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 402 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 403 EAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 460 Score = 40.8 bits (94), Expect = 0.80, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+ +AKRIEAG Sbjct: 159 ATADPVKDYLKQIGKVSLLNAQQEVDLAKRIEAG 192 >gi|225388546|ref|ZP_03758270.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme DSM 15981] gi|225045391|gb|EEG55637.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme DSM 15981] Length = 381 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 129/246 (52%), Positives = 184/246 (74%), Gaps = 1/246 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK E + + AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GY Sbjct: 137 RKAEGDEA-AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGY 195 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 K STYA WW++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A+ Sbjct: 196 KLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAE 255 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L M + V ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE Sbjct: 256 ALDMTEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHID 315 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +L L RE +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK Sbjct: 316 ALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375 Query: 675 KLRSFL 680 ++R FL Sbjct: 376 RIRDFL 381 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 44/151 (29%), Positives = 70/151 (46%), Gaps = 16/151 (10%) Query: 28 DDSWKKMIKLAR----QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD- 82 DD KK+ KL + + E+N F D +S EQM+ + L N I+VV D Sbjct: 4 DDFLKKLEKLVELAKGKHNTLDAGEINDFFAGDSLSPEQMDHIYSYLENRNIDVVPELDE 63 Query: 83 -LEDEEGSEDSLDLASSASNSSVFLQKRK------DSADR----STDDPVRMYLREMGSI 131 + EE + + F++ + D+ D T+DPVRMYL+E+G++ Sbjct: 64 KMLSEESALLDDLDLDLDLDDDSFMKDTEEEEIDLDAVDLLEGIGTEDPVRMYLKEIGTV 123 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 LL+ + E+ +A+R G L E+ L Sbjct: 124 PLLTADEELQLAQRKAEGDEAAKERLIEANL 154 >gi|302525743|ref|ZP_07278085.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] gi|302434638|gb|EFL06454.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] Length = 476 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 135/254 (53%), Positives = 184/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 227 RDLKWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 282 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 283 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 342 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 343 TPEELAKEMDISPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 402 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 403 LLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 462 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 463 RHPSRSQVLRDYLD 476 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 25/61 (40%), Positives = 36/61 (59%) Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 S D+ D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEA Sbjct: 144 SSDNPDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEA 203 Query: 149 G 149 G Sbjct: 204 G 204 >gi|170782020|ref|YP_001710352.1| putative RNA polymerase sigma factor [Clavibacter michiganensis subsp. sepedonicus] gi|169156588|emb|CAQ01739.1| putative RNA polymerase sigma factor [Clavibacter michiganensis subsp. sepedonicus] Length = 355 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 118 AKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 177 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE++++L M E V Sbjct: 178 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELSRELDMTPEKV 237 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L++ +L SL+ R Sbjct: 238 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQLESLLDSLSER 297 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMRFG+G TL+++G F VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 298 EAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSRSQSLRDYLE 355 >gi|220912379|ref|YP_002487688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arthrobacter chlorophenolicus A6] gi|219859257|gb|ACL39599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arthrobacter chlorophenolicus A6] Length = 433 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 196 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 255 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 256 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELALELDMTPEKV 315 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 316 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSER 375 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 376 EAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 433 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +A RIEAG Sbjct: 131 ATADPVKDYLKQIGKVALLNAEQEVDLALRIEAG 164 >gi|325283594|ref|YP_004256135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus proteolyticus MRP] gi|324315403|gb|ADY26518.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus proteolyticus MRP] Length = 487 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 138/245 (56%), Positives = 182/245 (74%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTY Sbjct: 243 DGAAARQGLIEANLRLVVSIAKKYTGRGLNFLDLIQEGNQGLIRAVEKFEYRRRYKFSTY 302 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ RE PEEIA+ + Sbjct: 303 ATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREALPEEIAEAMGPG 362 Query: 560 VEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V +V K+++EP+SLETPIGDE S GDFI D N SP+D+A + L E + L Sbjct: 363 WDANKVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDDNLDSPVDNAAKTLLSEELEKAL 422 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKL 676 LT RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA+RKLK H SR++KL Sbjct: 423 GKLTEREAMVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLKYHESRTRKL 482 Query: 677 RSFLD 681 R FL+ Sbjct: 483 RDFLE 487 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 19/33 (57%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++DPVR YL E+G + LL+ E EIA+A+RIE G Sbjct: 183 SNDPVRQYLHEIGRVPLLTLEEEIALARRIEDG 215 >gi|296139587|ref|YP_003646830.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] gi|296027721|gb|ADG78491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] Length = 483 Score = 275 bits (703), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 246 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 305 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 306 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 365 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 366 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 425 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 426 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 483 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 30/71 (42%), Positives = 41/71 (57%), Gaps = 3/71 (4%) Query: 82 DLEDEEGSED---SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 D ED+E SE S D S Q RKD+ ++ D VR YL+++G + LL+ E Sbjct: 141 DAEDDEPSEQDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEE 200 Query: 139 EIAIAKRIEAG 149 E+ +AKRIEAG Sbjct: 201 EVELAKRIEAG 211 >gi|108805110|ref|YP_645047.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108766353|gb|ABG05235.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 366 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 149/313 (47%), Positives = 211/313 (67%), Gaps = 16/313 (5%) Query: 368 DVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 +V ER GRE D P + + VA DSI EI + + T E Sbjct: 69 EVTPERAAGRE---------GDNPASQLAHAVATG-DSIRMYLAEIGRVPLLT--HADEI 116 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + +G C+ S K ++VEANLRLV+S+AKKY NRG+ FLDLIQEGNIGL++AAEK Sbjct: 117 R-LAKAISRG-CKRS--KDKLVEANLRLVVSIAKKYRNRGVSFLDLIQEGNIGLIRAAEK 172 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR+IAD+ TIRIPVHM +K++K RT RRM+ + REP Sbjct: 173 FDYRKGFKFSTYATWWIRQAITRAIADKGRTIRIPVHMVEKVNKYHRTQRRMTQALGREP 232 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++L +PVE V ++ +I++ ISLETP+GD+++S LGDF+ED +AV+P D+ ++ Sbjct: 233 TDEEVAEELGVPVEEVLRLQEISQRSISLETPVGDDESSSLGDFLEDASAVTPTDAVSES 292 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+ L L RE +++ MRFG+ + TLEEVG++F +TRER+RQI+ K + L Sbjct: 293 LLKLHLREALDELPERERQIIEMRFGMKDDRPRTLEEVGREFDITRERVRQIQMKTLNLL 352 Query: 668 KHPSRSKKLRSFL 680 + R++ LR +L Sbjct: 353 REQRRTQNLREYL 365 Score = 39.7 bits (91), Expect = 1.9, Method: Compositional matrix adjust. Identities = 46/182 (25%), Positives = 77/182 (42%), Gaps = 15/182 (8%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ R +G+++ E++ + ++S ++ E+ A L I +VD E E Sbjct: 11 DRAYELLSKGRSQGFLSAEDVADLVREGDLSPDEAEELYATLEEEDITLVDE---ELEGA 67 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +E + + A+ + Q A T D +RMYL E+G + LL+ EI +AK I Sbjct: 68 AEVTPERAAGREGDNPASQLAHAVA---TGDSIRMYLAEIGRVPLLTHADEIRLAKAISR 124 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 G L E+ L + I + N G + L I E G E Y Sbjct: 125 GCKRSKDKLVEANLRL-VVSIAKKYRNRGVSFLDLI--------QEGNIGLIRAAEKFDY 175 Query: 209 QK 210 +K Sbjct: 176 RK 177 >gi|87307232|ref|ZP_01089377.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87289972|gb|EAQ81861.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 507 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 150/365 (41%), Positives = 220/365 (60%), Gaps = 35/365 (9%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + K V+L+ L+L ++I L+ +L +IS+R+ G++ A G+ R Sbjct: 166 RAKAVRLIEELNLRTNKISALLPKLREISERMDTLLGQIDE-ATKAGVSRT--------- 215 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 G+ N + E+ ++K+ E ++ + ISEF+ Sbjct: 216 ---------------GQTVNELRTELRYLMKVTLESPTMLRRRLLRISEFQE-------- 252 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E AK+ + NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +KF++ GYKFS Sbjct: 253 --EYDAAKRLLSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKFEYQRGYKFS 310 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQS TIR+PVHM D + KV R + ++ R+PT EE+A++ Sbjct: 311 TYATWWIRQAITRAIADQSRTIRVPVHMIDTMGKVRAVTRDLLQELGRDPTAEEVAERAG 370 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + ++ R +LK+ + P+SL+ P+GD D S G+F+ED PL Q L++ VL Sbjct: 371 LSIDDARVILKMNRNPLSLDQPVGDHDDSFFGEFLEDHRDEDPLYETHQQALKDRLCEVL 430 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L RE ++R+R+G+ +TLEEVGK F VTRER+RQIE+KA+RKL+ P RS+ L Sbjct: 431 EALNHREREIIRLRYGLTDGYSYTLEEVGKIFSVTRERVRQIESKAVRKLQQPYRSRGLA 490 Query: 678 SFLDG 682 SFL+G Sbjct: 491 SFLEG 495 Score = 46.6 bits (109), Expect = 0.012, Method: Compositional matrix adjust. Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 5/122 (4%) Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 + D DD E + + D A + +F S D DDP+RMYL +MG I +LS Sbjct: 3 HAFDNDDFEQDPAARFPADAAEEQED--MF---EDPSDDSQIDDPIRMYLMQMGEIPMLS 57 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPES 195 R+ E+ A++IE R + + + + +++ DG L +++ E Sbjct: 58 RQEEVDAARQIEFWRTRFRHAFISNDFILEQSVQLLEQVRDGKLRLDRTVEVSVTNAKEK 117 Query: 196 KG 197 K Sbjct: 118 KN 119 >gi|325068636|ref|ZP_08127309.1| RNA polymerase, sigma 70 subunit, RpoD [Actinomyces oris K20] Length = 542 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 305 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 364 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 365 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKV 424 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 425 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHAVLDTLSER 484 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 485 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 542 Score = 41.6 bits (96), Expect = 0.41, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 240 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 273 >gi|226366217|ref|YP_002784000.1| RNA polymerase sigma factor [Rhodococcus opacus B4] gi|226244707|dbj|BAH55055.1| RNA polymerase sigma factor SigA [Rhodococcus opacus B4] gi|254553058|dbj|BAH85841.1| RNA polymerase sigma A factor [Rhodococcus opacus] Length = 457 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 220 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 279 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 280 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 339 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 340 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 399 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 400 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 457 Score = 45.1 bits (105), Expect = 0.045, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 34/58 (58%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 128 SGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 185 >gi|300867798|ref|ZP_07112441.1| RNA polymerase sigma factor RpoD [Oscillatoria sp. PCC 6506] gi|300334215|emb|CBN57613.1| RNA polymerase sigma factor RpoD [Oscillatoria sp. PCC 6506] Length = 391 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 137/261 (52%), Positives = 189/261 (72%), Gaps = 8/261 (3%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G+ + FRH + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++ Sbjct: 138 VGMPLPAFRHRLHLGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSL 190 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + + Sbjct: 191 GLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLL 250 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + + Sbjct: 251 SQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGET 309 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTRERIRQI Sbjct: 310 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 369 Query: 660 EAKAIRKLKHPSRSKKLRSFL 680 EAKA+RKL+HP+R+ L+ ++ Sbjct: 370 EAKALRKLRHPNRNSILKEYI 390 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 23/68 (33%), Positives = 39/68 (57%) Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 +GDD ED ++ D A S S + ++ + T+D +R+YL+E+G I LL + Sbjct: 41 EGDDREDFLDAQPEEDDAKSGSKVAKARRRAQAKKKHYTEDSIRLYLQEIGRIRLLRADE 100 Query: 139 EIAIAKRI 146 EI +A++I Sbjct: 101 EIELARKI 108 >gi|325107209|ref|YP_004268277.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] gi|324967477|gb|ADY58255.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] Length = 590 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 125/238 (52%), Positives = 181/238 (76%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+ NLRLV+S+AKKY NRG+ FLDLIQEGN GLM+A +K+++ GYKFSTYA WW Sbjct: 343 AMRELSGGNLRLVVSIAKKYRNRGMNFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 402 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + + K+ + + + ++ REPT EE+A+ + +E Sbjct: 403 IRQAITRAIADQARTIRIPVHMIETMSKLRKVGKDLVQELGREPTIEEMAEAAEVSLEEA 462 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+V+KI+++PISL+ PIG+ + S+ GDFIED + SP+ +A Q L++ VL +LT R Sbjct: 463 RRVMKISRQPISLDRPIGEGEDSYFGDFIEDHSTDSPVSTATQEMLKDKIDHVLKTLTYR 522 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++++R+G+G +TLEEVG+ F VTRER+RQIEAKA+RKL+HP RS +L+ F++ Sbjct: 523 EREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSHQLKGFIE 580 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/191 (28%), Positives = 96/191 (50%), Gaps = 22/191 (11%) Query: 24 FDFS--------DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGI 75 F+FS DD+ +++IK +++G++T ++N +LP ++V+ E+++ + L +G+ Sbjct: 20 FEFSRSIFVHQLDDNLQQLIKQGQKQGFLTFSQVNEYLPDEDVNPEKLDTLLLSLEELGM 79 Query: 76 NVVDGDDLE------DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMG 129 +V + D E ++ S + + L + D R DDPVR+YL +MG Sbjct: 80 EIVSEKHVSKKKVQLDAEAAQRKKKKPSKSEKRNGELAEDDDEGSRRIDDPVRIYLTQMG 139 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI-----IWRDELNDGTTL---L 181 I LL+R+ EI +AK+IE R L + ++ I + R EL T+ L Sbjct: 140 EIPLLTRDEEITLAKKIEVTRKRFRRQLLSNDCAMRSAIETLAKVHRGELPFDRTIKVSL 199 Query: 182 REIIDLEACIG 192 E ++ E IG Sbjct: 200 TESVEKEQVIG 210 >gi|313892356|ref|ZP_07825948.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|313119215|gb|EFR42415.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] Length = 393 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 143/298 (47%), Positives = 193/298 (64%), Gaps = 9/298 (3%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE- 438 D W KD+ + E ++ + + +R ++ +S E + + KG+ Sbjct: 87 DKDWEKQEKDWTKVENNDYAVTQGNVSDPVRLYLRECGATPLLSAEEEMTLAKQIEKGKM 146 Query: 439 --------CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 A AKKEM ANLRLV+S+AKKY RG+ FLDLIQEGNIGL+KA +KFD+ Sbjct: 147 LDATEEDKLRAEDAKKEMANANLRLVVSIAKKYPGRGMPFLDLIQEGNIGLLKAVDKFDY 206 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+K+ R R+ + RE + E Sbjct: 207 KKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKMNRIGRKFLQEFGREASNE 266 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK++ + VE +R+ K ++PISLETPIG+++ SHLGDFIED+ SP + A R Sbjct: 267 ELAKEMGISVEKIREAKKAAQDPISLETPIGEKEDSHLGDFIEDQKTSSPEEEAAATMRR 326 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++L LT RE+ VL +RFG+ T TLEEVGK F VTRERIRQIE KA++KL+ Sbjct: 327 EQIYKLLNELTEREKGVLALRFGMDDGTPRTLEEVGKYFGVTRERIRQIEGKALKKLR 384 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 19/34 (55%), Positives = 26/34 (76%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 DPVR+YLRE G+ LLS E E+ +AK+IE G+ + Sbjct: 114 DPVRLYLRECGATPLLSAEEEMTLAKQIEKGKML 147 >gi|257056422|ref|YP_003134254.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis DSM 43017] gi|256586294|gb|ACU97427.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis DSM 43017] Length = 439 Score = 275 bits (702), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 184/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 190 RDLKWIVRDGER----AKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 245 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 246 FDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 305 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 306 TPEELAKEMDISPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 365 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 366 LLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 425 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 426 RHPSRSQVLRDYLD 439 Score = 49.3 bits (116), Expect = 0.002, Method: Compositional matrix adjust. Identities = 28/74 (37%), Positives = 40/74 (54%) Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 V + D DEE + D S Q RKD+ ++ D VR YL+++G + LL+ Sbjct: 94 TVTEDTDESDEESDANDPDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLN 153 Query: 136 REGEIAIAKRIEAG 149 E E+ +AKRIEAG Sbjct: 154 AEEEVELAKRIEAG 167 >gi|320531403|ref|ZP_08032370.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 171 str. F0337] gi|320136375|gb|EFW28356.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 171 str. F0337] Length = 537 Score = 275 bits (702), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 300 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 359 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 360 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKV 419 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 420 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHAVLDTLSER 479 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 480 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 537 Score = 42.0 bits (97), Expect = 0.39, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 235 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 268 >gi|117928637|ref|YP_873188.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117649100|gb|ABK53202.1| RNA polymerase, sigma 70 subunit, RpoD [Acidothermus cellulolyticus 11B] Length = 495 Score = 275 bits (702), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 131/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 258 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 317 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + R+PTPEE+A +L M E V Sbjct: 318 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRDPTPEELAVELDMTPEKV 377 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 378 MEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPSDAVSFTLLQEQLHSVLETLSER 437 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 438 EAGVVSMRFGLTDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 495 Score = 42.0 bits (97), Expect = 0.37, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 194 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 227 >gi|300784507|ref|YP_003764798.1| RNA polymerase primary sigma factor [Amycolatopsis mediterranei U32] gi|299794021|gb|ADJ44396.1| RNA polymerase primary sigma factor [Amycolatopsis mediterranei U32] Length = 467 Score = 275 bits (702), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 135/254 (53%), Positives = 184/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 218 RDLKWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 273 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 274 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 333 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 334 TPEELAKEMDISPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 393 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 394 LLQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 453 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 454 RHPSRSQVLRDYLD 467 Score = 45.8 bits (107), Expect = 0.022, Method: Compositional matrix adjust. Identities = 24/59 (40%), Positives = 35/59 (59%) Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D+ D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 137 DNPDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 195 >gi|283795510|ref|ZP_06344663.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] gi|291077175|gb|EFE14539.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1] Length = 377 Score = 275 bits (702), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 129/246 (52%), Positives = 183/246 (74%), Gaps = 1/246 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK E + S AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GY Sbjct: 133 RKAEGDVS-AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGY 191 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 K STYA WW++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E++ Sbjct: 192 KLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSA 251 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L M + V ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE Sbjct: 252 ALDMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADGNVVTPEGNVESVMLREHID 311 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +L L RE +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK Sbjct: 312 ALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 371 Query: 675 KLRSFL 680 ++R FL Sbjct: 372 RIRDFL 377 Score = 52.8 bits (125), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 44/142 (30%), Positives = 74/142 (52%), Gaps = 15/142 (10%) Query: 32 KKMIKLAR-QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 +K++ LA+ ++ + I E+N F D +S+EQME + L I+V+ ++ DE + Sbjct: 13 RKLVDLAKTKQNALDIAEINDFFAADNLSTEQMEQIYSYLEQNNIDVIP--EVIDE--TS 68 Query: 91 DSLDLASSASNSSVFLQKRK------DSADR----STDDPVRMYLREMGSIELLSREGEI 140 + +L F++ + D+ D T+DPVRMYL+E+G++ LLS E E+ Sbjct: 69 LNDELLLLDDVDDDFMKNGEEEDIDLDAIDLLEGIGTEDPVRMYLKEIGTVPLLSAEEEL 128 Query: 141 AIAKRIEAGRAMMMASLCESPL 162 +AKR G L E+ L Sbjct: 129 RLAKRKAEGDVSAKERLIEANL 150 >gi|329946883|ref|ZP_08294295.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 170 str. F0386] gi|328526694|gb|EGF53707.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 170 str. F0386] Length = 543 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 306 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 365 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 366 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKV 425 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 426 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHAVLDTLSER 485 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 486 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 543 Score = 41.6 bits (96), Expect = 0.43, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 241 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 274 >gi|168704760|ref|ZP_02737037.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM 2246] Length = 556 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 128/258 (49%), Positives = 188/258 (72%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + R V ++++ E AK+++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A Sbjct: 293 ASLRRRVGIMKQRFAEYEQAKRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRA 352 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +K++ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + + K+ ++++ ++ Sbjct: 353 VDKYEHRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVSKQLLQELG 412 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REPT +E A + E ++VLKI+++PISL+ P+G+ + S+ GDFIED + SP+++A Sbjct: 413 REPTVQETADAAKISYEECKRVLKISRQPISLDRPVGESEDSYFGDFIEDNSVESPVNAA 472 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L++ VL +LT RE ++++R+G+G +TLEEVG+ F VTRER+RQIEAKA+ Sbjct: 473 TNEMLKDKIEGVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAV 532 Query: 665 RKLKHPSRSKKLRSFLDG 682 RKL+HP RS++L FLDG Sbjct: 533 RKLQHPVRSRQLEGFLDG 550 Score = 63.2 bits (152), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 46/145 (31%), Positives = 79/145 (54%), Gaps = 5/145 (3%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPP--DEVS-SEQMEDTVAMLSNMGINVVDGDDL 83 +D+ K +++ +Q G +T +E+N LP D V S+++E + +L GI+V+D DD Sbjct: 5 NDEVLKALVERGKQVGSLTYDEVNTALPEGRDGVPESDRLEHVLEILDANGISVIDEDDG 64 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E + + D A + + + + D R DDPVRMYL +MG IELL+R+ E+++A Sbjct: 65 EAVADAPVAADAAVADPEAPSY--EDSDGDGRHIDDPVRMYLTQMGQIELLNRKQEVSLA 122 Query: 144 KRIEAGRAMMMASLCESPLTFQALI 168 +IE R + E + ++ Sbjct: 123 MKIELTRRRFRRKVLECDYAMRQVV 147 >gi|309389374|gb|ADO77254.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium praevalens DSM 2228] Length = 310 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 133/253 (52%), Positives = 189/253 (74%), Gaps = 2/253 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ E A++++ EANLRLV+S+AKKY +G+ FLDLIQEGN GLMKA EKFD+ Sbjct: 57 VELAKRIEQGDQRAREQLTEANLRLVVSIAKKYIGQGMSFLDLIQEGNKGLMKAVEKFDY 116 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++Q+ITR++ADQ+ TIRIPVHM + ++K+ R +R+ ++REPT E Sbjct: 117 TKGYKFSTYATWWIRQSITRALADQARTIRIPVHMVETMNKLRRIEKRLKKDLEREPTLE 176 Query: 551 EIAKKLAMPVEGVRKV--LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EI +++ M E V ++ L + ++P SL+TPIG+E SHL DFIED++A +P A Sbjct: 177 EIGEEMNMEPEKVLEIQKLAMNQQPTSLDTPIGEEKDSHLKDFIEDQDAPAPEMLASSEL 236 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++ VL +LT RE+R++++RFG+ TL+EVG QF VTRERIRQI+AKA+RKL+ Sbjct: 237 LKDQLETVLDTLTDREKRIIKLRFGLEDGRQRTLKEVGSQFGVTRERIRQIQAKALRKLR 296 Query: 669 HPSRSKKLRSFLD 681 HP+RSK+LR +L+ Sbjct: 297 HPTRSKELRGYLN 309 Score = 46.2 bits (108), Expect = 0.020, Method: Compositional matrix adjust. Identities = 31/93 (33%), Positives = 43/93 (46%), Gaps = 9/93 (9%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 DD VR+YL+EMG ++LL +E E+ +AKRIE G L E+ L + I + + G Sbjct: 35 DDSVRVYLKEMGKVDLLDKEEEVELAKRIEQGDQRAREQLTEANLRL-VVSIAKKYIGQG 93 Query: 178 TTLLREIIDLEACIGPESKGGFFHGTEGHSYQK 210 + L I E G E Y K Sbjct: 94 MSFLDLI--------QEGNKGLMKAVEKFDYTK 118 >gi|329121328|ref|ZP_08249954.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] gi|327469737|gb|EGF15203.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] Length = 396 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 143/298 (47%), Positives = 193/298 (64%), Gaps = 9/298 (3%) Query: 380 DPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE- 438 D W KD+ + E ++ + + +R ++ +S E + + KG+ Sbjct: 90 DKDWEKQEKDWTKVENNDYAVTQGNVSDPVRLYLRECGATPLLSAEEEMTLAKQIEKGKM 149 Query: 439 --------CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 A AKKEM ANLRLV+S+AKKY RG+ FLDLIQEGNIGL+KA +KFD+ Sbjct: 150 LDATEEDKLRAEDAKKEMANANLRLVVSIAKKYPGRGMPFLDLIQEGNIGLLKAVDKFDY 209 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QAITRSIADQ+ TIR+PVHM + I+K+ R R+ + RE + E Sbjct: 210 KKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKMNRIGRKFLQEFGREASNE 269 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+AK++ + VE +R+ K ++PISLETPIG+++ SHLGDFIED+ SP + A R Sbjct: 270 ELAKEMGISVEKIREAKKAAQDPISLETPIGEKEDSHLGDFIEDQKTSSPEEEAAATMRR 329 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++L LT RE+ VL +RFG+ T TLEEVGK F VTRERIRQIE KA++KL+ Sbjct: 330 EQIYKLLNELTEREKGVLALRFGMDDGTPRTLEEVGKYFGVTRERIRQIEGKALKKLR 387 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 19/37 (51%), Positives = 27/37 (72%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 + DPVR+YLRE G+ LLS E E+ +AK+IE G+ + Sbjct: 114 NVSDPVRLYLRECGATPLLSAEEEMTLAKQIEKGKML 150 >gi|311742667|ref|ZP_07716476.1| DNA-directed RNA polymerase sigma subunit RpoD [Aeromicrobium marinum DSM 15272] gi|311314295|gb|EFQ84203.1| DNA-directed RNA polymerase sigma subunit RpoD [Aeromicrobium marinum DSM 15272] Length = 464 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 227 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 286 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTP+E+AK+L M E V Sbjct: 287 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAKELDMTPEKV 346 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED A+ P D+ L+E VL +L+ R Sbjct: 347 VEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHAVLDTLSER 406 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 407 ESGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 464 Score = 39.7 bits (91), Expect = 1.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 163 ATADPVKDYLKQIGKVSLLTAGEEVELAKRIEAG 196 >gi|158334991|ref|YP_001516163.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158305232|gb|ABW26849.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 371 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 136/269 (50%), Positives = 195/269 (72%), Gaps = 8/269 (2%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 +++ ++E + ++ FRH + R+ AK +MV++NLRLV+S+AKKY NRGL F Sbjct: 110 QLQEWALEVDMPLNRFRHRLHAGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQ 162 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I + Sbjct: 163 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISR 222 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDF Sbjct: 223 IKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDF 282 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IE + +P D ++ LRE VL +L+PRE VL++R+G+ TLEE+G+ F V Sbjct: 283 IES-DGETPEDQVSKSLLREDLETVLDTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 341 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 342 TRERIRQIEAKALRKLRHPNRNSVLKEYI 370 >gi|326384438|ref|ZP_08206118.1| RNA polymerase sigma factor [Gordonia neofelifaecis NRRL B-59395] gi|326196783|gb|EGD53977.1| RNA polymerase sigma factor [Gordonia neofelifaecis NRRL B-59395] Length = 466 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 134/260 (51%), Positives = 188/260 (72%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+++ R + + R G + AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL Sbjct: 211 LSVAQRRDLSWISRDG----NRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 266 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 267 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQ 326 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV + Sbjct: 327 DLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAV 386 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+ Sbjct: 387 DAVSFTLLQDQLQDVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIES 446 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HPSRS+ LR +LD Sbjct: 447 KTMSKLRHPSRSQVLRDYLD 466 Score = 44.7 bits (104), Expect = 0.048, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 147 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 194 >gi|226306303|ref|YP_002766263.1| RNA polymerase sigma factor SigA [Rhodococcus erythropolis PR4] gi|226185420|dbj|BAH33524.1| RNA polymerase sigma factor SigA [Rhodococcus erythropolis PR4] Length = 452 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 215 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 275 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 335 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 394 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 395 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 452 Score = 45.1 bits (105), Expect = 0.040, Method: Compositional matrix adjust. Identities = 26/66 (39%), Positives = 37/66 (56%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E E + S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +A Sbjct: 115 EPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELA 174 Query: 144 KRIEAG 149 KRIEAG Sbjct: 175 KRIEAG 180 >gi|118465794|ref|YP_882772.1| RNA polymerase sigma factor [Mycobacterium avium 104] gi|254776035|ref|ZP_05217551.1| RNA polymerase sigma factor [Mycobacterium avium subsp. avium ATCC 25291] gi|118167081|gb|ABK67978.1| sigma factor MysA [Mycobacterium avium 104] Length = 496 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 259 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 318 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 319 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 378 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 379 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 438 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 439 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 496 Score = 45.1 bits (105), Expect = 0.039, Method: Compositional matrix adjust. Identities = 24/60 (40%), Positives = 37/60 (61%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M+ + E Sbjct: 177 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMSEMAE 236 >gi|284990384|ref|YP_003408938.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] gi|284063629|gb|ADB74567.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] Length = 429 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 185/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 180 RDLNWIVRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 235 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 236 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 295 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + + V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 296 TPEELAKEMDITPDKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 355 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +++ T VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 356 LMQDQLTSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 415 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 416 RHPSRSQVLRDYLD 429 Score = 44.3 bits (103), Expect = 0.063, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 110 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVDLAKRIEAG 157 >gi|111023781|ref|YP_706753.1| RNA polymerase sigma factor [Rhodococcus jostii RHA1] gi|110823311|gb|ABG98595.1| sigma factor, sigma 70 type, probable group 1 (principle sigma factor) [Rhodococcus jostii RHA1] Length = 457 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 220 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 279 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 280 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 339 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 340 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 399 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 400 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 457 Score = 45.1 bits (105), Expect = 0.045, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 34/58 (58%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 128 SGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 185 >gi|229491308|ref|ZP_04385134.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] gi|229321847|gb|EEN87642.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] Length = 430 Score = 274 bits (701), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 193 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 252 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 253 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 312 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 313 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 372 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 373 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 430 Score = 45.1 bits (105), Expect = 0.036, Method: Compositional matrix adjust. Identities = 26/66 (39%), Positives = 37/66 (56%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E E + S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +A Sbjct: 93 EPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELA 152 Query: 144 KRIEAG 149 KRIEAG Sbjct: 153 KRIEAG 158 >gi|227495998|ref|ZP_03926309.1| RNA polymerase sigma factor [Actinomyces urogenitalis DSM 15434] gi|226834486|gb|EEH66869.1| RNA polymerase sigma factor [Actinomyces urogenitalis DSM 15434] Length = 541 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 304 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 363 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E V Sbjct: 364 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAVELDMTPEKV 423 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E VL +L+ R Sbjct: 424 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHAVLDTLSER 483 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 484 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 541 Score = 39.3 bits (90), Expect = 2.5, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 239 ATADPVKDYLKQIGKVALLNAAEEVELAKRIEAG 272 >gi|255325126|ref|ZP_05366232.1| RNA polymerase major sigma subunit [Corynebacterium tuberculostearicum SK141] gi|311739588|ref|ZP_07713423.1| RNA polymerase sigma factor rpoD [Corynebacterium pseudogenitalium ATCC 33035] gi|255297691|gb|EET77002.1| RNA polymerase major sigma subunit [Corynebacterium tuberculostearicum SK141] gi|311305404|gb|EFQ81472.1| RNA polymerase sigma factor rpoD [Corynebacterium pseudogenitalium ATCC 33035] Length = 490 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 186/260 (71%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + S+ R G AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL Sbjct: 235 LSPMEKRDLRSIARDGRK----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 290 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 291 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQ 350 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTP+E+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV + Sbjct: 351 DLGREPTPQELAKEMDITEEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAV 410 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+ Sbjct: 411 DAVSFTLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIES 470 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HPSRS+ LR +LD Sbjct: 471 KTMSKLRHPSRSQVLRDYLD 490 Score = 47.4 bits (111), Expect = 0.007, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 165 SAALRQARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 212 >gi|86742187|ref|YP_482587.1| sigma 38 [Frankia sp. CcI3] gi|86569049|gb|ABD12858.1| sigma 38 [Frankia sp. CcI3] Length = 422 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 127/254 (50%), Positives = 183/254 (72%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +V+ G AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EK Sbjct: 173 RDLGLLVKDGHA----AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEK 228 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REP Sbjct: 229 FDYAKGYKFSTYATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREP 288 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A +L MP+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A Sbjct: 289 TDEELALELDMPIEQVVELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYG 348 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +++ VL L+PRE V+R+RFG+ HTL EVG + +TRERIRQIE +R+L Sbjct: 349 AMQDEIENVLGGLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLREL 408 Query: 668 KHPSRSKKLRSFLD 681 + P+ + +LR FLD Sbjct: 409 RKPAVAGRLREFLD 422 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 42/131 (32%), Positives = 70/131 (53%), Gaps = 19/131 (14%) Query: 19 DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 DD+ D S + ++I R+ G ++ EL L ++ E + +A L+ +GI ++ Sbjct: 43 DDTDELDVS--AVAEVIARGREAGEISRSELRDVLESADIGIELLPALIARLNAVGIELL 100 Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 D +EE S+D A++AS S+ + T D VRMYLRE+G + LL+ Sbjct: 101 D-----EEEASDD----ATAASRST--------AEHAGTADLVRMYLREIGKVPLLNAAQ 143 Query: 139 EIAIAKRIEAG 149 E+ ++KR+EAG Sbjct: 144 EVELSKRVEAG 154 >gi|219847900|ref|YP_002462333.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219542159|gb|ACL23897.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 381 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 173/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 144 ARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATWW 203 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V RT+ R+ ++REPTPEEIA + + V Sbjct: 204 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPEEIADAMGISAGKV 263 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P ++A + LRE VL L R Sbjct: 264 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPAEAAAASLLREQLEEVLMKLPER 323 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR +LD Sbjct: 324 ERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 381 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 43/125 (34%), Positives = 65/125 (52%), Gaps = 21/125 (16%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV------DG-DDLE 84 ++++ AR RGY+T ++ A P E +++ AML GI VV DG D E Sbjct: 3 EQLLAAARVRGYITHADILATFPNPEHDIAEIDQLYAMLQAEGIRVVESSDELDGPTDFE 62 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 E + ++DL D + + DDPVRMYL+E+G + LL+ E E+ +AK Sbjct: 63 PETDHDLTVDL--------------PDLGEIAFDDPVRMYLQEIGQVPLLTAEQEVELAK 108 Query: 145 RIEAG 149 +EAG Sbjct: 109 AMEAG 113 >gi|308232215|ref|ZP_07415319.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu001] gi|308373480|ref|ZP_07667590.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu005] gi|308214639|gb|EFO74038.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu001] gi|308337452|gb|EFP26303.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu005] Length = 413 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 176 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 235 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 236 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 295 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 296 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 355 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 356 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 413 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 2/70 (2%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-- 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 84 SGDFVWDEDESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLY 143 Query: 150 RAMMMASLCE 159 +M L E Sbjct: 144 ATQLMTELSE 153 >gi|302386858|ref|YP_003822680.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] gi|302197486|gb|ADL05057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium saccharolyticum WM1] Length = 380 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 126/237 (53%), Positives = 179/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GYK STYA WW Sbjct: 144 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 203 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A+ L M + V Sbjct: 204 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVSELAEALDMSEDKV 263 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE +L L R Sbjct: 264 MEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDALLGDLKER 323 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 324 ERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 380 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 40/129 (31%), Positives = 68/129 (52%), Gaps = 12/129 (9%) Query: 29 DSWKKMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG-DDLEDE 86 D K+++LA+ + + + E+N F +E+++EQM+ L N G++V+ DD Sbjct: 8 DKLGKLVELAKTKHNALDVTEINNFFMGEELTTEQMDQIYTYLENRGVDVIPVIDDSVLT 67 Query: 87 EGSEDSLDLASSASNSSVFLQKRK------DSADR----STDDPVRMYLREMGSIELLSR 136 + S DL F++ D+ D T+DPVRMYL+E+G++ LL+ Sbjct: 68 DDVLLSDDLLLDDDLDDSFIKDVDEEDIDLDAIDLLEGIGTEDPVRMYLKEIGTVPLLNA 127 Query: 137 EGEIAIAKR 145 E E+ +AKR Sbjct: 128 EEELRLAKR 136 >gi|262202178|ref|YP_003273386.1| RNA polymerase sigma factor RpoD [Gordonia bronchialis DSM 43247] gi|262085525|gb|ACY21493.1| RNA polymerase sigma factor RpoD [Gordonia bronchialis DSM 43247] Length = 489 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 252 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 311 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 312 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 371 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 372 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 431 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 432 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 489 Score = 45.1 bits (105), Expect = 0.040, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 170 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 217 >gi|54025729|ref|YP_119971.1| RNA polymerase sigma factor [Nocardia farcinica IFM 10152] gi|54017237|dbj|BAD58607.1| putative principal sigma factor [Nocardia farcinica IFM 10152] Length = 454 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 217 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 276 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 277 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 336 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 337 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 396 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 397 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 454 Score = 45.1 bits (105), Expect = 0.043, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 34/58 (58%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 125 SGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 182 >gi|160941160|ref|ZP_02088497.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC BAA-613] gi|158435721|gb|EDP13488.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC BAA-613] Length = 381 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 126/238 (52%), Positives = 179/238 (75%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GYK STYA W Sbjct: 144 FAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 203 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A+ L M + Sbjct: 204 WIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDK 263 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE +L L Sbjct: 264 VMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDALLGDLKE 323 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 324 RERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 381 Score = 45.8 bits (107), Expect = 0.027, Method: Compositional matrix adjust. Identities = 44/153 (28%), Positives = 74/153 (48%), Gaps = 20/153 (13%) Query: 28 DDSWKKMIKLAR----QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 DD KK+ KL + + E+N F D +S EQM+ + L I+VV L Sbjct: 4 DDFLKKLEKLVEHAKTKHNTLDAGEINDFFTGDNLSPEQMDQIYSYLEGRNIDVVPV--L 61 Query: 84 EDEEGSEDSLDLASSASNSSV----FLQKRK------DSADR----STDDPVRMYLREMG 129 ++ +ED++ L + + F++ + D+ D T+DPVRMYL+E+G Sbjct: 62 DEAMLTEDTVLLDDIDLDLDLDDDSFIKDAEEEEIDLDAVDLLEGIGTEDPVRMYLKEIG 121 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 ++ LL+ + E+ +A+R G L E+ L Sbjct: 122 TVPLLTADEELDLAQRKADGDEFAKERLIEANL 154 >gi|239626154|ref|ZP_04669185.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239520384|gb|EEQ60250.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 381 Score = 274 bits (700), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 126/237 (53%), Positives = 179/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GYK STYA WW Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A+ L M + V Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDKV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE +L L R Sbjct: 265 MEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDALLGDLKER 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 325 ERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 381 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 45/153 (29%), Positives = 75/153 (49%), Gaps = 20/153 (13%) Query: 28 DDSWKKMIKLAR----QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 DD KK+ KL + + E+N F D +S EQM+ + L N I+VV L Sbjct: 4 DDFLKKLEKLVEHAKSKHNTLDAGEINDFFTGDNLSPEQMDQIYSYLENRNIDVVPV--L 61 Query: 84 EDEEGSEDSLDLASSASNSSV----FLQKRK------DSADR----STDDPVRMYLREMG 129 ++ +ED++ L + + F++ + D+ D T+DPVRMYL+E+G Sbjct: 62 DEAMLTEDTVLLDDIDLDLDLDDDSFIKDAEEEEIDLDAVDLLEGIGTEDPVRMYLKEIG 121 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 ++ LL+ + E+ +A+R G L E+ L Sbjct: 122 TVPLLTADEELNLAQRKADGDDYAKERLIEANL 154 >gi|120403451|ref|YP_953280.1| RNA polymerase sigma factor [Mycobacterium vanbaalenii PYR-1] gi|119956269|gb|ABM13274.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium vanbaalenii PYR-1] Length = 478 Score = 274 bits (700), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 241 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 300 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 301 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 360 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 361 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 420 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 421 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 478 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 33/86 (38%), Positives = 46/86 (53%), Gaps = 5/86 (5%) Query: 79 DGDD---LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 DGDD E E + S D S Q RKD+ ++ D VR YL+++G + LL+ Sbjct: 133 DGDDDGVAEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLN 192 Query: 136 REGEIAIAKRIEAG--RAMMMASLCE 159 E E+ +AKRIEAG +MA L + Sbjct: 193 AEEEVELAKRIEAGLYATQLMAELAD 218 >gi|254821650|ref|ZP_05226651.1| RNA polymerase sigma factor [Mycobacterium intracellulare ATCC 13950] Length = 488 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 251 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 310 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 311 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 370 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 371 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 430 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 431 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 488 Score = 45.1 bits (105), Expect = 0.046, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 169 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 216 >gi|331003577|ref|ZP_08327074.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412418|gb|EGG91809.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon 107 str. F0167] Length = 409 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 125/237 (52%), Positives = 179/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ G+K STYA WW Sbjct: 172 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 231 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A +L M E V Sbjct: 232 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANELGMTEEKV 291 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I +EP SLETPIG+ED S+LGDF+ D N ++P + LRE +L L R Sbjct: 292 MEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDTLLGDLKER 351 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 352 ERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSKRIRDFL 408 Score = 42.0 bits (97), Expect = 0.33, Method: Compositional matrix adjust. Identities = 38/142 (26%), Positives = 64/142 (45%), Gaps = 34/142 (23%) Query: 44 VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---------------------- 81 ++I E+N F E+++E +E + L N GI + + Sbjct: 51 LSIGEINDFFADTELNTESIEQIYSYLENKGIEINEDSVDDMNIDIDNIDNITDEDSLLL 110 Query: 82 -DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 D E ++ SE+ +DL++ V T+DPVRMYL+E+G++ LL+ E+ Sbjct: 111 DDDEFDKDSEEDIDLSAIDLLEGV-----------GTEDPVRMYLKEIGTVPLLTANEEL 159 Query: 141 AIAKRIEAGRAMMMASLCESPL 162 +AKR + G L E+ L Sbjct: 160 ELAKRKQDGDEYAKQRLIEANL 181 >gi|315652381|ref|ZP_07905370.1| RNA polymerase sigma factor rpoD [Eubacterium saburreum DSM 3986] gi|315485355|gb|EFU75748.1| RNA polymerase sigma factor rpoD [Eubacterium saburreum DSM 3986] Length = 410 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 125/237 (52%), Positives = 178/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ G+K STYA WW Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A L M E V Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I +EP SLETPIG+ED S+LGDF+ D N ++P + LRE +L L R Sbjct: 293 MEIMQIAREPASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDTLLGDLKER 352 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 353 ERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSKRIRDFL 409 Score = 45.1 bits (105), Expect = 0.041, Method: Compositional matrix adjust. Identities = 42/152 (27%), Positives = 66/152 (43%), Gaps = 35/152 (23%) Query: 44 VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGD---------------------- 81 + I E+N F E++S+ +E + L N GI + + Sbjct: 51 LNIGEINDFFAGIELNSDSIEQIYSYLENKGIEINENSSDDLNIDIDNIDNITDEDSLLL 110 Query: 82 DLEDE--EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 D EDE + SE+ +DL++ V T+DPVRMYL+E+G++ LL+ E Sbjct: 111 DDEDEFDKDSEEDIDLSAIDLLEGV-----------GTEDPVRMYLKEIGTVPLLTANEE 159 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 + +AKR + G L E+ L I R Sbjct: 160 LELAKRKQDGDEYAKQRLIEANLRLVVSIAKR 191 >gi|226356403|ref|YP_002786143.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226318393|gb|ACO46389.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 547 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 138/241 (57%), Positives = 182/241 (75%), Gaps = 3/241 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKF++ YKFSTYA WW Sbjct: 307 ARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYATWW 366 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ RE T EEIA+ + + Sbjct: 367 IRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREATHEEIAEAMGPGWDAA 426 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V +V K+++EP+SLETPIGDE S GDFI D+N SP+++A + L E + L+ LT Sbjct: 427 KVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDENLDSPVENAAKTLLSEELEKALSKLT 486 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKKLRSFL 680 RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA+RKLK H SR++KLR FL Sbjct: 487 EREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKALRKLKYHESRTRKLRDFL 546 Query: 681 D 681 D Sbjct: 547 D 547 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 19/33 (57%), Positives = 26/33 (78%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++DPVR YL E+G + LL+ E EIA+A+RIE G Sbjct: 244 SNDPVRQYLHEIGRVSLLTLEEEIALARRIEEG 276 >gi|118469122|ref|YP_887090.1| RNA polymerase sigma factor [Mycobacterium smegmatis str. MC2 155] gi|555680|gb|AAA85642.1| sigma factor MysA [Mycobacterium smegmatis] gi|118170409|gb|ABK71305.1| sigma factor MysA [Mycobacterium smegmatis str. MC2 155] Length = 466 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 229 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 288 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 289 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 348 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 349 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 408 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 409 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 466 Score = 46.2 bits (108), Expect = 0.021, Method: Compositional matrix adjust. Identities = 29/72 (40%), Positives = 40/72 (55%), Gaps = 2/72 (2%) Query: 80 GDDLEDEEGSED--SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 DD DE +D S D S Q RKD+ ++ D VR YL+++G + LL+ E Sbjct: 123 ADDDIDEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAE 182 Query: 138 GEIAIAKRIEAG 149 E+ +AKRIEAG Sbjct: 183 EEVELAKRIEAG 194 >gi|18477828|emb|CAC83737.1| RNA polymerase sigma 70 [Rhodococcus fascians] Length = 474 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 136/267 (50%), Positives = 190/267 (71%), Gaps = 6/267 (2%) Query: 417 SVETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 S E G + +++ R + + R G + AK ++EANLRLV+S+AK+YT RG+ FLDLI Sbjct: 212 SAEKGEKLPVAQRRDMTWICRDG----NRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLI 267 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEGN+GL++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R Sbjct: 268 QEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGR 327 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 R + + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED Sbjct: 328 IQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIED 387 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 AV +D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRE Sbjct: 388 SEAVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRE 447 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 448 RIRQIESKTMSKLRHPSRSQVLRDYLD 474 Score = 45.8 bits (107), Expect = 0.024, Method: Compositional matrix adjust. Identities = 32/89 (35%), Positives = 47/89 (52%), Gaps = 9/89 (10%) Query: 70 LSNMGINVVDG-------DDLEDEEGSED--SLDLASSASNSSVFLQKRKDSADRSTDDP 120 L+ +VV+G +D E +ED S D S Q RKD+ ++ D Sbjct: 114 LAAAANDVVEGRRRRQPEEDATSEPTAEDKASGDFVWDEEESEALRQARKDAELTASADS 173 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAG 149 VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 174 VRAYLKQIGKVALLNAEEEVELAKRIEAG 202 >gi|283779933|ref|YP_003370688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438386|gb|ADB16828.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 545 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 150/365 (41%), Positives = 212/365 (58%), Gaps = 36/365 (9%) Query: 318 KEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGR 377 + K V+LV ++L +R+ L ++L DI R+ R Q R Sbjct: 202 RNKCVRLVEEMNLRNNRLQPLFDKLSDILGRMK--------------------TLRSQIR 241 Query: 378 ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 E + H VS G + E+ +++I E + + +E+R Sbjct: 242 EANIHGVS------GGRTAQQLRKELVHLMRITLETPATLKRRIVRTNEYRE-------- 287 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 AK+ + NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +KF++ GYKFS Sbjct: 288 --NYDAAKRVLSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKFEYARGYKFS 345 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQS TIR+PVHM D + KV R++ ++ REPTPEE+A+ Sbjct: 346 TYATWWIRQAITRAIADQSRTIRVPVHMIDTMSKVRAVTRQLVQELGREPTPEEVARVAG 405 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + ++ R VLK+ ++P+SL+ P+GD D S+ G+F+ D PL Q L+ + Sbjct: 406 LTLDDARCVLKMARQPLSLDQPVGDHDDSYFGEFLADHREEDPLYDTHQQALKHQIEEAM 465 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 L RE +LR+R+G+ +TLEEVGK F VTRER+RQIE KA+RKL+ P R++ L Sbjct: 466 QGLNYREREILRLRYGLTDGYAYTLEEVGKIFSVTRERVRQIETKAVRKLQQPYRNRSLT 525 Query: 678 SFLDG 682 SFLDG Sbjct: 526 SFLDG 530 Score = 51.6 bits (122), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 30/81 (37%), Positives = 41/81 (50%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 +TDDPVRMYL +MG I LL+R EI A+ IEA R S+ + Q + + + Sbjct: 74 ATDDPVRMYLMQMGQIPLLNRTQEIDSARTIEATRLKFRHSMLATDYVLQGAVELLERVR 133 Query: 176 DGTTLLREIIDLEACIGPESK 196 DG L I++ E K Sbjct: 134 DGQLRLDRTIEVSVTNTSEKK 154 >gi|297571337|ref|YP_003697111.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcanobacterium haemolyticum DSM 20595] gi|296931684|gb|ADH92492.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcanobacterium haemolyticum DSM 20595] Length = 510 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 273 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDYAKGYKFSTYATWW 332 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPT EE+A +L M E V Sbjct: 333 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTVEELAHELDMTEEKV 392 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 393 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVGFTLLQEQLHQVLDTLSER 452 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 453 EAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 510 Score = 43.9 bits (102), Expect = 0.10, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 9/62 (14%) Query: 97 SSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++A S F+ + D D +T DPV+ YL+++G + LL+ E E+ +AKRIE Sbjct: 181 TTAKRSGAFIVRDSDDTDEPVQRVHVAGATADPVKDYLKQIGKVALLNAEEEVELAKRIE 240 Query: 148 AG 149 AG Sbjct: 241 AG 242 >gi|240169695|ref|ZP_04748354.1| RNA polymerase sigma factor [Mycobacterium kansasii ATCC 12478] Length = 518 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 281 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 340 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 341 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 400 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 401 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 460 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 461 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 518 Score = 46.6 bits (109), Expect = 0.014, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +MA + E Sbjct: 199 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAEMAE 258 >gi|158313089|ref|YP_001505597.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158108494|gb|ABW10691.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec] Length = 423 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 124/243 (51%), Positives = 178/243 (73%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EKFD+ GYKFST Sbjct: 181 TDGQAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFST 240 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REPT EE+A +L M Sbjct: 241 YATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDM 300 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A +++ VL Sbjct: 301 PIEQVVELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYGAMQDEIDNVLG 360 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L PRE V+R+RFG+ HTL EVG + +TRERIRQIE +R+L+ P+ + +LR Sbjct: 361 ALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLRE 420 Query: 679 FLD 681 FLD Sbjct: 421 FLD 423 Score = 45.1 bits (105), Expect = 0.042, Method: Compositional matrix adjust. Identities = 35/117 (29%), Positives = 59/117 (50%), Gaps = 15/117 (12%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I R+ G ++ EL L ++ E + ++ L GI++V E E+ Sbjct: 54 ELIARGRETGELSRSELREALEAADIGVELLPALISRLGAAGIDLV--------EEEEER 105 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + A+ +V D A T D VRMYLRE+G + LL+ E+ ++KR+EAG Sbjct: 106 VTPGAPAAGRTV-----ADHA--GTADLVRMYLREIGKVPLLNAAQEVELSKRVEAG 155 >gi|296117756|ref|ZP_06836340.1| RNA polymerase sigma factor [Corynebacterium ammoniagenes DSM 20306] gi|295969487|gb|EFG82728.1| RNA polymerase sigma factor [Corynebacterium ammoniagenes DSM 20306] Length = 471 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 129/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 234 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 293 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 294 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 353 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 354 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLTTLSER 413 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 414 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 471 Score = 45.8 bits (107), Expect = 0.026, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++A+RIEAG Sbjct: 146 SATLRQARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAERIEAG 193 >gi|163848612|ref|YP_001636656.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222526547|ref|YP_002571018.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163669901|gb|ABY36267.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222450426|gb|ACM54692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 381 Score = 273 bits (699), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 173/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 144 ARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATWW 203 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V RT+ R+ ++REPTPEEIA + + V Sbjct: 204 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPEEIADAMGISAGKV 263 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P ++A + LRE VL L R Sbjct: 264 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPAEAAAASLLREQLEEVLMKLPER 323 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR +LD Sbjct: 324 ERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 381 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 35/111 (31%), Positives = 56/111 (50%), Gaps = 7/111 (6%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 ++++ AR RGY+T ++ A P E +++ AML GI V++ D D G D Sbjct: 3 EQLLAAARVRGYITHADILATFPNPEHDIAEIDQLYAMLQAEGIKVIESSDELD--GPTD 60 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 + + D D + DDPVRMYL+E+G + LL+ E E+ + Sbjct: 61 F-----EPDPDADLIADLPDLGDIAFDDPVRMYLQEIGQVPLLTAEQEVEL 106 >gi|319949012|ref|ZP_08023109.1| RNA polymerase sigma factor [Dietzia cinnamea P4] gi|319437300|gb|EFV92323.1| RNA polymerase sigma factor [Dietzia cinnamea P4] Length = 460 Score = 273 bits (699), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 223 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 282 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 283 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 342 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 343 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLRSVLDTLSER 402 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 403 EAGVVRLRFGLTDGLPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 460 Score = 45.1 bits (105), Expect = 0.040, Method: Compositional matrix adjust. Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 2/70 (2%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-- 149 S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 131 SGDFVWDEDESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLY 190 Query: 150 RAMMMASLCE 159 MA + E Sbjct: 191 ATWYMAQVTE 200 >gi|282899714|ref|ZP_06307678.1| sigA (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195593|gb|EFA70526.1| sigA (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 390 Score = 273 bits (699), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 137/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 139 LPLPTFRYRLHVGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 191 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 192 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 251 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 252 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 310 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D ++ LRE RVL SL PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 311 DQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERIRQIEA 370 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 371 KALRKLRHPNRNSVLKEYI 389 >gi|119512308|ref|ZP_01631394.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] gi|119463021|gb|EAW43972.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] Length = 391 Score = 273 bits (699), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 137/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 140 IPLPAFRYRLHIGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 192 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 193 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 252 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 253 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 311 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + LRE +VL SL+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 312 DQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 371 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 372 KALRKLRHPNRNSVLKEYI 390 >gi|17232755|ref|NP_489303.1| RNA polymerase sigma factor RpoD [Nostoc sp. PCC 7120] gi|75907632|ref|YP_321928.1| RNA polymerase sigma factor RpoD [Anabaena variabilis ATCC 29413] gi|133465|sp|P26683|RPOD_ANASP RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|142108|gb|AAA22043.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] gi|17134402|dbj|BAB76962.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] gi|75701357|gb|ABA21033.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 390 Score = 273 bits (698), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 136/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 139 LPLPAFRYRLHIGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 191 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 192 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 251 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 252 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-SDGETPE 310 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + LRE +VL SL+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 311 DQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 370 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 371 KALRKLRHPNRNSVLKEYI 389 >gi|296171852|ref|ZP_06852951.1| RNA polymerase sigma factor rpoD [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295893936|gb|EFG73705.1| RNA polymerase sigma factor rpoD [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 503 Score = 273 bits (698), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 266 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 325 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 326 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 385 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 386 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 445 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 446 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 503 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +MA + E Sbjct: 184 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAEMAE 243 >gi|308183886|ref|YP_003928019.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SJM180] gi|308059806|gb|ADO01702.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SJM180] Length = 679 Score = 273 bits (698), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 418 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 477 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 478 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 537 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 538 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 597 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 598 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 657 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 658 SSAIKKLRSPQYGRILRNYL 677 >gi|13195265|gb|AAK15630.1|AF326348_2 RNA polymerase major sigma subunit [Corynebacterium ammoniagenes] Length = 467 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 129/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 230 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 289 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 290 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 349 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 350 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLTTLSER 409 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 410 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 467 Score = 45.8 bits (107), Expect = 0.026, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++A+RIEAG Sbjct: 142 SATLRQARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAERIEAG 189 >gi|227504950|ref|ZP_03934999.1| RNA polymerase major sigma subunit [Corynebacterium striatum ATCC 6940] gi|227198459|gb|EEI78507.1| RNA polymerase major sigma subunit [Corynebacterium striatum ATCC 6940] Length = 465 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 144/298 (48%), Positives = 199/298 (66%), Gaps = 10/298 (3%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 VS AK G + + +D + K R E + +S E R + S+ R G Sbjct: 178 VSLAKRIEAGLYAQY---RMDEMEKARAEGDKAA---KLSPMEKRDLRSIARDGRK---- 227 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 228 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 287 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP E+AK++ + E V Sbjct: 288 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPIELAKEMDITEEKV 347 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 348 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLTTLSER 407 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 408 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 465 Score = 45.8 bits (107), Expect = 0.024, Method: Compositional matrix adjust. Identities = 21/43 (48%), Positives = 32/43 (74%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 145 QARKDAQLTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 187 >gi|15827492|ref|NP_301755.1| RNA polymerase sigma factor [Mycobacterium leprae TN] gi|221229969|ref|YP_002503385.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] gi|699190|gb|AAA62955.1| rpoT [Mycobacterium leprae] gi|4587111|dbj|BAA76621.1| RpoT [Mycobacterium leprae] gi|13093042|emb|CAC31403.1| RNA polymerase sigma factor [Mycobacterium leprae] gi|219933076|emb|CAR71117.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] Length = 574 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 134/262 (51%), Positives = 188/262 (71%), Gaps = 4/262 (1%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T + ++ R ++ + R G+ AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+ Sbjct: 317 TKLPTAQRRDMMWICRDGDR----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNL 372 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 373 GLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQREL 432 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV Sbjct: 433 LQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVV 492 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQI Sbjct: 493 AVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQI 552 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E+K + KL+HPSRS+ LR +LD Sbjct: 553 ESKTMSKLRHPSRSQVLRDYLD 574 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 34/102 (33%), Positives = 51/102 (50%), Gaps = 2/102 (1%) Query: 60 SEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDD 119 +E E T A ++ D + +E E + S D S Q RKD+ ++ D Sbjct: 213 TEDGEATAATKTDEASTDDDEEIVEPTEKDKASGDFVWDEDESEALRQARKDAELTASAD 272 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 273 SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 314 >gi|323484891|ref|ZP_08090246.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323693741|ref|ZP_08107938.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323401772|gb|EGA94115.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323502192|gb|EGB18057.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 374 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 128/246 (52%), Positives = 184/246 (74%), Gaps = 1/246 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK E + + AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GY Sbjct: 130 RKAEGDDN-AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGY 188 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 K STYA WW++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+++ Sbjct: 189 KLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSE 248 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L M + V ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE Sbjct: 249 ALEMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVVTPEGNVESVMLREHID 308 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +L L RE +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK Sbjct: 309 ALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 368 Query: 675 KLRSFL 680 ++R FL Sbjct: 369 RIRDFL 374 Score = 53.5 bits (127), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 41/130 (31%), Positives = 70/130 (53%), Gaps = 12/130 (9%) Query: 29 DSWKKMIKLAR-QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 + K+++ LA+ ++ + I E+N F D +S+EQME + L N I+++ ++ DE Sbjct: 8 EKLKRLVDLAKTKQNALDITEINNFFAGDNLSTEQMEQIYSYLENSNIDIIP--EVIDE- 64 Query: 88 GSEDSLDLASSASNSSVFLQKRK----DSADR----STDDPVRMYLREMGSIELLSREGE 139 D FL++ + D+ D T+DPVRMYL+E+G++ LLS + E Sbjct: 65 TILAEDDALLLDDADDDFLKEEEEIDLDAIDLLEGIGTEDPVRMYLKEIGTVPLLSADEE 124 Query: 140 IAIAKRIEAG 149 + +AKR G Sbjct: 125 LRLAKRKAEG 134 >gi|227549126|ref|ZP_03979175.1| RNA polymerase major sigma subunit [Corynebacterium lipophiloflavum DSM 44291] gi|227078794|gb|EEI16757.1| RNA polymerase major sigma subunit [Corynebacterium lipophiloflavum DSM 44291] Length = 520 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 129/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 283 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 342 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 343 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 402 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 403 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLHTLSER 462 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 463 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 520 Score = 46.2 bits (108), Expect = 0.020, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 33/48 (68%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL E E+++AKRIEAG Sbjct: 195 SAALRQARKDAQLTASADSVRAYLKQIGKVALLDAELEVSLAKRIEAG 242 >gi|254424926|ref|ZP_05038644.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196192415|gb|EDX87379.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 404 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 168 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 227 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 228 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKL 287 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL++L+PR Sbjct: 288 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPEDEVSKSLLREDLESVLSTLSPR 346 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 347 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 403 >gi|189485247|ref|YP_001956188.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium phylotype Rs-D17] gi|170287206|dbj|BAG13727.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium phylotype Rs-D17] Length = 573 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 155/398 (38%), Positives = 241/398 (60%), Gaps = 22/398 (5%) Query: 295 RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 + L+ +++ + E+ K K + ++V L+ L+LNQ +I L+ ++ I++++ + Sbjct: 187 KKLKLKSISCKDKEQYKEKVKEFRSEIVSLIVELNLNQDKIRRLINKIKTIAQKLNEIKE 246 Query: 355 ELLRLAQSYG--------IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSI 406 L R + Y + + L + E KD E V ++ Sbjct: 247 GLRRFERKYKNSFSKVQVLFKSCNLGKISSAEFKKSTGLSMKDVAED------IANVKTL 300 Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM--VEANLRLVISVAKKYT 464 L +K +++ G I+ I + R E E I + +M +EAN RLV+S+AKK+ Sbjct: 301 L-----VKQTNLKDGFVITPEEMIETDRRIRELEYVIHRDKMKLIEANFRLVVSIAKKHV 355 Query: 465 N-RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 L+ DLIQEGN+GL KA EKF+W G+KFSTYA WW++Q+I R+IADQ+ TIRIPV Sbjct: 356 GISNLELSDLIQEGNLGLSKAVEKFEWKRGFKFSTYATWWIRQSINRAIADQARTIRIPV 415 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM++ I K+ ++ + + REPT +E +K L + + +R++LK+ +EP+SL P+G+E Sbjct: 416 HMKELISKLTKSKKECQQNMGREPTIQEYSKILKLSCDRIRRILKMMQEPVSLAMPVGEE 475 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S L DFIED+N+ +P+ Q L+ +VLA+L PRE ++R+R+GIG+ TLE Sbjct: 476 EDSRLEDFIEDQNSPNPVVKTQQYRLQLELEKVLATLAPREAEIIRLRYGIGIGYPSTLE 535 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVGK+F +TRER+RQIEAKAIRKLK+P R+K LR +LD Sbjct: 536 EVGKKFGITRERVRQIEAKAIRKLKYPRRNKSLREYLD 573 Score = 60.1 bits (144), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 35/142 (24%), Positives = 70/142 (49%), Gaps = 10/142 (7%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +K +I +++GY+T E ++ LP + +E+++ L N+GI V+D + ++ Sbjct: 5 DLFKGLIDTGKEQGYLTYEAISKNLPQRSMIAEEIDGFFVTLDNLGIKVLDNREYRSDKV 64 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ++ +++ + + +PVRMYL EM + LL R E+ + K I Sbjct: 65 KKSRGEV----------VERSMKTVNEEDINPVRMYLSEMAKVPLLERNMELKLVKSIRE 114 Query: 149 GRAMMMASLCESPLTFQALIIW 170 + + + ESPL + + W Sbjct: 115 NEDRLKSIVLESPLIIKEIRNW 136 >gi|156744261|ref|YP_001434390.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156235589|gb|ABU60372.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 399 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 125/238 (52%), Positives = 173/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 162 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 221 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V R + ++ ++REPTPEEIA + + V Sbjct: 222 IRQAITRAIADQSRTIRLPVHMGEAISQVKRASHKLQQMMQREPTPEEIADAMGISSTKV 281 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P ++A + LRE VL L R Sbjct: 282 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPAEAAAASMLREQLEEVLQKLPER 341 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR +LD Sbjct: 342 ERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 399 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/168 (28%), Positives = 80/168 (47%), Gaps = 16/168 (9%) Query: 23 VFDFSDDSWKK----MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 + + + +W + ++ + R RG++T E+ LP E ++ A L GI VV Sbjct: 11 IVEQTRQAWAQTLEYLLDIGRTRGFLTYNEILEALPQPEYHVADVDQLYASLQAEGIRVV 70 Query: 79 DGDDLEDEEGSEDSLDLA-SSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 E LD++ A L + D D + DDPVRMYL+E+G + LLS E Sbjct: 71 -----------ETPLDMSDHGAVGDDELLAEMPDLTDVALDDPVRMYLQEIGQVPLLSAE 119 Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 E+ +AK +EAG A CE ++Q +++ ++ G + +I Sbjct: 120 QEVMLAKAMEAGHRARRALECEEYSSWQERMMYEQQVAQGNEARQHLI 167 >gi|16332132|ref|NP_442860.1| RNA polymerase sigma factor RpoD [Synechocystis sp. PCC 6803] gi|47717353|sp|P74565|RPOD_SYNY3 RecName: Full=RNA polymerase sigma factor rpoD gi|1653761|dbj|BAA18672.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 425 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA+K+ M +E + Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKL 308 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 309 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPR 367 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 368 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 424 >gi|32476381|ref|NP_869375.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1] gi|32446926|emb|CAD78832.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1] gi|327539012|gb|EGF25646.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica WH47] Length = 519 Score = 273 bits (698), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 138/278 (49%), Positives = 192/278 (69%), Gaps = 3/278 (1%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 + +L R +I + ET S+ R+ V M+ + AK+E+ E NLRLV+S+AKKY Sbjct: 245 EQLLHERRQILTACQETPTSL---RNRVKMLGSVYSDYQQAKRELSEGNLRLVVSIAKKY 301 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 NRGL FLDLIQEGN GLM+A +KF++ G+KF TYA WW++QAITR++ADQS TIRIPV Sbjct: 302 RNRGLSFLDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWWIRQAITRAVADQSRTIRIPV 361 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + + +V AR++ ++ REP+ EE A++ + +E R+VL +++ PISL+ P+G+ Sbjct: 362 HMVETMSRVRNVARQLLQELGREPSIEETARRADVTIEEARRVLTMSRFPISLDRPVGNS 421 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S GD + D A SP A Q LR+ T VL SL+ RE ++++R+G+G +TLE Sbjct: 422 EDSQFGDLLPDGTAESPQIGATQEMLRQRITGVLKSLSYREREIIKLRYGLGDGYSYTLE 481 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EVG F VTRERIRQIEAKA+RKL+ PSRS+ L FLD Sbjct: 482 EVGHIFKVTRERIRQIEAKAVRKLQQPSRSQDLVGFLD 519 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 25/50 (50%), Positives = 32/50 (64%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 D ++ +DDPVRMYL +MG I LL+R EI +AKRIE R L E+ Sbjct: 60 DESETWSDDPVRMYLTQMGEIPLLTRRQEIELAKRIEETRRRFRTKLLEN 109 >gi|227833276|ref|YP_002834983.1| RNA polymerase sigma factor A [Corynebacterium aurimucosum ATCC 700975] gi|262184260|ref|ZP_06043681.1| RNA polymerase sigma factor [Corynebacterium aurimucosum ATCC 700975] gi|227454292|gb|ACP33045.1| RNA polymerase sigma factor A [Corynebacterium aurimucosum ATCC 700975] Length = 485 Score = 273 bits (698), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 143/298 (47%), Positives = 199/298 (66%), Gaps = 10/298 (3%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 VS AK G + + +D + K R E + +S E R + ++ R G Sbjct: 198 VSLAKRIEAGLYAQY---RMDEMEKARAEGDKAA---KLSPMEKRDMRAIARDGRK---- 247 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 248 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 307 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP E+AK++ + E V Sbjct: 308 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPLELAKEMDITEEKV 367 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 368 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLTTLSER 427 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 428 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 485 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 160 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 207 >gi|2267165|gb|AAC64856.1| sigma 80 [Helicobacter pylori] Length = 685 Score = 273 bits (698), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 424 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 483 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 484 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 543 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 544 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 603 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 604 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 663 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 664 SSAIKKLRSPQYGRILRNYL 683 >gi|220906934|ref|YP_002482245.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219863545|gb|ACL43884.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 378 Score = 273 bits (698), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 136/262 (51%), Positives = 189/262 (72%), Gaps = 8/262 (3%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E + + FRH + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG+ Sbjct: 124 EVDMPLQSFRHRLHIGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGS 176 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + Sbjct: 177 LGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKL 236 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + Sbjct: 237 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGE 295 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D + LRE VL +L+PRE VL++R+G+ TLEE+G+ F VTRERIRQ Sbjct: 296 TPEDQVSKNLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 355 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 IEAKA+RKL+HP+R+ L+ ++ Sbjct: 356 IEAKALRKLRHPNRNSVLKEYI 377 >gi|169630092|ref|YP_001703741.1| RNA polymerase sigma factor [Mycobacterium abscessus ATCC 19977] gi|169242059|emb|CAM63087.1| Probable RNA polymerase sigma factor RpoD (Sigma-A) [Mycobacterium abscessus] Length = 467 Score = 273 bits (698), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 230 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 289 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 290 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 349 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 350 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 409 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 410 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 467 Score = 47.8 bits (112), Expect = 0.007, Method: Compositional matrix adjust. Identities = 29/70 (41%), Positives = 40/70 (57%), Gaps = 1/70 (1%) Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 GDD E E + S D S Q RKD+ ++ D VR YL+++G + LL+ E E Sbjct: 127 GDD-EPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEE 185 Query: 140 IAIAKRIEAG 149 + +AKRIEAG Sbjct: 186 VELAKRIEAG 195 >gi|4587113|dbj|BAA76622.1| RpoT [Mycobacterium leprae] Length = 576 Score = 273 bits (698), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 134/262 (51%), Positives = 188/262 (71%), Gaps = 4/262 (1%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T + ++ R ++ + R G+ AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+ Sbjct: 319 TKLPTAQRRDMMWICRDGDR----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNL 374 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 375 GLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQREL 434 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV Sbjct: 435 LQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVV 494 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQI Sbjct: 495 AVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQI 554 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E+K + KL+HPSRS+ LR +LD Sbjct: 555 ESKTMSKLRHPSRSQVLRDYLD 576 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 34/102 (33%), Positives = 51/102 (50%), Gaps = 2/102 (1%) Query: 60 SEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDD 119 +E E T A ++ D + +E E + S D S Q RKD+ ++ D Sbjct: 215 TEDGEATAATKTDEASTDDDEEIVEPTEKDKASGDFVWDEDESEALRQARKDAELTASAD 274 Query: 120 PVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 275 SVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 316 >gi|282896628|ref|ZP_06304643.1| sigA (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281198498|gb|EFA73384.1| sigA (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 390 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 137/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 139 LPLPTFRYRLHVGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 191 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 192 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 251 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 252 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 310 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D ++ LRE RVL SL PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 311 DQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 370 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 371 KALRKLRHPNRNSVLKEYI 389 >gi|172040581|ref|YP_001800295.1| RNA polymerase sigma factor [Corynebacterium urealyticum DSM 7109] gi|171851885|emb|CAQ04861.1| RNA polymerase sigma factor A [Corynebacterium urealyticum DSM 7109] Length = 545 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 308 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 367 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+A+++ + V+ V Sbjct: 368 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAREMDITVDKV 427 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 428 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 487 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 488 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 545 Score = 48.5 bits (114), Expect = 0.004, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 35/48 (72%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q R+D+A ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 226 SAALRQARRDAALTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 273 >gi|317008763|gb|ADU79343.1| RNA polymerase sigma factor RpoD [Helicobacter pylori India7] Length = 676 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 415 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 474 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 475 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 534 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 535 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 594 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 595 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 654 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 655 SSAIKKLRSPQYGRILRNYL 674 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 161 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 218 >gi|145224520|ref|YP_001135198.1| RNA polymerase sigma factor [Mycobacterium gilvum PYR-GCK] gi|315444851|ref|YP_004077730.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|145217006|gb|ABP46410.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium gilvum PYR-GCK] gi|315263154|gb|ADT99895.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 488 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 251 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 310 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 311 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 370 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 371 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 430 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 431 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 488 Score = 46.2 bits (108), Expect = 0.019, Method: Compositional matrix adjust. Identities = 32/84 (38%), Positives = 44/84 (52%), Gaps = 3/84 (3%) Query: 79 DGDDL-EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 D D L E E + S D S Q RKD+ ++ D VR YL+++G + LL+ E Sbjct: 145 DDDSLPEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAE 204 Query: 138 GEIAIAKRIEAGR--AMMMASLCE 159 E+ +AKRIEAG +MA E Sbjct: 205 EEVELAKRIEAGLYCTQLMAEFAE 228 >gi|312139434|ref|YP_004006770.1| sigma-70 factor siga [Rhodococcus equi 103S] gi|325672677|ref|ZP_08152373.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] gi|311888773|emb|CBH48085.1| sigma-70 factor SigA [Rhodococcus equi 103S] gi|325556554|gb|EGD26220.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] Length = 459 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 222 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 281 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 282 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 341 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 342 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 401 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 402 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 459 Score = 45.1 bits (105), Expect = 0.043, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 140 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAG 187 >gi|68536164|ref|YP_250869.1| RNA polymerase sigma factor [Corynebacterium jeikeium K411] gi|68263763|emb|CAI37251.1| RNA polymerase sigma factor A [Corynebacterium jeikeium K411] Length = 544 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 307 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYVKGYKFSTYATWW 366 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+A+++ + V+ V Sbjct: 367 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAREMDITVDKV 426 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 427 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLHTLSER 486 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 487 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 544 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 225 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 272 >gi|266625476|ref|ZP_06118411.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] gi|288862622|gb|EFC94920.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479] Length = 381 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 126/237 (53%), Positives = 178/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GYK STYA WW Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ E+A L M + V Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELADALDMSEDKV 264 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE +L L R Sbjct: 265 MEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDALLGDLKER 324 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 325 ERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 381 Score = 46.6 bits (109), Expect = 0.013, Method: Compositional matrix adjust. Identities = 37/126 (29%), Positives = 64/126 (50%), Gaps = 13/126 (10%) Query: 33 KMIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV---DGDDLEDEEG 88 K+++L + + + + E+N F D ++ EQM+ + L N G++V+ D L D+ Sbjct: 12 KLVELGKTKHNALDVTEINNFFMGDSLTPEQMDQIYSYLENRGVDVIPVIDDSILADDVL 71 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLREMGSIELLSREGE 139 D L + S ++ D T+DPVRMYL+E+G++ LLS + E Sbjct: 72 LSDDALLLDDDLDDSFIKGADEEDIDLDAIDLLEGIGTEDPVRMYLKEIGTVPLLSADEE 131 Query: 140 IAIAKR 145 + +AKR Sbjct: 132 LRLAKR 137 >gi|317013514|gb|ADU80950.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Gambia94/24] Length = 681 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 420 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 479 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 480 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 539 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 540 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 599 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 600 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 659 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 660 SSAIKKLRSPQYGRILRNYL 679 Score = 57.8 bits (138), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 166 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 223 >gi|269219424|ref|ZP_06163278.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces sp. oral taxon 848 str. F0332] gi|269211120|gb|EEZ77460.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces sp. oral taxon 848 str. F0332] Length = 592 Score = 273 bits (697), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 132/238 (55%), Positives = 175/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 355 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDFTKGFKFSTYATWW 414 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPT E+AK+L M E V Sbjct: 415 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTTIELAKELDMTEEKV 474 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G++ S GD IED AV P D+ L+E +VL +L+ R Sbjct: 475 IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVGFTLLQEQLRQVLDTLSER 534 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ TL+E+GK + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 535 EAGVVAMRFGLTDGQTKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 592 Score = 42.4 bits (98), Expect = 0.30, Method: Compositional matrix adjust. Identities = 27/83 (32%), Positives = 47/83 (56%), Gaps = 13/83 (15%) Query: 80 GDDLEDEEGSED----SLDLASSASNSSVFLQKRKDSADR---------STDDPVRMYLR 126 G+D +D++G+E +L + ++ F K D +D +T DPV+ YL+ Sbjct: 239 GEDSDDKDGTERPRGRNLTEDAIPASKGAFTMKDSDESDEPAVRVHVAGATADPVKDYLK 298 Query: 127 EMGSIELLSREGEIAIAKRIEAG 149 ++G + LL+ E E+ +A+RIEAG Sbjct: 299 QIGKVPLLNAEEEVELARRIEAG 321 >gi|25991936|gb|AAN76995.1|AF481769_1 primary sigma 70 transcriptional factor [Frankia sp. ACN14a] Length = 385 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 124/238 (52%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 148 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 207 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REPT EE+A +L MP+E V Sbjct: 208 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQV 267 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A +++ VL L PR Sbjct: 268 VELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYGAMQDEIENVLGGLNPR 327 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ HTL EVG + +TRERIRQIE +R+L+ P+ + +LR FLD Sbjct: 328 EREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLREFLD 385 Score = 40.4 bits (93), Expect = 0.96, Method: Compositional matrix adjust. Identities = 35/131 (26%), Positives = 57/131 (43%), Gaps = 19/131 (14%) Query: 19 DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 DD D S + ++I R+ G ++ EL L ++ E + +A LS G+ ++ Sbjct: 6 DDGDELDVS--AVAEVIARGREAGEISRSELRDALESADIGLELLPALIAKLSAAGVELL 63 Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 + V R + T D VRMYLRE+G + LL+ Sbjct: 64 -----------------EEEETTDDVTAATRSTAEHAGTADLVRMYLREIGKVPLLNAAQ 106 Query: 139 EIAIAKRIEAG 149 E+ ++KR+EAG Sbjct: 107 EVELSKRVEAG 117 >gi|108562514|ref|YP_626830.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPAG1] gi|107836287|gb|ABF84156.1| RNA polymerase sigma-80 factor [Helicobacter pylori HPAG1] Length = 692 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 434 NKLKEILEQIKRGKLISDRAKNKMAQSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 493 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 494 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQETG 553 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 554 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 613 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 614 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 673 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 674 IKKLRSPQYGRILRNYL 690 >gi|15611152|ref|NP_222803.1| RNA polymerase sigma factor RpoD [Helicobacter pylori J99] gi|11387124|sp|Q9ZMY3|RPOD_HELPJ RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|4154591|gb|AAD05665.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99] Length = 681 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 420 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 479 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 480 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 539 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 540 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 599 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 600 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 659 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 660 SSAIKKLRSPQYGRILRNYL 679 Score = 57.4 bits (137), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 166 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 223 >gi|186686393|ref|YP_001869589.1| RNA polymerase sigma factor RpoD [Nostoc punctiforme PCC 73102] gi|8118663|gb|AAF73062.1|AF265349_1 primary vegetative sigma factor [Nostoc punctiforme] gi|186468845|gb|ACC84646.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 389 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 136/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 138 LPLPAFRYRLHVGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 190 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 191 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 250 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 251 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 309 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + LRE +VL SL+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 310 DQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 369 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 370 KALRKLRHPNRNSVLKEYI 388 >gi|300781032|ref|ZP_07090886.1| RNA polymerase sigma factor rpoD [Corynebacterium genitalium ATCC 33030] gi|300532739|gb|EFK53800.1| RNA polymerase sigma factor rpoD [Corynebacterium genitalium ATCC 33030] Length = 536 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 129/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 299 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 358 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 359 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 418 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 419 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLHTLSER 478 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 479 EAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 536 Score = 47.0 bits (110), Expect = 0.012, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 33/48 (68%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL E E+++AKRIEAG Sbjct: 211 SAALRQARKDAQLTASADSVRAYLKQIGKVALLDAEQEVSLAKRIEAG 258 >gi|225388598|ref|ZP_03758322.1| hypothetical protein CLOSTASPAR_02334 [Clostridium asparagiforme DSM 15981] gi|225045346|gb|EEG55592.1| hypothetical protein CLOSTASPAR_02334 [Clostridium asparagiforme DSM 15981] Length = 405 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 137/272 (50%), Positives = 188/272 (69%), Gaps = 3/272 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IR +K I ++ E + +G+ EA K +VEANLRLV+S+AK+YT RG+ Sbjct: 136 IREYLKEIGAIALLTPEEEAGLAKRCAEGDEEAG---KRLVEANLRLVVSIAKRYTGRGM 192 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDL+QEGNIGLMKA EKFD+ GY+ STYA WWVKQAITR++ADQ+ TIR+PVHM + Sbjct: 193 SFLDLVQEGNIGLMKAVEKFDYEKGYRLSTYATWWVKQAITRALADQARTIRLPVHMVEA 252 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++K+ RT R +S ++ R+P+ E+A+ + M + V ++++ + + +SLETP+GDED S L Sbjct: 253 VNKIRRTQRDLSVQLGRDPSNRELAEAVGMTEKRVEELIQTSGDTVSLETPVGDEDGSSL 312 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDF+ D S D A LRE +L L RE +V+++RFG+ TLEEVG+Q Sbjct: 313 GDFVADNAGDSTEDQAENVLLREEIDSMLQGLNERERQVIKLRFGLENGRPLTLEEVGRQ 372 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F VTRERIRQIE A+RKL++P RSKK+R FL Sbjct: 373 FNVTRERIRQIETAALRKLRNPVRSKKVRDFL 404 Score = 41.6 bits (96), Expect = 0.51, Method: Compositional matrix adjust. Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRI-----EAGRAMMMASL 157 ST DP+R YL+E+G+I LL+ E E +AKR EAG+ ++ A+L Sbjct: 131 STGDPIREYLKEIGAIALLTPEEEAGLAKRCAEGDEEAGKRLVEANL 177 >gi|288920765|ref|ZP_06415065.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] gi|288347841|gb|EFC82118.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EUN1f] Length = 425 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 124/243 (51%), Positives = 178/243 (73%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EKFD+ GYKFST Sbjct: 183 TDGQAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFST 242 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REPT EE+A +L M Sbjct: 243 YATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELAFELDM 302 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A +++ VL Sbjct: 303 PIEQVVELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYGAMQDEIDNVLG 362 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L PRE V+R+RFG+ HTL EVG + +TRERIRQIE +R+L+ P+ + +LR Sbjct: 363 ALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLRE 422 Query: 679 FLD 681 FLD Sbjct: 423 FLD 425 Score = 41.2 bits (95), Expect = 0.57, Method: Compositional matrix adjust. Identities = 33/117 (28%), Positives = 58/117 (49%), Gaps = 13/117 (11%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I R+ G ++ EL L ++ E + +A L GI++V E+ Sbjct: 54 ELIARGRETGELSRAELREALEAADIGVELLPALIARLGAAGIDLV-----------EEE 102 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + + + ++ + D A T D VRMYLRE+G + LL+ E+ ++KR+EAG Sbjct: 103 EESERAPAGATTPGRTVADHA--GTADLVRMYLREIGKVPLLNAAQEVELSKRVEAG 157 >gi|260578861|ref|ZP_05846767.1| RNA polymerase principal sigma factor SigA [Corynebacterium jeikeium ATCC 43734] gi|258603008|gb|EEW16279.1| RNA polymerase principal sigma factor SigA [Corynebacterium jeikeium ATCC 43734] Length = 552 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 315 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYVKGYKFSTYATWW 374 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+A+++ + V+ V Sbjct: 375 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAREMDITVDKV 434 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 435 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLHTLSER 494 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 495 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 552 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 233 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 280 >gi|269793869|ref|YP_003313324.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Sanguibacter keddieii DSM 10542] gi|269096054|gb|ACZ20490.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase sigma factor, sigma-70 family [Sanguibacter keddieii DSM 10542] Length = 342 Score = 273 bits (697), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 133/238 (55%), Positives = 173/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +VEANLRLV+S+AKKYT RGL FLDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 105 AKSHLVEANLRLVVSIAKKYTGRGLLFLDLIQEGNTGLIRAVEKFDYAKGFKFSTYATWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQ+ TIRIPVHM + I+KV R R+M + REPTPEE+A +L M E V Sbjct: 165 IRQAITRGMADQARTIRIPVHMVEVINKVSRAQRQMLQDLGREPTPEELALELDMTPEKV 224 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G+E S GD IED AV P D+ + L++ +L +L+ R Sbjct: 225 LEVQKHGREPISLHTPLGEEGGSEFGDLIEDTEAVVPADAVNFSFLQQQIHGILDTLSER 284 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MR+G+ TL+++G + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 285 EAGVITMRYGLTDGLPKTLDQIGHVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 342 Score = 41.6 bits (96), Expect = 0.48, Method: Compositional matrix adjust. Identities = 24/48 (50%), Positives = 31/48 (64%), Gaps = 2/48 (4%) Query: 113 ADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 A +T DPV+ YL+ +G + LL+ E EI IA RIEAG M+ A ES Sbjct: 38 AAGATADPVKDYLKIIGRVPLLNAEQEIEIAMRIEAG--MLAAHYLES 83 >gi|317010368|gb|ADU84115.1| RNA polymerase sigma factor RpoD [Helicobacter pylori SouthAfrica7] Length = 685 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 427 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 486 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 487 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKYMQENG 546 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 547 KEPDLELVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 606 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 607 MREDLKAQIDGVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 666 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 667 IKKLRSPQYGRILRNYL 683 >gi|308371101|ref|ZP_07423832.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu003] gi|308379284|ref|ZP_07485758.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu010] gi|308405944|ref|ZP_07494511.2| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu012] gi|308329814|gb|EFP18665.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu003] gi|308357496|gb|EFP46347.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu010] gi|308365045|gb|EFP53896.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu012] gi|323718698|gb|EGB27860.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CDC1551A] Length = 530 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 293 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 352 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 353 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 412 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 413 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 472 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 473 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 530 Score = 45.4 bits (106), Expect = 0.032, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 211 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 270 >gi|1072017|gb|AAA81640.1| sigma factor [Mycobacterium bovis] gi|1072019|gb|AAA81641.1| sigma factor [Mycobacterium bovis] Length = 528 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 528 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|15609840|ref|NP_217219.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Rv] gi|15842241|ref|NP_337278.1| RNA polymerase sigma factor [Mycobacterium tuberculosis CDC1551] gi|31793875|ref|NP_856368.1| RNA polymerase sigma factor [Mycobacterium bovis AF2122/97] gi|121638578|ref|YP_978802.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148662544|ref|YP_001284067.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|148823893|ref|YP_001288647.1| RNA polymerase sigma factor [Mycobacterium tuberculosis F11] gi|167970074|ref|ZP_02552351.1| RNA polymerase sigma factor RpoD [Mycobacterium tuberculosis H37Ra] gi|218754439|ref|ZP_03533235.1| RNA polymerase sigma factor [Mycobacterium tuberculosis GM 1503] gi|224991070|ref|YP_002645759.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253798215|ref|YP_003031216.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 1435] gi|254551759|ref|ZP_05142206.1| RNA polymerase sigma factor [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260187720|ref|ZP_05765194.1| RNA polymerase sigma factor [Mycobacterium tuberculosis CPHL_A] gi|289448358|ref|ZP_06438102.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CPHL_A] gi|289553511|ref|ZP_06442721.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 605] gi|289762874|ref|ZP_06522252.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis GM 1503] gi|294994205|ref|ZP_06799896.1| RNA polymerase sigma factor [Mycobacterium tuberculosis 210] gi|297635311|ref|ZP_06953091.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN 4207] gi|297732307|ref|ZP_06961425.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN R506] gi|306780885|ref|ZP_07419222.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu002] gi|306790106|ref|ZP_07428428.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu004] gi|306798608|ref|ZP_07436910.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu006] gi|306804467|ref|ZP_07441135.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu008] gi|306807495|ref|ZP_07444163.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu007] gi|306968762|ref|ZP_07481423.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu009] gi|307080806|ref|ZP_07489976.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu011] gi|313659640|ref|ZP_07816520.1| RNA polymerase sigma factor [Mycobacterium tuberculosis KZN V2475] gi|61234251|sp|P0A602|RPOD_MYCTU RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|61234258|sp|P0A603|RPOD_MYCBO RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1072023|gb|AAA81643.1| sigma factor [Mycobacterium bovis] gi|1072025|gb|AAA81644.1| sigma factor [Mycobacterium tuberculosis str. Erdman] gi|1171102|gb|AAA86043.1| sigma factor MysA [Mycobacterium tuberculosis H37Rv] gi|2181994|emb|CAB09463.1| RNA POLYMERASE SIGMA FACTOR SIGA (SIGMA-A) [Mycobacterium tuberculosis H37Rv] gi|13882532|gb|AAK47092.1| RNA polymerase principal sigma factor SigA [Mycobacterium tuberculosis CDC1551] gi|31619469|emb|CAD94907.1| RNA POLYMERASE SIGMA FACTOR SIGA (SIGMA-A) [Mycobacterium bovis AF2122/97] gi|121494226|emb|CAL72704.1| RNA polymerase sigma factor sigA [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148506696|gb|ABQ74505.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|148722420|gb|ABR07045.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis F11] gi|224774185|dbj|BAH26991.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253319718|gb|ACT24321.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 1435] gi|289421316|gb|EFD18517.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis CPHL_A] gi|289438143|gb|EFD20636.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 605] gi|289710380|gb|EFD74396.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis GM 1503] gi|308326286|gb|EFP15137.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu002] gi|308333457|gb|EFP22308.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu004] gi|308341125|gb|EFP29976.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu006] gi|308346090|gb|EFP34941.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu007] gi|308348951|gb|EFP37802.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu008] gi|308353649|gb|EFP42500.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu009] gi|308361450|gb|EFP50301.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis SUMu011] gi|326904319|gb|EGE51252.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis W-148] gi|328457987|gb|AEB03410.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis KZN 4207] Length = 528 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 528 Score = 45.4 bits (106), Expect = 0.032, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|41408918|ref|NP_961754.1| RNA polymerase sigma factor [Mycobacterium avium subsp. paratuberculosis K-10] gi|41397277|gb|AAS05137.1| SigA [Mycobacterium avium subsp. paratuberculosis K-10] Length = 509 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 272 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 331 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + REPTPEE+AK++ + E V Sbjct: 332 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDPGREPTPEELAKEMDITPEKV 391 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 392 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 451 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 452 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 509 Score = 45.4 bits (106), Expect = 0.034, Method: Compositional matrix adjust. Identities = 31/88 (35%), Positives = 46/88 (52%), Gaps = 4/88 (4%) Query: 76 NVVDGDD--LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 V D DD E E + S D S Q R+D+ ++ D VR YL+++G + L Sbjct: 162 TVADEDDEIAEPSEKDKASGDFVWDEDESEALRQARRDAELTASADSVRAYLKQIGKVAL 221 Query: 134 LSREGEIAIAKRIEAG--RAMMMASLCE 159 L+ E E+ +AKRIEAG +M+ + E Sbjct: 222 LNAEEEVELAKRIEAGLYATQLMSEMAE 249 >gi|317011933|gb|ADU82541.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Lithuania75] Length = 680 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 422 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 481 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 482 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 541 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 542 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 601 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 602 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 661 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 662 IKKLRSPQYGRILRNYL 678 >gi|289570879|ref|ZP_06451106.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17] gi|289544633|gb|EFD48281.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17] Length = 528 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 528 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|217032875|ref|ZP_03438353.1| hypothetical protein HPB128_1g12 [Helicobacter pylori B128] gi|298736968|ref|YP_003729498.1| RNA polymerase primary sigma factor [Helicobacter pylori B8] gi|216945415|gb|EEC24081.1| hypothetical protein HPB128_1g12 [Helicobacter pylori B128] gi|298356162|emb|CBI67034.1| RNA polymerase primary sigma factor [Helicobacter pylori B8] Length = 679 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 418 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 477 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 478 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 537 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 538 ENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 597 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 598 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 657 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 658 SSAIKKLRSPQYGRILRNYL 677 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 164 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 221 >gi|307636779|gb|ADN79229.1| RNA polymerase sigma factor [Helicobacter pylori 908] gi|325995367|gb|ADZ50772.1| RNA polymerase sigma factor [Helicobacter pylori 2018] gi|325996964|gb|ADZ49172.1| RNA polymerase sigma factor [Helicobacter pylori 2017] Length = 681 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 420 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 479 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 480 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 539 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 540 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 599 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 600 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 659 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 660 SSAIKKLRSPQYGRILRNYL 679 Score = 57.4 bits (137), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 166 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 223 >gi|300933014|ref|ZP_07148270.1| RNA polymerase sigma factor [Corynebacterium resistens DSM 45100] Length = 571 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 129/248 (52%), Positives = 183/248 (73%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+ E + AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G Sbjct: 324 LREIERDGRRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYVKG 383 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP+PEE+A Sbjct: 384 YKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPSPEELA 443 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ + V+ V ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ Sbjct: 444 REMDITVDKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQL 503 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L+ RE V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS Sbjct: 504 QDVLHTLSDREAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRS 563 Query: 674 KKLRSFLD 681 + LR +LD Sbjct: 564 QVLRDYLD 571 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 252 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 299 >gi|111225055|ref|YP_715849.1| alternative primary sigma 70 transcriptional factor [Frankia alni ACN14a] gi|111152587|emb|CAJ64329.1| Alternative primary sigma 70 transcriptional factor [Frankia alni ACN14a] Length = 373 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 124/238 (52%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 136 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REPT EE+A +L MP+E V Sbjct: 196 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A +++ VL L PR Sbjct: 256 VELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYGAMQDEIENVLGGLNPR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ HTL EVG + +TRERIRQIE +R+L+ P+ + +LR FLD Sbjct: 316 EREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLREFLD 373 Score = 40.4 bits (93), Expect = 1.0, Method: Compositional matrix adjust. Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 17/117 (14%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I R+ G ++ EL L ++ E + +A LS G+ ++ Sbjct: 6 EVIARGREAGEISRSELRDALESADIGLELLPALIAKLSAAGVELL-------------- 51 Query: 93 LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + V R + T D VRMYLRE+G + LL+ E+ ++KR+EAG Sbjct: 52 ---EEEETTDDVTAATRSTAEHAGTADLVRMYLREIGKVPLLNAAQEVELSKRVEAG 105 >gi|254778811|ref|YP_003056916.1| RNA polymerase sigma factor RpoD [Helicobacter pylori B38] gi|254000722|emb|CAX28640.1| RNA polymerase sigma factor rpoD (Sigma-70) [Helicobacter pylori B38] Length = 679 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 418 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 477 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 478 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 537 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 538 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 597 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 598 DHIMREDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 657 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 658 SSAIKKLRSPQYGRILRNYL 677 Score = 57.8 bits (138), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 164 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 221 >gi|219558712|ref|ZP_03537788.1| RNA polymerase sigma factor [Mycobacterium tuberculosis T17] Length = 530 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 293 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 352 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 353 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 412 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 413 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 472 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 473 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 530 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 211 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 270 >gi|81299460|ref|YP_399668.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 7942] gi|93141306|sp|P38023|RPOD1_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD1 gi|81168341|gb|ABB56681.1| Sigma-70 factor [Synechococcus elongatus PCC 7942] Length = 399 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 180/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 163 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 222 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 223 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 282 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL++L+PR Sbjct: 283 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPR 341 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 342 ERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 398 >gi|227872476|ref|ZP_03990816.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus F0268] gi|227841677|gb|EEJ51967.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus F0268] Length = 385 Score = 272 bits (696), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 126/237 (53%), Positives = 180/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD G+K STYA WW Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ +E+A+ L M E V Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++++I +EP SLETPIG+ED S+LGDF+ D N +SP + LRE +L L R Sbjct: 268 QEIMQIAREPASLETPIGEEDDSNLGDFVADTNVLSPEGNVESVMLREHIDTLLGDLKER 327 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 328 ERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 384 Score = 46.6 bits (109), Expect = 0.015, Method: Compositional matrix adjust. Identities = 38/129 (29%), Positives = 65/129 (50%), Gaps = 15/129 (11%) Query: 58 VSSEQMEDTVAMLSNMGINV---VDGDDLE--DEEGSEDSLDLASSASNSSVFLQKRK-- 110 ++ EQME + +L N GI + +D D L+ +++G + D + F+++ + Sbjct: 38 LNEEQMEQVLLLLENKGIEINPILDEDALKTIEKDGDKAEPDALLPLEDDDDFVKEEEGE 97 Query: 111 ----DSADR----STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 D+ D T+DPVRMYL+E+G++ LL+ E E A+A + + G L E+ L Sbjct: 98 EIDLDAVDLLEGIGTEDPVRMYLKEIGTVPLLTAEEEYALAMKKQEGDEYAKQRLIEANL 157 Query: 163 TFQALIIWR 171 I R Sbjct: 158 RLVVSIAKR 166 >gi|239931428|ref|ZP_04688381.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 430 Score = 272 bits (695), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/239 (53%), Positives = 180/239 (75%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 192 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 251 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + REPTPEE+A L +P E Sbjct: 252 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGREPTPEEVAAHLDLPPER 311 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 312 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 371 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 372 RERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 430 >gi|210134292|ref|YP_002300731.1| RNA polymerase sigma factor RpoD [Helicobacter pylori P12] gi|210132260|gb|ACJ07251.1| RNA polymerase sigma-80 factor [Helicobacter pylori P12] Length = 680 Score = 272 bits (695), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 419 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 478 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 479 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 538 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 539 ENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 598 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 599 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 658 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 659 SSAIKKLRSPQYGRILRNYL 678 >gi|332707223|ref|ZP_08427276.1| RNA polymerase sigma factor RpoD-like protein [Lyngbya majuscula 3L] gi|332353957|gb|EGJ33444.1| RNA polymerase sigma factor RpoD-like protein [Lyngbya majuscula 3L] Length = 373 Score = 272 bits (695), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 136/264 (51%), Positives = 191/264 (72%), Gaps = 8/264 (3%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 + E + + FR+ + + R+ AK++MV++NLRLV+S+AKKY NRGL F DLIQE Sbjct: 117 ATEVDMELPAFRYRLHVGRR-------AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQE 169 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T Sbjct: 170 GSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTT 229 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + Sbjct: 230 KLLSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-AD 288 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTRERI Sbjct: 289 GETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERI 348 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 349 RQIEAKALRKLRHPNRNSILKEYI 372 >gi|298491609|ref|YP_003721786.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298233527|gb|ADI64663.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 390 Score = 272 bits (695), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 136/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + FR+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 139 LPLPTFRYRLHVGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 191 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 192 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 251 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 252 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 310 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + LRE +VL SL+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 311 DQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 370 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 371 KALRKLRHPNRNSVLKEYI 389 >gi|118618666|ref|YP_906998.1| RNA polymerase sigma factor [Mycobacterium ulcerans Agy99] gi|118570776|gb|ABL05527.1| RNA polymerase sigma factor SigA [Mycobacterium ulcerans Agy99] Length = 501 Score = 272 bits (695), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 264 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 323 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 324 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 383 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 384 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 443 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 444 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 501 Score = 45.8 bits (107), Expect = 0.024, Method: Compositional matrix adjust. Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 2/78 (2%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 E E + S D S Q RKD+ ++ D VR YL+++G + LL+ E E+ +A Sbjct: 164 EPSEKDKASGDFVWDEDESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELA 223 Query: 144 KRIEAG--RAMMMASLCE 159 KRIEAG +MA L + Sbjct: 224 KRIEAGLYATQLMAELTD 241 >gi|261838959|gb|ACX98724.1| sigma 70 (RpoD) [Helicobacter pylori 52] Length = 685 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 427 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 486 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 487 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 546 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 547 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 606 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 607 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 666 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 667 IKKLRSPQYGRILRNYL 683 >gi|213964575|ref|ZP_03392775.1| RNA polymerase sigma factor A [Corynebacterium amycolatum SK46] gi|213952768|gb|EEB64150.1| RNA polymerase sigma factor A [Corynebacterium amycolatum SK46] Length = 520 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 133/260 (51%), Positives = 187/260 (71%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ ++ R + + R G+ AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL Sbjct: 265 IAYAQKRDLREISRDGQR----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGL 320 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 321 IRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQ 380 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV + Sbjct: 381 DLGREPTPEELAKEMDITEEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAV 440 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+ Sbjct: 441 DAVSFTLLQDQLGDVLETLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIES 500 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 K + KL+HPSRS+ LR +L+ Sbjct: 501 KTMSKLRHPSRSQVLRDYLE 520 Score = 48.1 bits (113), Expect = 0.004, Method: Compositional matrix adjust. Identities = 23/48 (47%), Positives = 35/48 (72%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+A ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 201 SARLRQARKDAALTASADSVRAYLKQIGKVALLTAEEEVSLAKRIEAG 248 >gi|29832222|ref|NP_826856.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29609340|dbj|BAC73391.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 389 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 126/239 (52%), Positives = 179/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 151 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 210 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L +P E Sbjct: 211 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPGER 270 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 271 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLREHLDAVLSTLGE 330 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 331 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 389 >gi|56750888|ref|YP_171589.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 6301] gi|56685847|dbj|BAD79069.1| principal RNA polymerase sigma factor RpoD1 [Synechococcus elongatus PCC 6301] Length = 399 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 180/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 163 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 222 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 223 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 282 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL++L+PR Sbjct: 283 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPR 341 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 342 ERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 398 >gi|317179895|dbj|BAJ57681.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F32] Length = 671 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 413 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 472 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 473 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 532 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 533 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 592 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 593 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 652 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 653 IKKLRSPQYGRILRNYL 669 >gi|208434051|ref|YP_002265717.1| RNA polymerase sigma-80 factor [Helicobacter pylori G27] gi|208431980|gb|ACI26851.1| RNA polymerase sigma-80 factor [Helicobacter pylori G27] Length = 682 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 421 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 480 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 481 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 540 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 541 ENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 600 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE Sbjct: 601 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIE 660 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 661 SSAIKKLRSPQYGRILRNYL 680 Score = 58.5 bits (140), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 40/58 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D+PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 167 SDNPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 224 >gi|317179521|dbj|BAJ57309.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F30] Length = 666 Score = 272 bits (695), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 408 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 467 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 468 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 527 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 528 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 587 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 588 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 647 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 648 IKKLRSPQYGRILRNYL 664 >gi|183982025|ref|YP_001850316.1| RNA polymerase sigma factor SigA [Mycobacterium marinum M] gi|183175351|gb|ACC40461.1| RNA polymerase sigma factor SigA [Mycobacterium marinum M] Length = 501 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 264 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 323 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 324 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 383 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 384 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 443 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 444 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 501 Score = 45.8 bits (107), Expect = 0.027, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +MA L + Sbjct: 182 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMAELTD 241 >gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942] Length = 384 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 180/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 148 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 207 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 208 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 267 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL++L+PR Sbjct: 268 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPR 326 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 327 ERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 383 >gi|302551232|ref|ZP_07303574.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302468850|gb|EFL31943.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 438 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 126/239 (52%), Positives = 179/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 200 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 259 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L +P E Sbjct: 260 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLELPPER 319 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 320 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 379 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 380 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 438 >gi|1072021|gb|AAA81642.1| sigma factor [Mycobacterium bovis] Length = 528 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL HPSRS+ LR +LD Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLHHPSRSQVLRDYLD 528 Score = 45.4 bits (106), Expect = 0.030, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|126434760|ref|YP_001070451.1| RNA polymerase sigma factor [Mycobacterium sp. JLS] gi|126234560|gb|ABN97960.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. JLS] Length = 480 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 243 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 302 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 303 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 362 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 363 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 422 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 423 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 480 Score = 45.4 bits (106), Expect = 0.029, Method: Compositional matrix adjust. Identities = 29/72 (40%), Positives = 40/72 (55%), Gaps = 6/72 (8%) Query: 84 EDEEGSEDS------LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 EDEE +E S D S Q RKD+ ++ D VR YL+++G + LL+ E Sbjct: 137 EDEEIAEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAE 196 Query: 138 GEIAIAKRIEAG 149 E+ +AKRIEAG Sbjct: 197 EEVELAKRIEAG 208 >gi|308062951|gb|ADO04838.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Sat464] Length = 666 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 408 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 467 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 468 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 527 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 528 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 587 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 588 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 647 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 648 IKKLRSPQYGRILRNYL 664 >gi|108799152|ref|YP_639349.1| RNA polymerase sigma factor [Mycobacterium sp. MCS] gi|119868267|ref|YP_938219.1| RNA polymerase sigma factor [Mycobacterium sp. KMS] gi|108769571|gb|ABG08293.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119694356|gb|ABL91429.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. KMS] Length = 480 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 243 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 302 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 303 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 362 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 363 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 422 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 423 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 480 Score = 45.4 bits (106), Expect = 0.029, Method: Compositional matrix adjust. Identities = 29/72 (40%), Positives = 40/72 (55%), Gaps = 6/72 (8%) Query: 84 EDEEGSEDS------LDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 EDEE +E S D S Q RKD+ ++ D VR YL+++G + LL+ E Sbjct: 137 EDEEIAEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAE 196 Query: 138 GEIAIAKRIEAG 149 E+ +AKRIEAG Sbjct: 197 EEVELAKRIEAG 208 >gi|2522316|gb|AAB81010.1| RNA polymerase principal sigma factor RpoD [Helicobacter pylori] Length = 680 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 126/260 (48%), Positives = 193/260 (74%), Gaps = 1/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGL Sbjct: 419 LAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGL 478 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ Sbjct: 479 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 538 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS + Sbjct: 539 ETGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSI 598 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ VL L RE+ V+RMRFG + ++ TLEE+GK+ VTRER+RQIE Sbjct: 599 DHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESERTLEEIGKELNVTRERVRQIE 658 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 + AI+KL+ P + LR++L Sbjct: 659 SSAIKKLRSPQYGRILRNYL 678 Score = 57.8 bits (138), Expect = 6e-06, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 39/58 (67%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 +D PVRMYLREMG I+LLS++ EI ++K+I G +++ ++C P + ++D L Sbjct: 165 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDAL 222 >gi|291439801|ref|ZP_06579191.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291342696|gb|EFE69652.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 390 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/239 (53%), Positives = 180/239 (75%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 152 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 211 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + REPTPEE+A L +P E Sbjct: 212 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGREPTPEEVAAHLDLPPER 271 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 272 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 331 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 332 RERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 390 >gi|196234461|ref|ZP_03133287.1| RNA polymerase, sigma 32 subunit, RpoH [Chthoniobacter flavus Ellin428] gi|196221517|gb|EDY16061.1| RNA polymerase, sigma 32 subunit, RpoH [Chthoniobacter flavus Ellin428] Length = 479 Score = 271 bits (694), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 131/267 (49%), Positives = 190/267 (71%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++++ E ++ SE + +++ + +A A+ EMVE NLRLV+S+A++Y NRG FLD Sbjct: 211 MRNLQAEMWLNPSELNVELQEMKRWQRKALEARTEMVECNLRLVVSIAREYQNRGQPFLD 270 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGNIGLM+A E+F++ GYKF+T A WW++QAI+RSIA+Q+ TIRIP HM D + K+ Sbjct: 271 LIQEGNIGLMRAVERFEYRRGYKFATCATWWIRQAISRSIANQARTIRIPTHMIDLLAKL 330 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R R+M+ + R+PT E++A +L +P+ VR +LK+ +EPIS+ TP+G+E S LGDFI Sbjct: 331 IRVQRQMTQESGRDPTAEDLAGELHLPLRRVRALLKMAEEPISIHTPVGEEGGSRLGDFI 390 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 ED + P A A LRE VL +LT RE +L RFG+ + TLEE+G+ F VT Sbjct: 391 EDHSVEDPSKQAAVAMLREKINAVLHTLTEREREILEQRFGLIDGRERTLEEIGRHFKVT 450 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSF 679 RER+RQIEAKA+RK++HP R ++L+ Sbjct: 451 RERVRQIEAKALRKMRHPERRRQLQGL 477 >gi|261837545|gb|ACX97311.1| transcription initiation factor sigma-80 [Helicobacter pylori 51] Length = 684 Score = 271 bits (693), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 426 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 485 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 486 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 545 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 546 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 605 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 606 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 665 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 666 IKKLRSPQYGRILRNYL 682 >gi|315586085|gb|ADU40466.1| DNA-directed RNA polymerase sigma subunit RpoD [Helicobacter pylori 35A] Length = 680 Score = 271 bits (693), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 422 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 481 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 482 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 541 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 542 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 601 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 602 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 661 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 662 IKKLRSPQYGRILRNYL 678 >gi|332672929|gb|AEE69746.1| DNA-directed RNA polymerase sigma subunit RpoD [Helicobacter pylori 83] Length = 674 Score = 271 bits (693), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 416 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 475 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 476 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 535 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 536 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 595 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 596 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 655 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 656 IKKLRSPQYGRILRNYL 672 >gi|172035791|ref|YP_001802292.1| RNA polymerase sigma factor RpoD [Cyanothece sp. ATCC 51142] gi|171697245|gb|ACB50226.1| group 1 sigma-70 RNA polymerase sigma factor A [Cyanothece sp. ATCC 51142] Length = 416 Score = 271 bits (693), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 137/267 (51%), Positives = 192/267 (71%), Gaps = 8/267 (2%) Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 K+ +E+ + +F+ + + RK AK +MV +NLRLV+S+AKKY NRGL F DL Sbjct: 157 KTWKLESKAYLPKFKRRLYLGRK-------AKDKMVHSNLRLVVSIAKKYMNRGLSFQDL 209 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ Sbjct: 210 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 269 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 +T + +S +++R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE Sbjct: 270 KTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 329 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTR Sbjct: 330 -ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 388 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 389 ERIRQIEAKALRKLRHPNRNSILKEYI 415 >gi|217034615|ref|ZP_03440022.1| hypothetical protein HP9810_881g8 [Helicobacter pylori 98-10] gi|216942910|gb|EEC22397.1| hypothetical protein HP9810_881g8 [Helicobacter pylori 98-10] Length = 671 Score = 271 bits (693), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 413 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 472 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 473 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 532 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 533 KEPDLEVVAEEVRLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 592 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 593 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 652 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 653 IKKLRSPQYGRILRNYL 669 >gi|217077377|ref|YP_002335095.1| RNA polymerase sigma factor RpoD [Thermosipho africanus TCF52B] gi|217037232|gb|ACJ75754.1| RNA polymerase sigma factor RpoD [Thermosipho africanus TCF52B] Length = 371 Score = 271 bits (693), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 131/245 (53%), Positives = 177/245 (72%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + AK+++VE+NLRLV+S+AK+Y +GL FLDLIQEGN+GL+KA EKFDW Sbjct: 118 LARRAQLGDERAKQKLVESNLRLVVSIAKRYVGKGLSFLDLIQEGNVGLLKAVEKFDWKK 177 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAITR+IADQ+ TIR+PVHM + I+KV + R + E EE+ Sbjct: 178 GYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKVQKIMREYYQEHGTEIPIEEL 237 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 AK + PVE V ++L+ KE SLE P+G++D S +GDFI D+ SP A++ +RE Sbjct: 238 AKLIGKPVEKVEEILQAAKETTSLEAPVGEDDDSTVGDFIADETIASPKKEAMRMLIREE 297 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +VL +L RE+ VL+MR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSR Sbjct: 298 VDKVLETLNDREKLVLKMRYGLIDGKAKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSR 357 Query: 673 SKKLR 677 S+ L+ Sbjct: 358 SRYLK 362 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 38/148 (25%), Positives = 70/148 (47%), Gaps = 27/148 (18%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE 84 D D +K+I + +++G+VT E+++ PP++ DG+ LE Sbjct: 8 DSLDSKIEKLIAIGKEKGFVTYEDIDKMFPPEKADE-----------------FDGNVLE 50 Query: 85 D--EEGSEDSLDLASSASNSSV-------FLQKRKDSADR-STDDPVRMYLREMGSIELL 134 EE ++++ + +N + FL++ D +T D ++MYL+++G I LL Sbjct: 51 KVYEELEKNNVAITEETTNDGIEDVTLEDFLEESPKFYDNMATKDLIKMYLKDIGKIPLL 110 Query: 135 SREGEIAIAKRIEAGRAMMMASLCESPL 162 S+ E +A+R + G L ES L Sbjct: 111 SQSMERELARRAQLGDERAKQKLVESNL 138 >gi|188526895|ref|YP_001909582.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Shi470] gi|188143135|gb|ACD47552.1| RNA polymerase sigma factor RpoD [Helicobacter pylori Shi470] Length = 661 Score = 271 bits (693), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 403 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 462 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 463 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 522 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 523 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 582 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 583 MREDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 642 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 643 IKKLRSPQYGRILRNYL 659 >gi|5921146|dbj|BAA84590.1| RNA polymerase sigma 70 [Helicobacter pylori] Length = 675 Score = 271 bits (693), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 126/257 (49%), Positives = 190/257 (73%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 417 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 476 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 477 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 536 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN S +D Sbjct: 537 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIASSIDHI 596 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 597 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 656 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 657 IKKLRSPQYGRILRNYL 673 >gi|284928680|ref|YP_003421202.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A] gi|284809139|gb|ADB94844.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A] Length = 420 Score = 271 bits (692), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 141/284 (49%), Positives = 199/284 (70%), Gaps = 12/284 (4%) Query: 401 CEVDSILKIRNEIKSIS----VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 EV S+L+ + I ++ +E + +F+ + + RK AK +MV +NLRLV Sbjct: 144 SEVTSLLQEKKTISNLEKIWELEQKSYLPKFKRRLYLGRK-------AKDKMVHSNLRLV 196 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 +S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS Sbjct: 197 VSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQS 256 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIR+PVH+ + I ++ +T + +S +++R+PT EEIA ++ M +E +R + K + PISL Sbjct: 257 RTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISL 316 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ETPIG E+ S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ Sbjct: 317 ETPIGKEEDSRLGDFIE-ADGETPEDEVAKNLLREDLENVLDTLSPRERDVLRLRYGLDD 375 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 376 GRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 419 Score = 40.0 bits (92), Expect = 1.4, Method: Compositional matrix adjust. Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%) Query: 78 VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRS--TDDPVRMYLREMGSIELLS 135 +D D E S +S+ N + +R+D++ + T+D +R+YL+E+G I LL Sbjct: 21 IDEDINETSSDSINSITTEPDGKNRKISASRRRDTSKKKPYTEDSIRVYLQEIGRIRLLR 80 Query: 136 REGEIAIAKRI 146 E EI +A++I Sbjct: 81 AEEEIELARKI 91 >gi|126659035|ref|ZP_01730176.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110] gi|126619692|gb|EAZ90420.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110] Length = 416 Score = 271 bits (692), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 137/267 (51%), Positives = 192/267 (71%), Gaps = 8/267 (2%) Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 K+ +E+ + +F+ + + RK AK +MV +NLRLV+S+AKKY NRGL F DL Sbjct: 157 KTWKLESKAYLPKFKRRLYLGRK-------AKDKMVHSNLRLVVSIAKKYMNRGLSFQDL 209 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ Sbjct: 210 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 269 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 +T + +S +++R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE Sbjct: 270 KTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 329 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTR Sbjct: 330 -ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 388 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 389 ERIRQIEAKALRKLRHPNRNSILKEYI 415 Score = 37.4 bits (85), Expect = 9.7, Method: Compositional matrix adjust. Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 2/65 (3%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRS--TDDPVRMYLREMGSIELLSREGEIA 141 ED + S + + A + +R+D + T+D +R+YL+E+G I LL E EI Sbjct: 23 EDPDTSTNDIAEADGKKTRKITASRRRDPGKKKPYTEDSIRVYLQEIGRIRLLRAEEEIE 82 Query: 142 IAKRI 146 +A++I Sbjct: 83 LARKI 87 >gi|119489756|ref|ZP_01622514.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119454330|gb|EAW35480.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 391 Score = 271 bits (692), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 136/259 (52%), Positives = 189/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +++ EFR + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 140 MALPEFRRRLYLGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 192 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 193 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQ 252 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 253 EMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPE 311 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 312 DQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEA 371 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 372 KALRKLRHPNRNSILKEYI 390 >gi|317181391|dbj|BAJ59175.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F57] Length = 665 Score = 271 bits (692), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 191/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 407 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 466 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 467 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 526 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 527 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 586 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 587 MREDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 646 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 647 IKKLRSPQYGRILRNYL 663 >gi|254389040|ref|ZP_05004270.1| RNA polymerase principal sigma factor hrdA [Streptomyces clavuligerus ATCC 27064] gi|326441042|ref|ZP_08215776.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197702757|gb|EDY48569.1| RNA polymerase principal sigma factor hrdA [Streptomyces clavuligerus ATCC 27064] Length = 385 Score = 271 bits (692), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 180/239 (75%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 147 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYATW 206 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A +L +P E Sbjct: 207 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEVAAQLDLPPER 266 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+E+ LGD IED +A SP++SA LRE VL++L Sbjct: 267 VSEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 326 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 327 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 385 Score = 37.4 bits (85), Expect = 8.9, Method: Compositional matrix adjust. Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 7/62 (11%) Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+E+S SA + R +S+ S+D R YLRE+G I LL+ E+ +A+R+E Sbjct: 62 GAEESAPRPGSARTA------RSESSGPSSDL-FRQYLREIGRIPLLTAAEEVELARRVE 114 Query: 148 AG 149 AG Sbjct: 115 AG 116 >gi|239616750|ref|YP_002940072.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia TBF 19.5.1] gi|239505581|gb|ACR79068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia TBF 19.5.1] Length = 405 Score = 270 bits (691), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 140/285 (49%), Positives = 196/285 (68%), Gaps = 7/285 (2%) Query: 400 ACEVDSILKIRNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 A E+ + +++ IK E G ++ S+ R + +KG+ +A ++E++ ANLRL Sbjct: 115 APEMYDNISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKGDKKA---REELITANLRL 171 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+S+AK+Y RGL FLDLIQEGNIGL+KA EKFDW GYKFSTYA WW++QAITR+IADQ Sbjct: 172 VVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQ 231 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIR+PVHM + I+KV + R + PT EE+ K E + ++L +KE +S Sbjct: 232 ARTIRVPVHMVETINKVNKVIREHLQEHGEYPTVEELGKLTGKTPEKIEEILAASKETVS 291 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 LE+PI ++ S +GDF+ D++ P ++AI+ LRE VL +L+PRE VL+MR+G+ Sbjct: 292 LESPISGDEESTMGDFVHDESIEKPEEAAIKMLLREQIDEVLDTLSPREAMVLKMRYGLL 351 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TLEEVG+ F VTRERIRQIE KA+RKL+HPSRSK+L++ L Sbjct: 352 DGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALL 396 Score = 43.9 bits (102), Expect = 0.100, Method: Compositional matrix adjust. Identities = 31/110 (28%), Positives = 54/110 (49%), Gaps = 7/110 (6%) Query: 43 YVTIEELNAFLPPDE--VSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSAS 100 Y+T E+++ PPD S +E L + +++ + ED+E S + A Sbjct: 51 YITYEDIDNAFPPDYEGFDSSLVEVIYEELEKNKVRILEKEPTEDQEESGQE----NPAE 106 Query: 101 NSSVFLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + L+ + D S DP++MYL+E+G I LL+ E +A+R + G Sbjct: 107 DIETLLESAPEMYDNISLKDPIKMYLKEIGKIPLLTPSKERELARRAQKG 156 >gi|113478384|ref|YP_724445.1| RNA polymerase sigma factor RpoD [Trichodesmium erythraeum IMS101] gi|110169432|gb|ABG53972.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 386 Score = 270 bits (691), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 150 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 209 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA + M +E + Sbjct: 210 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATSMEMTIEKL 269 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL SL+PR Sbjct: 270 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPEDEVSKNLLREDLESVLNSLSPR 328 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 329 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 385 Score = 37.7 bits (86), Expect = 6.4, Method: Compositional matrix adjust. Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 6/96 (6%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVDGDDLE--DEEGSEDSLDLASSASNSSVFLQKRK 110 + P SSE + T N + ++ GD E D + ED L A + + K+K Sbjct: 12 IQPQLESSELFQPTPTRQVNDELEILIGDREEYIDAQSDEDDLKSGKVAKSRTRTAGKKK 71 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 T+D +R+YL+E+G I LL + EI +A++I Sbjct: 72 ----HYTEDSIRLYLQEIGRIRLLRADEEIELARKI 103 >gi|166368188|ref|YP_001660461.1| RNA polymerase sigma factor RpoD [Microcystis aeruginosa NIES-843] gi|166090561|dbj|BAG05269.1| principal RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 416 Score = 270 bits (691), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA K+ M +E + Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPR 358 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 415 >gi|169883526|gb|ACA97858.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820] Length = 416 Score = 270 bits (691), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA K+ M +E + Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPR 358 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 415 >gi|1710685|sp|P52322|RPOD_MICAE RecName: Full=RNA polymerase sigma factor rpoD1 gi|786173|dbj|BAA08853.1| sigma factor [Microcystis aeruginosa] gi|1783286|dbj|BAA12850.1| principal sigma factor [Microcystis aeruginosa] Length = 416 Score = 270 bits (691), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA K+ M +E + Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPR 358 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 415 >gi|159026614|emb|CAO86546.1| rpoD1 [Microcystis aeruginosa PCC 7806] Length = 416 Score = 270 bits (691), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 181/237 (76%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA K+ M +E + Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPR 358 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 415 >gi|38233991|ref|NP_939758.1| RNA polymerase sigma factor [Corynebacterium diphtheriae NCTC 13129] gi|38200253|emb|CAE49937.1| RNA polymerase sigma factor [Corynebacterium diphtheriae] Length = 502 Score = 270 bits (690), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 265 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 324 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 325 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 384 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 385 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 444 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 445 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 502 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 177 SAALRQARKDAELSASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 224 >gi|259507416|ref|ZP_05750316.1| RNA polymerase principal sigma factor SigA [Corynebacterium efficiens YS-314] gi|259164981|gb|EEW49535.1| RNA polymerase principal sigma factor SigA [Corynebacterium efficiens YS-314] Length = 381 Score = 270 bits (690), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 144 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 203 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 204 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 263 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 264 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 323 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 324 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 381 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 18/105 (17%) Query: 47 EELNAFLPPDEVSSEQMEDTVAMLSNMGINVV--DGDDLEDEEGSEDSLDLASSASNSSV 104 EE AF+P DE+ + +D VA L DG + DE+ S+ Sbjct: 15 EEDPAFIPGDEL---EQDDEVAPLGEEEEEEEEDDGSSVWDED-------------ESAT 58 Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 59 LRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 103 >gi|254416030|ref|ZP_05029786.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196177205|gb|EDX72213.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 380 Score = 270 bits (690), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 136/262 (51%), Positives = 189/262 (72%), Gaps = 8/262 (3%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E + + FR + + R+ AK++MV++NLRLV+S+AKKY NRGL F DLIQEG+ Sbjct: 126 EVEMELPAFRQRLFLGRR-------AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGS 178 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + Sbjct: 179 LGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKI 238 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + Sbjct: 239 LSQELGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGE 297 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTRERIRQ Sbjct: 298 TPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 357 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 IEAKA+RKL+HP+R+ L+ ++ Sbjct: 358 IEAKALRKLRHPNRNSILKEYI 379 >gi|258653895|ref|YP_003203051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] gi|258557120|gb|ACV80062.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] Length = 448 Score = 270 bits (690), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 211 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 270 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + + V Sbjct: 271 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPDKV 330 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 331 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQAVLQTLSER 390 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 391 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLE 448 Score = 44.3 bits (103), Expect = 0.068, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 129 SEALKQARKDAELTASADSVRAYLKQIGKVALLNAEEEVDLAKRIEAG 176 >gi|209523577|ref|ZP_03272131.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209495982|gb|EDZ96283.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 387 Score = 270 bits (690), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 151 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 210 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 211 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 270 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 271 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLESVLDTLSPR 329 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 330 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 386 >gi|307152414|ref|YP_003887798.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982642|gb|ADN14523.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 377 Score = 270 bits (690), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 136/267 (50%), Positives = 192/267 (71%), Gaps = 8/267 (2%) Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 K + + G+ + F+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DL Sbjct: 118 KEWAQQVGMELPAFQRRLYLGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 170 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ Sbjct: 171 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 230 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 +T + +S +++R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE Sbjct: 231 KTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 290 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTR Sbjct: 291 -ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 349 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 350 ERIRQIEAKALRKLRHPNRNSILKEYI 376 >gi|218438948|ref|YP_002377277.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218171676|gb|ACK70409.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 376 Score = 270 bits (689), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 135/262 (51%), Positives = 190/262 (72%), Gaps = 8/262 (3%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + G+ + F+ + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG+ Sbjct: 122 QVGMELPAFQRRLYLGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGS 174 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + Sbjct: 175 LGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKI 234 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 +S +++R+PT EEIA ++ M +E +R + K + PISLETPIG E+ S LGDFIE + Sbjct: 235 LSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGE 293 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P D + LRE VL +L+PRE VLR+R+G+ TLEE+G+ F VTRERIRQ Sbjct: 294 TPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 353 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 IEAKA+RKL+HP+R+ L+ ++ Sbjct: 354 IEAKALRKLRHPNRNSILKEYI 375 >gi|300858628|ref|YP_003783611.1| RNA polymerase sigma factor A [Corynebacterium pseudotuberculosis FRC41] gi|300686082|gb|ADK29004.1| RNA polymerase sigma factor A [Corynebacterium pseudotuberculosis FRC41] gi|302206337|gb|ADL10679.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis C231] gi|302330894|gb|ADL21088.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis 1002] gi|308276579|gb|ADO26478.1| RNA polymerase sigma factor rpoD (Sigma-A) [Corynebacterium pseudotuberculosis I19] Length = 517 Score = 270 bits (689), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 280 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 339 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 340 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 399 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 400 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 459 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 460 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 517 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 192 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 239 >gi|154484558|ref|ZP_02027006.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC 27560] gi|149734406|gb|EDM50323.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC 27560] Length = 429 Score = 270 bits (689), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 125/240 (52%), Positives = 179/240 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK++++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD+ GYK STYA W Sbjct: 190 VAKEKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 249 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q++TR++AD + TIR+PVHM + I+++ + R+++ ++ EP+ +E+A L M E Sbjct: 250 WIRQSVTRALADHARTIRVPVHMVETINRMSKMQRKLTLELGYEPSTKELATALDMTEEK 309 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++++I +EP SLETPIG+ED S+LGDF+ D N V+P + LRE +L L Sbjct: 310 VLEIMQIAREPASLETPIGEEDDSNLGDFVADNNTVTPEANIESVMLREHIDVLLQDLKD 369 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RE V+ +RFG+ TLEEVGK F VTRERIRQIEAKA+RKL++P RSKK++ FL+ Sbjct: 370 REREVIILRFGLRDGHPRTLEEVGKIFNVTRERIRQIEAKALRKLRNPVRSKKIKDFLNN 429 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 48/183 (26%), Positives = 78/183 (42%), Gaps = 45/183 (24%) Query: 34 MIKLARQR-GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV-------------- 78 +I+LA ++ +TI E+ F D+++ +Q D V L+ IN+ Sbjct: 27 LIELAHKKEDRLTINEVQDFFKDDDLTEKQKTDVVTELTGKKINITMEVDVNEPKAPKAD 86 Query: 79 -------DGDDLEDEEGSEDSL------DLASSASNSSVFLQKRK-------------DS 112 D D ED E + D + D+A A++ L+ D+ Sbjct: 87 SAKSDDADNDFPEDGEATVDLVAEPTDEDIAMVAADEGDLLEPTDENFENDEEETVEFDA 146 Query: 113 ADR----STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 D T+DPVRMYL+E+G++ LL+ + E+ +AKR G + L E+ L I Sbjct: 147 VDLLEGVGTEDPVRMYLKEIGTVPLLTADEELELAKRKTEGDIVAKEKLIEANLRLVVSI 206 Query: 169 IWR 171 R Sbjct: 207 AKR 209 >gi|23308878|ref|NP_601117.2| RNA polymerase sigma factor [Corynebacterium glutamicum ATCC 13032] gi|21324681|dbj|BAB99304.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) (SigA) [Corynebacterium glutamicum ATCC 13032] Length = 498 Score = 270 bits (689), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 261 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 320 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 321 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 380 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 381 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 440 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 441 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 498 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 173 SATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 220 >gi|317176909|dbj|BAJ54698.1| RNA polymerase sigma factor RpoD [Helicobacter pylori F16] Length = 671 Score = 270 bits (689), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 126/257 (49%), Positives = 190/257 (73%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 413 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 472 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 473 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 532 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+ KEPISLETP+G++D GDF+EDKN VS +D Sbjct: 533 KEPDLEVVAEEVGLSLDKVKNVIKVAKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDRI 592 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 593 MREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 652 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 653 IKKLRSPQYGRILRNYL 669 >gi|12958492|gb|AAK09321.1|AF320817_2 sigma factor SigA [[Brevibacterium] flavum] Length = 498 Score = 270 bits (689), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 261 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 320 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 321 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 380 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 381 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 440 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 441 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 498 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 173 SATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 220 >gi|28210583|ref|NP_781527.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] gi|28203021|gb|AAO35464.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88] Length = 282 Score = 270 bits (689), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 126/239 (52%), Positives = 187/239 (78%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK E++++NLRLV+S+AKKY RGL FLDL+QEGN+GLMKA +K+D+ GY+FSTYA WW Sbjct: 45 AKSELIKSNLRLVVSIAKKYIGRGLSFLDLVQEGNLGLMKAVDKYDYKKGYRFSTYATWW 104 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+TRSIADQS TIRIPVHM + I K++RT +++ ++ REPT EEIA+ + +E + Sbjct: 105 IKQAVTRSIADQSRTIRIPVHMNEVISKMIRTKKKLEQELDREPTEEEIAETAEISIEKI 164 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++ ++++P+SLETP+G+ + + L +FI D + P D + L +T + VL++L+PR Sbjct: 165 KRIYNVSQDPVSLETPVGENEDTILQNFISDDRYL-PEDKVTEQMLGDTLSNVLSTLSPR 223 Query: 624 EERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EER++R+R+G +G TLEE+G++F +TRERIRQIEA+AIRKL+HP+R KKL+ + + Sbjct: 224 EERIVRLRYGLVGDGESRTLEEIGREFNLTRERIRQIEARAIRKLRHPTRIKKLQGYFE 282 Score = 40.0 bits (92), Expect = 1.4, Method: Compositional matrix adjust. Identities = 22/51 (43%), Positives = 31/51 (60%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 S + DD + MYL+E+G +LL+ E EI +AKRIE G + L +S L Sbjct: 4 SNAKVVDDYINMYLKEIGQSDLLTAEEEIDLAKRIEKGDERAKSELIKSNL 54 >gi|207093142|ref|ZP_03240929.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPKX_438_AG0C1] Length = 319 Score = 270 bits (689), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 127/257 (49%), Positives = 192/257 (74%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ + I+ +++G+ + AK +M ++NLRLV+S+AK++T+RGL FLDLIQEGNIGLMKA Sbjct: 61 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKA 120 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KF+ G+KFSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + Sbjct: 121 VDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENG 180 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EP E +A+++ + ++ V+ V+K+TKEPISLETP+G++D GDF+EDKN VS +D Sbjct: 181 KEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHI 240 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ A Sbjct: 241 MREDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSA 300 Query: 664 IRKLKHPSRSKKLRSFL 680 I+KL+ P + LR++L Sbjct: 301 IKKLRSPQYGRILRNYL 317 >gi|284052417|ref|ZP_06382627.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str. Paraca] gi|291570496|dbj|BAI92768.1| principal RNA polymerase sigma factor SigA [Arthrospira platensis NIES-39] Length = 387 Score = 270 bits (689), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 151 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 210 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E + Sbjct: 211 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKL 270 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 271 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLESVLDTLSPR 329 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 330 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 386 >gi|257438148|ref|ZP_05613903.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] gi|257199479|gb|EEU97763.1| RNA polymerase sigma factor RpoD [Faecalibacterium prausnitzii A2-165] Length = 461 Score = 270 bits (689), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 130/239 (54%), Positives = 179/239 (74%), Gaps = 4/239 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + EANLRLV+S+AKK+ L FLDLIQEGNIGL+KAAEKFD G++FSTYA WW Sbjct: 224 ARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGFRFSTYATWW 283 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+++ + ++ + EPTPEE+AK + M VE V Sbjct: 284 IRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGHEPTPEELAKAMDMSVERV 343 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ ++ +EP SLE+P+G+E+ S LGDF+ D+NA +P +A +A + + + L SLTPR Sbjct: 344 REIQRMAQEPASLESPVGEEEDSSLGDFVADENAEAPGKAADRAMVAQQINQALKSLTPR 403 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EE+V+R+RFG+ TLEEVG+ F VTRER+RQIEAKAIRKL S+K + L+G Sbjct: 404 EEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRKL----HSRKCLALLNG 458 Score = 44.7 bits (104), Expect = 0.048, Method: Compositional matrix adjust. Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 14/70 (20%) Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 GD+ ED+ E+ DL K + D DDPV+ YL+++G I LLS E E Sbjct: 79 GDENEDDPAEENPADL--------------KAAMDELLDDPVKNYLKQIGQIPLLSAEQE 124 Query: 140 IAIAKRIEAG 149 + ++KRI AG Sbjct: 125 VDLSKRIHAG 134 >gi|72383665|ref|YP_293020.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. NATL2A] gi|72003515|gb|AAZ59317.1| sigma-70 factor [Prochlorococcus marinus str. NATL2A] Length = 420 Score = 270 bits (689), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 137/268 (51%), Positives = 192/268 (71%), Gaps = 8/268 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K +V + ++ FR + + R+ AK++MV++NLRLV+S+AKKY NRGL F D Sbjct: 158 VKEWAVLADMPLARFRRRLMLGRR-------AKEKMVQSNLRLVVSIAKKYMNRGLSFQD 210 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ Sbjct: 211 LIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRI 270 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +T + +S + R+PT EEIA+ + M +E +R + K + PISLETPIG E+ S LGDFI Sbjct: 271 KKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFI 330 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E + +P + LRE VLA+L+PRE VLR+R+G+ TLEE+G+ F VT Sbjct: 331 E-ADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVT 389 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 390 RERIRQIEAKALRKLRHPNRNGVLKEYI 417 >gi|145295815|ref|YP_001138636.1| RNA polymerase sigma factor [Corynebacterium glutamicum R] gi|140845735|dbj|BAF54734.1| hypothetical protein [Corynebacterium glutamicum R] Length = 494 Score = 269 bits (688), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 257 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 316 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 317 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 376 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 377 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 436 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 437 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 494 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 169 SATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 216 >gi|297569039|ref|YP_003690383.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] gi|296924954|gb|ADH85764.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio alkaliphilus AHT2] Length = 445 Score = 269 bits (688), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 121/239 (50%), Positives = 184/239 (76%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK M++ANLRLV+S+AK+Y ++GL DLIQEGN+GLM+A +FD+ G KFSTYA W Sbjct: 208 VAKDAMIKANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASW 267 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+I D++ TIR+PVH + + + + ++ REPTP EI++K +P+E Sbjct: 268 WIRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYSLLKELGREPTPAEISEKTGLPMEK 327 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + + + ++EPISLETP+GD+D++ LGDF+E++ +VSP ++ L E T +L++L+P Sbjct: 328 ILAIFEASREPISLETPVGDDDST-LGDFLENQESVSPYEAVKGNQLAERVTTILSTLSP 386 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+++R+RFGIG + ++TLEE+GK+F V+RERIRQIE KA+ +L+H SR +KL++FLD Sbjct: 387 REEKIIRLRFGIGEDAEYTLEEIGKRFNVSRERIRQIEKKALNRLRHSSRREKLKNFLD 445 >gi|284046806|ref|YP_003397146.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283951027|gb|ADB53771.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 380 Score = 269 bits (688), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 133/273 (48%), Positives = 189/273 (69%), Gaps = 3/273 (1%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 S+ +R ++SI ++ + H+ + +G+ A K++M+EANLRLV+S+AK Y Sbjct: 108 SLDSLRLYLRSIGRVNLLTAEQEVHLAQRIERGDMRA---KQQMIEANLRLVVSIAKGYL 164 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 RGL FLDLIQEG++GL++A EKFD G+KFSTYA WW++QA+TR+IAD+ TIRIPVH Sbjct: 165 GRGLTFLDLIQEGSLGLIRAVEKFDHRRGFKFSTYATWWIRQAVTRAIADKGRTIRIPVH 224 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 M +K++KVV R++ + REPTPEEIA +L V VR +L++ ++P+SLE PIG+E+ Sbjct: 225 MVEKLNKVVHVERQLVQSLGREPTPEEIAAELECTVREVRDILRMAQQPVSLEKPIGEEE 284 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDF+ED+ A SP + A + R+ R L +L RE V+ MRFG+G TLEE Sbjct: 285 ESELGDFVEDQTAESPFELASENLRRDNVRRALQALPQREREVIEMRFGLGGGRPRTLEE 344 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 VG+ F VTRERIRQIE ++KL+ +++LR Sbjct: 345 VGRAFNVTRERIRQIENHTLKKLEALPEAQRLR 377 Score = 63.9 bits (154), Expect = 9e-08, Method: Compositional matrix adjust. Identities = 46/161 (28%), Positives = 80/161 (49%), Gaps = 16/161 (9%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 + ++++I ++RGY+T EE+ L EV+ EQ+++ A L GI+VV+ D Sbjct: 19 EEFRQLIAEGQERGYLTFEEIATTLEEVEVTKEQVQELHAHLEEHGIDVVEAD------- 71 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADR--------STDDPVRMYLREMGSIELLSREGEI 140 + ++ A +A ++ SA R + D +R+YLR +G + LL+ E E+ Sbjct: 72 GKPAVSAAGAAEGERPDTRRSSGSAKRPEIDLTVEPSLDSLRLYLRSIGRVNLLTAEQEV 131 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLL 181 +A+RIE G + E+ L + I + L G T L Sbjct: 132 HLAQRIERGDMRAKQQMIEANLRL-VVSIAKGYLGRGLTFL 171 >gi|124025264|ref|YP_001014380.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. NATL1A] gi|123960332|gb|ABM75115.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] Length = 420 Score = 269 bits (688), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 137/268 (51%), Positives = 192/268 (71%), Gaps = 8/268 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K +V + ++ FR + + R+ AK++MV++NLRLV+S+AKKY NRGL F D Sbjct: 158 VKEWAVLADMPLTRFRRRLMLGRR-------AKEKMVQSNLRLVVSIAKKYMNRGLSFQD 210 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ Sbjct: 211 LIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRI 270 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +T + +S + R+PT EEIA+ + M +E +R + K + PISLETPIG E+ S LGDFI Sbjct: 271 KKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFI 330 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E + +P + LRE VLA+L+PRE VLR+R+G+ TLEE+G+ F VT Sbjct: 331 E-ADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVT 389 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 390 RERIRQIEAKALRKLRHPNRNGVLKEYI 417 >gi|294812504|ref|ZP_06771147.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294325103|gb|EFG06746.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 436 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 180/239 (75%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 198 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYATW 257 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A +L +P E Sbjct: 258 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEVAAQLDLPPER 317 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+E+ LGD IED +A SP++SA LRE VL++L Sbjct: 318 VSEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 377 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 378 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 436 Score = 37.7 bits (86), Expect = 6.2, Method: Compositional matrix adjust. Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 7/62 (11%) Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G+E+S SA + R +S+ S+D R YLRE+G I LL+ E+ +A+R+E Sbjct: 113 GAEESAPRPGSARTA------RSESSGPSSDL-FRQYLREIGRIPLLTAAEEVELARRVE 165 Query: 148 AG 149 AG Sbjct: 166 AG 167 >gi|62390750|ref|YP_226152.1| RNA polymerase sigma factor [Corynebacterium glutamicum ATCC 13032] gi|41326088|emb|CAF20251.1| RNA POLYMERASE SIGMA 70 FACTOR [Corynebacterium glutamicum ATCC 13032] Length = 494 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 257 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 316 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 317 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 376 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 377 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 436 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 437 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 494 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 169 SATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 216 >gi|320161271|ref|YP_004174495.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319995124|dbj|BAJ63895.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 409 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 125/237 (52%), Positives = 179/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ AN RLVISVAKKY RG+ FLDLIQEGNIGL++A +KFD+ G+KFSTYA WW Sbjct: 171 AREHLITANSRLVISVAKKYMGRGVPFLDLIQEGNIGLIRATKKFDYRRGHKFSTYATWW 230 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IADQ TIR+PVHM D+I+K++R +++ ++ REP+ EE+A+ L +P V Sbjct: 231 IRQAVTRAIADQGRTIRVPVHMGDQINKLLRVQHQLTQRLGREPSVEELAEALDVPPRKV 290 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ + P+SLETP DE+ S LGDFIED+ A P D+A LR+ VL +L PR Sbjct: 291 ENMIQVARRPLSLETPTDDEEDSVLGDFIEDEEAPPPDDTATYNLLRQHLEEVLNTLPPR 350 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E R+L++R+G+ +TLEEVG++ VTRER+RQIEA+A+ +L+HPS +KLR +L Sbjct: 351 EVRILQLRYGLLDGQAYTLEEVGRKMGVTRERVRQIEAQALSRLRHPSIRRKLRDYL 407 Score = 56.6 bits (135), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/124 (33%), Positives = 67/124 (54%), Gaps = 11/124 (8%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I L RQ+ YVTI+++ F P E EQ+E+ A L + GI LEDE E + Sbjct: 24 RLIDLGRQKSYVTIDDILHFFPEAEQDVEQLEEAFAALMSAGIPY-----LEDEIVEEPA 78 Query: 93 LDLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + +V + + D A+ TDD + +YL+E+ + LL+ E E+ +A+RI Sbjct: 79 EEELEAHEEGAVEEEGEEKSLALDDLANIDTDDTIGLYLKEVSRVPLLTAEEEVELAQRI 138 Query: 147 EAGR 150 E GR Sbjct: 139 ERGR 142 >gi|159903037|ref|YP_001550381.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9211] gi|159888213|gb|ABX08427.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] Length = 425 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 133/237 (56%), Positives = 180/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 189 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 308 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + LD A + LRE VLA+L+PR Sbjct: 309 RFIAKSAQLPISLETPIGKEEDSRLGDFIESDSENPELDVA-KTLLREDLEGVLATLSPR 367 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 368 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 424 >gi|67921267|ref|ZP_00514786.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67857384|gb|EAM52624.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 414 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 141/289 (48%), Positives = 202/289 (69%), Gaps = 9/289 (3%) Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 E +W + VA E++ I + K+ ++ + +F+ + + R+ AK +MV + Sbjct: 134 EPKWSDIVA-ELNKAEIISDLEKTWKQQSKAYLPKFKRRLYLGRR-------AKDKMVHS 185 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+ Sbjct: 186 NLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRA 245 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA ++ M +E +R + K + Sbjct: 246 IADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQ 305 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PRE VLR+R Sbjct: 306 LPISLETPIGKEEDSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLR 364 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 365 YGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 413 >gi|169838629|ref|ZP_02871817.1| RNA polymerase sigma factor RpoD [candidate division TM7 single-cell isolate TM7a] Length = 323 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 130/241 (53%), Positives = 182/241 (75%), Gaps = 3/241 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M EAN+RLV+S+AK+Y+ RGL FLDLIQEGN GL++A EKFD G+KFSTYA WW Sbjct: 83 AKDKMAEANMRLVVSIAKRYSGRGLDFLDLIQEGNTGLLRAVEKFDPDKGFKFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ IRIPVHM + I+K++RT RRM+ ++ REPT EE++K+L M + + Sbjct: 143 IRQAITRAIADQARVIRIPVHMVETINKLLRTQRRMTQELNREPTIEELSKELDMEPDKI 202 Query: 564 RKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 V+KI ++ SL+ + GDE+ S LGDFIED++ +P +SA L+E +L+SL Sbjct: 203 EYVMKIKQDIHSLDAGVGRDGDEEDSVLGDFIEDEDTATPEESASSQLLKEQVQGILSSL 262 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + RE+++++MRFG+ HTLEEVG++F VTRERIRQIEAKA+ KL+ +KKL +L Sbjct: 263 SDREQKIIKMRFGLENGKSHTLEEVGQEFAVTRERIRQIEAKALAKLRKHKDAKKLHEYL 322 Query: 681 D 681 + Sbjct: 323 N 323 Score = 39.7 bits (91), Expect = 1.6, Method: Compositional matrix adjust. Identities = 19/36 (52%), Positives = 25/36 (69%) Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D +DD VR+YLRE+G I LLS E E+ +A R+ G Sbjct: 44 DDVSDDSVRLYLREIGKIPLLSAEEEMELAHRVVQG 79 >gi|25028360|ref|NP_738414.1| RNA polymerase sigma factor [Corynebacterium efficiens YS-314] gi|23493645|dbj|BAC18614.1| sigma factor SigA [Corynebacterium efficiens YS-314] Length = 506 Score = 269 bits (688), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 178/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 269 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 328 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 329 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 388 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 389 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 448 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 449 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 506 Score = 51.6 bits (122), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 18/105 (17%) Query: 47 EELNAFLPPDEVSSEQMEDTVAMLSNMGINVV--DGDDLEDEEGSEDSLDLASSASNSSV 104 EE AF+P DE+ + +D VA L DG + DE+ S+ Sbjct: 140 EEDPAFIPGDEL---EQDDEVAPLGEEEEEEEEDDGSSVWDED-------------ESAT 183 Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 184 LRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 228 >gi|319441597|ref|ZP_07990753.1| RNA polymerase sigma factor [Corynebacterium variabile DSM 44702] Length = 536 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 128/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 299 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 358 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + + V Sbjct: 359 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITEDKV 418 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 419 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 478 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 479 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 536 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 217 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 264 >gi|295102137|emb|CBK99682.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii L2-6] Length = 461 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 130/239 (54%), Positives = 179/239 (74%), Gaps = 4/239 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + EANLRLV+S+AKK+ L FLDLIQEGNIGL+KAAEKFD G++FSTYA WW Sbjct: 224 ARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGFRFSTYATWW 283 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+++ + ++ + EPTPEE+AK + M VE V Sbjct: 284 IRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGHEPTPEELAKAMDMSVERV 343 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ ++ +EP SLE+P+G+E+ S LGDF+ D+NA +P +A +A + + + L SLTPR Sbjct: 344 REIQRMAQEPASLESPVGEEEDSSLGDFVADENAEAPGKAADRAMVAQQINQALKSLTPR 403 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EE+V+R+RFG+ TLEEVG+ F VTRER+RQIEAKAIRKL S+K + L+G Sbjct: 404 EEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRKL----HSRKCLALLNG 458 Score = 42.7 bits (99), Expect = 0.19, Method: Compositional matrix adjust. Identities = 20/40 (50%), Positives = 28/40 (70%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 K + D DDPV+ YL+++G I LLS E E+ ++KRI AG Sbjct: 95 KAAMDELLDDPVKNYLKQIGQIPLLSAEQEVDLSKRIHAG 134 >gi|291458966|ref|ZP_06598356.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] gi|291418220|gb|EFE91939.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] Length = 388 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 124/237 (52%), Positives = 180/237 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+S+AK+YT RG+ FLDL+QEGN+GL+K EKFD G+K STYA WW Sbjct: 151 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 210 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR++ADQ+ TIR+PVHM + I+K+ + R+++ ++ EP+ +E+A+ L M + V Sbjct: 211 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMSEDKV 270 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++++I +EP SLETPIG+ED S+LGDF+ D N ++P + LRE +L L R Sbjct: 271 QEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPESNVEAVMLREHIDSLLGDLKER 330 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ +RFG+ TLEEVGK+F VTRERIRQIEAKA+RKL++P RSK++R FL Sbjct: 331 ERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 387 Score = 45.8 bits (107), Expect = 0.022, Method: Compositional matrix adjust. Identities = 41/128 (32%), Positives = 62/128 (48%), Gaps = 14/128 (10%) Query: 58 VSSEQMEDTVAMLSNMGIN---VVDGDDLEDEEG--SEDSLDLASSASNSSVFLQKRKDS 112 +S EQM++ V ++ N I VVD ++D E ++ S D + FL++ + Sbjct: 42 LSEEQMDNVVRLIENRKIEINPVVDEAAIKDLEAGKAKASPDDELLPLDDESFLKEESEE 101 Query: 113 ADR---------STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D T+DPVRMYL+E+G++ LLS E E A+A R + G L E+ L Sbjct: 102 IDLDAVDLLEGIGTEDPVRMYLKEIGTVSLLSAEEEYALAIRKQQGDEAAKQRLIEANLR 161 Query: 164 FQALIIWR 171 I R Sbjct: 162 LVVSIAKR 169 >gi|227542254|ref|ZP_03972303.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51866] gi|227182083|gb|EEI63055.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51866] Length = 603 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 366 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 425 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 426 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 485 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 486 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLKTLSER 545 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 546 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLE 603 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 279 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 326 >gi|28572422|ref|NP_789202.1| RNA polymerase sigma factor [Tropheryma whipplei TW08/27] gi|28410553|emb|CAD66939.1| RNA polymerase principal sigma factor hrdb [Tropheryma whipplei TW08/27] Length = 387 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 137/253 (54%), Positives = 186/253 (73%), Gaps = 4/253 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR G+ AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EK Sbjct: 138 RELRWVVRDGQR----AKDHLLAANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEK 193 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R++ + REP Sbjct: 194 FDYVKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLSRVQRQLLQDLGREP 253 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP+E+ ++L MP E V +V K +EPISL TP+GDE S GD IED +AV+P D+ + Sbjct: 254 TPDELGRELDMPPERVVEVQKYGREPISLHTPLGDEGDSEFGDLIEDVDAVAPDDAVGFS 313 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +L SL+ RE V+RMRFG+ + TL+ VG+ F VTRERIRQIEAK + KL Sbjct: 314 MLQQQLRLLLDSLSEREAGVIRMRFGLDYDMPKTLDYVGEYFDVTRERIRQIEAKTMAKL 373 Query: 668 KHPSRSKKLRSFL 680 +HPSRS+ LR +L Sbjct: 374 RHPSRSQCLRDYL 386 Score = 41.6 bits (96), Expect = 0.47, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 28/34 (82%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+++AKRIEAG Sbjct: 86 ATADPVKDYLKQIGKVSLLTADEEVSLAKRIEAG 119 >gi|227488750|ref|ZP_03919066.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51867] gi|227091172|gb|EEI26484.1| RNA polymerase sigma factor A [Corynebacterium glucuronolyticum ATCC 51867] Length = 599 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 362 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 421 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP+E+AK++ + E V Sbjct: 422 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPQELAKEMDITEEKV 481 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 482 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLKTLSER 541 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +L+ Sbjct: 542 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLE 599 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 275 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 322 >gi|119953489|ref|YP_945698.1| RNA polymerase sigma factor RpoD [Borrelia turicatae 91E135] gi|119862260|gb|AAX18028.1| RNA polymerase sigma factor RpoD [Borrelia turicatae 91E135] Length = 630 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 128/255 (50%), Positives = 186/255 (72%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 373 IISMSEEILKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 432 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 433 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 492 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P Sbjct: 493 PTDEELSSRLGWDLKKVKTVKNVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHTSF 552 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ VL +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 553 VVLQDQIRAVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 612 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 613 LKNPKKTQKLKDYLE 627 Score = 43.1 bits (100), Expect = 0.18, Method: Compositional matrix adjust. Identities = 39/156 (25%), Positives = 74/156 (47%), Gaps = 35/156 (22%) Query: 44 VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV---------DGDD------------ 82 +T E+L+ FL D + + ++ +L N GI++V D D+ Sbjct: 33 ITFEDLSTFLSGDMLDPDNIDYIYGVLENEGISLVNEKMESDICDIDEFDEADKLDSQCM 92 Query: 83 -LEDEEGSEDSLDLASSASNSSVFLQKRKDSA--------DRSTDDPVRMYLREMGSIEL 133 L+D S+D +D + V ++ S D +++DP+R+YL+E+G L Sbjct: 93 MLDDSIQSDDEIDDKLDEFDDEVLDKEDFSSGYIKSGLLKDSNSEDPIRLYLKEIGKEFL 152 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 L+ E+ +AK++++G S+ E+ L + L+I Sbjct: 153 LTGNQEVELAKQMDSGE-----SIIENILKNEGLVI 183 >gi|291459241|ref|ZP_06598631.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] gi|291418495|gb|EFE92214.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078 str. F0262] Length = 398 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 131/273 (47%), Positives = 188/273 (68%), Gaps = 3/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + ++G+ +A++ +VEANLRLV+S+AK+YT RG+ Sbjct: 127 VRFYLKEIGTIPLLSPEEEKELARRSKEGD---PLARQRLVEANLRLVVSIAKRYTGRGM 183 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLIQEGN+GLMK EKF+ G+K STYA WW++Q ITR++ADQS TIR+PVHM + Sbjct: 184 SILDLIQEGNLGLMKGVEKFEPDKGFKLSTYATWWIRQGITRALADQSRTIRVPVHMVES 243 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+KV RT RR++ ++ EP+P+E+A L M E ++++L ++K+P SLETP+GDE+ S+L Sbjct: 244 INKVTRTQRRLTLELGYEPSPKELAASLNMTEEKLKEILDVSKQPTSLETPVGDEEDSNL 303 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 DF+ D+ +SP +A LRE ++L +L RE VL RFG+ HTLEEVG+ Sbjct: 304 SDFVADEKMISPEQNAANVMLREEIDKLLENLKDRERDVLIHRFGLHGEESHTLEEVGQM 363 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRER+RQIEAKA++K+ P L FL+ Sbjct: 364 FGVTRERVRQIEAKALKKISLPKYKNALAGFLE 396 Score = 43.5 bits (101), Expect = 0.10, Method: Compositional matrix adjust. Identities = 24/55 (43%), Positives = 32/55 (58%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWR 171 TDDPVR YL+E+G+I LLS E E +A+R + G + L E+ L I R Sbjct: 123 TDDPVRFYLKEIGTIPLLSPEEEKELARRSKEGDPLARQRLVEANLRLVVSIAKR 177 >gi|254232809|ref|ZP_04926136.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis C] gi|124601868|gb|EAY60878.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis C] Length = 528 Score = 269 bits (687), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 129/238 (54%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+ L++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLRLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 411 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSER 470 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 471 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 528 Score = 45.4 bits (106), Expect = 0.031, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|94263318|ref|ZP_01287133.1| Sigma-70-like protein [delta proteobacterium MLMS-1] gi|93456273|gb|EAT06403.1| Sigma-70-like protein [delta proteobacterium MLMS-1] Length = 442 Score = 268 bits (686), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 120/239 (50%), Positives = 184/239 (76%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK M++ANLRLV+S+AK+Y ++GL DLIQEGN+GLM+A +FD+ G KFSTYA W Sbjct: 205 VAKDAMIKANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASW 264 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+I D++ TIR+PVH + + + + ++ REPTP EI++K +P+E Sbjct: 265 WIRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYSLLKELGREPTPVEISEKTGLPMEK 324 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + + + ++EPISLETP+GD+D++ LGDF+E++ ++SP ++ L E T +L++L+P Sbjct: 325 ILAIFEASREPISLETPVGDDDST-LGDFLENQESISPYEAVKGNQLAERVTTILSTLSP 383 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+++R+RFGIG + ++TLEE+GK+F V+RERIRQIE KA+ +L+H SR +KL++FLD Sbjct: 384 REEKIIRLRFGIGEDAEYTLEEIGKRFNVSRERIRQIEKKALNRLRHSSRREKLKNFLD 442 >gi|313112817|ref|ZP_07798464.1| putative RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] gi|310624887|gb|EFQ08195.1| putative RNA polymerase sigma factor RpoD [Faecalibacterium cf. prausnitzii KLE1255] Length = 458 Score = 268 bits (686), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 131/239 (54%), Positives = 178/239 (74%), Gaps = 4/239 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + EANLRLV+S+AKK+ L FLDLIQEGNIGL+KAAEKFD G++FSTYA WW Sbjct: 221 ARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGFRFSTYATWW 280 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+++ + ++ + EPTPEE+AK + M VE V Sbjct: 281 IRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGHEPTPEELAKAMDMSVERV 340 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ ++ +EP SLE+P+G+E+ S LGDF+ D+NA +P +A +A + + L SLTPR Sbjct: 341 REIQRMAQEPASLESPVGEEEDSSLGDFVADENAEAPGKAADRAMVAQQINLALKSLTPR 400 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 EE+V+R+RFG+ TLEEVG+ F VTRER+RQIEAKAIRKL S+K S L+G Sbjct: 401 EEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRKL----HSRKCLSLLNG 455 Score = 42.0 bits (97), Expect = 0.33, Method: Compositional matrix adjust. Identities = 19/40 (47%), Positives = 28/40 (70%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 K + D DDPV+ YL+++G I LLS E E+ +++RI AG Sbjct: 92 KAAMDELLDDPVKNYLKQIGQIPLLSAEQEVELSRRIHAG 131 >gi|297199501|ref|ZP_06916898.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|297147415|gb|EDY56986.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 428 Score = 268 bits (686), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 190 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 249 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L + E Sbjct: 250 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLAPER 309 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 310 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 369 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 370 RERKVVQLRYGLADGRARTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 428 >gi|295103972|emb|CBL01516.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 457 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 160/368 (43%), Positives = 230/368 (62%), Gaps = 27/368 (7%) Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS----YGIKRDVFLERHQGR 377 +K +G + L L EQ ++S+RI H E + Q+ YG +++++ R Sbjct: 107 LKQIGQIPL------LSAEQEVELSRRI-HAGAEAAHILQADRQKYGAPE--YIKKNSAR 157 Query: 378 ---ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 E D + SY +D E K+ E + + E +VE G E R + Sbjct: 158 FSFEEDENSRSYTEDLDEDGEKSAEDAEEKADEEKAME----AVENGPLSEERRQELLKT 213 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+ + A++ + EANLRLV+S+AKK+ L FLDLIQEGNIGL+KAAEKFD G+ Sbjct: 214 RR---DGLNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGF 270 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++ + ++ + EPTPEE+AK Sbjct: 271 RFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGHEPTPEELAK 330 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + M VE VR++ ++ +EP SLE+P+G+E+ S LGDF+ D+NA +P +A +A + + Sbjct: 331 AMDMSVERVREIQRMAQEPASLESPVGEEEDSSLGDFVADENAEAPGKAADRAMVAQQIN 390 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 L SLTPREE+V+R+RFG+ TLEEVG+ F VTRER+RQIEAKAIRKL S+ Sbjct: 391 LALKSLTPREEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRKL----HSR 446 Query: 675 KLRSFLDG 682 K + L+G Sbjct: 447 KCLTLLNG 454 Score = 42.0 bits (97), Expect = 0.31, Method: Compositional matrix adjust. Identities = 19/40 (47%), Positives = 28/40 (70%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 K + D DDPV+ YL+++G I LLS E E+ +++RI AG Sbjct: 92 KAAMDELLDDPVKNYLKQIGQIPLLSAEQEVELSRRIHAG 131 >gi|33239946|ref|NP_874888.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33237472|gb|AAP99540.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 438 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 132/236 (55%), Positives = 179/236 (75%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW+ Sbjct: 203 KEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWI 262 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E +R Sbjct: 263 RQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLR 322 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + K + PISLETPIG E+ S LGDFIE + LD A + LRE VLA+L+PRE Sbjct: 323 FIAKSAQLPISLETPIGKEEDSRLGDFIESDSENPELDVA-KTLLREDLEGVLATLSPRE 381 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 382 RDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 437 >gi|307324812|ref|ZP_07604018.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889694|gb|EFN20674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 414 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 176 VAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 235 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L + E Sbjct: 236 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLLPER 295 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 296 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 355 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 356 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 414 >gi|307298746|ref|ZP_07578549.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotogales bacterium mesG1.Ag.4.2] gi|306915911|gb|EFN46295.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotogales bacterium mesG1.Ag.4.2] Length = 416 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 139/277 (50%), Positives = 189/277 (68%), Gaps = 6/277 (2%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D I EI IS+ ++ S R + +KGE +A K+E++ ANLRLV+S+AK+Y Sbjct: 137 DPIKMYLKEIGKISL---LTPSRERELARRAQKGEPKA---KEELITANLRLVVSIAKRY 190 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 RGL FLDLIQEGNIGL+KA EKFDW GYKFSTYA WW++QAITR+IADQ+ TIR+PV Sbjct: 191 IGRGLTFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWWIRQAITRAIADQARTIRVPV 250 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K+ + R PT EE+ E + ++L +KE +SLE+PI + Sbjct: 251 HMVETINKLNKVIREHLQDHGEYPTIEELGNLTGKTPEKIEEILAASKETVSLESPISGD 310 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + S +GDFI D + P ++A++ LRE ++L +L+PRE VL+MR+G+ TLE Sbjct: 311 EESTMGDFIHDDSMEQPEEAAMKMLLREQIDQILDTLSPREAMVLKMRYGLLDGKTKTLE 370 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EVG+ F VTRERIRQIE KA+RKL+HPSRSK+L++ L Sbjct: 371 EVGQFFNVTRERIRQIEVKALRKLRHPSRSKQLKALL 407 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 43/157 (27%), Positives = 71/157 (45%), Gaps = 9/157 (5%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDE--VSSEQMEDTVAMLSNMGINVVDGDDLED 85 D KK+++ +++G+VT E++++ PPD S +E IN+V E Sbjct: 48 DKRIKKLLRQGKKKGFVTYEDIDSAFPPDYEGFDSSLVESIYEEFEKNKINIV-----EK 102 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAIAK 144 E +D + S+ L+ + D S DP++MYL+E+G I LL+ E +A+ Sbjct: 103 EPVEDDDDIESESSEELVSILETTPEMYDNISLKDPIKMYLKEIGKISLLTPSRERELAR 162 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLL 181 R + G L + L I R + G T L Sbjct: 163 RAQKGEPKAKEELITANLRLVVSIAKR-YIGRGLTFL 198 >gi|187918567|ref|YP_001884130.1| RNA polymerase sigma factor RpoD [Borrelia hermsii DAH] gi|119861415|gb|AAX17210.1| RNA polymerase sigma factor RpoD [Borrelia hermsii DAH] Length = 630 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 128/255 (50%), Positives = 186/255 (72%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 373 IISMSEEILKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 432 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 433 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 492 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P Sbjct: 493 PTDEELSARLGWDLKKVKTVKNVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHTSF 552 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ VL +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 553 VVLQDQIRSVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 612 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 613 LKNPKKTQKLKDYLE 627 >gi|219685543|ref|ZP_03540360.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii Far04] gi|219672942|gb|EED29964.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii Far04] Length = 631 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 37.4 bits (85), Expect = 9.1, Method: Compositional matrix adjust. Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 20/99 (20%) Query: 79 DGDDLE--------DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGS 130 DG+D++ DEE DL S S+ D ++DP+++YL+E+G Sbjct: 98 DGEDIDINGKLDDCDEEDISVKDDLGSGYIKSNAL-------KDSHSEDPIKLYLKEIGK 150 Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 LL+ E+ +AK++++G S+ E+ L + L+I Sbjct: 151 EFLLTGNQEVELAKQMDSGE-----SIIENILKNEGLVI 184 >gi|219684458|ref|ZP_03539402.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii PBr] gi|219672447|gb|EED29500.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia garinii PBr] Length = 631 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|315453594|ref|YP_004073864.1| RNA polymerase sigma factor (sigma-70) [Helicobacter felis ATCC 49179] gi|315132646|emb|CBY83274.1| RNA polymerase sigma factor (sigma-70) [Helicobacter felis ATCC 49179] Length = 621 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 125/256 (48%), Positives = 187/256 (73%), Gaps = 1/256 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + I+ +++G+ + AK +M +NLRLV+S+AK+YT+RGL FLDLIQEGNIGLMKA Sbjct: 364 KLKEILEQIKRGKLISDKAKNKMARSNLRLVVSIAKRYTSRGLPFLDLIQEGNIGLMKAV 423 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF+ Y+FSTYA WW+KQAI+R+IADQ+ TIRIP+HM D I+++ + R+ + + Sbjct: 424 DKFEHEKNYRFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKYMQENGK 483 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EP + +AK++ +P++ V+ V+KITKEPISLE+P+G++D GDF+E+ V +D + Sbjct: 484 EPDLDLVAKEVGLPLDKVKNVIKITKEPISLESPVGNDDDGKFGDFVENDKVVGSMDHIM 543 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI Sbjct: 544 REDLKTQIDGVLDQLNEREKSVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAI 603 Query: 665 RKLKHPSRSKKLRSFL 680 +KL+ P + LRS+L Sbjct: 604 KKLRSPQYGRLLRSYL 619 Score = 57.4 bits (137), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 25/70 (35%), Positives = 46/70 (65%) Query: 105 FLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTF 164 F+++++ + +D PVRMYLREMG I LLS+E E+ ++K+I+ G +++ ++C P Sbjct: 97 FIKEKELTEWSRSDSPVRMYLREMGEIPLLSKEEEVELSKQIKLGENIILDAICSVPYLI 156 Query: 165 QALIIWRDEL 174 + ++D L Sbjct: 157 DFIYGYKDAL 166 >gi|302545597|ref|ZP_07297939.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus ATCC 53653] gi|302463215|gb|EFL26308.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus ATCC 53653] Length = 443 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 205 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 264 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L + E Sbjct: 265 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAIHLDLTPER 324 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 325 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 384 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 385 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 443 >gi|160942567|ref|ZP_02089814.1| hypothetical protein FAEPRAM212_00042 [Faecalibacterium prausnitzii M21/2] gi|158446151|gb|EDP23154.1| hypothetical protein FAEPRAM212_00042 [Faecalibacterium prausnitzii M21/2] Length = 457 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 160/368 (43%), Positives = 230/368 (62%), Gaps = 27/368 (7%) Query: 322 VKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQS----YGIKRDVFLERHQGR 377 +K +G + L L EQ ++S+RI H E + Q+ YG +++++ R Sbjct: 107 LKQIGQIPL------LSAEQEVELSRRI-HAGAEAAHILQADRQKYGAPE--YIKKNSAR 157 Query: 378 ---ELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMV 434 E D + SY +D E K+ E + + E +VE G E R + Sbjct: 158 FSFEEDENSRSYTEDLDEDGEKSAEDAEEKADEEKAME----AVENGPLSEERRQELLKT 213 Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+ + A++ + EANLRLV+S+AKK+ L FLDLIQEGNIGL+KAAEKFD G+ Sbjct: 214 RR---DGLNARRSLSEANLRLVVSIAKKHVGHNLAFLDLIQEGNIGLIKAAEKFDCDRGF 270 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW++QAITR+IADQ+ TIRIPVHM + I+++ + ++ + EPTPEE+AK Sbjct: 271 RFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMRQATNQLVYQNGHEPTPEELAK 330 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + M VE VR++ ++ +EP SLE+P+G+E+ S LGDF+ D+NA +P +A +A + + Sbjct: 331 AMDMSVERVREIQRMAQEPASLESPVGEEEDSSLGDFVADENAEAPGKAADRAMVAQQIN 390 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 L SLTPREE+V+R+RFG+ TLEEVG+ F VTRER+RQIEAKAIRKL S+ Sbjct: 391 LALKSLTPREEKVIRLRFGLDDGRPRTLEEVGRDFGVTRERVRQIEAKAIRKL----HSR 446 Query: 675 KLRSFLDG 682 K + L+G Sbjct: 447 KCLTLLNG 454 Score = 42.0 bits (97), Expect = 0.32, Method: Compositional matrix adjust. Identities = 19/40 (47%), Positives = 28/40 (70%) Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 K + D DDPV+ YL+++G I LLS E E+ +++RI AG Sbjct: 92 KAAMDELLDDPVKNYLKQIGQIPLLSAEQEVELSRRIHAG 131 >gi|150020921|ref|YP_001306275.1| RpoD family RNA polymerase sigma factor [Thermosipho melanesiensis BI429] gi|149793442|gb|ABR30890.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosipho melanesiensis BI429] Length = 370 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 128/234 (54%), Positives = 174/234 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++VE+NLRLV+S+AK+Y +GL FLDLIQEGN+GL+KA EKFDW GYKFSTYA WW Sbjct: 128 AKQKLVESNLRLVVSIAKRYVGKGLSFLDLIQEGNVGLLKAVEKFDWKKGYKFSTYATWW 187 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIR+PVHM + I+KV + R + E EE+AK + PVE V Sbjct: 188 IRQAITRAIADQARTIRVPVHMVETINKVQKIMRDYYQQHGTEIPIEELAKIIGKPVEKV 247 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+ KE SLE P+G+++ S +GDF+ D++ SP A++ +RE +VL +L R Sbjct: 248 EEILQAAKETTSLEAPVGEDEDSTVGDFVADESIASPKKEAMRMLIREEVEKVLETLNDR 307 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 E+ VL+MR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSRS+ L+ Sbjct: 308 EKLVLKMRYGLIDGKSKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSRYLK 361 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 36/140 (25%), Positives = 69/140 (49%), Gaps = 27/140 (19%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED--EEGSE 90 K+IK+ +++G+VT ++++ LPP+++ DG+ LE EE + Sbjct: 15 KLIKVGKEKGFVTYDDIDKMLPPEKIDD-----------------FDGNILEKVYEELEK 57 Query: 91 DSLDLASSASNSSV-------FLQKRKDSADR-STDDPVRMYLREMGSIELLSREGEIAI 142 +++ + + + FL++ D +T D ++MYL+++G I LLS+ E + Sbjct: 58 NNILITENNPQEQIEDVSLEDFLEESPRFYDNMATKDLIKMYLKDIGKIPLLSQSMEREL 117 Query: 143 AKRIEAGRAMMMASLCESPL 162 A+R + G L ES L Sbjct: 118 ARRAQQGDERAKQKLVESNL 137 >gi|283780465|ref|YP_003371220.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438918|gb|ADB17360.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 544 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 131/269 (48%), Positives = 187/269 (69%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+ + +ET S R +++ E AK+++ NLRLV+S+AKKY NRGL FL Sbjct: 271 ELHHLMMETLESPRSLRARCVAMQRQYIEYEAAKRQLSSGNLRLVVSIAKKYRNRGLSFL 330 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGN GLM+A +K+++ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM D + K Sbjct: 331 DLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLSK 390 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + +++ ++ REPT EE+ + +P+E V++VL I + P+SL+ P+GD + S G+F Sbjct: 391 LRNVQKKLLQELGREPTTEEVTALVDLPLEEVKRVLDIGRHPVSLDRPVGDSEDSSFGEF 450 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IED + +P+ A LRE +L +LT RE ++R+R+G+ +TLEEVG+ F V Sbjct: 451 IEDTASDNPVLCATNGILRERIDGLLKTLTWREREIIRLRYGLCDGYTYTLEEVGRIFKV 510 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQIEAKA+RKL+HP RSK+L FL Sbjct: 511 TRERVRQIEAKAVRKLQHPVRSKQLEGFL 539 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 37/119 (31%), Positives = 69/119 (57%), Gaps = 7/119 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K+++ +GY+T E++N +LP +V+ E++++ + L + GI +VD +E + Sbjct: 9 KELVAKGNTQGYLTYEDVNNYLPDQDVNPEKLDNLLVALEHAGIELVDQPPVEPGKPR-- 66 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 L + +V L + + + + DP+R+YL +M I LLSR+ EI++AK+IE R Sbjct: 67 ---LFVPRESDAVPL--KPEESKKLNSDPIRLYLSQMAEIPLLSRQEEISLAKKIEVTR 120 >gi|51598964|ref|YP_073152.1| RNA polymerase sigma factor RpoD [Borrelia garinii PBi] gi|51573535|gb|AAU07560.1| RNA polymerase sigma-70 factor [Borrelia garinii PBi] Length = 631 Score = 268 bits (685), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|187250727|ref|YP_001875209.1| RNA polymerase, sigma 70 subunit, RpoD family [Elusimicrobium minutum Pei191] gi|186970887|gb|ACC97872.1| RNA polymerase, sigma 70 subunit, RpoD family [Elusimicrobium minutum Pei191] Length = 571 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 155/401 (38%), Positives = 247/401 (61%), Gaps = 15/401 (3%) Query: 286 EIAEVYRELR--SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLY 343 EI E+ ++LR S+ D +N K + + ++++V + L+LNQ++I L ++ Sbjct: 180 EITELMKKLREPSISDKMLN-----KYTEALEKKQKEVVDSIIKLNLNQNKIKRLTNRIK 234 Query: 344 DISKRIMHNEGELLRLAQSYGIKRDV---FLERHQGRELDPHWVSYAKDFPEGEWKNFVA 400 +++RI + +L R + +G +V F + +G+ + + F E + Sbjct: 235 SLAQRIAESRNDLNRFDEYFGQYAEVKKLFTQASKGK-ISKAELKKKTRFTYEE----LE 289 Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 +++I IR+ + + +S EF + E K ++++ANLRLV+S+A Sbjct: 290 TAINNIDMIRSRHEKLINTLPMSEKEFLAFNDRIVFFEDMILQDKLKLIKANLRLVVSIA 349 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KK+ N L+ DLIQEG +GLMKA EKF++ G+KFSTYA WW++Q+I R+IADQ+ TIR Sbjct: 350 KKHVNSNLELSDLIQEGGLGLMKAVEKFEYKRGFKFSTYATWWIRQSINRAIADQANTIR 409 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPVHM++ + K+ + + + REP+ E+ +K L + +E V+ VLKI ++PISL TP+ Sbjct: 410 IPVHMKELVSKLTKVTNKFRQEHGREPSLEDYSKSLRLSMEKVKGVLKIMQDPISLSTPV 469 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 G+++ S+L DFIEDK +P +A ++ + VL +L+ RE +++R+RFGI Sbjct: 470 GEDEDSNLEDFIEDKAGANPTVTASDFLRKQEVSEVLNTLSEREAKIIRLRFGIDSGYPR 529 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK F VTRER+RQIEAKAIRKL+HPSR+K L+ + D Sbjct: 530 TLEEVGKMFNVTRERVRQIEAKAIRKLRHPSRTKMLKDYSD 570 Score = 68.2 bits (165), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 40/154 (25%), Positives = 84/154 (54%), Gaps = 14/154 (9%) Query: 23 VFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD 82 + + ++ ++K ++++ ++ G++T++E+N L +S+E ++ + L ++GI VVD Sbjct: 1 MVNVANKAFKDLVEVGKENGFLTLDEINRSLTSSSMSAEDIDGLMGTLEDLGIQVVDRKK 60 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 + S+ +A + + F+ A+ + +RMYL EMG + LLSR+ EI + Sbjct: 61 YK-------SVAMAEKEAYTEEFM------ANPDISNSIRMYLSEMGKVPLLSRDEEITL 107 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 A+ + + + ESP+T + + W +EL D Sbjct: 108 ARNVREREKELRKLVLESPITMREICNW-EELVD 140 >gi|111115542|ref|YP_710160.1| RNA polymerase sigma factor RpoD [Borrelia afzelii PKo] gi|110890816|gb|ABH01984.1| RNA polymerase sigma-70 factor [Borrelia afzelii PKo] Length = 631 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 41.6 bits (96), Expect = 0.46, Method: Compositional matrix adjust. Identities = 27/85 (31%), Positives = 46/85 (54%), Gaps = 12/85 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEEG DL S S+V D ++DP+++YL+E+G LL+ E+ +AK Sbjct: 112 DEEGISIKDDLGSGYIKSNVL-------KDSHSEDPIKLYLKEIGKEFLLTGNQEVELAK 164 Query: 145 RIEAGRAMMMASLCESPLTFQALII 169 ++++G S+ E+ L + L+I Sbjct: 165 QMDSG-----ESIIENILKNEGLVI 184 >gi|1588486|prf||2208419B RNA polymerase sigma factor Length = 391 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 189/260 (72%), Gaps = 8/260 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ + +FR + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++G Sbjct: 139 GMPLKDFRRRLFHGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 191 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 192 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILS 251 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ R+PT EEIA+++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 252 QELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETP 310 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ LRE VL +L+ RE VLR+R+G+ TLEE+G+ F VTRERIRQIE Sbjct: 311 EDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 370 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 AKA+RKL+HP+R+ L+ ++ Sbjct: 371 AKALRKLRHPNRNSILKEYI 390 >gi|224534471|ref|ZP_03675047.1| RNA polymerase sigma factor RpoD [Borrelia spielmanii A14S] gi|224514148|gb|EEF84466.1| RNA polymerase sigma factor RpoD [Borrelia spielmanii A14S] Length = 631 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 41.6 bits (96), Expect = 0.45, Method: Compositional matrix adjust. Identities = 27/85 (31%), Positives = 46/85 (54%), Gaps = 12/85 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEEG DL S S+V D ++DP+++YL+E+G LL+ E+ +AK Sbjct: 112 DEEGISVKDDLGSGYIKSNVL-------KDSHSEDPIKLYLKEIGKEFLLTGNQEVELAK 164 Query: 145 RIEAGRAMMMASLCESPLTFQALII 169 ++++G S+ E+ L + L+I Sbjct: 165 QMDSGE-----SIIENILKNEGLVI 184 >gi|218245044|ref|YP_002370415.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|257058068|ref|YP_003135956.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|218165522|gb|ACK64259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256588234|gb|ACU99120.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 379 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV +NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 143 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 202 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S +++R+PT EEIA ++ M +E + Sbjct: 203 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATRMEMTIEKL 262 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PR Sbjct: 263 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGENPEDEVSKNLLREDLENVLDTLSPR 321 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 322 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 378 >gi|216263390|ref|ZP_03435385.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia afzelii ACA-1] gi|215980234|gb|EEC21055.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia afzelii ACA-1] Length = 631 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 41.6 bits (96), Expect = 0.45, Method: Compositional matrix adjust. Identities = 27/85 (31%), Positives = 46/85 (54%), Gaps = 12/85 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEEG DL S S+V D ++DP+++YL+E+G LL+ E+ +AK Sbjct: 112 DEEGISIKDDLGSGYIKSNVL-------KDSHSEDPIKLYLKEIGKEFLLTGNQEVELAK 164 Query: 145 RIEAGRAMMMASLCESPLTFQALII 169 ++++G S+ E+ L + L+I Sbjct: 165 QMDSG-----ESIIENILKNEGLVI 184 >gi|194477302|ref|YP_002049481.1| RNA polymerase sigma factor [Paulinella chromatophora] gi|171192309|gb|ACB43271.1| RNA polymerase sigma factor [Paulinella chromatophora] Length = 460 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 136/259 (52%), Positives = 188/259 (72%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+ +FR + + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++GL Sbjct: 209 MSLIKFRRRLMLGRR-------AKAKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGL 261 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 262 IRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQ 321 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R+PT EEIA+ + M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 322 EFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPE 380 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + LRE VLA+L+PRE VLR+R+G+ TLEE+G+ F VTRERIRQIEA Sbjct: 381 QDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEA 440 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA+RKL+HP+R+ L+ ++ Sbjct: 441 KALRKLRHPNRNGVLKEYI 459 >gi|170078618|ref|YP_001735256.1| RNA polymerase sigma factor [Synechococcus sp. PCC 7002] gi|558881|gb|AAB41506.1| SigA [Synechococcus sp. PCC 7002] gi|169886287|gb|ACB00001.1| RNA polymerase sigma factor [Synechococcus sp. PCC 7002] Length = 375 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 135/260 (51%), Positives = 189/260 (72%), Gaps = 8/260 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ + +FR + R+ AK +MV++NLRLV+S+AKKY NRGL F DLIQEG++G Sbjct: 123 GMPLKDFRRRLFHGRR-------AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 175 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ + I ++ +T + +S Sbjct: 176 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILS 235 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ R+PT EEIA+++ M +E +R + K + PISLETPIG E+ S LGDFIE + +P Sbjct: 236 QELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADGETP 294 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ LRE VL +L+ RE VLR+R+G+ TLEE+G+ F VTRERIRQIE Sbjct: 295 EDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIE 354 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 AKA+RKL+HP+R+ L+ ++ Sbjct: 355 AKALRKLRHPNRNSILKEYI 374 >gi|154249128|ref|YP_001409953.1| RpoD family RNA polymerase sigma factor [Fervidobacterium nodosum Rt17-B1] gi|154153064|gb|ABS60296.1| RNA polymerase, sigma 70 subunit, RpoD family [Fervidobacterium nodosum Rt17-B1] Length = 372 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 126/234 (53%), Positives = 176/234 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E++ +NLRLV+S+AK+Y +GL FLDLIQEG++GL+KA EKFDW GYKFSTYA WW Sbjct: 130 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIR+PVHM + I+K+ + R + EP+ E IA+++ PV+ + Sbjct: 190 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYVQEHGEEPSIEYIAEQVGKPVDKI 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+ E +SLETP+ +ED S +GDFI D++ SP AI+ +RE ++L +L R Sbjct: 250 EEILQAAPETLSLETPVNEEDDSSMGDFIADESIGSPKKEAIRTLMREEIDKLLETLNDR 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 E++VL+MR+G+ TLEEVG+ F VTRERIRQIE KA+RKL+HPSRS+ LR Sbjct: 310 EKKVLKMRYGLYNGKPMTLEEVGQFFGVTRERIRQIEVKALRKLRHPSRSRYLR 363 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 32/121 (26%), Positives = 59/121 (48%), Gaps = 16/121 (13%) Query: 33 KMIKLARQRGYVTIEELNAFLPP---DEVSSEQMEDTVAMLSNMGINVVDGDDLED-EEG 88 K+++L +++GY+T ++++ PP D + S ++ L I + D DL + EE Sbjct: 18 KLVELGKRKGYITYDDIDRTFPPGDADSLDSNFLDMVYETLEKNKIEIRDTTDLMNIEEE 77 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + L + NS+ D ++MYLR++G I LL+ E +A+R + Sbjct: 78 VKAYLSESPEIFNST------------EPKDLIKMYLRDIGKIRLLTPSEEKRLAQRAQM 125 Query: 149 G 149 G Sbjct: 126 G 126 >gi|28493466|ref|NP_787627.1| RNA polymerase sigma factor [Tropheryma whipplei str. Twist] gi|28476507|gb|AAO44596.1| RNA polymerase sigma factor [Tropheryma whipplei str. Twist] Length = 387 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 137/253 (54%), Positives = 186/253 (73%), Gaps = 4/253 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +VR G+ AK ++ ANLRLV+S+AK+YT RG+QFLDLIQEGN+GL++A EK Sbjct: 138 RELRWVVRDGQR----AKDHLLAANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEK 193 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R++ + REP Sbjct: 194 FDYVKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLSRVQRQLLQDLGREP 253 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP+E+ ++L MP E V +V K +EPISL TP+GDE S GD IED +AV+P D+ + Sbjct: 254 TPDELGRELDMPPERVVEVQKYGREPISLHTPLGDEGDSEFGDLIEDVDAVAPDDAVGFS 313 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +L SL+ RE V+RMRFG+ + TL+ VG+ F VTRERIRQIEAK + KL Sbjct: 314 MLQQQLRLLLDSLSEREAGVIRMRFGLDDDMPKTLDYVGEYFDVTRERIRQIEAKTMAKL 373 Query: 668 KHPSRSKKLRSFL 680 +HPSRS+ LR +L Sbjct: 374 RHPSRSQCLRDYL 386 Score = 41.6 bits (96), Expect = 0.45, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 28/34 (82%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ + E+++AKRIEAG Sbjct: 86 ATADPVKDYLKQIGKVSLLTADEEVSLAKRIEAG 119 >gi|302560773|ref|ZP_07313115.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302478391|gb|EFL41484.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 404 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 166 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 225 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP E+A L +P E Sbjct: 226 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPGEVAAHLDLPPER 285 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 286 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 345 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 346 RERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 404 >gi|224532358|ref|ZP_03672988.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi WI91-23] gi|224512665|gb|EEF83036.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi WI91-23] Length = 631 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|596248|gb|AAC44104.1| primary sigma factor [Borrelia burgdorferi] Length = 543 Score = 268 bits (684), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 286 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 345 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 346 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 405 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 406 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 465 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 466 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 525 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 526 LKNPKKTQKLKDYLE 540 Score = 37.4 bits (85), Expect = 9.3, Method: Compositional matrix adjust. Identities = 18/56 (32%), Positives = 36/56 (64%), Gaps = 5/56 (8%) Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 D ++DP+++YL+E+G LL+ E+ +AK++++G S+ E+ L + L+I Sbjct: 46 DSHSEDPIKLYLKEIGKEFLLTGNQEVELAKQMDSG-----ESIIENILKNEGLVI 96 >gi|224531865|ref|ZP_03672497.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia valaisiana VS116] gi|224511330|gb|EEF81736.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia valaisiana VS116] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 37.7 bits (86), Expect = 6.2, Method: Compositional matrix adjust. Identities = 28/94 (29%), Positives = 52/94 (55%), Gaps = 15/94 (15%) Query: 78 VDG--DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 +DG DD ++E+ S DL S S+V D ++DP+++YL+E+G LL+ Sbjct: 104 IDGKLDDCDEEDISVKD-DLGSGYIKSNVL-------KDSHSEDPIKLYLKEIGKEFLLT 155 Query: 136 REGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 E+ +AK++++G ++ E+ L + L+I Sbjct: 156 GNQEVELAKQMDSGEGII-----ENILKNEGLVI 184 >gi|218249968|ref|YP_002375211.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi ZS7] gi|218165156|gb|ACK75217.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi ZS7] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|297194519|ref|ZP_06911917.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297152294|gb|EFH31643.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 366 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 128 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 187 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L + E Sbjct: 188 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVATHLELTSER 247 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 248 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLDAVLSTLGE 307 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 308 RERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 366 >gi|195941530|ref|ZP_03086912.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 80a] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|86607034|ref|YP_475797.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-3-3Ab] gi|86555576|gb|ABD00534.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-3-3Ab] Length = 404 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 129/237 (54%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 168 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 227 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ + +++S ++ R PT EEIA ++ + +E + Sbjct: 228 IRQAITRAIADQSRTIRLPVHLYETISRIKKVTKQLSQELGRRPTEEEIATRMEITIEKL 287 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + + LRE VL +LTPR Sbjct: 288 RFIAKSAQLPISLETPIGKEEDSRLGDFIESEGE-TPEERVAKVLLREDLESVLETLTPR 346 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 347 ERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 403 >gi|15595057|ref|NP_212846.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi B31] gi|216264471|ref|ZP_03436463.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 156a] gi|221217929|ref|ZP_03589396.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 72a] gi|225548954|ref|ZP_03769931.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 94a] gi|225549892|ref|ZP_03770853.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 118a] gi|226320452|ref|ZP_03796018.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 29805] gi|226321409|ref|ZP_03796936.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi Bol26] gi|3915854|sp|P52323|RPOD_BORBU RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|2688647|gb|AAC67061.1| RNA polymerase sigma-70 factor (rpoD) [Borrelia burgdorferi B31] gi|215980944|gb|EEC21751.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 156a] gi|221192235|gb|EEE18455.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 72a] gi|225369351|gb|EEG98803.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 118a] gi|225370557|gb|EEG99993.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 94a] gi|226233205|gb|EEH31957.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi Bol26] gi|226234094|gb|EEH32809.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi 29805] gi|312148540|gb|ADQ31199.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi JD1] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|223889384|ref|ZP_03623970.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 64b] gi|223885070|gb|EEF56174.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi 64b] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|312149387|gb|ADQ29458.1| RNA polymerase sigma factor RpoD (Sigma-70) [Borrelia burgdorferi N40] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 >gi|254525463|ref|ZP_05137515.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202] gi|221536887|gb|EEE39340.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202] Length = 393 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 335 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 336 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 392 >gi|225551881|ref|ZP_03772824.1| RNA polymerase sigma factor RpoD [Borrelia sp. SV1] gi|225371676|gb|EEH01103.1| RNA polymerase sigma factor RpoD [Borrelia sp. SV1] Length = 631 Score = 267 bits (683), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 127/255 (49%), Positives = 187/255 (73%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 374 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 433 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 434 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 493 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 494 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 553 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 554 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 613 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 614 LKNPKKTQKLKDYLE 628 Score = 38.5 bits (88), Expect = 4.2, Method: Compositional matrix adjust. Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 12/85 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEE DL S S+V D ++DP+++YL+E+G LL+ E+ +AK Sbjct: 112 DEEDISVKDDLGSGYIKSNVL-------KDSHSEDPIKLYLKEIGKEFLLTGNQEVELAK 164 Query: 145 RIEAGRAMMMASLCESPLTFQALII 169 ++++G S+ E+ L + L+I Sbjct: 165 QMDSGE-----SIIENILKNEGLVI 184 >gi|78778882|ref|YP_396994.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9312] gi|78712381|gb|ABB49558.1| Sigma-70 factor [Prochlorococcus marinus str. MIT 9312] Length = 393 Score = 267 bits (682), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 335 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 336 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 392 >gi|297160766|gb|ADI10478.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 453 Score = 267 bits (682), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 125/239 (52%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 215 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 274 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTPEE+A L + E Sbjct: 275 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAHHLDLLPER 334 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 335 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 394 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 395 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 453 Score = 38.5 bits (88), Expect = 4.0, Method: Compositional matrix adjust. Identities = 18/41 (43%), Positives = 27/41 (65%) Query: 109 RKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 R +++ + D R YLRE+G I LLS E+ +A+R+EAG Sbjct: 145 RAETSSGPSSDLFRQYLREIGRIPLLSAAEEVELARRVEAG 185 >gi|305681425|ref|ZP_07404232.1| RNA polymerase sigma factor RpoD [Corynebacterium matruchotii ATCC 14266] gi|305659630|gb|EFM49130.1| RNA polymerase sigma factor RpoD [Corynebacterium matruchotii ATCC 14266] Length = 608 Score = 267 bits (682), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 126/238 (52%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 371 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 430 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP E++K++ + + V Sbjct: 431 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPYELSKEMDITEDKV 490 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 491 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 550 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 551 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 608 Score = 47.4 bits (111), Expect = 0.009, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 283 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 330 >gi|271966792|ref|YP_003340988.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270509967|gb|ACZ88245.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 331 Score = 267 bits (682), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 126/237 (53%), Positives = 173/237 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK++T RG+ F DLIQEGN+GL++AAEKFD+ G+KFSTYA WW Sbjct: 94 AKNHLLEANLRLVVSIAKRHTGRGMAFADLIQEGNLGLIRAAEKFDYTKGFKFSTYATWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+TR++ADQ TIRIPVHM + I+KV R R+M + REP+P+E+A +L M VE + Sbjct: 154 IKQAVTRALADQGRTIRIPVHMVEVINKVARVQRQMMVTLGREPSPQELAVELDMTVEKI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +V K +EPISL TP+G E + GD IED A+ P ++ L+ VL +L+ R Sbjct: 214 TEVQKYGREPISLHTPLGAEGDAEFGDVIEDSEAILPEEAVTFILLQRQLHAVLEALSER 273 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+RFG+ TL+E+GK F VTRERIRQIE+K + KL+HP+R++ LR +L Sbjct: 274 EAGVMRLRFGLADGQPKTLDEIGKVFGVTRERIRQIESKTMSKLRHPARARALRDYL 330 >gi|33863540|ref|NP_895100.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9313] gi|33640989|emb|CAE21447.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] Length = 461 Score = 267 bits (682), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 225 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 284 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 285 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 344 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 345 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DTENPEQDVAKNLLREDLEGVLATLSPR 403 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 404 ERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLRHPNRNGVLKEYI 460 >gi|203284607|ref|YP_002222347.1| RNA polymerase sigma-70 factor [Borrelia duttonii Ly] gi|201084050|gb|ACH93641.1| RNA polymerase sigma-70 factor [Borrelia duttonii Ly] Length = 630 Score = 267 bits (682), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 128/255 (50%), Positives = 186/255 (72%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 373 IISMSEEILKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 432 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 433 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 492 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P Sbjct: 493 PTDEELSIRLGWDLKKVKTVKNVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHTSF 552 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ VL +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 553 VVLQDQIRAVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 612 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 613 LKNPKKTQKLKDYLE 627 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 39/160 (24%), Positives = 71/160 (44%), Gaps = 43/160 (26%) Query: 44 VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---GDDLEDEEGSEDSLDLASSAS 100 +T E+L+ FL D + + ++ +L N GI +++ G D+ D D LD AS Sbjct: 33 ITFEDLSTFLSGDMLEPDNIDCIYGILENEGIGLINEKIGSDICDV----DELDEASKLD 88 Query: 101 NSSVFLQ-------------------------------KRKDSADRSTDDPVRMYLREMG 129 + + L K D +++DP+R+YL+E+G Sbjct: 89 SQCMMLDDAIQVDDELDDKLDDFDDEVLDKEDYNSGYIKSGLLKDSNSEDPIRLYLKEIG 148 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 LL+ E+ +AK++++G S+ E+ L + L+I Sbjct: 149 KEFLLTGNQEVELAKQMDSG-----ESIIENILKNEGLVI 183 >gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101] Length = 464 Score = 267 bits (682), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 228 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 287 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 288 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKL 347 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 348 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 406 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 407 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 463 >gi|124022438|ref|YP_001016745.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9303] gi|123962724|gb|ABM77480.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] Length = 444 Score = 267 bits (682), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 208 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 267 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 268 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 327 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 328 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DTENPEQDVAKNLLREDLEGVLATLSPR 386 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 387 ERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLRHPNRNGVLKEYI 443 >gi|1149588|emb|CAA89984.1| SigA sigma factor [Corynebacterium glutamicum] Length = 497 Score = 266 bits (681), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 126/238 (52%), Positives = 177/238 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 260 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWW 319 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + ++ REPTP+E++K++ + E V Sbjct: 320 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQELGREPTPQELSKEMDISEEKV 379 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 380 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSER 439 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + K +HPSRS+ LR +LD Sbjct: 440 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKRRHPSRSQVLRDYLD 497 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 172 SATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 219 >gi|312200424|ref|YP_004020485.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] gi|311231760|gb|ADP84615.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. EuI1c] Length = 403 Score = 266 bits (681), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 119/244 (48%), Positives = 184/244 (75%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + +A +++VEANLRLV+S+AK+Y RG+ FLD++QEGN+GL++A EKFD+ GYKFS Sbjct: 160 ERDGQVAARQLVEANLRLVVSIAKRYAGRGMLFLDVVQEGNLGLIRAVEKFDYTKGYKFS 219 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WWV+QAITR++ADQS T+R+PVH+ + ++++VR R + ++ RE T EE+A L Sbjct: 220 TYATWWVRQAITRALADQSRTVRLPVHLVELLNQLVRLRRELLMELGREATREELATALG 279 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V ++ +I++EP+SL++P+GD+ + LGD IED A+ P+++A+ + + VL Sbjct: 280 VTANRVDELQRISREPVSLDSPVGDDADTELGDLIEDTAAIEPVEAAMVSVRAAQLSAVL 339 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L RE RV+++RFG+ HTLEE+G++F +TRERIRQIE + + KL+HP+RS+ LR Sbjct: 340 RALPDRERRVIQLRFGLADGQVHTLEEIGREFGLTRERIRQIEQRTLAKLRHPARSEALR 399 Query: 678 SFLD 681 S+L+ Sbjct: 400 SYLE 403 Score = 44.7 bits (104), Expect = 0.051, Method: Compositional matrix adjust. Identities = 20/31 (64%), Positives = 24/31 (77%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPVRMYL +G LL+ EGE+ +AKRIEAG Sbjct: 104 DPVRMYLASIGKTPLLTAEGEVDLAKRIEAG 134 >gi|33861053|ref|NP_892614.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639785|emb|CAE18955.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 396 Score = 266 bits (681), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 160 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 219 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 220 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 279 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 280 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 338 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 339 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 395 >gi|78185245|ref|YP_377680.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9902] gi|78169539|gb|ABB26636.1| Sigma-70 factor [Synechococcus sp. CC9902] Length = 451 Score = 266 bits (681), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 215 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 275 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 335 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 393 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 394 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 450 >gi|33866315|ref|NP_897874.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8102] gi|33639290|emb|CAE08298.1| Putative principal RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 471 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 235 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 294 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 295 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 354 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 355 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 413 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 414 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 470 >gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205] Length = 470 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 234 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 293 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 294 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKL 353 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 354 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 412 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 413 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 469 >gi|225021265|ref|ZP_03710457.1| hypothetical protein CORMATOL_01277 [Corynebacterium matruchotii ATCC 33806] gi|224945998|gb|EEG27207.1| hypothetical protein CORMATOL_01277 [Corynebacterium matruchotii ATCC 33806] Length = 617 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 126/238 (52%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 380 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 439 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTP E++K++ + + V Sbjct: 440 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPYELSKEMDITEDKV 499 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ R Sbjct: 500 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLHTLSER 559 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+++RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 560 EAGVVKLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 617 Score = 47.0 bits (110), Expect = 0.010, Method: Compositional matrix adjust. Identities = 22/48 (45%), Positives = 34/48 (70%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S+ Q RKD+ ++ D VR YL+++G + LL+ E E+++AKRIEAG Sbjct: 292 SAALRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLAKRIEAG 339 >gi|78212231|ref|YP_381010.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9605] gi|78196690|gb|ABB34455.1| Sigma-70 factor [Synechococcus sp. CC9605] Length = 435 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 199 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 258 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 259 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 318 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 319 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 377 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 378 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 434 >gi|88807657|ref|ZP_01123169.1| RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88788871|gb|EAR20026.1| RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 447 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 211 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 270 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 271 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 330 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 331 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 389 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 390 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 446 >gi|123965795|ref|YP_001010876.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9515] gi|123200161|gb|ABM71769.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] Length = 397 Score = 266 bits (681), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 161 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 220 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 221 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 280 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 281 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 339 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 340 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 396 >gi|260435157|ref|ZP_05789127.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] gi|260413031|gb|EEX06327.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] Length = 458 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 222 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 281 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 282 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 341 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 342 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 400 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 401 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 457 >gi|116072877|ref|ZP_01470142.1| RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116064403|gb|EAU70164.1| RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 451 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 215 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 275 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 335 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 393 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 394 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 450 >gi|87302644|ref|ZP_01085461.1| RNA polymerase sigma factor [Synechococcus sp. WH 5701] gi|87282988|gb|EAQ74945.1| RNA polymerase sigma factor [Synechococcus sp. WH 5701] Length = 469 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 233 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 292 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 293 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 352 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 353 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 411 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 412 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 468 >gi|157412913|ref|YP_001483779.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9215] gi|157387488|gb|ABV50193.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] Length = 393 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 335 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 336 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 392 >gi|40353313|gb|AAR84420.1| essential primary sigma 70 factor [Frankia sp. ACN1ag] Length = 255 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 123/216 (56%), Positives = 173/216 (80%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 40 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 99 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 100 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 159 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 160 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEXLDSVL 219 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 +L+ RE++V+++RFG+ TLEEVG++F VTR Sbjct: 220 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|40353309|gb|AAR84418.1| essential primary sigma 70 factor [Frankia sp. D11] gi|40353317|gb|AAR84422.1| essential primary sigma 70 factor [Frankia sp. HR2714] gi|40353319|gb|AAR84423.1| essential primary sigma 70 factor [Frankia sp. Flec] Length = 255 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 123/216 (56%), Positives = 173/216 (80%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 40 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 99 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 100 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 159 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 160 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 219 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 +L+ RE++V+++RFG+ TLEEVG++F VTR Sbjct: 220 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|149178485|ref|ZP_01857074.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] gi|148842698|gb|EDL57072.1| transcription initiation factor sigma 70 [Planctomyces maris DSM 8797] Length = 588 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 124/239 (51%), Positives = 172/239 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+ EK+++ GYKFSTYA WW Sbjct: 320 AKQQLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEYRRGYKFSTYATWW 379 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++AD + TIRIPVHM I + + ++ + REPT EE+A + + VE Sbjct: 380 IRQAITRAVADHARTIRIPVHMFQSISTLKARSEQIRQETGREPTMEELADSVGLGVEET 439 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++K K PISL+TP+G+ + S GDF+ED + SP D+A++ L++ VL SLT R Sbjct: 440 ERIMKTWKHPISLDTPVGESEDSSFGDFLEDGHESSPADAAMREMLKDKIEHVLKSLTYR 499 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E ++R+R+G+G +TLEE G+ F VTRERIRQIE+KA+RKL+H +RS LR F+D Sbjct: 500 EREIIRLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALRKLQHQTRSAHLRGFVDA 558 Score = 62.4 bits (150), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 47/155 (30%), Positives = 79/155 (50%), Gaps = 18/155 (11%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD--GDDLED 85 D + + + A ++G++T ++++ FLP + +E V L G++++D D++D Sbjct: 5 DANLNLLFQEAEKQGFLTFQQVHTFLPDEGGDPSLIEYIVVGLEERGLDLIDDPNADIDD 64 Query: 86 EEGSEDSLDLASSASNSSVFLQKR------------KDSADRSTDDPVRMYLREMGSIEL 133 EE + S+D SSA+ S Q + S+ DP+RMYL +MG+I L Sbjct: 65 EEVA--SVD--SSANTHSDVAQGADEDSDDASSSIVEPETSLSSRDPIRMYLSQMGNIPL 120 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 LSR EI +AK+IE R ++ ES + I Sbjct: 121 LSRSREIFLAKKIEITRKRFRRTVLESDFALKIAI 155 >gi|290960625|ref|YP_003491807.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22] gi|260650151|emb|CBG73267.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22] Length = 387 Score = 266 bits (680), Expect = 8e-69, Method: Compositional matrix adjust. Identities = 124/239 (51%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 149 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 208 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP+E+A L + E Sbjct: 209 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDEVAAHLDLAPER 268 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 269 VSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 328 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 329 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 387 >gi|123968088|ref|YP_001008946.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. AS9601] gi|123198198|gb|ABM69839.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] Length = 394 Score = 266 bits (680), Expect = 9e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 158 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 218 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 278 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 336 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 337 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 393 >gi|126695861|ref|YP_001090747.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT 9301] gi|126542904|gb|ABO17146.1| Putative principal RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] Length = 394 Score = 266 bits (680), Expect = 9e-69, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 158 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+P+ EEIA+ + M +E + Sbjct: 218 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 278 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVSKTLLREDLEGVLATLSPR 336 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+GI TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 337 ERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 393 >gi|254430902|ref|ZP_05044605.1| DNA-directed RNA polymerase sigma subunit [Cyanobium sp. PCC 7001] gi|197625355|gb|EDY37914.1| DNA-directed RNA polymerase sigma subunit [Cyanobium sp. PCC 7001] Length = 503 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 267 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 326 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 327 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKL 386 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 387 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 445 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 446 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 502 >gi|203288141|ref|YP_002223156.1| RNA polymerase sigma-70 factor [Borrelia recurrentis A1] gi|201085361|gb|ACH94935.1| RNA polymerase sigma-70 factor [Borrelia recurrentis A1] Length = 630 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 128/255 (50%), Positives = 186/255 (72%), Gaps = 3/255 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 373 IISMSEEILKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 432 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 433 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQILGKD 492 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P Sbjct: 493 PTDEELSIRLGWDLKKVKTVKNVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPAKHTSF 552 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ VL +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 553 VILQDQIRAVLGTLPEREQEVVKMRFGLEDGYSLTLEEVGLYFNVTRERIRQIESKALRR 612 Query: 667 LKHPSRSKKLRSFLD 681 LK+P +++KL+ +L+ Sbjct: 613 LKNPKKTQKLKDYLE 627 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 39/160 (24%), Positives = 71/160 (44%), Gaps = 43/160 (26%) Query: 44 VTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---GDDLEDEEGSEDSLDLASSAS 100 +T E+L+ FL D + + ++ +L N GI +++ G D+ D D LD AS Sbjct: 33 ITFEDLSTFLSGDMLEPDNIDCIYGILENEGIGLINEKIGSDICDV----DELDEASKLD 88 Query: 101 NSSVFLQ-------------------------------KRKDSADRSTDDPVRMYLREMG 129 + + L K D +++DP+R+YL+E+G Sbjct: 89 SQCMMLDDAIQVDDELDDKLDDFDDEVLDKEDYNSGYIKSGLLKDSNSEDPIRLYLKEIG 148 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 LL+ E+ +AK++++G S+ E+ L + L+I Sbjct: 149 KEFLLTGNQEVELAKQMDSG-----ESIIENILKNEGLVI 183 >gi|269925486|ref|YP_003322109.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789146|gb|ACZ41287.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 338 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 122/242 (50%), Positives = 179/242 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A++ ++EANLRLV+SVAKK+ NRGL LDLI+EGNIGLM+A +KFD+ G+KFSTY Sbjct: 97 EGERARRHLIEANLRLVVSVAKKHMNRGLSLLDLIEEGNIGLMRATDKFDYRKGFKFSTY 156 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QA+TR+IADQ+ TIR+PVH+ + ++ + + +R++S ++ REPT EE+A+ + M Sbjct: 157 ATWWIRQAVTRAIADQARTIRLPVHITETMNHLYKASRKLSQELGREPTCEELAEYMGMN 216 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E VR +++ ++ P+SLE P+G + S LG FI D +P+D AI L+ ++VL S Sbjct: 217 PEKVRLIMRASRHPLSLEGPVGTDGDSSLGQFIPDSTTETPVDLAIGEVLKRELSKVLNS 276 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT +E +V+ +R+G+ ++ HTLEEVG + VTRER+RQIEAKA+ KL+ P + LR F Sbjct: 277 LTEKERKVMVLRYGLEGSSPHTLEEVGHRLGVTRERVRQIEAKALEKLRKPGKLNHLRDF 336 Query: 680 LD 681 LD Sbjct: 337 LD 338 Score = 41.6 bits (96), Expect = 0.48, Method: Compositional matrix adjust. Identities = 19/43 (44%), Positives = 30/43 (69%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 K+++ DD VRMYLRE+G + LL+ E E+ +AK++E G+ Sbjct: 30 KQEEDLSEDLDDSVRMYLREIGLVPLLTAEQEVELAKKMERGK 72 >gi|256396128|ref|YP_003117692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] gi|256362354|gb|ACU75851.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora acidiphila DSM 44928] Length = 390 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 123/242 (50%), Positives = 179/242 (73%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK+ ++EANLRLV+S+AK+Y RG+ LDL+QEGN+GL++A EKFD+ GYKFST Sbjct: 148 LEGQAAKRRLIEANLRLVVSIAKRYLGRGMSILDLVQEGNLGLIRAVEKFDYTRGYKFST 207 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA++R++ADQ+ TIR+PVH+ + +++VVR RR+ + EPTP++IA+ L + Sbjct: 208 YATWWIRQAMSRALADQARTIRVPVHVVELMNRVVRLQRRLLQENGVEPTPDDIAEVLGV 267 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE V +VL++ +EP+SL P+G+ED LGD IED +AVSP DS LRE +L+ Sbjct: 268 AVERVVEVLRLAQEPVSLHAPVGEEDDVALGDLIEDADAVSPADSVAVVMLREHLDALLS 327 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+RV+++R+G+ HTLEE+G+ F VTRERIRQIEAK + KL+ + + +L Sbjct: 328 TLGEREKRVVQLRYGLTDGQPHTLEEIGRTFGVTRERIRQIEAKTLAKLRGHTYADQLLD 387 Query: 679 FL 680 +L Sbjct: 388 YL 389 >gi|320160330|ref|YP_004173554.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319994183|dbj|BAJ62954.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 543 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 129/266 (48%), Positives = 178/266 (66%), Gaps = 29/266 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ ANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A KFD GYKFSTYA WW Sbjct: 278 ANQTLIRANLRLVVSIAKRYLGRGVSFLDLIQEGNLGLLRAVNKFDPTRGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA---------- 553 ++Q+I+R IA+Q+ TIRIPVH+ + I +++R R + ++ REPT EE+A Sbjct: 338 IRQSISRYIAEQARTIRIPVHLFESITRLLRVQRTLIQQLGREPTAEELALEAGFLSDED 397 Query: 554 -------------------KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 ++ V++VL+ +EP+SLE P+GDED+S LGDFIED Sbjct: 398 AQAIRKARAEGKSIDPELMRRWNFATSKVQRVLQSAEEPVSLERPVGDEDSSQLGDFIED 457 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 A+ P+D+A + LRE L+ L+ RE +VL +RFG+ DHTLEEV + F VTRE Sbjct: 458 DEALEPMDAAAREMLREQVQNALSILSERERQVLELRFGLIDGKDHTLEEVSRYFNVTRE 517 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFL 680 RIRQIEAKA+RKL+HP+RS+ LR +L Sbjct: 518 RIRQIEAKALRKLRHPTRSRHLREYL 543 Score = 41.6 bits (96), Expect = 0.44, Method: Compositional matrix adjust. Identities = 18/36 (50%), Positives = 26/36 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++DPVR+YL+E+G I LL + E +A RIEA R + Sbjct: 92 SEDPVRLYLKEIGQINLLDADSEFRLAARIEAWRHL 127 >gi|113954073|ref|YP_731235.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9311] gi|113881424|gb|ABI46382.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CC9311] Length = 440 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 204 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 263 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 264 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 323 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 324 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 382 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 383 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 439 >gi|87123878|ref|ZP_01079728.1| Sigma-70 factor [Synechococcus sp. RS9917] gi|86168447|gb|EAQ69704.1| Sigma-70 factor [Synechococcus sp. RS9917] Length = 456 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 220 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 279 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 280 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 339 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 340 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 398 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 399 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 455 >gi|330466485|ref|YP_004404228.1| RNA polymerase sigma factor [Verrucosispora maris AB-18-032] gi|328809456|gb|AEB43628.1| RNA polymerase sigma factor [Verrucosispora maris AB-18-032] Length = 535 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 186/254 (73%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R ++ + R GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 286 RDLLWISRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 341 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 342 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 401 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ + Sbjct: 402 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFS 461 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 462 LLQDQLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 521 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 522 RHPSRSQVLRDYLD 535 Score = 43.9 bits (102), Expect = 0.082, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 216 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 263 >gi|148238947|ref|YP_001224334.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 7803] gi|147847486|emb|CAK23037.1| RNA polymerase sigma factor RpoD, sigma-70 family [Synechococcus sp. WH 7803] Length = 450 Score = 266 bits (679), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 214 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 273 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 274 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 333 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 334 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 392 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 393 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 449 >gi|159037077|ref|YP_001536330.1| RNA polymerase sigma factor [Salinispora arenicola CNS-205] gi|157915912|gb|ABV97339.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 532 Score = 265 bits (678), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 186/254 (73%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R ++ + R GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 283 RDLMWISRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 338 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 339 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 398 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ + Sbjct: 399 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFS 458 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 459 LLQDQLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 518 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 519 RHPSRSQVLRDYLD 532 Score = 44.3 bits (103), Expect = 0.073, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 213 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 260 >gi|325106737|ref|YP_004267805.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] gi|324967005|gb|ADY57783.1| RNA polymerase, sigma 70 subunit, RpoD [Planctomyces brasiliensis DSM 5305] Length = 575 Score = 265 bits (677), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 172/239 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+ EK+++ GYKFSTYA WW Sbjct: 316 AKQKLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEYRRGYKFSTYATWW 375 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++AD + TIRIPVHM I + A ++ + REPT EE+A + M VE Sbjct: 376 IRQAITRAVADHARTIRIPVHMFQSISTLKAKAEQIRQETGREPTMEELAAAIDMSVEET 435 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++K K P+SL+TP+G+ + S GDF++D + +P D+A+Q LR+ VL SLT R Sbjct: 436 ERIMKTWKHPVSLDTPVGESEDSSFGDFLQDDSENTPADTAMQQMLRDKINHVLKSLTYR 495 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E ++++R+G+G +TLEE G+ F VTRERIRQIE+KA+RKL+H +RS L+ F+D Sbjct: 496 EREIIKLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALRKLQHQTRSNHLKGFVDA 554 Score = 57.8 bits (138), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 46/172 (26%), Positives = 80/172 (46%), Gaps = 28/172 (16%) Query: 22 LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-- 79 +V FS+ S + ++K A + G ++ + ++ FLP + ++ V L + I++ D Sbjct: 1 MVTRFSE-SIQPLMKSALKAGRLSYQSMDEFLPDEGGDPTLIDQIVLALDQLEIDMYDDP 59 Query: 80 --------------GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 +E+E+ SED A + V S+ DP+RMYL Sbjct: 60 SGRIQKIPEKIGLPNQPIEEEDASEDDAVPAVVGPETPV-----------SSRDPIRMYL 108 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +MG+I LL+R EI +AK+IE R + ES T ++ +++N G Sbjct: 109 SQMGNIPLLTRADEIYLAKQIEVTRKRFRRTAMESDFTLAIVVDMFEKVNTG 160 >gi|21220928|ref|NP_626707.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289771799|ref|ZP_06531177.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans TK24] gi|19856645|sp|P18182|HRDA_STRCO RecName: Full=RNA polymerase principal sigma factor hrdA gi|6759560|emb|CAB69753.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289701998|gb|EFD69427.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans TK24] Length = 396 Score = 265 bits (677), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 158 LAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 217 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP+E+A L + E Sbjct: 218 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAPER 277 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LR+ VL++L Sbjct: 278 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGE 337 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 338 RERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAYADQLRGYLD 396 >gi|311895920|dbj|BAJ28328.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 389 Score = 265 bits (677), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 127/239 (53%), Positives = 175/239 (73%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK+ ++EANLRLV+SVAK+Y RGL LDLIQEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 151 IAKRRLIEANLRLVVSVAKRYVGRGLTLLDLIQEGNVGLIRAVEKFDYARGYKFSTYATW 210 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++V+R R + + EPT E+ L +P E Sbjct: 211 WIRQAMSRALADQARTIRVPVHVVELINRVLRVQRGLLQERGVEPTAAEVGAVLQLPPER 270 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+VLK+ +EP+SL TP+G+ED LGD IED +A SP +SA LRE VLA+L Sbjct: 271 VREVLKLAQEPVSLHTPVGEEDDVALGDLIEDADAASPPESAAFLLLREHLEAVLATLGE 330 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G F VTRERIRQIEAK + KL+ + + +LR +LD Sbjct: 331 RERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIRQIEAKTLGKLRDHAFADQLRGYLD 389 >gi|327539652|gb|EGF26260.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopirellula baltica WH47] Length = 567 Score = 265 bits (676), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 126/281 (44%), Positives = 193/281 (68%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A D +R E++ + + T S + + ++ VR+ + K+E+ NLRLV+S+ Sbjct: 283 AMSRDEAADLRQELRELMLVTQESPTSLHNRMAKVRRHFDQYEATKRELSAGNLRLVVSI 342 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKY NRGL FLDLIQEGN GLM+A +K+++ G+KFSTYA WW++QAITR+IADQ+ TI Sbjct: 343 AKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTI 402 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM D + K+ + +R++ ++REPT E+IA+ +P+E VR+V+ I + P+SL+ P Sbjct: 403 RIPVHMIDVLSKLRQAQKRLTQTLRREPTYEDIAEATDVPIEEVRRVMDIGRHPVSLDRP 462 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G+ + S G+F++D +P+ A LR +L +LT RE ++R+R+G+ Sbjct: 463 VGEGEDSSFGEFVQDSETDNPVRIAASGMLRNKIDELLKTLTFREREIIRLRYGLVDGYS 522 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TLEE G+ F VTRER+RQIEAKA+ K++ PSR+++L S+L Sbjct: 523 YTLEECGRIFKVTRERVRQIEAKAVAKMQSPSRAERLSSYL 563 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 52/165 (31%), Positives = 82/165 (49%), Gaps = 31/165 (18%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG------- 80 D ++I + G++T +E+NA+LP ++V+ E++ + L N GI +++ Sbjct: 5 DQDLSQLIARGTKDGFLTYDEVNAYLPDEDVNPEKLNSLLLALENRGIQLIEASEKKARD 64 Query: 81 ----------------DDLEDEEGSEDSL-DLASSASNSSVFLQKRKDSADRSTDDPVRM 123 D DEE E L + A+S S SS + K +++DP+RM Sbjct: 65 AAARRPSPNVRGLRSVDMTADEESPEQILANEAASQSFSSADMPK-------ASEDPIRM 117 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 YL +M I LLSRE EIA+AK+IE R SL E+ +A + Sbjct: 118 YLSQMAEIPLLSREEEIALAKKIEITRKQYRRSLLETDYALRATV 162 >gi|164688461|ref|ZP_02212489.1| hypothetical protein CLOBAR_02106 [Clostridium bartlettii DSM 16795] gi|164602874|gb|EDQ96339.1| hypothetical protein CLOBAR_02106 [Clostridium bartlettii DSM 16795] Length = 306 Score = 265 bits (676), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 129/242 (53%), Positives = 179/242 (73%), Gaps = 1/242 (0%) Query: 439 CEA-SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 CE +AKK +VE+NLRLV+S+A+KY + + LDLIQEG +GL++AAEKFD+ G+KFS Sbjct: 60 CEGDEVAKKILVESNLRLVVSIARKYARKEMAMLDLIQEGTLGLIRAAEKFDYTKGFKFS 119 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW+KQ ITR+IADQS TIR+PVHM +KI+KV + +++ ++ REP PEEIAK++ Sbjct: 120 TYATWWIKQGITRAIADQSRTIRVPVHMVEKINKVSTISSQLAKELGREPKPEEIAKRMH 179 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +PVE V +V++I++ P S+E+ IG ED + L I DK A SP + ++ L++ VL Sbjct: 180 VPVEKVVQVIRISQRPQSIESTIGQEDDTELEQVIPDKEAHSPEEIVTRSLLKDQIEYVL 239 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +L+ RE+ V+++RFG+G TLEEVG+ F VTRER RQIE KA+RKL HPSRS KL Sbjct: 240 DTLSEREKGVIKLRFGLGDGEKKTLEEVGRAFNVTRERARQIEKKALRKLAHPSRSNKLL 299 Query: 678 SF 679 + Sbjct: 300 DY 301 Score = 42.0 bits (97), Expect = 0.34, Method: Compositional matrix adjust. Identities = 33/96 (34%), Positives = 47/96 (48%), Gaps = 24/96 (25%) Query: 69 MLSN--MGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 ML+N +GIN V D+ E S + ++L DD +++YL+ Sbjct: 2 MLNNNSIGINKVKESDISLEGNSNNLVNL----------------------DDSMKIYLK 39 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 E+G I LLSR+ E+ IAKRI G + L ES L Sbjct: 40 EIGKIPLLSRQEELDIAKRICEGDEVAKKILVESNL 75 >gi|256787912|ref|ZP_05526343.1| RNA polymerase principal sigma factor [Streptomyces lividans TK24] Length = 365 Score = 265 bits (676), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 127 LAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 186 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP+E+A L + E Sbjct: 187 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAPER 246 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LR+ VL++L Sbjct: 247 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGE 306 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 307 RERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAYADQLRGYLD 365 >gi|145594022|ref|YP_001158319.1| RNA polymerase sigma factor [Salinispora tropica CNB-440] gi|145303359|gb|ABP53941.1| RNA polymerase sigma factor RpoD [Salinispora tropica CNB-440] Length = 542 Score = 265 bits (676), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 179/238 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 305 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 364 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 365 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 424 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ + L++ +VL +L+ R Sbjct: 425 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFSLLQDQLQQVLQTLSER 484 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 485 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 542 Score = 43.9 bits (102), Expect = 0.080, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 223 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 270 >gi|32474203|ref|NP_867197.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] gi|32444741|emb|CAD74742.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] Length = 567 Score = 265 bits (676), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 126/281 (44%), Positives = 193/281 (68%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A D +R E++ + + T S + + ++ VR+ + K+E+ NLRLV+S+ Sbjct: 283 AMSRDEAADLRQELRELMLVTQESPTSLHNRMAKVRRHFDQYEATKRELSAGNLRLVVSI 342 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKY NRGL FLDLIQEGN GLM+A +K+++ G+KFSTYA WW++QAITR+IADQ+ TI Sbjct: 343 AKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTI 402 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM D + K+ + +R++ ++REPT E+IA+ +P+E VR+V+ I + P+SL+ P Sbjct: 403 RIPVHMIDVLSKLRQAQKRLTQTLRREPTYEDIAEATDVPIEEVRRVMDIGRHPVSLDRP 462 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G+ + S G+F++D +P+ A LR +L +LT RE ++R+R+G+ Sbjct: 463 VGEGEDSSFGEFVQDSETDNPVRIAASGMLRNKIDELLKTLTFREREIIRLRYGLVDGYS 522 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TLEE G+ F VTRER+RQIEAKA+ K++ PSR+++L S+L Sbjct: 523 YTLEECGRIFKVTRERVRQIEAKAVAKMQSPSRAERLSSYL 563 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 52/165 (31%), Positives = 82/165 (49%), Gaps = 31/165 (18%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG------- 80 D ++I + G++T +E+NA+LP ++V+ E++ + L N GI +++ Sbjct: 5 DQDLSQLIARGTKDGFLTYDEVNAYLPDEDVNPEKLNSLLLALENRGIQLIEASEKKARD 64 Query: 81 ----------------DDLEDEEGSEDSL-DLASSASNSSVFLQKRKDSADRSTDDPVRM 123 D DEE E L + A+S S SS + K +++DP+RM Sbjct: 65 AAARRPSPNVRGLRSVDMTADEESPEQILANEAASQSFSSADMPK-------ASEDPIRM 117 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 YL +M I LLSRE EIA+AK+IE R SL E+ +A + Sbjct: 118 YLSQMAEIPLLSREEEIALAKKIEITRKQYRRSLLETDYALRATV 162 >gi|238063497|ref|ZP_04608206.1| rpoD family RNA polymerase, sigma-70 subunit [Micromonospora sp. ATCC 39149] gi|237885308|gb|EEP74136.1| rpoD family RNA polymerase, sigma-70 subunit [Micromonospora sp. ATCC 39149] Length = 534 Score = 265 bits (676), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 130/238 (54%), Positives = 179/238 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 297 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 356 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V Sbjct: 357 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 416 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ + L++ +VL +L+ R Sbjct: 417 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFSLLQDQLQQVLQTLSER 476 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 477 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 534 Score = 43.9 bits (102), Expect = 0.082, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 215 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 262 >gi|86609652|ref|YP_478414.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-2-3B'a(2-13)] gi|86558194|gb|ABD03151.1| RNA polymerase sigma factor RpoD [Synechococcus sp. JA-2-3B'a(2-13)] Length = 403 Score = 265 bits (676), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 129/237 (54%), Positives = 178/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 167 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 226 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ + + +S ++ R+PT EEIA ++ + +E + Sbjct: 227 IRQAITRAIADQSRTIRLPVHLYETISRIKKVTKLLSQELGRKPTEEEIATRMEITIEKL 286 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P D + LRE VL +LT R Sbjct: 287 RFIAKSAQLPISLETPIGKEEDSRLGDFIES-DGETPEDRVAKVLLREDLESVLETLTAR 345 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 346 ERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 402 >gi|116075287|ref|ZP_01472547.1| RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116067484|gb|EAU73238.1| RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 479 Score = 264 bits (675), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 132/237 (55%), Positives = 179/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 243 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 302 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 303 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 362 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 363 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPR 421 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+RKL+HP+R+ L+ ++ Sbjct: 422 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 478 >gi|302534283|ref|ZP_07286625.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302443178|gb|EFL14994.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 361 Score = 264 bits (675), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 123 MAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 182 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPT EE+A L + E Sbjct: 183 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAAHLELTPER 242 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 243 VLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPMESAAFFLLREHLEAVLSTLGE 302 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 303 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 361 >gi|313891780|ref|ZP_07825385.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|329121139|ref|ZP_08249770.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] gi|313119774|gb|EFR42961.1| RNA polymerase sigma factor RpoD [Dialister microaerophilus UPII 345-E] gi|327471301|gb|EGF16755.1| DNA-directed RNA polymerase sigma subunit RpoD [Dialister micraerophilus DSM 19965] Length = 374 Score = 264 bits (675), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 128/223 (57%), Positives = 168/223 (75%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 A AKK + +ANLRLV+S+AKKY RGLQFLDLIQEGN+GL+KA +KFD+ GYKFST Sbjct: 138 INADKAKKALSDANLRLVVSIAKKYLGRGLQFLDLIQEGNLGLLKAVDKFDYTKGYKFST 197 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q+ITR+IADQ+ TIR+PVHM + I+K+ R +R++ + REPT EIAK + + Sbjct: 198 YATWWIRQSITRAIADQARTIRVPVHMVETINKLNRISRQLLQEKGREPTEYEIAKAMDV 257 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V VR+V KI ++PISLETPIG+++ SHLGDFIED++A++P D+ L+E +L Sbjct: 258 SVGKVREVKKIAQDPISLETPIGEKEDSHLGDFIEDQDAIAPDDATDSILLKEQIEELLT 317 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 +LT RE +VL +RFG+ TLEEVG F VTRERIRQIE Sbjct: 318 NLTDRERQVLELRFGLKDGRPRTLEEVGNNFDVTRERIRQIEG 360 Score = 47.4 bits (111), Expect = 0.008, Method: Compositional matrix adjust. Identities = 34/111 (30%), Positives = 57/111 (51%), Gaps = 14/111 (12%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV---VDGDDLEDEEGSEDSLDLASS 98 G ++ + +N F+ + + E ++ A L GI+V V GD ED E + L Sbjct: 28 GMISGDIVNDFVNENHIDIEGLDLLNAALHEHGIDVYMNVPGD--EDSEENNKPLKKIQP 85 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + V + DDPV+MYL+E+G+++LL+ E E+ +AK +E G Sbjct: 86 KPSKRV---------SQGIDDPVKMYLKEIGTVDLLTAEEEVTLAKAVEKG 127 >gi|302866088|ref|YP_003834725.1| RNA polymerase sigma factor RpoD [Micromonospora aurantiaca ATCC 27029] gi|302568947|gb|ADL45149.1| RNA polymerase sigma factor RpoD [Micromonospora aurantiaca ATCC 27029] Length = 551 Score = 264 bits (675), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 186/254 (73%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R ++ + R GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 302 RDLMWISRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 357 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 358 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 417 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ + Sbjct: 418 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFS 477 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 478 LLQDQLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 537 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 538 RHPSRSQVLRDYLD 551 Score = 43.9 bits (102), Expect = 0.088, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 232 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 279 >gi|315502644|ref|YP_004081531.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|315409263|gb|ADU07380.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 551 Score = 264 bits (674), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 134/254 (52%), Positives = 186/254 (73%), Gaps = 4/254 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R ++ + R GE AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EK Sbjct: 302 RDLMWISRDGER----AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEK 357 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP Sbjct: 358 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREP 417 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ + Sbjct: 418 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFS 477 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L++ +VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL Sbjct: 478 LLQDQLQQVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 537 Query: 668 KHPSRSKKLRSFLD 681 +HPSRS+ LR +LD Sbjct: 538 RHPSRSQVLRDYLD 551 Score = 43.9 bits (102), Expect = 0.086, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 32/48 (66%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 S Q R+D+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG Sbjct: 232 SEALKQARRDAELTASADSVRAYLKQIGKVPLLNAEQEVELAKRIEAG 279 >gi|260424772|ref|ZP_05733235.2| RNA polymerase sigma-43 factor [Dialister invisus DSM 15470] gi|260403136|gb|EEW96683.1| RNA polymerase sigma-43 factor [Dialister invisus DSM 15470] Length = 394 Score = 263 bits (673), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 129/221 (58%), Positives = 163/221 (73%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+ AKKEM ANLRLV+S+AKKY RG+ FLDLIQEGN+GL+KA +KFD+ GYKFSTYA Sbjct: 158 AAEAKKEMANANLRLVVSIAKKYPGRGMPFLDLIQEGNMGLLKAVDKFDYTKGYKFSTYA 217 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITRSIADQ+ TIR+PVHM + I+K+ R R + RE T EE+AK++ V Sbjct: 218 TWWIRQAITRSIADQARTIRVPVHMVETINKMNRVGRHFLQEHGREATNEELAKEMETSV 277 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E +R+ K ++PISLETPIG+++ SHLGDFIED+ SP D A RE ++L +L Sbjct: 278 EKIREAKKAAQDPISLETPIGEKEDSHLGDFIEDQKTASPEDEAAATMRREQIHQLLETL 337 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 T RE+ V+ +R+GI T TLEEVGK F VTRERIRQIE Sbjct: 338 TEREKGVIALRYGIDDGTQRTLEEVGKYFGVTRERIRQIEG 378 Score = 40.0 bits (92), Expect = 1.4, Method: Compositional matrix adjust. Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 12/121 (9%) Query: 42 GYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV---DG-DDLEDEEGSEDSLDLAS 97 G + +++ F ++S+Q++ L G+ ++ DG D+ D E E+ D Sbjct: 26 GNIKYDDILLFTKEKSLTSKQLDSVFKALHEGGVEIIYEEDGKDEFRDGESEEEFEDELL 85 Query: 98 SASNSSVFLQKR---KDSADRSTD-----DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + ++ K D S D DPVR+YLRE G+ LL+ E E+ +A+ IE G Sbjct: 86 EDGDAEADVDEKEWEKGDGDISADPAGITDPVRLYLRECGTTPLLTSEQEMKLAQTIEIG 145 Query: 150 R 150 + Sbjct: 146 K 146 >gi|40353315|gb|AAR84421.1| essential primary sigma 70 factor [Frankia sp. HRX401a] Length = 255 Score = 263 bits (673), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 122/216 (56%), Positives = 172/216 (79%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FL LIQEGN+GL++A EKFD+ GYKFS Sbjct: 40 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLHLIQEGNLGLIRAVEKFDYTKGYKFS 99 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 100 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 159 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 160 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 219 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 +L+ RE++V+++RFG+ TLEEVG++F VTR Sbjct: 220 HTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTR 255 >gi|226355184|ref|YP_002784924.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226317174|gb|ACO45170.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 399 Score = 263 bits (672), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 137/257 (53%), Positives = 178/257 (69%), Gaps = 7/257 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH+ +V GE AKK + EANLRLV+S+AKKY NRGL LDLIQEGN GL++A EK Sbjct: 147 RHLQRLVEDGEA----AKKSLTEANLRLVVSIAKKYANRGLNLLDLIQEGNQGLIRAVEK 202 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GYKFSTYA WW++QA+TR+IAD+S TIR+PVHM + I+K+ R +R++ ++ REP Sbjct: 203 FEYRRGYKFSTYATWWIRQALTRAIADKSRTIRVPVHMVETINKLSRISRQLEMELSREP 262 Query: 548 TPEEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EE+A+ + E V K+ EPISLETPIGDE S GDF+ D+ SP+ +A Sbjct: 263 LAEEMAEAMGPGWDAEKVTDTQKVGHEPISLETPIGDEGDSFYGDFLPDERFGSPVQNAS 322 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q L E R L+SL RE VL++R G +HTLEEVG+ VTRER+RQIE+KA+R Sbjct: 323 QTLLSEALERALSSLGEREALVLKLRNGFVDGREHTLEEVGQLLSVTRERVRQIESKALR 382 Query: 666 KLKH-PSRSKKLRSFLD 681 KLK+ S + LR FLD Sbjct: 383 KLKYGESLNAGLRDFLD 399 Score = 38.5 bits (88), Expect = 3.5, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 38/74 (51%) Query: 78 VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSRE 137 VD + L+D G E LD A + + SAD D +R YL E+G IELLS Sbjct: 57 VDPEVLDDGLGLEADLDSAPVDATKDAEELEIHISADAYQGDSLRQYLHEIGQIELLSAV 116 Query: 138 GEIAIAKRIEAGRA 151 E+ +A+R E G A Sbjct: 117 EEMDLARRYEEGEA 130 >gi|294629207|ref|ZP_06707767.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292832540|gb|EFF90889.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 386 Score = 263 bits (672), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 148 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 207 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP E+A +L + + Sbjct: 208 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPAEVAAQLDLTPDR 267 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 268 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGE 327 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 328 RERKVVQLRYGLMDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 386 >gi|224533326|ref|ZP_03673920.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi CA-11.2a] gi|224513491|gb|EEF83848.1| RNA polymerase sigma factor RpoD [Borrelia burgdorferi CA-11.2a] Length = 255 Score = 263 bits (672), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 124/248 (50%), Positives = 183/248 (73%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA EKF++ G Sbjct: 5 IAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEKFEYKRG 64 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++PT EE++ Sbjct: 65 FKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKDPTDEELS 124 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + L++ Sbjct: 125 DRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSFVVLQDQI 184 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+LK+P ++ Sbjct: 185 RAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRRLKNPKKT 244 Query: 674 KKLRSFLD 681 +KL+ +L+ Sbjct: 245 QKLKDYLE 252 >gi|257892237|ref|ZP_05671890.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Enterococcus faecium 1,231,408] gi|257828616|gb|EEV55223.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Enterococcus faecium 1,231,408] Length = 332 Score = 263 bits (671), Expect = 9e-68, Method: Compositional matrix adjust. Identities = 130/239 (54%), Positives = 172/239 (71%), Gaps = 1/239 (0%) Query: 407 LKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 94 VKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANLRLVVSIAKRYVG 153 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM Sbjct: 154 RGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 213 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I+K++R R++ + REPTPEEI ++ +P E VR++LKI +EP+SLETPIG+ED Sbjct: 214 VETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDD 273 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 SHLGDFIED+ A SP + A L+E VL +LT REE VLR+RFG+ TLEE Sbjct: 274 SHLGDFIEDQEATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEE 332 Score = 49.7 bits (117), Expect = 0.002, Method: Compositional matrix adjust. Identities = 35/115 (30%), Positives = 58/115 (50%), Gaps = 9/115 (7%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR 109 N P +++++M+ + + + GI+VVD E + S+ SA + + Sbjct: 34 NQLATPFTLNADEMDKLIQKIEDAGISVVD-------ENGDPSIHSLKSAEKKAEQAKTE 86 Query: 110 KDSADRST--DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 SA +DPVRMYL+E+G + LL+ E E+A+A +IE G L E+ L Sbjct: 87 DLSAPTGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQEAKQRLAEANL 141 >gi|213026208|ref|ZP_03340655.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 445 Score = 262 bits (670), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 141/278 (50%), Positives = 190/278 (68%), Gaps = 6/278 (2%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 163 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 222 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 223 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 279 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 280 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 339 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 340 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 399 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 400 LMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIED 437 Score = 62.8 bits (151), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 30/52 (57%), Positives = 37/52 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 T DPVRMY+REMG++ELL+REGEI IAKRIE G + S+ E P L+ Sbjct: 6 TTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLL 57 >gi|271962349|ref|YP_003336545.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270505524|gb|ACZ83802.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 324 Score = 262 bits (669), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 128/237 (54%), Positives = 171/237 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK VEANLRLV+S+AK++ RG+ LDLIQEGN+GL++A EKFD LG+KFSTYA WW Sbjct: 87 AKDRFVEANLRLVVSIAKRHAGRGVPLLDLIQEGNLGLIRAVEKFDHRLGFKFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAITR++ADQ+ T+R+PVHM + I+KV R R++ + REPTPEEIA +L + E V Sbjct: 147 IKQAITRAMADQARTVRVPVHMVEMINKVARVERQLLCDLGREPTPEEIAAELDLTPEKV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +EPISL TP+GDE S LGD IED AV+P + L+E +LA+LT R Sbjct: 207 TEIKGHGREPISLHTPLGDEGDSELGDLIEDAEAVTPEAAVAFTLLQEQVRALLATLTGR 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+ MRFG TL+E+G+ + +TRERIRQIE+K + +L+HPSRS+ LR +L Sbjct: 267 EAGVISMRFGFADGRPWTLDEIGRVYGLTRERIRQIESKTMSRLRHPSRSQPLRDYL 323 Score = 38.1 bits (87), Expect = 4.6, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 25/34 (73%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPVR YLR++ I LL+ E+ +A+R+EAG Sbjct: 24 ATADPVRDYLRQIARIPLLTAGQEVELARRVEAG 57 >gi|148241988|ref|YP_001227145.1| RNA polymerase sigma factor RpoD [Synechococcus sp. RCC307] gi|147850298|emb|CAK27792.1| RNA polymerase sigma factor RpoD, sigma-70 family [Synechococcus sp. RCC307] Length = 401 Score = 262 bits (669), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 131/237 (55%), Positives = 178/237 (75%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MV++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW Sbjct: 165 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 224 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E + Sbjct: 225 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKL 284 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PR Sbjct: 285 RFIAKSAQLPISLETPIGKEEDSRLGDFIE-ADIENPDQDVAKNLLREDLEGVLATLSPR 343 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G+ F VTRERIRQIEAKA+ KL+HP+R+ L+ ++ Sbjct: 344 ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALLKLRHPNRNGVLKEYI 400 >gi|269926188|ref|YP_003322811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789848|gb|ACZ41989.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 463 Score = 262 bits (669), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 125/248 (50%), Positives = 180/248 (72%), Gaps = 3/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VRK E AK +++EAN RLV+S+AKKY RGL LDLIQEGNIGLM+AA+KFD+ G Sbjct: 218 VRK---EGEGAKCKLIEANTRLVVSIAKKYLGRGLSLLDLIQEGNIGLMRAADKFDYTRG 274 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QA+TR+IADQS TIR+PVH+ + + K+ +T++++ ++ EPT E+++ Sbjct: 275 YKFSTYATWWIRQAVTRAIADQSRTIRLPVHVCETVSKIHKTSQKLQQELGHEPTIEQLS 334 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +L MP++ V ++ + +K P+SLE PIG++ S LGDF+ED + ++P+ A LRE Sbjct: 335 SELGMPMKKVVQIQQASKFPVSLEAPIGEDGDSMLGDFLEDVHVLNPVQKAANDILREQI 394 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL +L P+E +VL +RFG+ TLEEVG +F +TRER+RQIE A+R+L+ Sbjct: 395 NSVLQNLPPKERKVLELRFGLVDGKCRTLEEVGNEFAITRERVRQIECTALRRLRENHLI 454 Query: 674 KKLRSFLD 681 K+LR FL+ Sbjct: 455 KQLRDFLE 462 Score = 42.7 bits (99), Expect = 0.21, Method: Compositional matrix adjust. Identities = 21/57 (36%), Positives = 36/57 (63%), Gaps = 3/57 (5%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM---MMASLCESPLTFQALIIWR 171 D+PV+MYLRE+G + LL+ E E+ +A++IE R + + + +T AL I++ Sbjct: 69 DEPVQMYLREIGKVPLLTAEQEVILARKIELSRRLDEYWLQQHTNADVTLVALKIYK 125 >gi|254382896|ref|ZP_04998252.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1] gi|194341797|gb|EDX22763.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1] Length = 362 Score = 261 bits (668), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 123/239 (51%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 124 MAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 183 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPT EE+A L + E Sbjct: 184 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTVEEVAVHLELTPER 243 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL++L Sbjct: 244 VLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLLREHLEAVLSTLGE 303 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 304 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 362 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 21/48 (43%), Positives = 30/48 (62%), Gaps = 5/48 (10%) Query: 107 QKRKDSADRSTD-----DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 Q+RK +AD + D R YLRE+G I LL+ E+ +A+R+EAG Sbjct: 47 QQRKRTADSGSGSGPSADLFRQYLREIGRIPLLTAAEEVELARRVEAG 94 >gi|239979292|ref|ZP_04701816.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 357 Score = 261 bits (668), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 121/238 (50%), Positives = 174/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+SVAK+YT RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 120 AKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVRT R + + REP EE+ ++L + E V Sbjct: 180 IRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQEAGREPAAEEVGERLGLSAEKV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ EPISL P+G ED LGD IED +A SP +SA LR+ VLA+L R Sbjct: 240 EEVLRLAHEPISLHAPVGGEDDVFLGDLIEDADAASPAESAALLLLRQHLDAVLATLGDR 299 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G TLEE+G+ F VTRER+RQIE+K +R+L+ + + +LR +L+ Sbjct: 300 ERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLREHTAAGQLRGYLE 357 Score = 37.7 bits (86), Expect = 6.7, Method: Compositional matrix adjust. Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 2/50 (4%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLC 158 + A + D R YLRE+G I LLS E+ +A+R+EAG A +A C Sbjct: 52 EQAGAAAPDLFRQYLREIGRIPLLSAADEVELARRVEAGVFAAAKLAGGC 101 >gi|581612|emb|CAA37172.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 396 Score = 261 bits (667), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 158 LAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 217 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP+E+A L + E Sbjct: 218 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAPER 277 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LR+ VL++L Sbjct: 278 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGE 337 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 338 RERKVVQLRYGLADGRPRTLEEIGRLGGVTRERIRQIESKTLSKLRDHAYADQLRGYLD 396 >gi|320353903|ref|YP_004195242.1| RpoD subfamily RNA polymerase sigma-70 factor [Desulfobulbus propionicus DSM 2032] gi|320122405|gb|ADW17951.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobulbus propionicus DSM 2032] Length = 439 Score = 261 bits (667), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 177/239 (74%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK M+ ANLRLV+S+AK+Y ++GL DLIQEGN+GLM+A +FD+ G KFSTYA W Sbjct: 202 FAKDSMIRANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYKKGNKFSTYASW 261 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+I D++ TIR+PVH + + + + ++ REPTP EI+K +P++ Sbjct: 262 WIRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYSLLKELGREPTPVEISKMTDLPMDK 321 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +L+ ++EPISLETP+GD+D++ LGDF+E++ + SP D+ L T VL++LT Sbjct: 322 ILAILEASREPISLETPVGDDDST-LGDFLENQESESPYDAVQNRELAHRVTEVLSTLTD 380 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+++R+RFGIG ++TLEE+GK+F V+RERIRQIE KA+ +L+H SR +KLR FLD Sbjct: 381 REEKIIRLRFGIGEKAEYTLEEIGKRFNVSRERIRQIEKKALNRLRHSSRREKLRFFLD 439 >gi|327539483|gb|EGF26098.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodopirellula baltica WH47] Length = 562 Score = 261 bits (667), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 171/239 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +KF+ GYKFSTYA WW Sbjct: 312 AKRVLSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKFEHARGYKFSTYATWW 371 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM D ++K+ + R + + REPT EE++K+ + ++ Sbjct: 372 IRQAITRAIADQSRTIRVPVHMIDTMNKIRQITRDLVQEHGREPTAEEVSKRSGLSLDDT 431 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LK++++P+SL+ P+GD D S G+F++D PL + L+ + +L R Sbjct: 432 RVILKMSRQPLSLDQPVGDHDDSVFGEFLQDHRDDDPLVETNREALKHQIDLAMETLNYR 491 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E +LR+R+G+ +TLEEVG+ F VTRER+RQIE+KA+RKL+ P R+K L SFLDG Sbjct: 492 EREILRLRYGLADGYTYTLEEVGRIFQVTRERVRQIESKAVRKLQQPYRAKSLVSFLDG 550 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 32/106 (30%), Positives = 52/106 (49%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S ++ S A+ + +R + T+DPVRMYL +MG I LL+R+ E+A A++IEA R Sbjct: 70 SEEIESGAAGDEDVVSRRDEFPTDPTEDPVRMYLMQMGQIPLLTRDQEVAAAQQIEATRE 129 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 + + QA + ++ D L I++ E K Sbjct: 130 RYRHCMMATDFMLQAALKLLQQVRDKQLRLDRTIEVSVTNAAEKKA 175 >gi|32474487|ref|NP_867481.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] gi|32445025|emb|CAD75027.1| transcription initiation factor sigma 70 [Rhodopirellula baltica SH 1] Length = 568 Score = 261 bits (667), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 171/239 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ + NLRLV+S+AKKY NRGL FLDLIQEGN GLM+A +KF+ GYKFSTYA WW Sbjct: 318 AKRVLSAGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKFEHARGYKFSTYATWW 377 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM D ++K+ + R + + REPT EE++K+ + ++ Sbjct: 378 IRQAITRAIADQSRTIRVPVHMIDTMNKIRQITRDLVQEHGREPTAEEVSKRSGLSLDDT 437 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +LK++++P+SL+ P+GD D S G+F++D PL + L+ + +L R Sbjct: 438 RVILKMSRQPLSLDQPVGDHDDSVFGEFLQDHRDDDPLVETNREALKHQIDLAMETLNYR 497 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E +LR+R+G+ +TLEEVG+ F VTRER+RQIE+KA+RKL+ P R+K L SFLDG Sbjct: 498 EREILRLRYGLADGYTYTLEEVGRIFQVTRERVRQIESKAVRKLQQPYRAKSLVSFLDG 556 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 32/106 (30%), Positives = 52/106 (49%) Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S ++ S A+ + +R + T+DPVRMYL +MG I LL+R+ E+A A++IEA R Sbjct: 76 SEEIESGAAGDEDVVSRRDEFPTDPTEDPVRMYLMQMGQIPLLTRDQEVAAAQQIEATRE 135 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 + + QA + ++ D L I++ E K Sbjct: 136 RYRHCMMATDFMLQAALKLLQQVRDKQLRLDRTIEVSVTNAAEKKA 181 >gi|320010942|gb|ADW05792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 358 Score = 261 bits (666), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 177/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 120 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 179 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EP PEE+A +L + E Sbjct: 180 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEEVAAQLDLTPER 239 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED GD IED +A SP+++A LRE VL++L Sbjct: 240 VSEVLRLAQEPVSLHAPVGEEDDVAFGDLIEDGDAASPVETAAFLLLREHLEVVLSTLGE 299 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 300 RERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLDKLRGHAFADQLRGYLD 358 Score = 39.3 bits (90), Expect = 2.5, Method: Compositional matrix adjust. Identities = 21/43 (48%), Positives = 27/43 (62%), Gaps = 1/43 (2%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + R DS T D R YLRE+G I LLS E+ +A+R+EAG Sbjct: 49 RSRPDSGG-PTSDLFRQYLREIGRIPLLSAADEVELARRVEAG 90 >gi|1519636|gb|AAB07551.1| SigA [Chloroflexus aurantiacus J-10-fl] Length = 343 Score = 260 bits (665), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 122/236 (51%), Positives = 169/236 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ANLRLV+S+AKKYT+ GL +DL+QEGNIGLM+A EKFD+ G+KFSTYA WW Sbjct: 106 ARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQS TIR+PVHM + I +V RT+ R+ ++R+ TPEEIA + + V Sbjct: 166 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQRDATPEEIADAMGISAGKV 225 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SLE P+G E +GDFIED +P ++ + LRE VL L R Sbjct: 226 RRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPAEAPAASLLREQLEEVLMKLPER 285 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E +++++R+G+ TLEEVG +F +TRERIRQIEA A+RKL+HP KKLR+ Sbjct: 286 ERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKLRHPHLGKKLRAI 341 Score = 37.7 bits (86), Expect = 5.9, Method: Compositional matrix adjust. Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 6/74 (8%) Query: 69 MLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREM 128 ML GI V++ D D ++ D + + D D + DDPVRMYL+E+ Sbjct: 1 MLQAEGIKVIESSDELDGRPTDFEPD------PDADLIADLPDLGDIAFDDPVRMYLQEI 54 Query: 129 GSIELLSREGEIAI 142 G + LL+ E E+ + Sbjct: 55 GQVPLLTAEQEVEL 68 >gi|291451171|ref|ZP_06590561.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291354120|gb|EFE81022.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 397 Score = 260 bits (665), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 121/238 (50%), Positives = 174/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+SVAK+YT RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 160 AKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWW 219 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVRT R + + REP EE+ ++L + E V Sbjct: 220 IRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQEAGREPAAEEVGERLGLSAEKV 279 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ EPISL P+G ED LGD IED +A SP +SA LR+ VLA+L R Sbjct: 280 EEVLRLAHEPISLHAPVGGEDDVFLGDLIEDADAASPAESAALLLLRQHLDAVLATLGDR 339 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G TLEE+G+ F VTRER+RQIE+K +R+L+ + + +LR +L+ Sbjct: 340 ERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLREHTAAGQLRGYLE 397 Score = 37.7 bits (86), Expect = 6.1, Method: Compositional matrix adjust. Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 2/50 (4%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLC 158 + A + D R YLRE+G I LLS E+ +A+R+EAG A +A C Sbjct: 92 EQAGAAAPDLFRQYLREIGRIPLLSAADEVELARRVEAGVFAAAKLAGGC 141 >gi|291301996|ref|YP_003513274.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290571216|gb|ADD44181.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 559 Score = 260 bits (664), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 127/238 (53%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ ANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 322 AKNHLLAANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 381 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REP PEE+AK++ + E V Sbjct: 382 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPAPEELAKEMDISPEKV 441 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +EPISL+ IGDE S LGDFIED AV +D+ + L+ +VL +L+ R Sbjct: 442 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFSLLQGQLQQVLQTLSER 501 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 502 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 559 Score = 45.1 bits (105), Expect = 0.045, Method: Compositional matrix adjust. Identities = 28/66 (42%), Positives = 39/66 (59%), Gaps = 3/66 (4%) Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 ED EGS D D +S Q RKD+ ++ D VR YL+++G + LL+ E+ +A Sbjct: 225 EDGEGS-DGFDWDDE--DSEALKQARKDAEMTASADSVRAYLKQIGKVPLLNAAQEVELA 281 Query: 144 KRIEAG 149 KRIEAG Sbjct: 282 KRIEAG 287 >gi|328882302|emb|CCA55541.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae ATCC 10712] Length = 336 Score = 260 bits (664), Expect = 6e-67, Method: Compositional matrix adjust. Identities = 122/239 (51%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK++++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 98 IAKRKLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 157 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++V+R RRM + EPT EE+A +L + E Sbjct: 158 WIRQAMSRALADQARTIRVPVHVVELINRVIRVQRRMLQERGYEPTAEEVAAQLDLAPER 217 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+E+ LGD IED +A SP++SA LR VL++L Sbjct: 218 VGEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLRRHLEDVLSTLGE 277 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 278 RERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRDHAYADQLRGYLD 336 >gi|85057387|ref|YP_456303.1| RNA polymerase sigma factor RpoD [Aster yellows witches'-broom phytoplasma AYWB] gi|84789492|gb|ABC65224.1| RNA polymerase sigma factor RpoD [Aster yellows witches'-broom phytoplasma AYWB] Length = 465 Score = 260 bits (664), Expect = 6e-67, Method: Compositional matrix adjust. Identities = 127/247 (51%), Positives = 179/247 (72%), Gaps = 11/247 (4%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AK +VE+N RLV+S+AK+Y RG+ FLDLIQEGN+GLM+A +KFD+ G+KFSTY Sbjct: 218 QARRAKDILVESNYRLVVSIAKRYIGRGILFLDLIQEGNMGLMRAVDKFDYQKGFKFSTY 277 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVH+ + I+K+ R+++ K+K++PT EE+A K+ + Sbjct: 278 ATWWIRQAITRAIADQARTIRIPVHIVETINKMALCTRKLTQKLKKKPTVEELADKMNIS 337 Query: 560 VEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 E +R + I K+PISLE P +ED + LGDFI D N +SP + ++E T ++L Sbjct: 338 AEKIRSIQYIEKKPISLEAPARENEEDETSLGDFISDPNILSPHEYM----MKEVTQKLL 393 Query: 618 -----ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +LT REE+VL+MR+G+ HTLEEVG F VTRERIRQIE+KA+R+L+ P++ Sbjct: 394 DEVLENTLTEREEKVLKMRYGLLDGKTHTLEEVGTLFGVTRERIRQIESKALRRLRTPAK 453 Query: 673 SKKLRSF 679 KL+S Sbjct: 454 QSKLKSL 460 >gi|39939114|ref|NP_950880.1| DNA-directed RNA polymerase sigma subunit [Onion yellows phytoplasma OY-M] gi|39722223|dbj|BAD04713.1| DNA-directed RNA polymerase sigma subunit [Onion yellows phytoplasma OY-M] Length = 460 Score = 260 bits (664), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 127/247 (51%), Positives = 179/247 (72%), Gaps = 11/247 (4%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AK +VE+N RLV+S+AK+Y RG+ FLDLIQEGN+GLM+A +KFD+ G+KFSTY Sbjct: 213 QARRAKDILVESNYRLVVSIAKRYIGRGILFLDLIQEGNMGLMRAVDKFDYQKGFKFSTY 272 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IADQ+ TIRIPVH+ + I+K+ R+++ K+K++PT EE+A K+ + Sbjct: 273 ATWWIRQAITRAIADQARTIRIPVHIVETINKMALCTRKLTQKLKKKPTVEELADKMNIS 332 Query: 560 VEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 E +R + I K+PISLE P +ED + LGDFI D N +SP + ++E T ++L Sbjct: 333 AEKIRSIQYIEKKPISLEAPARENEEDETSLGDFISDPNILSPHEYM----MKEVTQKLL 388 Query: 618 -----ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +LT REE+VL+MR+G+ HTLEEVG F VTRERIRQIE+KA+R+L+ P++ Sbjct: 389 DEVLENTLTDREEKVLKMRYGLLDGKTHTLEEVGTLFGVTRERIRQIESKALRRLRTPAK 448 Query: 673 SKKLRSF 679 KL+S Sbjct: 449 QSKLKSL 455 >gi|329934715|ref|ZP_08284756.1| RNA polymerase principal sigma factor HrdA [Streptomyces griseoaurantiacus M045] gi|329305537|gb|EGG49393.1| RNA polymerase principal sigma factor HrdA [Streptomyces griseoaurantiacus M045] Length = 363 Score = 259 bits (663), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 121/239 (50%), Positives = 178/239 (74%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 125 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 184 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EP+ EE+A +L + E Sbjct: 185 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPSAEEVAAQLDLSPER 244 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+E+ LGD IED +A SP++SA LRE VL++L Sbjct: 245 VGEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDATSPVESAAFLLLREHLDAVLSTLGE 304 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +L+ Sbjct: 305 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAYADQLRGYLE 363 >gi|297163178|gb|ADI12890.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 336 Score = 259 bits (663), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 122/238 (51%), Positives = 169/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +VEANLRLV+SVAK+YT RGL FLDLIQEGN GL++AAEKFD+ G+KFSTYA WW Sbjct: 98 AKTHLVEANLRLVVSVAKRYTGRGLAFLDLIQEGNTGLIRAAEKFDYAKGFKFSTYATWW 157 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA++R++ADQS TIR+PVH + I+++ R R + EPTPE++A+K +PV + Sbjct: 158 IKQAVSRALADQSRTIRVPVHTVELINRIARVRRELILDTGAEPTPEQVAEKAEVPVGRL 217 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ TKEP+SL + DE S GD I D + SP D + L++ +LA +TPR Sbjct: 218 AELDGYTKEPVSLHVALSDEGDSEFGDLIVDSDTPSPWDMVTFSLLQQALRTLLAEMTPR 277 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++ +R+G+ TLEE+G+ + VTRERIRQIE++ + KL+HPSRS+ LR +LD Sbjct: 278 EAGIISLRYGLFGGRARTLEEIGQVYGVTRERIRQIESRTMSKLRHPSRSQALRDYLD 335 Score = 38.5 bits (88), Expect = 3.4, Method: Compositional matrix adjust. Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 4/67 (5%) Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 +E E G E+ DL ++ + L D+ STD PV+ YL+ + + LL+ E E+ + Sbjct: 5 VETESGLENPADLPAAEDDEPTALL---DTPVGSTD-PVKDYLKLIARVRLLTAEQEVDL 60 Query: 143 AKRIEAG 149 AKRIEAG Sbjct: 61 AKRIEAG 67 >gi|240142885|ref|YP_002967398.1| putative RNA polymerase, sigma 70 (sigma D) factor [Methylobacterium extorquens AM1] gi|240012832|gb|ACS44057.1| putative RNA polymerase, sigma 70 (sigma D) factor [Methylobacterium extorquens AM1] Length = 531 Score = 259 bits (663), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 122/269 (45%), Positives = 182/269 (67%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + +++ G S+ FR + VR + A+ +V +NLRLV SVAKKYTNR L LD Sbjct: 260 VDEVAIPFGGSVRRFRLVQREVRAAHGDLRKARDTLVTSNLRLVFSVAKKYTNRPLPILD 319 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L+QEGNIGLM+A EKFD+ G+KFSTYA+WW+KQ+I+RSIAD TIR+PVH+ +K K+ Sbjct: 320 LVQEGNIGLMRAIEKFDYRRGWKFSTYAIWWIKQSISRSIADHGRTIRLPVHLHEKAAKI 379 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 RTA R+ ++ R P+P E+A+ L + V V +++ +++E +SL+ P+G++ GD + Sbjct: 380 DRTAARLRAELGRPPSPPELAQALDIDVRQVERLMNMSRETVSLDLPVGEDGDVRFGDLV 439 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 ED+ A P+ A A L++ + + L RE+ ++RMRFGIG TLEE+G+ F ++ Sbjct: 440 EDEKAPDPVGLADLAKLKDAVSDAVGDLPEREQTIIRMRFGIGYADQMTLEEIGQHFRIS 499 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RER+RQ+E+KAI++L+ P LR FLD Sbjct: 500 RERVRQVESKAIQRLRSPEIGAYLRKFLD 528 Score = 39.7 bits (91), Expect = 1.7, Method: Compositional matrix adjust. Identities = 21/63 (33%), Positives = 32/63 (50%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELN 175 + D + Y RE+G +L+RE E+A+AKR+EA R + AS + WR + Sbjct: 55 AVPDALSFYAREIGRHRVLTREEEVALAKRVEAARLSLFASFVALGSMARFAAEWRSAVV 114 Query: 176 DGT 178 G Sbjct: 115 SGA 117 >gi|156742920|ref|YP_001433049.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156234248|gb|ABU59031.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 348 Score = 259 bits (663), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 119/243 (48%), Positives = 171/243 (70%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 A A++ +++ANLRLV+S+AKKY RGL LDLIQEGNIGLM+A EKFD+ G +FST Sbjct: 106 AAAQEARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDYHKGNRFST 165 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA+TR+IA+Q TIR+PVHM + + +V RTA R++ ++R+PTPEEIA L Sbjct: 166 YATWWIRQAVTRAIAEQGRTIRLPVHMSESVGQVKRTADRLAQALERQPTPEEIATALGQ 225 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P E + +VL+ ++ P+SLETP+G++ LGDF++D +P+++A Q LR L Sbjct: 226 PTERIERVLEASRRPVSLETPVGEDGEHTLGDFLQDSELPTPVEAASQQLLRRDLAAALD 285 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE R++ +R+G+ TLEEVG+ +TRER RQIEA+A+R+L+ P LR Sbjct: 286 RLNERERRIIDLRYGLVDGQRRTLEEVGRVLGMTRERARQIEAEALRRLRAPDVGLHLRD 345 Query: 679 FLD 681 +L+ Sbjct: 346 YLE 348 >gi|289578595|ref|YP_003477222.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] gi|289528308|gb|ADD02660.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermoanaerobacter italicus Ab9] Length = 273 Score = 258 bits (659), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 177/238 (74%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK +E+NLRLV+S+AK Y +G+ F DLIQEGN+GL+KA E+FD+ GYKFSTYA WW Sbjct: 36 AKKRFIESNLRLVVSIAKGYVGKGISFPDLIQEGNLGLLKAVERFDYRKGYKFSTYATWW 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ ITR+IADQ+ TIRIPVHM + ++K+++ ++ K+ REP+ EEIA+++ + + Sbjct: 96 IKQTITRAIADQARTIRIPVHMVESVNKLLKIQKQFLQKLGREPSIEEIAEEMNISEKKA 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L+I + +SLE P+G+++ LGD I DK AV P++ L+E VL++L PR Sbjct: 156 KVLLEIVQGIVSLEEPVGEDENGKLGDIIADKEAVDPVEELESMLLKEQVDEVLSTLAPR 215 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQF-CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 EE+VLR+RFG+ TLEEVGK+ ++RER+RQIE KA+++L+HP+RS++L+ FL Sbjct: 216 EEKVLRLRFGLDDGKIRTLEEVGKELGGISRERVRQIETKALKRLRHPNRSRRLKEFL 273 >gi|269123266|ref|YP_003305843.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptobacillus moniliformis DSM 12112] gi|268314592|gb|ACZ00966.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptobacillus moniliformis DSM 12112] Length = 379 Score = 257 bits (657), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 124/221 (56%), Positives = 169/221 (76%), Gaps = 1/221 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGNIGLMKA EKF+ G+KFSTYA WW Sbjct: 141 AKQQLMESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFESDKGFKFSTYATWW 200 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + +EPT + +A+ + MPVE V Sbjct: 201 IRQAITRAIADQGRTIRIPVHMIETINKIKKASRIHLQETGKEPTDDYLAEIVEMPVEKV 260 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTP 622 + +L++ ++PISLETP+G ED S LGDF+ED ++P ++ +++ L+E VL L Sbjct: 261 KNILEMNQDPISLETPVGSEDDSELGDFVEDDKFLNPHEATVRSVLKEKLNDVLRKELNE 320 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 REE+VLR+R+G+ TLEEVGK F VTRERIRQIE KA Sbjct: 321 REEQVLRLRYGLDDGAPKTLEEVGKIFDVTRERIRQIEVKA 361 Score = 53.1 bits (126), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 50/188 (26%), Positives = 85/188 (45%), Gaps = 15/188 (7%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG------DD 82 +S +IK+A++ ++ EE+N + + S +++E T L + + +V+ Sbjct: 10 ESLSNLIKIAKEEKIISREEINKLMK-NNFSQDKIEATFFKLQELNVEIVNKIADKNKSK 68 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTD--DPVRMYLREMGSIELLSREGEI 140 E E ++ L++ L + + S+D +P++MYLRE+G I LL E E Sbjct: 69 KEIERNKKEELEINIDEKEVEALLNEDLTTVSESSDVDEPIKMYLREIGQIPLLKSEEEF 128 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID-----LEACIGPES 195 +A+RI G L ES L + I + N G LL I + ++A ES Sbjct: 129 ELARRIGEGDERAKQQLMESNLRL-VVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFES 187 Query: 196 KGGFFHGT 203 GF T Sbjct: 188 DKGFKFST 195 >gi|163847594|ref|YP_001635638.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222525449|ref|YP_002569920.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163668883|gb|ABY35249.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222449328|gb|ACM53594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 345 Score = 257 bits (657), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 123/266 (46%), Positives = 181/266 (68%), Gaps = 4/266 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++ T ++ E ++ V++GE A++ +++ANLRLV+S+AKKY RGL LDLIQ Sbjct: 84 LATATDLTPRERYELLQAVQQGEE----ARRHLIQANLRLVVSIAKKYVGRGLALLDLIQ 139 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLM+A EKFD+ G +FSTYA WW++QA+TR+IA+Q TIR+PVHM + + +V R Sbjct: 140 EGNIGLMRAVEKFDYHKGNRFSTYATWWIRQAVTRAIAEQGRTIRLPVHMSESVGQVKRI 199 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 A R++ ++R+PT EEIA L PVE ++++L+ + P+SLETP+GDE LGDF+ D+ Sbjct: 200 AERLAQSLERQPTAEEIAMALGQPVERIQRILEAARRPVSLETPVGDEGEHTLGDFLTDE 259 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +P + A Q LR L L RE R++ +R+G+ TLEEVG+ +TRER Sbjct: 260 ELPTPGEMAAQKLLRRDLCAALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGMTRER 319 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIEA+A+R+L+ P + LR +L+ Sbjct: 320 ARQIEAEALRRLRSPEVGQHLRDYLE 345 >gi|330946209|gb|EGH47399.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 230 Score = 257 bits (656), Expect = 5e-66, Method: Compositional matrix adjust. Identities = 128/226 (56%), Positives = 169/226 (74%), Gaps = 3/226 (1%) Query: 370 FLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FL + G E+D W + AK + ++ + I + + ++ ++ ETG+ I+E + Sbjct: 4 FLRQFPGNEVDESWTDALAKG--KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIK 61 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 62 DINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 121 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPT Sbjct: 122 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPT 181 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 PEE+ +++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 182 PEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIED 227 >gi|162605994|ref|XP_001713512.1| RNA-polymerase sigma factor [Guillardia theta] gi|13794432|gb|AAK39807.1|AF165818_15 RNA-polymerase sigma factor [Guillardia theta] Length = 460 Score = 256 bits (655), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 134/258 (51%), Positives = 181/258 (70%), Gaps = 9/258 (3%) Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + +FR I+ R+ AK+ MV ANLRLV+S+AK+Y NRG+ DLIQEG++GL++ Sbjct: 175 VRKFRSILHNARR-------AKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIR 227 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 AAEKFD G+KFSTYA WWVKQA+TR+IAD S TIR+PVH+ D I + +T R ++ +I Sbjct: 228 AAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRNLNIEI 287 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLD 602 R PT EEIAK++ M VE +R VL+ + +SLE P+ D+DTS L DFIE + SP + Sbjct: 288 GRSPTEEEIAKRMDMSVEKLRNVLQSAQPTLSLERPLKNDDDTSQLSDFIE-ADQESPEE 346 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ LR+ V+ SL+PRE V+RMR+G+ TLEE+G+ F VTRER+RQIEAK Sbjct: 347 HVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAK 406 Query: 663 AIRKLKHPSRSKKLRSFL 680 AIRKL+ P RS LR ++ Sbjct: 407 AIRKLRQPYRSSILRDYV 424 >gi|159037062|ref|YP_001536315.1| RNA polymerase sigma factor SigB [Salinispora arenicola CNS-205] gi|157915897|gb|ABV97324.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 328 Score = 256 bits (655), Expect = 7e-66, Method: Compositional matrix adjust. Identities = 120/242 (49%), Positives = 179/242 (73%), Gaps = 1/242 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFST Sbjct: 85 VEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFST 144 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQS TIRIPVHM ++++++VRT R +S + REPT E+A+ L + Sbjct: 145 YATWWIRQAITRAMADQSRTIRIPVHMVEQVNRMVRTRRDLSVSLGREPTVTEVARALDV 204 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV-SPLDSAIQANLRETTTRVL 617 P + +++ +EP+SL+ +G++ S LGDF+ NA +P ++A + LR+ VL Sbjct: 205 PEVQIIELISYDREPVSLDQAVGEDGESPLGDFVAVVNATAAPDNTAERGELRQEVRGVL 264 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A+L+ RE+ V+R+RFG+ TL+EVG++F ++RERIRQIE +RKL+ P R+++L Sbjct: 265 ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLRKLRAPERAQRLA 324 Query: 678 SF 679 ++ Sbjct: 325 AY 326 >gi|37520903|ref|NP_924280.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421] gi|35211898|dbj|BAC89275.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 350 Score = 256 bits (654), Expect = 9e-66, Method: Compositional matrix adjust. Identities = 125/275 (45%), Positives = 194/275 (70%), Gaps = 7/275 (2%) Query: 410 RNEIKSISVETGISISEF--RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 R++ ++++ E+ + + + ++VR+GE AK +V+ANLRLV+SVAKKY RG Sbjct: 77 RSKFQAVAAESWLESANLTPQQWSTIVREGER----AKAHLVKANLRLVVSVAKKYQGRG 132 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 L LDLIQEG +GL++AAEKFD+ G+KFSTYA WW++Q ITR+IA Q+ TIR+PVH+ + Sbjct: 133 LHLLDLIQEGTLGLIRAAEKFDYTRGFKFSTYATWWIRQGITRAIAMQARTIRLPVHIVE 192 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 K++++ + R++S ++ R P+ +EIA+ + M + +R V K + P+SLETP+G E+ + Sbjct: 193 KVNRIKKATRQLSQQLGRSPSEDEIAQAVEMDADQLRFVRKAIQLPVSLETPVGREEDTA 252 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGD I+ K P ++ + + +L +LTPRE VLR+R+G+ TL+EVG+ Sbjct: 253 LGDLIQAKGN-EPEHGVVRDLMNQDLESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQ 311 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 QF +TRERIRQIEA+A+RKL+HP R +++R +L+G Sbjct: 312 QFGLTRERIRQIEARALRKLRHPQRLQRVREYLEG 346 >gi|51246355|ref|YP_066239.1| RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] gi|50877392|emb|CAG37232.1| probable RNA polymerase sigma factor (RpoD) [Desulfotalea psychrophila LSv54] Length = 447 Score = 256 bits (654), Expect = 9e-66, Method: Compositional matrix adjust. Identities = 118/239 (49%), Positives = 176/239 (73%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK M+ ANLRLV+S+AK+Y ++GL DLIQEGN+GLM+A +FD+ G KFSTYA W Sbjct: 210 VAKDTMIRANLRLVVSIAKRYMHQGLTLADLIQEGNLGLMRAVFRFDYTKGNKFSTYASW 269 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+I D++ TIR+PVH + + + + ++ REPTP EI+K +P++ Sbjct: 270 WIRQAITRAILDKTRTIRLPVHFLELRSQFFKAFYALFKELGREPTPLEISKTTNLPMDK 329 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +L+ ++EPISLETP+GD+D S LGDF+E++ + SP ++ L T +L++L+ Sbjct: 330 ILSILEASREPISLETPVGDDD-STLGDFLENQESQSPYEAVQNRELSGRVTEILSTLSD 388 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 REE+++R+RFGIG ++TLEE+GK+F V+RERIRQIE KA+ +L+H SR KL+ F+D Sbjct: 389 REEKIIRLRFGIGEKAEYTLEEIGKRFNVSRERIRQIEKKALNRLRHSSRRDKLKFFVD 447 >gi|153304|gb|AAA26762.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450077|prf||1920369A RNA polymerase:SUBUNIT=sigma Length = 393 Score = 256 bits (654), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 121/239 (50%), Positives = 175/239 (73%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 155 MAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 214 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPT EE+A L + E Sbjct: 215 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTPER 274 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA E VL++L Sbjct: 275 VLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLRCEHLEAVLSTLGE 334 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 335 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 393 >gi|148823899|ref|YP_001288653.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis F11] gi|253798208|ref|YP_003031209.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 1435] gi|308232219|ref|ZP_07415326.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu001] gi|308369834|ref|ZP_07419229.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu002] gi|308371106|ref|ZP_07423839.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu003] gi|308372374|ref|ZP_07428435.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu004] gi|308373485|ref|ZP_07432499.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu005] gi|308374669|ref|ZP_07436917.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu006] gi|308375503|ref|ZP_07444157.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu007] gi|308377104|ref|ZP_07441142.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu008] gi|308378072|ref|ZP_07481430.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu009] gi|308379289|ref|ZP_07485765.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu010] gi|308380449|ref|ZP_07489983.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu011] gi|148722426|gb|ABR07051.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis F11] gi|253319711|gb|ACT24314.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 1435] gi|308214646|gb|EFO74045.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu001] gi|308326293|gb|EFP15144.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu002] gi|308329821|gb|EFP18672.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu003] gi|308333464|gb|EFP22315.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu004] gi|308337459|gb|EFP26310.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu005] gi|308341132|gb|EFP29983.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu006] gi|308346083|gb|EFP34934.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu007] gi|308348958|gb|EFP37809.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu008] gi|308353656|gb|EFP42507.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu009] gi|308357503|gb|EFP46354.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu010] gi|308361457|gb|EFP50308.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu011] Length = 345 Score = 256 bits (653), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 121/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 96 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 151 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 152 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREA 211 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 212 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 270 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 271 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 330 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 331 LRHGERADRLRSY 343 >gi|282861771|ref|ZP_06270835.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282563587|gb|EFB69125.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 355 Score = 255 bits (652), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 118/243 (48%), Positives = 177/243 (72%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + +A++ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFST Sbjct: 113 VQGRMAERRLIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFST 172 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA++R++ADQ+ TIR+PVH+ + I++VVR RR+ + EP+ EE+A +L + Sbjct: 173 YATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAEEVAAQLDL 232 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V +L++ +EP+SL P+G+ED GD IED +A SP++SA LRE VL+ Sbjct: 233 TPERVETILRLAQEPVSLHAPVGEEDDVAFGDLIEDGDAPSPVESAAFLLLREHLEAVLS 292 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + +L+ + + +LR Sbjct: 293 TLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLARLRDHAFADQLRG 352 Query: 679 FLD 681 +LD Sbjct: 353 YLD 355 >gi|167970067|ref|ZP_02552344.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra] gi|215404675|ref|ZP_03416856.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 02_1987] gi|215428138|ref|ZP_03426057.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T92] gi|215431649|ref|ZP_03429568.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis EAS054] gi|218754446|ref|ZP_03533242.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis GM 1503] gi|219558719|ref|ZP_03537795.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T17] gi|254551766|ref|ZP_05142213.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260187727|ref|ZP_05765201.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis CPHL_A] gi|260201835|ref|ZP_05769326.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T46] gi|260206019|ref|ZP_05773510.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis K85] gi|289746512|ref|ZP_06505890.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis 02_1987] gi|294994199|ref|ZP_06799890.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 210] gi|297635318|ref|ZP_06953098.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN 4207] gi|297732314|ref|ZP_06961432.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN R506] gi|289687040|gb|EFD54528.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis 02_1987] gi|323718704|gb|EGB27866.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CDC1551A] gi|328457981|gb|AEB03404.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 4207] Length = 333 Score = 255 bits (652), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 121/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 84 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 139 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 140 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREA 199 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 200 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 258 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 259 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 318 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 319 LRHGERADRLRSY 331 >gi|160902263|ref|YP_001567844.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359907|gb|ABX31521.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 414 Score = 255 bits (652), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 128/237 (54%), Positives = 174/237 (73%), Gaps = 2/237 (0%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+V+ANLRLVIS+AK+YT RGL FLDLIQEGNIGL++A EKFDW G+KFSTYA WWV+Q Sbjct: 171 ELVKANLRLVISIAKRYTGRGLTFLDLIQEGNIGLIRAVEKFDWKRGFKFSTYATWWVRQ 230 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITR+IADQ+ TIRIPVH+ + I+++ R+ + P+ E++A+ L P+E + ++ Sbjct: 231 AITRAIADQARTIRIPVHLVESINRMNIVIRKHLQETGEYPSTEKLAELLDKPLEKMDEI 290 Query: 567 LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 L TKE IS++ PI D++ +++GDF+ED A P + A++ L+E +VL SL P+E Sbjct: 291 LLATKEIISVDAPISGSDDEEAYIGDFLEDSEADQPEEIAVRMILKEEIEKVLESLRPKE 350 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VL+MR+G+ TLEEVG F VTRERIRQIE KA+RKL+HPSRS +L+ D Sbjct: 351 ATVLKMRYGLLDGKMKTLEEVGNFFNVTRERIRQIEVKALRKLRHPSRSLQLKEISD 407 >gi|15609847|ref|NP_217226.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Rv] gi|15842248|ref|NP_337285.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis CDC1551] gi|31793882|ref|NP_856375.1| RNA polymerase sigma factor SigB [Mycobacterium bovis AF2122/97] gi|121638585|ref|YP_978809.1| RNA polymerase sigma factor SigB [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148662551|ref|YP_001284074.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra] gi|215412516|ref|ZP_03421250.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|215446963|ref|ZP_03433715.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|224991077|ref|YP_002645766.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|254365367|ref|ZP_04981412.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str. Haarlem] gi|289444252|ref|ZP_06433996.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46] gi|289448365|ref|ZP_06438109.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CPHL_A] gi|289570886|ref|ZP_06451113.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17] gi|289575408|ref|ZP_06455635.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85] gi|289751363|ref|ZP_06510741.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92] gi|289754812|ref|ZP_06514190.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis EAS054] gi|289758838|ref|ZP_06518216.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|289762881|ref|ZP_06522259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM 1503] gi|298526180|ref|ZP_07013589.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|307085405|ref|ZP_07494518.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu012] gi|313659647|ref|ZP_07816527.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN V2475] gi|1171103|gb|AAA86044.1| sigma factor MysB [Mycobacterium tuberculosis H37Rv] gi|2182001|emb|CAB09470.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium tuberculosis H37Rv] gi|13882539|gb|AAK47099.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis CDC1551] gi|31619476|emb|CAD94914.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium bovis AF2122/97] gi|121494233|emb|CAL72711.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|134150880|gb|EBA42925.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str. Haarlem] gi|148506703|gb|ABQ74512.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra] gi|224774192|dbj|BAH26998.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|289417171|gb|EFD14411.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46] gi|289421323|gb|EFD18524.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis CPHL_A] gi|289539839|gb|EFD44417.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85] gi|289544640|gb|EFD48288.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17] gi|289691950|gb|EFD59379.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92] gi|289695399|gb|EFD62828.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis EAS054] gi|289710387|gb|EFD74403.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM 1503] gi|289714402|gb|EFD78414.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85] gi|298495974|gb|EFI31268.1| RNA polymerase principal sigma factor SigB [Mycobacterium tuberculosis 94_M4241A] gi|308365051|gb|EFP53902.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis SUMu012] gi|326904326|gb|EGE51259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis W-148] Length = 323 Score = 255 bits (652), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 121/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 74 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 129 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 130 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREA 189 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 190 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 248 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 249 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 308 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 309 LRHGERADRLRSY 321 >gi|240169688|ref|ZP_04748347.1| RNA polymerase sigma factor SigB [Mycobacterium kansasii ATCC 12478] Length = 319 Score = 255 bits (652), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 122/253 (48%), Positives = 185/253 (73%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RELAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++ +PV+ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 186 TDEELAEESGIPVDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 244 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 245 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMCK 304 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 305 LRHGERADRLRSY 317 >gi|289553505|ref|ZP_06442715.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 605] gi|289438137|gb|EFD20630.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN 605] Length = 338 Score = 255 bits (652), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 121/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 89 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 144 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 145 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREA 204 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 205 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 263 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 264 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 323 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 324 LRHGERADRLRSY 336 >gi|296171822|ref|ZP_06852936.1| RNA polymerase principal sigma factor SigB [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295893958|gb|EFG73726.1| RNA polymerase principal sigma factor SigB [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 329 Score = 255 bits (652), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 122/253 (48%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G+ A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 80 RDLEAVVRDGQA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 135 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 136 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 195 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +PVE + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 196 TDEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 254 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 255 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 314 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 315 LRHGERADRLRSY 327 >gi|315444860|ref|YP_004077739.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315263163|gb|ADT99904.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 319 Score = 255 bits (652), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 118/252 (46%), Positives = 183/252 (72%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++ +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ I Sbjct: 186 TDEELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISE 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + KL Sbjct: 246 LLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 305 Query: 668 KHPSRSKKLRSF 679 ++ R+ +LRS+ Sbjct: 306 RNGDRADRLRSY 317 >gi|1657704|gb|AAC44535.1| sigma factor MytB [Mycobacterium tuberculosis] Length = 345 Score = 255 bits (652), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 121/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 96 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 151 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 152 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREA 211 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 212 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 270 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 271 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 330 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 331 LRHGERADRLRSY 343 >gi|133468|sp|P27785|RPOD_STRAU RecName: Full=RNA polymerase sigma factor rpoD Length = 317 Score = 255 bits (652), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 121/239 (50%), Positives = 175/239 (73%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 79 MAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 138 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPT EE+A L + E Sbjct: 139 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTPER 198 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA E VL++L Sbjct: 199 VLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLRCEHLEAVLSTLGE 258 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + KL+ + + +LR +LD Sbjct: 259 RERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 317 >gi|145224529|ref|YP_001135207.1| RNA polymerase sigma factor SigB [Mycobacterium gilvum PYR-GCK] gi|145217015|gb|ABP46419.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium gilvum PYR-GCK] Length = 329 Score = 255 bits (651), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 118/252 (46%), Positives = 183/252 (72%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 80 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 135 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 136 FDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 195 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++ +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ I Sbjct: 196 TDEELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISE 255 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + KL Sbjct: 256 LLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 315 Query: 668 KHPSRSKKLRSF 679 ++ R+ +LRS+ Sbjct: 316 RNGDRADRLRSY 327 >gi|239940961|ref|ZP_04692898.1| putative RNA polymerase principal sigma factor [Streptomyces roseosporus NRRL 15998] gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces roseosporus NRRL 11379] Length = 363 Score = 255 bits (651), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 126 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR RR+ + EPT E+IA +L + E V Sbjct: 186 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVELDLTPERV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ +EP+SL P+G+ED GD IED +A SP++SA LR+ VL++L R Sbjct: 246 TEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGER 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + +L+ + + +LR +LD Sbjct: 306 ERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAFADQLRGYLD 363 Score = 37.7 bits (86), Expect = 6.0, Method: Compositional matrix adjust. Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + R DS T D R YLRE+G I LL+ E+ +A+R+EAG Sbjct: 54 RNRADSGG-PTSDLFRQYLREIGRIPLLTAAEEVELARRVEAG 95 >gi|291444398|ref|ZP_06583788.1| RNA polymerase principal sigma factor hrdA [Streptomyces roseosporus NRRL 15998] gi|291347345|gb|EFE74249.1| RNA polymerase principal sigma factor hrdA [Streptomyces roseosporus NRRL 15998] Length = 395 Score = 255 bits (651), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 176/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 158 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR RR+ + EPT E+IA +L + E V Sbjct: 218 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVELDLTPERV 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ +EP+SL P+G+ED GD IED +A SP++SA LR+ VL++L R Sbjct: 278 TEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGER 337 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + +L+ + + +LR +LD Sbjct: 338 ERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAFADQLRGYLD 395 Score = 37.7 bits (86), Expect = 5.8, Method: Compositional matrix adjust. Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + R DS T D R YLRE+G I LL+ E+ +A+R+EAG Sbjct: 86 RNRADSGG-PTSDLFRQYLREIGRIPLLTAAEEVELARRVEAG 127 >gi|296121158|ref|YP_003628936.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296013498|gb|ADG66737.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 577 Score = 254 bits (650), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 172/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+++ NLRLV+S+AKKY NRGL FLDLIQEGN GLM+ EK+++ GYKFSTYA WW Sbjct: 298 SKQQLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRGVEKYEFRRGYKFSTYATWW 357 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++AD + TIRIPVHM I + + ++ + REPT EE+A + M VE Sbjct: 358 IRQAITRAVADHARTIRIPVHMFQSISTLKNKSEQIRQETGREPTIEELALAVDMSVEDT 417 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++K K P+SL+TPIG+ + S GDF+ED + +P D+A++ LR+ VL SLT R Sbjct: 418 ERIMKTWKHPMSLDTPIGESEDSSFGDFLEDSHESTPADNALREMLRDKIDIVLRSLTYR 477 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++R+R+G+G +TLEE G+ F VTRERIRQIE+KA++KL+H +R+ L+ F++ Sbjct: 478 EREIIRLRYGLGDGYSYTLEETGRIFKVTRERIRQIESKALKKLQHHTRAHHLQGFVE 535 Score = 60.5 bits (145), Expect = 9e-07, Method: Compositional matrix adjust. Identities = 39/145 (26%), Positives = 71/145 (48%), Gaps = 13/145 (8%) Query: 24 FDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDL 83 D S + ++++ RG++T E++ ++P + +++ + L G++ V+ + Sbjct: 1 MDQSQLALRELLNQGASRGFLTYAEIDRYIPDEGGDPALVDELIMALEAAGLDAVEPEGG 60 Query: 84 EDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 D S L++ SNSS + DP+RMYL +MG I LL+RE EI +A Sbjct: 61 IDPLQSLPPLEMLEPESNSS-------------SRDPIRMYLSQMGHIPLLTREREIYLA 107 Query: 144 KRIEAGRAMMMASLCESPLTFQALI 168 K+IE R + ES + ++ Sbjct: 108 KQIEMTRRWFRRRMLESDFAIRIVV 132 >gi|309790481|ref|ZP_07685041.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] gi|308227468|gb|EFO81136.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] Length = 346 Score = 254 bits (650), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 124/266 (46%), Positives = 180/266 (67%), Gaps = 4/266 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++ E +S ++ R++ V +G + A++ +++ANLRLV+S+AKKY RGL LDLIQ Sbjct: 85 LATEDQLSGTQRRNLEHEVERG----NDARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQ 140 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGLM+A EKFD G +FSTYA WW++QA+TRSIA+Q TIR+PVHM + + +V RT Sbjct: 141 EGNIGLMRAVEKFDHRKGNRFSTYATWWIRQAVTRSIAEQGRTIRLPVHMSESVSQVKRT 200 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + R+S ++R+P+ EEIA L P E + +VL+ + P+SLETP+GDE LGDF+ D Sbjct: 201 SERLSQSLERQPSAEEIAIALGQPTERIERVLEAARRPVSLETPVGDEGEHTLGDFLPDD 260 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 + +P D A LR+ L L RE R++ +R+G+ TLEEVG+ +TRER Sbjct: 261 DLPTPGDFASAQLLRQDLCAALDHLNERERRIIDLRYGLLDGRRRTLEEVGRTLGMTRER 320 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIEA+A+R+L+ P + LR +L+ Sbjct: 321 ARQIEAEALRRLRSPDVGQHLRDYLE 346 >gi|182438860|ref|YP_001826579.1| putative RNA polymerase principal sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326779516|ref|ZP_08238781.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|178467376|dbj|BAG21896.1| putative RNA polymerase principal sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659849|gb|EGE44695.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 363 Score = 254 bits (650), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 174/238 (73%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++EANLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 126 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR RR+ + EPT E+IA L + E V Sbjct: 186 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVDLDLTPERV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L++ +EP+SL P+G+ED GD IED +A SP++SA LRE VL++L R Sbjct: 246 TDILRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G+ F VTRERIRQIE+K + +L+ + + +LR +LD Sbjct: 306 ERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAFADQLRGYLD 363 Score = 38.5 bits (88), Expect = 4.1, Method: Compositional matrix adjust. Identities = 20/43 (46%), Positives = 28/43 (65%), Gaps = 1/43 (2%) Query: 107 QKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + R DS +T D R YLRE+G I LL+ E+ +A+R+EAG Sbjct: 54 RNRADSGG-ATSDLFRQYLREIGRIPLLTAAEEVELARRVEAG 95 >gi|117928920|ref|YP_873471.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117649383|gb|ABK53485.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] Length = 413 Score = 254 bits (650), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 116/233 (49%), Positives = 170/233 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAK+Y+NRG+ FLD+IQEGN+GL++A EKFD+ GYKFSTYAMWW Sbjct: 176 AKAHMLEANLRLVVSVAKRYSNRGMAFLDVIQEGNLGLIRAVEKFDYTKGYKFSTYAMWW 235 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIR+PVH+ ++++K+ R R + + REPT EE+A +L E + Sbjct: 236 IRQAITRALADQARTIRLPVHVVEQLNKLTRLQRELHQQFGREPTAEELAAELDRTPEQI 295 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+ ++P+SL+ P+GD++ + LGD IED A + D+ + +T R LA L PR Sbjct: 296 EEMLRNARQPVSLDNPVGDDEDTLLGDLIEDMEAPAASDALEYQAMIDTVHRALAGLDPR 355 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E RV+ +RFG+ HTL+E+G+ +TRER+RQIE +A+ KL+ P+ L Sbjct: 356 EARVIALRFGLVGGRPHTLDEIGRDVGLTRERVRQIEREALAKLRDPNSPDSL 408 Score = 38.1 bits (87), Expect = 5.2, Method: Compositional matrix adjust. Identities = 18/31 (58%), Positives = 21/31 (67%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DPVR YL E+G LL E+ +AKRIEAG Sbjct: 114 DPVRNYLNEIGRTPLLDAAQEVELAKRIEAG 144 >gi|219849486|ref|YP_002463919.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219543745|gb|ACL25483.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 345 Score = 254 bits (649), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 124/268 (46%), Positives = 182/268 (67%), Gaps = 4/268 (1%) Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 + ++ T ++ E ++ V++GE A++ +++ANLRLV+S+AKKY RGL LDL Sbjct: 82 QRLATATDLTPRERCELLKAVQEGEE----ARRHLIQANLRLVVSIAKKYVGRGLSLLDL 137 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 IQEGNIGLM+A EKFD G +FSTYA WW++QA+TR++A+Q TIR+PVHM + + +V Sbjct: 138 IQEGNIGLMRAVEKFDHHKGNRFSTYATWWIRQAVTRALAEQGRTIRLPVHMSESVAQVK 197 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 R A R++ ++R+PTPEEIA L PVE ++++L+ + P+SLETP+GDE LGDFI Sbjct: 198 RIADRLAQSLERQPTPEEIAMALGQPVERIQRILEAARCPVSLETPVGDEGEHTLGDFIT 257 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 D+ +P + A Q L L L+ RE R++ +R+G+ TLEEVG+ +TR Sbjct: 258 DEELPAPGEIAAQKLLHRDLCAALNQLSDRERRIIDLRYGLLDGRRRTLEEVGRVLGMTR 317 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ER RQIEA+A+R+L+ P + LR +LD Sbjct: 318 ERARQIEAEALRRLRSPEIGQHLRDYLD 345 >gi|218515956|ref|ZP_03512796.1| RNA polymerase sigma factor RpoD [Rhizobium etli 8C-3] Length = 321 Score = 254 bits (649), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 162/324 (50%), Positives = 200/324 (61%), Gaps = 47/324 (14%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGGDEDSEGGE----LAPSG-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 KVMCALDEIAEVYRELRSLQDNAV 302 +VM LD IAE Y++LR LQD V Sbjct: 276 QVMETLDTIAETYKKLRKLQDQQV 299 >gi|120403441|ref|YP_953270.1| RNA polymerase sigma factor SigB [Mycobacterium vanbaalenii PYR-1] gi|119956259|gb|ABM13264.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium vanbaalenii PYR-1] Length = 329 Score = 254 bits (649), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 118/252 (46%), Positives = 182/252 (72%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 80 RDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 135 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 136 FDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 195 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ I Sbjct: 196 TDEELAAESGIPVEKITDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISE 255 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + KL Sbjct: 256 LLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 315 Query: 668 KHPSRSKKLRSF 679 ++ R+ +LRS+ Sbjct: 316 RNGERADRLRSY 327 >gi|116749951|ref|YP_846638.1| RpoD family RNA polymerase sigma factor [Syntrophobacter fumaroxidans MPOB] gi|116699015|gb|ABK18203.1| RNA polymerase, sigma 70 subunit, RpoD family [Syntrophobacter fumaroxidans MPOB] Length = 433 Score = 254 bits (649), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 122/238 (51%), Positives = 173/238 (72%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+EMV+ANLRLV+S+AK+Y RG+ F DLIQEGN+GL+KA +FD G +FSTYA WW Sbjct: 197 AKQEMVKANLRLVLSIAKRYRGRGMSFDDLIQEGNLGLLKAVGRFDHTKGNRFSTYATWW 256 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+Q+I R I D++ TIR+PVH + + + + ++ REP+P+EIA++ +P++ V Sbjct: 257 VRQSIIRGIYDKTRTIRLPVHFIELKNLFFKVFYELLKELGREPSPQEIAERAKLPLDKV 316 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + VL + +PISLETPIG ED LGDFIED+ A SP++ L E T +L+SL PR Sbjct: 317 QMVLTLAAQPISLETPIG-EDEQRLGDFIEDERAASPMEECSDRELAEITRSLLSSLQPR 375 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EE++LR+RFGI TLE++GK F V++ERIRQIE KA+RKL++P+R L++F++ Sbjct: 376 EEKILRLRFGIDGQPAETLEKIGKTFKVSKERIRQIEKKALRKLRNPNRQSCLKTFME 433 >gi|118472772|ref|YP_887083.1| RNA polymerase sigma factor SigB [Mycobacterium smegmatis str. MC2 155] gi|118174059|gb|ABK74955.1| sigma factor SigB [Mycobacterium smegmatis str. MC2 155] Length = 319 Score = 254 bits (648), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 118/252 (46%), Positives = 183/252 (72%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RDLQAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++ +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ I Sbjct: 186 TDEELAEESGIPVEKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSAENAVISE 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + KL Sbjct: 246 LLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 305 Query: 668 KHPSRSKKLRSF 679 ++ R+ +LRS+ Sbjct: 306 RNGERADRLRSY 317 >gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii] gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii] Length = 485 Score = 254 bits (648), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 133/258 (51%), Positives = 180/258 (69%), Gaps = 9/258 (3%) Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + +FR I+ R+ AK+ MV ANLRLV+S+AK+Y NRG+ DLIQEG++GL++ Sbjct: 192 VKKFRAILHNARR-------AKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIR 244 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 AAEKFD G+KFSTYA WWVKQA+TR+IAD S TIR+PVH+ D I + +T R ++ +I Sbjct: 245 AAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEI 304 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLD 602 R PT EEIA+K+ M VE +R VL+ + +SLE P+ D+D S L DFIE + SP + Sbjct: 305 GRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDDDASQLSDFIE-ADQESPEE 363 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ LR+ V+ SL+PRE V+RMR+G+ TLEE+G+ F VTRER+RQIEAK Sbjct: 364 HVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAK 423 Query: 663 AIRKLKHPSRSKKLRSFL 680 AIRKL+ P RS LR ++ Sbjct: 424 AIRKLRQPYRSSILRDYV 441 >gi|108799144|ref|YP_639341.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MCS] gi|119868259|ref|YP_938211.1| RNA polymerase sigma factor SigB [Mycobacterium sp. KMS] gi|126434752|ref|YP_001070443.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JLS] gi|108769563|gb|ABG08285.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119694348|gb|ABL91421.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. KMS] gi|126234552|gb|ABN97952.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp. JLS] Length = 319 Score = 253 bits (647), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 118/255 (46%), Positives = 183/255 (71%), Gaps = 4/255 (1%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A Sbjct: 67 SRKRDLAAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRA 122 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + Sbjct: 123 MEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLG 182 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 RE T EE+A++ +P E + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ Sbjct: 183 REATDEELAEESGIPAEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAV 242 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + Sbjct: 243 ISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVM 302 Query: 665 RKLKHPSRSKKLRSF 679 KL++ R+ +LRS+ Sbjct: 303 AKLRNGERADRLRSY 317 >gi|284931435|gb|ADC31373.1| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. F] Length = 646 Score = 253 bits (647), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 121/241 (50%), Positives = 178/241 (73%), Gaps = 7/241 (2%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V +NLRLV S+AKKY NRGL F+DLIQEG+IGLMKA KF++ LG KFSTYA WW++Q Sbjct: 400 QLVTSNLRLVTSIAKKYLNRGLDFVDLIQEGSIGLMKAISKFNYKLGNKFSTYATWWIRQ 459 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG---- 562 AITR+IADQ+ T+RIPVHM + I+K+++T R ++ ++ R+PT EE+ + + V G Sbjct: 460 AITRAIADQARTVRIPVHMVETINKLIKTERMLTQQLGRDPTLEELTEAMGGQVNGFTPK 519 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA-SL 620 V + K+ +EP+SL+ PIG ++ S DF++D++ + P + + + E + +L Sbjct: 520 KVADIKKLNQEPVSLDKPIGHDEESQFVDFVKDRDILKPDEYTEKLIVTEHINELFVNTL 579 Query: 621 TPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 T +EE+++RMR+G+ + TLEEVG++F VTRERIRQIE+KA+RKLKHPS++ +LRSF Sbjct: 580 TKKEEQIIRMRYGLHPWHQQMTLEEVGQKFNVTRERIRQIESKALRKLKHPSKNARLRSF 639 Query: 680 L 680 L Sbjct: 640 L 640 >gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta] Length = 490 Score = 253 bits (647), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 133/258 (51%), Positives = 180/258 (69%), Gaps = 9/258 (3%) Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + +FR I+ R+ AK+ MV ANLRLV+S+AK+Y NRG+ DLIQEG++GL++ Sbjct: 192 VKKFRSILHNARR-------AKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIR 244 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 AAEKFD G+KFSTYA WWVKQA+TR+IAD S TIR+PVH+ D I + +T R ++ +I Sbjct: 245 AAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEI 304 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLD 602 R PT EEIA+K+ M VE +R VL+ + +SLE P+ D+D S L DFIE + SP + Sbjct: 305 GRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDDDASQLSDFIE-ADQESPEE 363 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ LR+ V+ SL+PRE V+RMR+G+ TLEE+G+ F VTRER+RQIEAK Sbjct: 364 HVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAK 423 Query: 663 AIRKLKHPSRSKKLRSFL 680 AIRKL+ P RS LR ++ Sbjct: 424 AIRKLRQPYRSSILRDYV 441 >gi|183982017|ref|YP_001850308.1| RNA polymerase sigma factor SigB [Mycobacterium marinum M] gi|183175343|gb|ACC40453.1| RNA polymerase sigma factor SigB [Mycobacterium marinum M] Length = 333 Score = 253 bits (647), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 122/253 (48%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G + A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 84 RELAAVVRDG----AEARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 139 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 140 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 199 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +PVE + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 200 TDEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 258 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 259 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMCK 318 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 319 LRHGERADRLRSY 331 Score = 38.1 bits (87), Expect = 4.9, Method: Compositional matrix adjust. Identities = 18/31 (58%), Positives = 23/31 (74%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D VR+YL +G LL+ EGE+ +AKRIEAG Sbjct: 35 DLVRVYLNGIGKTALLNAEGEVELAKRIEAG 65 >gi|239931595|ref|ZP_04688548.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291439967|ref|ZP_06579357.1| transcription initiation factor sigma [Streptomyces ghanaensis ATCC 14672] gi|291342862|gb|EFE69818.1| transcription initiation factor sigma [Streptomyces ghanaensis ATCC 14672] Length = 335 Score = 253 bits (646), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 118/237 (49%), Positives = 166/237 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + EANLRLV+SVAK+YT RGLQF+DLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 96 AKNHLTEANLRLVVSVAKRYTGRGLQFMDLIQEGNAGLIRAVEKFDYTKGFKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ ITR++ADQS TIRIPVH + I++V R R + EPTPE++A++ ++ VE + Sbjct: 156 IKQGITRAMADQSRTIRIPVHAVEVINRVARVRRELIRATGTEPTPEDVAERASISVEKL 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +EP+SL+ P+ +E GD I D ++ SP + +L+ VLA L+PR Sbjct: 216 AELDAYAREPVSLDLPLSEEGGGEFGDLIVDSDSPSPWEVVAFGHLQRAVRSVLADLSPR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++ +R+G+ TLEE+G+ + VTRERIRQIE+K + KL+HP+RS LR +L Sbjct: 276 EAGIISLRYGLFGERPRTLEEIGQVYGVTRERIRQIESKTMSKLRHPARSHALRDYL 332 >gi|1553023|gb|AAC45103.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (646), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|1553011|gb|AAC45097.1| primary sigma factor [Borrelia afzelii] Length = 450 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|239934546|emb|CAR94587.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 296 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 152/317 (47%), Positives = 204/317 (64%), Gaps = 30/317 (9%) Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 ++ELLSREGEIAIAKRIEAGR M++ LCESPLTFQA+IIWRD LND LLREIIDLE Sbjct: 1 TVELLSREGEIAIAKRIEAGRETMISGLCESPLTFQAIIIWRDALNDSQILLREIIDLET 60 Query: 190 CIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV--DSP 247 + G E E +EK G+ S ++ DD + V D+P Sbjct: 61 T---------YAGPEAKQAPVIERVEEEKP------AAGNDRSRSRRDDDDITNVGGDTP 105 Query: 248 PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKD 307 E+ D+++D++ +L+AME +LRP+VM LD IA+ YR+LR LQD V + Sbjct: 106 VEDD-------DDEDDEANLSLAAMEAELRPQVMETLDVIADTYRKLRKLQDQQVENRLA 158 Query: 308 EKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ 361 S+ + K LK++L+K V SLSLNQ+RI+ LV QLYDI+KR++ NEG LLRLA+ Sbjct: 159 ASGSLSPSQERRYKELKDQLIKAVKSLSLNQNRIEALVAQLYDINKRLVQNEGRLLRLAE 218 Query: 362 SYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG 421 SYG++R+ FL+ +QG ELDP+W+ + WK F E D+I +R EI++++ ET Sbjct: 219 SYGVRREDFLKEYQGNELDPNWLKAVSNLTTRGWKEFTKNEKDTIKNLRTEIQNMAQETA 278 Query: 422 ISISEFRHIVSMVRKGE 438 ISISEFR IV+ V+KGE Sbjct: 279 ISISEFRRIVNQVQKGE 295 >gi|1553025|gb|AAC45104.1| primary sigma factor [Borrelia garinii] gi|1553031|gb|AAC45107.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|1553027|gb|AAC45105.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|256377300|ref|YP_003100960.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] gi|255921603|gb|ACU37114.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 349 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 121/238 (50%), Positives = 172/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT +G+ LD+IQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 112 AKDHLLEANLRLVVSIAKRYTGKGMALLDVIQEGNLGLVRAVEKFDYAKGFKFSTYATWW 171 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQS TIR+PVHM + + K+ R R + ++ RE T EE+A +L + E V Sbjct: 172 IRQAITRALADQSRTIRLPVHMVEVVTKLARVERDLLHRNGREATAEEVAVELDVTPEKV 231 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + + P+SL+ IG E + +GD I D+NAV+PL++ A L VL +LTPR Sbjct: 232 VELRQHARTPVSLDQTIGAEADTSIGDLIADENAVAPLEAVSSALLSADLRAVLDTLTPR 291 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMR+G HTLEEVG+ + VTRERIRQIE++ + KL+HP+RS+ L +LD Sbjct: 292 EAGVVRMRYGFPDGVLHTLEEVGRVYGVTRERIRQIESRTMAKLQHPARSRGLEGYLD 349 >gi|1553019|gb|AAC45101.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (646), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|1553029|gb|AAC45106.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (645), Expect = 9e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRSILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|1553013|gb|AAC45098.1| primary sigma factor [Borrelia afzelii] gi|1553015|gb|AAC45099.1| primary sigma factor [Borrelia afzelii] gi|1553021|gb|AAC45102.1| primary sigma factor [Borrelia garinii] Length = 450 Score = 253 bits (645), Expect = 9e-65, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLVQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|294660419|ref|NP_853171.2| RNA polymerase sigma factor RpoD [Mycoplasma gallisepticum str. R(low)] gi|284812078|gb|AAP56739.2| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. R(low)] gi|284930653|gb|ADC30592.1| RNA polymerase sigma factor RpoD (Sigma-A) [Mycoplasma gallisepticum str. R(high)] Length = 643 Score = 253 bits (645), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 121/241 (50%), Positives = 179/241 (74%), Gaps = 7/241 (2%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V +NLRLV S+AKKY NRGL F+DLIQEG+IGLMKA KF++ LG KFSTYA WW++Q Sbjct: 397 QLVTSNLRLVTSIAKKYLNRGLDFVDLIQEGSIGLMKAISKFNYKLGNKFSTYATWWIRQ 456 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG---- 562 AITR+IADQ+ T+RIPVHM + I+K+++T R ++ ++ R+PT EE+ + + V G Sbjct: 457 AITRAIADQARTVRIPVHMVETINKLIKTERMLTQQLGRDPTLEELTEAMGGQVNGFTPK 516 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASL 620 V + K+ +EP+SL+ PIG ++ S DF++D++ + P + + + E + + +L Sbjct: 517 KVADIKKLNQEPVSLDKPIGHDEESQFVDFVKDRDILKPDEYTEKLIVTEHINELFINTL 576 Query: 621 TPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 T +EE+++RMR+G+ + TLEEVG++F VTRERIRQIE+KA+RKLKHPS++ +LRSF Sbjct: 577 TKKEEQIIRMRYGLHPWHQQMTLEEVGQKFNVTRERIRQIESKALRKLKHPSKNARLRSF 636 Query: 680 L 680 L Sbjct: 637 L 637 >gi|1553033|gb|AAC45108.1| primary sigma factor [Borrelia japonica] Length = 450 Score = 253 bits (645), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|1553017|gb|AAC45100.1| primary sigma factor [Borrelia burgdorferi 297] Length = 450 Score = 252 bits (644), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 122/241 (50%), Positives = 175/241 (72%), Gaps = 3/241 (1%) Query: 430 IVSM---VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 I+SM + KG+ AK ++++ANLRLV+S+AKKY NRGL F DL+QEGNIGL+KA E Sbjct: 210 IISMSEEIAKGKQMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVE 269 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KF++ G+KFSTYA WW++QAITRSI+DQ+ TIR+PVHM ++I+++ R R + + ++ Sbjct: 270 KFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYLIQVLGKD 329 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PT EE++ +L ++ V+ V +++EP+SLETPIG+E+ S L DFIEDK +P + Sbjct: 330 PTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGEEEDSVLSDFIEDKAIKNPANHTSF 389 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L++ +L +L RE+ V++MRFG+ TLEEVG F VTRERIRQIE+KA+R+ Sbjct: 390 VVLQDQIRAILGTLPEREQEVVKMRFGLEDGYSLTLEEVGLHFNVTRERIRQIESKALRR 449 Query: 667 L 667 L Sbjct: 450 L 450 >gi|262202171|ref|YP_003273379.1| sigma-70 family RNA polymerase sigma factor [Gordonia bronchialis DSM 43247] gi|262085518|gb|ACY21486.1| RNA polymerase sigma factor, sigma-70 family [Gordonia bronchialis DSM 43247] Length = 337 Score = 251 bits (642), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 119/259 (45%), Positives = 187/259 (72%), Gaps = 6/259 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S ++ R + +VR+GE A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 82 LSAAKKRDLAIVVREGEA----ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 137 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 138 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 197 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T EE+A + +P E + +L +++P+SL+ P+G ++ + LGDFIED A S Sbjct: 198 QLGREATDEELANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEATSA- 256 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +SA+ A L T R VLA+L RE++V+RMR+G+ TL+++G+ F ++RER+RQIE Sbjct: 257 ESAVIAGLMHTDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIE 316 Query: 661 AKAIRKLKHPSRSKKLRSF 679 + + KL+ R+++LR++ Sbjct: 317 REVMGKLRQGDRAERLRAY 335 >gi|330466466|ref|YP_004404209.1| RNA polymerase sigma factor SigB [Verrucosispora maris AB-18-032] gi|328809437|gb|AEB43609.1| RNA polymerase sigma factor SigB [Verrucosispora maris AB-18-032] Length = 335 Score = 251 bits (642), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 117/240 (48%), Positives = 175/240 (72%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTY Sbjct: 94 EGQAAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 153 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR++ADQ+ TIRIPVHM ++++++VR R +S + REP+ EIA+ L +P Sbjct: 154 ATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELSVSLGREPSVAEIARALDVP 213 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V +++ +EP+SL+ +G++ S LGDF+ + S +D A + LR + VLA+ Sbjct: 214 EFQVIELISYDREPVSLDQTVGEDGESALGDFVAAVDPSSMVDDADRGELRNEVSIVLAT 273 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE+ V+R+RFG+ TL+EVG++F ++RERIRQIE + KL+ P R+++L ++ Sbjct: 274 LSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLRAPERAQRLEAY 333 >gi|21449377|gb|AAM54109.1|AF453501_35 RNA polymerase sigma factor [Actinosynnema pretiosum subsp. auranticum] Length = 348 Score = 251 bits (640), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 120/238 (50%), Positives = 172/238 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT +G+ LD+IQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 111 AKDHLLEANLRLVVSIAKRYTGKGMALLDVIQEGNLGLVRAVEKFDYAKGFKFSTYATWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQS TIR+PVHM + + K+ R R + ++ RE T EE+A +L + E V Sbjct: 171 IRQAITRALADQSRTIRLPVHMVEVVTKLARIERDLLHRNGREATAEEVAVELDVTPEKV 230 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + + P+SL+ IG E + +GD I D+NAV+PL++ A L VL +LTPR Sbjct: 231 VELRQHARTPVSLDQTIGAEADTSIGDLIADENAVAPLEAVSSALLSADLRAVLETLTPR 290 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+RMR+G HTL+EVG+ + VTRERIRQIE++ + KL+HP+RS+ L +LD Sbjct: 291 EAGVVRMRYGFPDGVLHTLDEVGRVYGVTRERIRQIESRTMAKLQHPARSRGLEGYLD 348 >gi|328474970|gb|EGF45764.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes 220] Length = 346 Score = 251 bits (640), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 117/204 (57%), Positives = 157/204 (76%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ ++ E AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ Sbjct: 124 IALAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDF 183 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R + + R+P+PE Sbjct: 184 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPE 243 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI +++ +P E VR++LKI +EP+SLETPIG+ED SHLGDFIED++A SP D A L+ Sbjct: 244 EIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLK 303 Query: 611 ETTTRVLASLTPREERVLRMRFGI 634 E VL +LT REE VLR+RFG+ Sbjct: 304 EQLEDVLDTLTDREENVLRLRFGL 327 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|118463509|ref|YP_882780.1| RNA polymerase sigma factor SigB [Mycobacterium avium 104] gi|254776043|ref|ZP_05217559.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp. avium ATCC 25291] gi|118164796|gb|ABK65693.1| sigma factor SigB [Mycobacterium avium 104] Length = 319 Score = 251 bits (640), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 119/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G+ A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RDLEAVVRDGQA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 186 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 244 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 245 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 304 Query: 667 LKHPSRSKKLRSF 679 L++ R+ +LRS+ Sbjct: 305 LRNGERADRLRSY 317 >gi|145594010|ref|YP_001158307.1| RNA polymerase sigma factor SigB [Salinispora tropica CNB-440] gi|145303347|gb|ABP53929.1| sigma-70 region 2 domain protein [Salinispora tropica CNB-440] Length = 332 Score = 251 bits (640), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 116/242 (47%), Positives = 175/242 (72%), Gaps = 1/242 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFST Sbjct: 89 AEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFST 148 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM ++++++VRT R +S + REPT E+A+ L + Sbjct: 149 YATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRTRRELSVSLGREPTVAEVARTLDI 208 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVL 617 P V +++ +EP+SL+ +G++ S LGDF+ ++ + D + LR+ VL Sbjct: 209 PEIQVIELISYDREPVSLDQTVGEDGESPLGDFVAAVDSTAGTDDTVSGGELRQEMCGVL 268 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A+L+ RE+ V+R+RFG+ TL+EVG++F ++RERIRQIE + KL+ P R+++L Sbjct: 269 ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLHKLRAPERAQRLE 328 Query: 678 SF 679 ++ Sbjct: 329 AY 330 >gi|254821657|ref|ZP_05226658.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC 13950] Length = 319 Score = 251 bits (640), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 120/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G+ A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RDLEAVVRDGKA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +PV+ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 186 TDEELAAESGIPVDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 244 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 245 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 304 Query: 667 LKHPSRSKKLRSF 679 L++ R+ +LRS+ Sbjct: 305 LRNGERADRLRSY 317 >gi|41408924|ref|NP_961760.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp. paratuberculosis K-10] gi|41397283|gb|AAS05143.1| SigB [Mycobacterium avium subsp. paratuberculosis K-10] Length = 332 Score = 250 bits (639), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 119/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G+ A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 83 RDLEAVVRDGQA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 138 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 139 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 198 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +P++ + +L+ +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A Sbjct: 199 TDEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIA 257 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 258 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSK 317 Query: 667 LKHPSRSKKLRSF 679 L++ R+ +LRS+ Sbjct: 318 LRNGERADRLRSY 330 >gi|148657222|ref|YP_001277427.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148569332|gb|ABQ91477.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 349 Score = 250 bits (639), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 115/238 (48%), Positives = 167/238 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+S+AKKY RGL LDLIQEGNIGLM+A EKFD G +FSTYA WW Sbjct: 112 ARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKGNRFSTYATWW 171 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+Q TIR+PVHM + + +V R A R++ ++R+PTPEEIA L P E + Sbjct: 172 IRQAVTRAIAEQGRTIRLPVHMSESVGQVKRAADRLAQVLERQPTPEEIATALGQPTERI 231 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL+ ++ P+SLE P+G++ LGDF++D + +P+++A LR L L R Sbjct: 232 ERVLEASRRPVSLEMPVGEDGEHTLGDFLQDSDLPTPVEAASHQLLRRDLAAALDRLNER 291 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E R++ +R+G+ TLEEVG+ +TRER RQIEA+A+R+L+ P LR +L+ Sbjct: 292 ERRIIDLRYGLVDGQRRTLEEVGRVLGMTRERARQIEAEALRRLRAPDVGLHLRDYLE 349 >gi|94985446|ref|YP_604810.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] gi|94555727|gb|ABF45641.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM 11300] Length = 403 Score = 250 bits (638), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 124/245 (50%), Positives = 171/245 (69%), Gaps = 3/245 (1%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + AK+ ++EANLRLV+S+AK+YTNRGL LDLIQEGN GL++A EKF++ GYKFSTY Sbjct: 159 DGAAAKQALIEANLRLVVSIAKRYTNRGLGLLDLIQEGNQGLIRAVEKFEYRRGYKFSTY 218 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q++TR+IAD+S TIR+PVHM + I+++ R R++ ++ REP P EIA+ + Sbjct: 219 ATWWIRQSLTRAIADKSRTIRVPVHMVETINRLSRMTRQLEMELSREPLPAEIAEAMGPG 278 Query: 560 VEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V + K+ EP+SLE PIG+E S GDF+ D SP+ +A QA L E R Sbjct: 279 WDAAKVEETQKVGWEPMSLEMPIGEEGDSTYGDFLPDDRFASPIQNASQALLSEALERAF 338 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP-SRSKKL 676 +L RE VLR+R G +HTLEEVG+ VTRER+RQIE KA+RKLK+ ++ L Sbjct: 339 GTLNEREALVLRLRHGFVDGHEHTLEEVGQLLSVTRERVRQIENKALRKLKYQEGLTRGL 398 Query: 677 RSFLD 681 R FL+ Sbjct: 399 RDFLE 403 >gi|298247391|ref|ZP_06971196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297550050|gb|EFH83916.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 385 Score = 249 bits (637), Expect = 7e-64, Method: Compositional matrix adjust. Identities = 115/241 (47%), Positives = 169/241 (70%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A+ + EANLRLV+S+A+KY RG+ DLIQEGN GLM A EKFD+ G+KFSTYA Sbjct: 145 AQNARDRLTEANLRLVVSIARKYMGRGMALADLIQEGNAGLMLAVEKFDYTRGFKFSTYA 204 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAI R+IA+Q+ TIR+PVH + ++++ RT+ ++ ++ REP+ EEIA+++ + V Sbjct: 205 TWWIRQAINRAIANQARTIRLPVHFHEAVNRLHRTSSQLFQELGREPSAEEIAERMHISV 264 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V +L+ K+PISLE+P+GD+ S LGDF+ED+ SP D + LRE VL L Sbjct: 265 DTVYDILEAGKQPISLESPVGDDGDSSLGDFVEDQVTASPADITTRNILREQIAHVLDEL 324 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +++ FG +HTL E+G+ ++RER+RQIEAKA+RKL+ S++L+ FL Sbjct: 325 NERERHIIQYHFGFLDGKEHTLAEIGENLHLSRERVRQIEAKALRKLRQSYSSRQLKDFL 384 Query: 681 D 681 + Sbjct: 385 N 385 >gi|118618673|ref|YP_907005.1| RNA polymerase sigma factor SigB [Mycobacterium ulcerans Agy99] gi|118570783|gb|ABL05534.1| RNA polymerase sigma factor SigB [Mycobacterium ulcerans Agy99] Length = 323 Score = 249 bits (637), Expect = 8e-64, Method: Compositional matrix adjust. Identities = 120/253 (47%), Positives = 184/253 (72%), Gaps = 6/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G + A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 74 RELAAVVRDG----AEARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 129 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + + RE Sbjct: 130 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREIHQNLGREA 189 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A + +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++A+ A Sbjct: 190 TDEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSA-ENAVIA 248 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L T R VLA+L RE +V+R+RFG+ TL+++GK F ++RER+RQIE + K Sbjct: 249 ELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMCK 308 Query: 667 LKHPSRSKKLRSF 679 L+H R+ +LRS+ Sbjct: 309 LRHGERADRLRSY 321 Score = 38.1 bits (87), Expect = 4.9, Method: Compositional matrix adjust. Identities = 18/31 (58%), Positives = 23/31 (74%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D VR+YL +G LL+ EGE+ +AKRIEAG Sbjct: 25 DLVRVYLNGIGKTALLNAEGEVELAKRIEAG 55 >gi|169630111|ref|YP_001703760.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus ATCC 19977] gi|169242078|emb|CAM63106.1| RNA polymerase sigma factor [Mycobacterium abscessus] Length = 323 Score = 249 bits (637), Expect = 8e-64, Method: Compositional matrix adjust. Identities = 112/240 (46%), Positives = 177/240 (73%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 82 EGNAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 141 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + ++ RE + EE+A++ +P Sbjct: 142 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQRLGREASDEELAEESGIP 201 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE + +L +++P+SL+ P+G ++ + LGDFIED A+S ++ I L VLA+ Sbjct: 202 VEKIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSAENAVIAELLHSDVRSVLAT 261 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L RE++V+R+R+G+ TL+++GK F ++RER+RQIE + + KL+H R+++LRS+ Sbjct: 262 LDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQIEREVMAKLRHGDRAERLRSY 321 >gi|163849112|ref|YP_001637156.1| RNA polymerase sigma factor RpoD [Chloroflexus aurantiacus J-10-fl] gi|222527085|ref|YP_002571556.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163670401|gb|ABY36767.1| RNA polymerase sigma factor RpoD [Chloroflexus aurantiacus J-10-fl] gi|222450964|gb|ACM55230.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 398 Score = 249 bits (636), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 118/238 (49%), Positives = 170/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++M ANLRLV+S+AK+Y +RGL LDLIQEG++GL++A EKFD+ GYKFSTYA WW Sbjct: 159 ARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDYTKGYKFSTYATWW 218 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA++R++ADQS +R+PVH+ + ++++ R+++ + REPT E+A L M E + Sbjct: 219 IKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEKL 278 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + ++P+SL TP+G+E S L DFI D +A+ D+A LR+ T L L+ R Sbjct: 279 RELRRTAQDPVSLATPVGEEADSTLADFIPDPHALDADDAAASGMLRQQITAALDQLSER 338 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RVL +R+G+ TLEEVGK F VTRER+RQIE KA+RKL+HP K L+ +LD Sbjct: 339 ERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRHPRLGKLLKDYLD 396 Score = 55.8 bits (133), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/122 (33%), Positives = 68/122 (55%), Gaps = 15/122 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDD--LEDEEG 88 + +I RQ+G+VT E++ +P PDE S E ++ A L+ G+ V +GD+ L+DE Sbjct: 21 QALIAQGRQQGFVTFEDIQRLVPNPDE-SIELIDSIYAALAEAGVPVQEGDETALDDE-- 77 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +S +++ L + +D D VR+YLRE+G + LL+ E E +A+ IE Sbjct: 78 ---------PSSPATMDLDLDDELSDALLSDSVRLYLREIGQVPLLTAEQEKRLAQLIEQ 128 Query: 149 GR 150 G+ Sbjct: 129 GQ 130 >gi|94313583|ref|YP_586792.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus metallidurans CH34] gi|93357435|gb|ABF11523.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus metallidurans CH34] Length = 617 Score = 249 bits (636), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 130/319 (40%), Positives = 212/319 (66%), Gaps = 2/319 (0%) Query: 364 GIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 GI R+ FL+ G E+D W + A + G V + I I+ E++ + + Sbjct: 298 GIAREQFLQTFPGHEIDLGWSEALAAERISGAADALVRA-IPEIQAIQREMRVLENRAAM 356 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S+ + +++ V K A A+ EM+ +NLRLV+S AKKY +RG+ LDLIQEGN+GLM Sbjct: 357 SLGDLKNLGQRVAKARARAQAARDEMIRSNLRLVVSNAKKYLHRGMPLLDLIQEGNLGLM 416 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 +A ++FD+ GYKFSTYA WW++Q ITR+IAD+ TIRIP+H+ + + KV R +R + ++ Sbjct: 417 RAVDRFDYRRGYKFSTYATWWIRQGITRAIADKGPTIRIPIHLVEVVGKVNRASRELFHE 476 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 P PE +A +L++ V+ V+ +L + KEP+SLE +G+ + L D + D+ + SP + Sbjct: 477 TGEAPAPEALAARLSLSVKKVKAILDLVKEPLSLEMSVGESGDALLWDTLTDECSASPDE 536 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 SA++ +LR+ LA+L PRE ++++MR+G+ TD+TLEE+G+Q+ ++RER+RQ+E + Sbjct: 537 SAMRVSLRKDLDEALATLKPREAKIVKMRYGVDAGTDYTLEEIGQQYGLSRERVRQLERQ 596 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKL++P R+ +L++ D Sbjct: 597 ALRKLRNPDRAPRLQAHRD 615 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/162 (29%), Positives = 83/162 (51%), Gaps = 10/162 (6%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE-- 86 +S ++ L +RG++T E++ LP + Q +L +G+ +V+ L +E Sbjct: 7 ESLVALVALGSERGFLTHGEISDALPDSDFGQIQR-----VLEELGVQIVE-RTLANEPI 60 Query: 87 --EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 E D+L + + + + D + T DPV++YLRE+G+I LL+RE E+AIA+ Sbjct: 61 RLEEHADALVVDEAVIEEAAAAVMQADGREARTTDPVQLYLREIGTIPLLTREDEVAIAR 120 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 R E M+A + PL L+ DE+ G + ++ID Sbjct: 121 RHEIAVTEMVAEMVSCPLVVYELLTMADEIERGEMAVDDLID 162 >gi|91200070|emb|CAJ73113.1| similar to transcription initiation factor sigma 70 [Candidatus Kuenenia stuttgartiensis] Length = 491 Score = 249 bits (636), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 125/272 (45%), Positives = 180/272 (66%), Gaps = 3/272 (1%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 NEI+++ + E + I+ + E +A+K E NLRLV+S+AKKY RG+ F Sbjct: 220 NEIEAL---FAMPAKELKKIIFSINSIYNEYVMARKRFSEGNLRLVVSIAKKYRKRGMAF 276 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 DLIQEGN GLM+A +K+D+ +G+KFSTYA WW+KQAI R+ ++ TIRIPVHM D I+ Sbjct: 277 HDLIQEGNTGLMRAVDKYDYRMGFKFSTYATWWIKQAIIRATEEKVRTIRIPVHMMDVIN 336 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K A+ + E IA+ P+ + ++L+IT +PISLETPIG + + D Sbjct: 337 KSTYVAKAGQGSSAEKIQLEAIARDTNTPLPEIYRLLQITSQPISLETPIGSDGETMFED 396 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 FI+DK +P+ A ++ L+E +VL +L+ RE ++++RFGI H+LEE+GK+F Sbjct: 397 FIQDKKIDAPIFLAQRSLLKEQIQKVLDTLSYREREIIKLRFGISDGYTHSLEEIGKRFN 456 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +TRERIRQIEA A+RKL+HP RS+KL FL+G Sbjct: 457 ITRERIRQIEAIALRKLQHPVRSRKLEGFLEG 488 >gi|284046131|ref|YP_003396471.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283950352|gb|ADB53096.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 367 Score = 249 bits (635), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 118/234 (50%), Positives = 170/234 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MVE+NLRLV+S+AK Y N+GL FLDLIQEG +GL++AAEKFD+ G+KFSTYA WW Sbjct: 131 AKQKMVESNLRLVVSIAKNYRNQGLPFLDLIQEGTLGLVRAAEKFDYRKGFKFSTYATWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R++AD++ TIRIPVH+ +K++K+ R R++ ++ REPT EEIA + E V Sbjct: 191 IRQAIARALADKARTIRIPVHVVEKLNKIGRAERKLVTELGREPTAEEIADVTGIDPEEV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + + P+SLE P+GDE+ S G FI D+ A SP + A + +E L +L+ R Sbjct: 251 DSIKRSAQAPVSLEKPVGDEEESEFGQFIADERAESPYERAAEILTKEALREALENLSYR 310 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 E RVL +R+G+G TL+EVG+ F VTRERIRQIE ++++KL+ + ++KLR Sbjct: 311 ERRVLELRYGLGGEHPRTLDEVGRTFNVTRERIRQIENQSLKKLQSLAEAQKLR 364 >gi|111023771|ref|YP_706743.1| RNA polymerase sigma factor SigB [Rhodococcus jostii RHA1] gi|110823301|gb|ABG98585.1| sigma factor, sigma 70 type, group 2 (proven non-essential) [Rhodococcus jostii RHA1] Length = 323 Score = 249 bits (635), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 116/264 (43%), Positives = 189/264 (71%), Gaps = 6/264 (2%) Query: 418 VETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 +ETG +S ++ R + ++VR+G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQ Sbjct: 62 LETGKRLSPAKKRDLATVVREGQS----ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 117 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R Sbjct: 118 EGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARI 177 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R + ++ RE T +E+A++ +P + +L +++P+SL+ P+G+++ + LGDFIED Sbjct: 178 KRELHQQLGREATDDELAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDS 237 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A S ++ I L VLA+L RE++V+R+R+G+ TL+++GK F ++RER Sbjct: 238 EATSAENAVIAGLLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRER 297 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSF 679 +RQIE + + KL+ R+++LRS+ Sbjct: 298 VRQIEREVMGKLRQGDRAERLRSY 321 >gi|134098366|ref|YP_001104027.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL 2338] gi|291006932|ref|ZP_06564905.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL 2338] gi|133910989|emb|CAM01102.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 324 Score = 249 bits (635), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 116/248 (46%), Positives = 177/248 (71%), Gaps = 4/248 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++VR G +AK ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ Sbjct: 79 AVVRDG----VLAKNHLMEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYT 134 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + K+ RE T EE Sbjct: 135 KGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKIARIKRDLHQKLGREATDEE 194 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A + + VE V +L +++P+SL+ P+G E+ + LGDFIED + ++ I L++ Sbjct: 195 LANEAGLTVEKVADLLDHSRDPVSLDMPVGAEEDAPLGDFIEDAESADAENAVISGFLQD 254 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 RVL++L RE+ V+RMR+G+ TL+++GK F ++RER+RQIE + + KL+ Sbjct: 255 DLRRVLSTLEEREQAVIRMRYGLDDGQPRTLDQIGKAFGLSRERVRQIEREVMSKLRQGD 314 Query: 672 RSKKLRSF 679 R+ KLR++ Sbjct: 315 RADKLRAY 322 >gi|54025745|ref|YP_119987.1| RNA polymerase sigma factor SigB [Nocardia farcinica IFM 10152] gi|54017253|dbj|BAD58623.1| putative principal sigma factor [Nocardia farcinica IFM 10152] Length = 322 Score = 249 bits (635), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 115/258 (44%), Positives = 182/258 (70%), Gaps = 4/258 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S ++ + + +VR G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 67 LSAAKKKDLAMIVRDGQA----ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 122 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 123 IRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 182 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T EE+A + +PVE + +L +++P+SL+ P+G+++ + LGDFIED A S Sbjct: 183 QLGREATDEELAAESGIPVEKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAE 242 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + I L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE Sbjct: 243 SAVIAGLLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIER 302 Query: 662 KAIRKLKHPSRSKKLRSF 679 + + KL+ R+ +LR++ Sbjct: 303 EVMAKLRKGERADRLRAY 320 >gi|226366207|ref|YP_002783990.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4] gi|226244697|dbj|BAH55045.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4] gi|254553060|dbj|BAH85842.1| RNA polymerase sigma B factor [Rhodococcus opacus] Length = 323 Score = 248 bits (634), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 116/264 (43%), Positives = 189/264 (71%), Gaps = 6/264 (2%) Query: 418 VETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 +ETG +S ++ R + ++VR+G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQ Sbjct: 62 LETGKRLSPAKKRDLATVVREGQS----ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 117 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R Sbjct: 118 EGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARI 177 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R + ++ RE T +E+A++ +P + +L +++P+SL+ P+G+++ + LGDFIED Sbjct: 178 KRELHQQLGREATDDELAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDS 237 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A S ++ I L VLA+L RE++V+R+R+G+ TL+++GK F ++RER Sbjct: 238 EATSAENAVIAGLLHSDVRTVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRER 297 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSF 679 +RQIE + + KL+ R+++LRS+ Sbjct: 298 VRQIEREVMGKLRQGDRAERLRSY 321 >gi|251733349|emb|CAR82424.1| RNA polymerase sigma factor [Sinorhizobium americanum] gi|251733415|emb|CAR82457.1| RNA polymerase sigma factor [Sinorhizobium terangae] gi|251733417|emb|CAR82458.1| RNA polymerase sigma factor [Sinorhizobium terangae] gi|251733419|emb|CAR82459.1| RNA polymerase sigma factor [Sinorhizobium terangae] Length = 202 Score = 248 bits (634), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 121/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFAKAENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|302866072|ref|YP_003834709.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|315502628|ref|YP_004081515.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|302568931|gb|ADL45133.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] gi|315409247|gb|ADU07364.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 328 Score = 248 bits (634), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 117/242 (48%), Positives = 171/242 (70%), Gaps = 1/242 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFST Sbjct: 85 AEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFST 144 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM ++++++VR R +S + REPT E+A L + Sbjct: 145 YATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRVRRELSVTLGREPTVSEVATALEI 204 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVL 617 P V +++ +EP+SL+ +G++ S LGDF+ + P D+A LR VL Sbjct: 205 PEFQVIELISYDREPVSLDQAVGEDGESALGDFVAAVDPRTEPGDAATNGELRNEVRIVL 264 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A+L+ RE+ V+R+RFG+ TL+EVG++F ++RERIRQIE + KL+ P R+ +L Sbjct: 265 ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLRDPERANRLE 324 Query: 678 SF 679 ++ Sbjct: 325 AY 326 >gi|251733355|emb|CAR82427.1| RNA polymerase sigma factor [Rhizobium galegae] Length = 202 Score = 248 bits (634), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 122/190 (64%), Positives = 147/190 (77%) Query: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 A G + K LK++L+ V SLSLNQ+R+D LVEQLYDISKR+M NEG LLRLA Sbjct: 11 AATGTLSSAQERRYKELKDELITAVKSLSLNQNRVDSLVEQLYDISKRLMQNEGRLLRLA 70 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 +SYG+KRD FLE++QG ELDP+W+ + WK F E +I IR EI++++ ET Sbjct: 71 ESYGVKRDSFLEQYQGAELDPNWMKSIANLAARGWKEFARAENTTIRDIRQEIQNLATET 130 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GISI+EFR IVSMV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIG Sbjct: 131 GISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG 190 Query: 481 LMKAAEKFDW 490 LMKA +KF++ Sbjct: 191 LMKAVDKFEY 200 >gi|251733379|emb|CAR82439.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733381|emb|CAR82440.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733383|emb|CAR82441.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733385|emb|CAR82442.1| RNA polymerase sigma factor [Sinorhizobium fredii] gi|251733421|emb|CAR82460.1| RNA polymerase sigma factor [Sinorhizobium xinjiangense] gi|251733423|emb|CAR82461.1| RNA polymerase sigma factor [Sinorhizobium xinjiangense] Length = 202 Score = 248 bits (634), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 121/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|251733367|emb|CAR82433.1| RNA polymerase sigma factor [Agrobacterium vitis] Length = 202 Score = 248 bits (633), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 121/178 (67%), Positives = 148/178 (83%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+ V SLSLNQ+RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDQLITAVKSLSLNQNRIDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++QG ELDP+W+ + WK+F E ++I +IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYQGAELDPNWMKSVGNLAARGWKDFAREENNTIREIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|269926941|ref|YP_003323564.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269790601|gb|ACZ42742.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 596 Score = 248 bits (633), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 120/231 (51%), Positives = 165/231 (71%), Gaps = 1/231 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + K E IA+K ++EANLRLV+S+AKKYT RG+ LDLIQEGNIGL+KA EKF G Sbjct: 245 ITKWIAEGDIARKRLIEANLRLVVSIAKKYTGRGITLLDLIQEGNIGLIKAVEKFRHQKG 304 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K+ + RR++ ++ REPT +EIA Sbjct: 305 YKFSTYATWWIRQAITRAIADQARTIRIPVHMGEAINKIAQARRRLTQELGREPTEQEIA 364 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L +PVE +R+V KI++EPISLE P+G+E+ + LGDFI+D A +P+D+A Q+ LR+ Sbjct: 365 NYLGIPVEKIREVQKISQEPISLENPVGEEEDTSLGDFIQDHKAPAPMDAASQSLLRDQI 424 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +VL L+ RE VL MRFG+ EV V+ ++ Q E++ + Sbjct: 425 DQVLKHLSERERGVLLMRFGLDCEP-RPYREVAHILAVSPNQVMQAESRVL 474 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 34/76 (44%), Positives = 46/76 (60%) Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I LRE V+ + E ++R RFG+ + TLEEVG+ F VTRERIRQIE+KA+ Sbjct: 520 IDQKLREALASVMLHVPAPERDMMRFRFGLDIGQPRTLEEVGRAFGVTRERIRQIESKAL 579 Query: 665 RKLKHPSRSKKLRSFL 680 RKL+ ++L L Sbjct: 580 RKLRRDVFRRQLEDLL 595 Score = 43.1 bits (100), Expect = 0.17, Method: Compositional matrix adjust. Identities = 29/77 (37%), Positives = 40/77 (51%), Gaps = 14/77 (18%) Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLS 135 N D DLE EE +D DL +D + DDP+R+YLRE+G LLS Sbjct: 44 NDADYVDLEIEESLQDPEDL--------------EDLEGTNLDDPIRLYLREIGKENLLS 89 Query: 136 REGEIAIAKRIEAGRAM 152 +E EI +A++ E G + Sbjct: 90 QEQEIELARKNERGNYL 106 >gi|251733409|emb|CAR82454.1| RNA polymerase sigma factor [Sinorhizobium saheli] gi|251733411|emb|CAR82455.1| RNA polymerase sigma factor [Sinorhizobium saheli] gi|251733413|emb|CAR82456.1| RNA polymerase sigma factor [Sinorhizobium saheli] Length = 202 Score = 247 bits (631), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 120/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDISKR+M NEG LLRLA+SYG+KR+ FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLMQNEGRLLRLAESYGVKREAFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|324999213|ref|ZP_08120325.1| RNA polymerase sigma factor SigB [Pseudonocardia sp. P1] Length = 380 Score = 247 bits (631), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 115/252 (45%), Positives = 179/252 (71%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR G ++AK ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 131 RDLRAVVRDG----ALAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEK 186 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQ+ TIR+PVH+ ++++K+ R R M + REP Sbjct: 187 FDYTKGFKFSTYATWWIRQAITRGMADQARTIRLPVHLVEQVNKLARIKRDMHQRQGREP 246 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + E+A++ +P + +L ++P+SL+ P+G E+ + LGDFIED A ++ I + Sbjct: 247 SEAELAQESGIPEHKISDLLDHARDPVSLDMPVGSEEEAPLGDFIEDAEATDAENTVISS 306 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L + RVLA+L RE++V+RMRFG+ TL+++G+ F ++RER+RQIE + + KL Sbjct: 307 LLSDDLRRVLATLEDREQKVIRMRFGLDDGQPRTLDQIGRAFTLSRERVRQIEREVMAKL 366 Query: 668 KHPSRSKKLRSF 679 + R+ KLR++ Sbjct: 367 RVGERADKLRAY 378 >gi|226306291|ref|YP_002766251.1| RNA polymerase sigma factor SigB [Rhodococcus erythropolis PR4] gi|229491301|ref|ZP_04385127.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] gi|226185408|dbj|BAH33512.1| RNA polymerase sigma factor SigB [Rhodococcus erythropolis PR4] gi|229321840|gb|EEN87635.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121] Length = 323 Score = 247 bits (630), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 112/258 (43%), Positives = 185/258 (71%), Gaps = 4/258 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +++++ R + ++VR+G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 68 LTVAKKRDLATIVREGQS----ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 123 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 124 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 183 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T +E+A++ +P + +L +++P+SL+ P+G+++ + LGDFIED A S Sbjct: 184 QLGREATDDELAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAE 243 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++ I L VL +L RE++V+R+R+G+ TL+++GK F ++RER+RQIE Sbjct: 244 NAVIAGLLHSDVRSVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIER 303 Query: 662 KAIRKLKHPSRSKKLRSF 679 + + KL+ R++KLRS+ Sbjct: 304 EVMGKLRVGDRAEKLRSY 321 >gi|168012500|ref|XP_001758940.1| plastid sigma facor SIG2 [Physcomitrella patens subsp. patens] gi|12697780|dbj|BAB21618.1| PpSIG2 [Physcomitrella patens] gi|14669832|dbj|BAB62008.1| PpSIG2 [Physcomitrella patens] gi|162690077|gb|EDQ76446.1| plastid sigma facor SIG2 [Physcomitrella patens subsp. patens] Length = 579 Score = 247 bits (630), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 129/290 (44%), Positives = 188/290 (64%), Gaps = 14/290 (4%) Query: 402 EVDSILKIRNEIKSISVETG--ISISEFRHIVSM--------VRKGECEASIAKKEMVEA 451 ++ +LK+ N ++ E G +I E+ V M ++KG AK +MV + Sbjct: 288 QIQDLLKLENIKSNLEREIGRNATIGEWSRAVGMEQNAFEARLKKGR----FAKDKMVNS 343 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV+S+AK Y RG+ DLIQEG++GL++ AEKFD G+KFSTYA WW++QA+TRS Sbjct: 344 NLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPTKGFKFSTYAHWWIRQAVTRS 403 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IADQS TIR+P+H+ + I ++ + R + + RE EE+A+ + + VE ++ V+K K Sbjct: 404 IADQSRTIRLPIHLYEVISRINKAKRMLVQEHGREARNEEVAELVGLTVEKLKSVVKSAK 463 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 P S+E PIG + + LG+ + D + SP D+ ++ +R+ VL +L PRE VLR+R Sbjct: 464 APGSMERPIGKDGDTTLGELVADTDVDSPEDAIVKQLMRQDIEGVLRTLNPREREVLRLR 523 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 FG+ TLEE+G+ F VTRERIRQIEAKA+RKL+ PSR+ LR +LD Sbjct: 524 FGLDDGRSKTLEEIGQIFKVTRERIRQIEAKAMRKLRQPSRNSILREYLD 573 >gi|251733405|emb|CAR82452.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733407|emb|CAR82453.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733425|emb|CAR82462.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733427|emb|CAR82463.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733429|emb|CAR82464.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733431|emb|CAR82465.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733433|emb|CAR82466.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733435|emb|CAR82467.1| RNA polymerase sigma factor [Ensifer adhaerens] gi|251733437|emb|CAR82468.1| RNA polymerase sigma factor [Ensifer adhaerens] Length = 202 Score = 247 bits (630), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 120/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+R+D LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRVDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFAKSENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155] Length = 319 Score = 246 bits (629), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 115/246 (46%), Positives = 178/246 (72%), Gaps = 4/246 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 70 RDLQAVVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEK 125 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE Sbjct: 126 FDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREA 185 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A++ +PVE + +L+ +++P+SL+ P+G ++ + LGDFIED A+S ++ I Sbjct: 186 TDEELAEESGIPVEKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSAENAVISE 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L RE++V+R+RFG+ TL+++GK F ++RER+RQIE + + KL Sbjct: 246 LLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 305 Query: 668 KHPSRS 673 ++ R+ Sbjct: 306 RNGERA 311 >gi|251733361|emb|CAR82430.1| RNA polymerase sigma factor [Agrobacterium tumefaciens] Length = 202 Score = 246 bits (629), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 121/178 (67%), Positives = 146/178 (82%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+ V SLSLNQ+RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDQLITAVKSLSLNQNRIDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E ++I +IR EI+++S ETGISI+EFR IVS Sbjct: 83 QYHGAELDPNWMKSIANLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|226357433|ref|YP_002787172.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] gi|226319423|gb|ACO47418.1| putative RNA polymerase sigma factor, sigma-70 family [Deinococcus deserti VCD115] Length = 363 Score = 246 bits (629), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 127/259 (49%), Positives = 177/259 (68%), Gaps = 7/259 (2%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + V GE AK++++EANLRLV+S+AKKY NRG+ LDLIQEGN GL++ A Sbjct: 108 ERRRLQRTVEDGEH----AKQQLIEANLRLVVSIAKKYANRGMGLLDLIQEGNQGLIRGA 163 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ G+KFSTYA WW++QA+ R+IADQ+ IRIPVHM + I+K+ RT R++ ++ R Sbjct: 164 EKFEYRRGFKFSTYATWWIRQAVNRAIADQARNIRIPVHMVETINKLNRTTRQLQMELSR 223 Query: 546 EPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+ E A+ + + V+ + L++T++ ISL TP+GDE S + DF+ D SPL Sbjct: 224 EPSHAETAEAMGPGWDEVKVEETLRLTRDTISLATPVGDEGDSSIADFLPDDRRESPLSR 283 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + E R LA+L PRE V+R+R G+ +HTLEEVGK F VTRERIRQIE KA Sbjct: 284 VSSVLMSEALDRTLATLEPREALVIRLRNGLEDGREHTLEEVGKHFGVTRERIRQIENKA 343 Query: 664 IRKLKH-PSRSKKLRSFLD 681 +RK+K+ S+ LR +L+ Sbjct: 344 LRKIKYEQSKRGSLRDYLE 362 Score = 39.3 bits (90), Expect = 2.2, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++DPVR YL E+G + LL+ EI +A+R+EAG+ Sbjct: 59 SNDPVRQYLHEIGRVPLLTVTEEIDLARRMEAGQ 92 >gi|312139424|ref|YP_004006760.1| sigma-70 factor sigb [Rhodococcus equi 103S] gi|325672687|ref|ZP_08152383.1| RNA polymerase principal sigma factor SigB [Rhodococcus equi ATCC 33707] gi|311888763|emb|CBH48075.1| sigma-70 factor SigB [Rhodococcus equi 103S] gi|325556564|gb|EGD26230.1| RNA polymerase principal sigma factor SigB [Rhodococcus equi ATCC 33707] Length = 322 Score = 246 bits (629), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 112/258 (43%), Positives = 184/258 (71%), Gaps = 4/258 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ ++ R + ++VR GE A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 67 LTAAKKRDLATIVRDGEA----ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 122 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 123 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 182 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T EE++++ +P + +L +++P+SL+ P+G+++ + LGDFIED A S Sbjct: 183 QLGREATDEELSQESGIPEHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAE 242 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++ I L VLA+L RE++V+R+R+G+ TL+++GK F ++RER+RQIE Sbjct: 243 NAVIAGLLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIER 302 Query: 662 KAIRKLKHPSRSKKLRSF 679 + + KL+ R+ +LR++ Sbjct: 303 EVMGKLRQGERADRLRAY 320 >gi|50365086|ref|YP_053511.1| RNA polymerase sigma factor [Mesoplasma florum L1] gi|50363642|gb|AAT75627.1| RNA polymerase sigma factor [Mesoplasma florum L1] Length = 471 Score = 246 bits (629), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 132/295 (44%), Positives = 179/295 (60%), Gaps = 60/295 (20%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ +NL+LVISVA+K+ NRGL F DLI+EGNIGL+KA +KFD+ G+KFSTYA WW++QA Sbjct: 177 LITSNLKLVISVARKHLNRGLDFADLIEEGNIGLIKAVDKFDYEKGFKFSTYATWWIRQA 236 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA--MPVEGVRK 565 ITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP+ +E+A+++ M E V + Sbjct: 237 ITRAIADQARTIRIPVHMVETINKLSRIERQLTQELGREPSSKEVAERMGGDMTAEKVVE 296 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + KI EP+SLE P GDED +H GDF+EDK+ +SP D + LRE +V + REE Sbjct: 297 IKKIAVEPVSLEKPFGDEDDTHFGDFVEDKDMISPTDFTEKEILREVIDKVFEDMPAREE 356 Query: 626 RVLRMRFGI-------------------------GMN---------------------TD 639 +V+RMR+GI +N D Sbjct: 357 KVIRMRYGIVPTKVRTLIRLAEECNDETAGELAKAINKLDIHLETPVEKIRTVDSKIIQD 416 Query: 640 HTL--------EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFLDG 682 H L EEVGK+ VTRERIRQIEAK IRKLK P+ + K L+ F G Sbjct: 417 HLLKYEASKTLEEVGKELNVTRERIRQIEAKTIRKLKQPANANKSGKVLKEFYKG 471 >gi|320159820|ref|YP_004173044.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] gi|319993673|dbj|BAJ62444.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1] Length = 396 Score = 246 bits (628), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 128/256 (50%), Positives = 182/256 (71%), Gaps = 6/256 (2%) Query: 431 VSMVRKGECEASI-----AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +S R+GE EA I A++ +++AN RLV+S+AK+Y RG+ FLDLIQEGN+GLMKA Sbjct: 141 LSPQRRGELEAQIQDGESAREHLIKANTRLVVSIAKRYIGRGVPFLDLIQEGNLGLMKAV 200 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EK+++ G++FSTYA WW++Q ITRSIADQ TIR+PVHM D+I ++ RT M K+ R Sbjct: 201 EKYEYQRGFRFSTYATWWIRQTITRSIADQGRTIRVPVHMVDRIRRLYRTTHEMEQKLGR 260 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSA 604 PT EE+A + + V +++++ P+SLE+PI DE+ S LG FIED+ SP+ + Sbjct: 261 TPTNEELADAIGIKASKVDWMMRVSWLPLSLESPINEDEEDSELGQFIEDQVTPSPMQTT 320 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 LRE VL +L RE R+LR+RFG+ +TLEEVG++F +TRERIRQIE KA+ Sbjct: 321 YSNLLREKIQEVLDTLPAREARILRLRFGLENGRTYTLEEVGQKFGLTRERIRQIENKAL 380 Query: 665 RKLKHPSRSKKLRSFL 680 R+L+HP R+++L+ +L Sbjct: 381 RRLRHPRRARQLKDYL 396 Score = 50.1 bits (118), Expect = 0.001, Method: Compositional matrix adjust. Identities = 39/120 (32%), Positives = 58/120 (48%), Gaps = 5/120 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +++ A +GY+T E+L P E+ E + L G+++ D ++ E ED Sbjct: 15 KMLLEKADVQGYLTTEDLMEAYPNVGEDHERFEAILLALRRHGVDIYDTEENEYPFPDED 74 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 F D S+DD V +YL+EM + LLS E E+ +AKRIE GRA Sbjct: 75 IDGAFIEEDPVQTF-----DLNRISSDDTVGLYLKEMSRVPLLSSEEEVELAKRIERGRA 129 >gi|1519642|gb|AAB07554.1| SigD [Chloroflexus aurantiacus J-10-fl] Length = 398 Score = 246 bits (628), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 118/238 (49%), Positives = 167/238 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ EM ANLRLV+S+AK+Y +RGL LDLIQEG++GL++A EKFD+ GYKFSTYA WW Sbjct: 159 ARHEMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDYTKGYKFSTYATWW 218 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA++R++ADQS +R+PVH+ + ++++ R+++ + REPT E+A L M E + Sbjct: 219 IKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEKL 278 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 V + ++P+SL TP+G+E S L DFI D +A+ D+A +R+ T L L+ R Sbjct: 279 ATVRRTAQDPVSLATPVGEEANSTLADFIPDPHALDADDAAASGIVRQQITAALDQLSER 338 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RVL +R+G+ TLEEVGK F VTRER+RQIE KA+RKL+HP K L+ +LD Sbjct: 339 ERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRHPRLGKLLKDYLD 396 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 41/122 (33%), Positives = 68/122 (55%), Gaps = 15/122 (12%) Query: 32 KKMIKLARQRGYVTIEELNAFLP-PDEVSSEQMEDTVAMLSNMGINVVDGDD--LEDEEG 88 + +I RQ+G+VT E++ +P PDE S E ++ A L+ G+ V +GD+ L+DE Sbjct: 21 QALIAQGRQQGFVTFEDIQRLVPNPDE-SIELIDSIYAALAEAGVPVQEGDETALDDE-- 77 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +S +++ L + +D D VR+YLRE+G + LL+ E E +A+ IE Sbjct: 78 ---------PSSPATMDLDLDDELSDALLSDSVRLYLREIGQVPLLTAEQEKRLAQLIEQ 128 Query: 149 GR 150 G+ Sbjct: 129 GQ 130 >gi|257056437|ref|YP_003134269.1| RNA polymerase sigma factor SigB [Saccharomonospora viridis DSM 43017] gi|256586309|gb|ACU97442.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 342 Score = 246 bits (628), Expect = 9e-63, Method: Compositional matrix adjust. Identities = 115/247 (46%), Positives = 175/247 (70%), Gaps = 4/247 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR GE AK +++ANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ Sbjct: 98 VVRDGEE----AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTK 153 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITR +ADQ TIR+PVH+ ++++K+ R R + ++ RE T EE+ Sbjct: 154 GFKFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATHEEL 213 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A + + + V +L ++P+SL+ P+G ++ + LGDFIED A + +S I L++ Sbjct: 214 AAESGIAEKKVADLLDHARDPVSLDMPVGADEDAPLGDFIEDSEAANAENSVISTLLQDD 273 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 RVLA+L REE V+R+R+G+ TL+++GK F ++RER+RQIE + + KL+H R Sbjct: 274 LRRVLATLDDREEHVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLRHGER 333 Query: 673 SKKLRSF 679 + KLR++ Sbjct: 334 ADKLRAY 340 >gi|219847152|ref|YP_002461585.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219541411|gb|ACL23149.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 398 Score = 246 bits (628), Expect = 9e-63, Method: Compositional matrix adjust. Identities = 117/238 (49%), Positives = 168/238 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++M ANLRLV+S+AK+Y +RGL LDLIQEG++GL++A EKFD GYKFSTYA WW Sbjct: 159 ARQKMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDHTKGYKFSTYATWW 218 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA++R++ADQS +R+PVH+ + ++++ R+++ + REPT E+A L M E + Sbjct: 219 IKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSEEKL 278 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + ++P+SL TP+G+E S L DFI D +A+ D+A LR+ L L+ R Sbjct: 279 RELRRTAQDPVSLATPVGEEADSTLADFIPDPHALDADDAAASGMLRQQIAAALDQLSER 338 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RVL +R+G+ TLEEVGK F VTRER+RQIE KA+RKL+HP K L+ +LD Sbjct: 339 ERRVLELRYGLADGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRHPRLGKLLKDYLD 396 Score = 61.2 bits (147), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 43/120 (35%), Positives = 64/120 (53%), Gaps = 9/120 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +I RQ+G+VT E++ +P E S EQ++ A L+ G+ V DGD E G E Sbjct: 21 QALIAQGRQQGFVTFEDIQRLVPNLEESVEQIDSIYAALAEAGVPVHDGD--EPVSGDE- 77 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 S + S L + +D D VR+YLRE+G + LL+ E E +A+ IE G+A Sbjct: 78 ------SLTPSVTDLDLDDELSDALLSDSVRLYLREIGQVPLLTAEQEKQLAQMIERGQA 131 >gi|300784474|ref|YP_003764765.1| RNA polymerase primary-like sigma factor [Amycolatopsis mediterranei U32] gi|299793988|gb|ADJ44363.1| RNA polymerase primary-like sigma factor [Amycolatopsis mediterranei U32] Length = 343 Score = 246 bits (628), Expect = 9e-63, Method: Compositional matrix adjust. Identities = 114/264 (43%), Positives = 183/264 (69%), Gaps = 6/264 (2%) Query: 418 VETGISISEFRH--IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++TG +++ R + ++VR G +AK ++EANLRLV+S+AK+YT RG+ LDLIQ Sbjct: 82 LDTGENLTTKRRTELAALVRDGH----VAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 137 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQ TIR+PVH+ ++++K+ R Sbjct: 138 EGNLGLIRAVEKFDYSKGFKFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARI 197 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R + ++ R+ T EE+A + +P + +L +++P+SL+ P+G E+ + LGDFIED Sbjct: 198 KRDLHQQLGRDATHEELAAESGIPAHKISDLLDHSRDPVSLDMPVGTEEDAPLGDFIEDS 257 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A + I L++ RVLA+L RE+ V+R+R+G+ TL+++GK F ++RER Sbjct: 258 EATDAESAVISGLLQDDLRRVLATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRER 317 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSF 679 +RQIE + + KL+ R+ +LR++ Sbjct: 318 VRQIEREVMSKLRQGERADRLRAY 341 >gi|251733363|emb|CAR82431.1| RNA polymerase sigma factor [Agrobacterium rhizogenes] gi|251733369|emb|CAR82434.1| RNA polymerase sigma factor [Rhizobium tropici] gi|251733371|emb|CAR82435.1| RNA polymerase sigma factor [Rhizobium tropici] Length = 202 Score = 246 bits (627), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 121/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++LVK V SLSLNQ+RID LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELVKSVKSLSLNQNRIDALVEQLYDINKRLVQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++QG ELDP+W+ + WK F E +I IR EI++++ ETGISISEFR IV Sbjct: 83 QYQGAELDPNWMKSIGNLAARGWKEFAKSENTTIRDIRQEIQNLATETGISISEFRRIVH 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|238063483|ref|ZP_04608192.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] gi|237885294|gb|EEP74122.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] Length = 334 Score = 246 bits (627), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 114/242 (47%), Positives = 174/242 (71%), Gaps = 1/242 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFST Sbjct: 91 AEGRTAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFST 150 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM ++++++VR R ++ + REPT E+A+ + + Sbjct: 151 YATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELAVTLGREPTVAEVARAMDV 210 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN-AVSPLDSAIQANLRETTTRVL 617 P V +++ +EP+SL+ +G++ S LGDF+ + A P +A+ LR VL Sbjct: 211 PEFQVIELISYDREPVSLDQAVGEDGESALGDFVAAVDPAAEPGATAVDGELRNEVRIVL 270 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A+L+ RE+ V+R+RFG+ TL+EVG++F ++RERIRQIE + KL+ P R+++L Sbjct: 271 ATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLRAPERAQRLE 330 Query: 678 SF 679 ++ Sbjct: 331 AY 332 >gi|108803721|ref|YP_643658.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108764964|gb|ABG03846.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 365 Score = 245 bits (626), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 121/238 (50%), Positives = 167/238 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + ANLRLV+S+AKKY RG+ LDLIQEGNIGLM+A EKFD+ GYKFSTYA WW Sbjct: 128 AKAHLTRANLRLVVSIAKKYAGRGVSLLDLIQEGNIGLMRAVEKFDYRKGYKFSTYATWW 187 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IAD+ TIR+PVHM +KI+K R R +++++ R+PT EE+A+++ + VE V Sbjct: 188 IRQAVTRAIADKGRTIRVPVHMVEKINKYYRVQRTLASELNRDPTDEEVAREMGVEVEEV 247 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ ++++ ISLETP+G++ +S LGDFI D+ + SP D A + L+ L L R Sbjct: 248 ERIRQVSRRSISLETPVGEDHSSELGDFIADEESESPHDLAKSSLLKARMREALNGLPER 307 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E VL RFG+ TLEEVG++F VTRERIRQI+ A+ K+K + LR LD Sbjct: 308 ERMVLEYRFGLTGGQPKTLEEVGERFDVTRERIRQIQLTALAKIKSSPHAASLRDLLD 365 Score = 43.5 bits (101), Expect = 0.12, Method: Compositional matrix adjust. Identities = 38/150 (25%), Positives = 66/150 (44%), Gaps = 8/150 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 +++ + ++ G + E+ L ++S+E+++ +L G+ +VD L + E+ Sbjct: 14 RELFEAGQEAGVLESGEVLDLLQEVDLSTEEIQQVYGLLREQGVEIVDSGFLSESPEEEE 73 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 D R T D V+MYL E+G LLS+ E+ +AKRIE G Sbjct: 74 EDVQVVEEVLEG-------DLKSRYTGDAVQMYLDEIGKTPLLSKAQEVYLAKRIERGDR 126 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLL 181 A L + L + I + G +LL Sbjct: 127 RAKAHLTRANLRL-VVSIAKKYAGRGVSLL 155 >gi|269837876|ref|YP_003320104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269787139|gb|ACZ39282.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 341 Score = 245 bits (626), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 117/258 (45%), Positives = 175/258 (67%), Gaps = 3/258 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IR ++ I+ ++ E + + +G+ EA + V +NLRLV+S+AK+Y RGL Sbjct: 72 IRLYLRDIAQAPLLTAEEEVELAKRIEEGDVEAL---QRFVRSNLRLVVSIAKRYVGRGL 128 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLIQEGN+GL++A +K+DW GY+FSTYA WW++QAITR+IADQ TIR+PVHM D Sbjct: 129 SLLDLIQEGNLGLIRAVQKYDWRRGYRFSTYATWWIRQAITRAIADQGRTIRLPVHMIDS 188 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I + RT +++ ++ R P EE+A+ +++P E V + ++ + ISLE PIG+++ L Sbjct: 189 ITRYRRTVMQLTQELGRPPRAEEVAEAMSVPPEKVEQFIRAAQRTISLEKPIGEDEEGTL 248 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D I D+ A SP + A++ L+ VL LTPRE VL++RFG+G + HTL EVG+Q Sbjct: 249 ADLIADEVARSPEEEAVETLLQRDVAEVLEELTPRERLVLQLRFGLGNGSPHTLSEVGQQ 308 Query: 649 FCVTRERIRQIEAKAIRK 666 ++RER+RQIE++A+RK Sbjct: 309 LDISRERVRQIESEALRK 326 Score = 38.1 bits (87), Expect = 5.5, Method: Compositional matrix adjust. Identities = 16/31 (51%), Positives = 23/31 (74%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 DP+R+YLR++ LL+ E E+ +AKRIE G Sbjct: 70 DPIRLYLRDIAQAPLLTAEEEVELAKRIEEG 100 >gi|302525710|ref|ZP_07278052.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] gi|302434605|gb|EFL06421.1| RNA polymerase sigma factor RpoS [Streptomyces sp. AA4] Length = 317 Score = 245 bits (626), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 111/248 (44%), Positives = 175/248 (70%), Gaps = 4/248 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++VR G +AK ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ Sbjct: 72 ALVRDGH----VAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYS 127 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G+KFSTYA WW++QAITR +ADQ TIR+PVH+ ++++K+ R R + ++ R+ T EE Sbjct: 128 KGFKFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIRRDLHQQLGRDATHEE 187 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++ + +PV + +L +++P+SL+ P+G E+ + LGDFIED A + I L++ Sbjct: 188 LSAESGIPVHKISDLLDQSRDPVSLDMPVGTEEDAPLGDFIEDSEATDAESAVISGLLQD 247 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 RVLA+L RE+ V+R+R+G+ TL+++GK F ++RER+RQIE + + KL+ Sbjct: 248 DLRRVLATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMAKLRQGE 307 Query: 672 RSKKLRSF 679 R+ +LR++ Sbjct: 308 RADRLRAY 315 >gi|251733373|emb|CAR82436.1| RNA polymerase sigma factor [Sinorhizobium arboris LMG 14919] gi|251733375|emb|CAR82437.1| RNA polymerase sigma factor [Sinorhizobium arboris] gi|251733377|emb|CAR82438.1| RNA polymerase sigma factor [Sinorhizobium arboris] gi|251733393|emb|CAR82446.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733395|emb|CAR82447.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733397|emb|CAR82448.1| RNA polymerase sigma factor [Sinorhizobium medicae] gi|251733399|emb|CAR82449.1| RNA polymerase sigma factor [Sinorhizobium meliloti] gi|251733401|emb|CAR82450.1| RNA polymerase sigma factor [Sinorhizobium meliloti] gi|251733403|emb|CAR82451.1| RNA polymerase sigma factor [Sinorhizobium meliloti] Length = 202 Score = 245 bits (625), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 119/178 (66%), Positives = 144/178 (80%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDISKR+ NEG LLRLA+SYG+KR+ FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLRLAESYGVKREAFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|298244164|ref|ZP_06967970.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297551645|gb|EFH85510.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 316 Score = 245 bits (625), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 126/281 (44%), Positives = 185/281 (65%), Gaps = 6/281 (2%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 + DS+ EI I + + +S S + GE EA + ++EANLRLV+S+A Sbjct: 42 AQSDSLRLYLREISRIPLLSAVSES---RLAERAENGEKEA---RNHLIEANLRLVVSIA 95 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKY +GL DLI EGNIGL++A KFD+ G++FSTYA WW+KQAITR+I + + +R Sbjct: 96 KKYVGQGLSLEDLIGEGNIGLIRAVTKFDYRKGFRFSTYATWWIKQAITRAILEGTRVVR 155 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +PV++ +++ +V RT R++ ++ REPTPE I ++L M E V ++L ++ SL+ P+ Sbjct: 156 LPVYIMEEVMRVKRTTRQLYQELGREPTPEIIGERLGMTAERVSELLIWAEKVFSLDAPL 215 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 +E+ + LGD IED P++ Q LRE +VL LT RE +V+ +RFG+ + DH Sbjct: 216 SEEEENTLGDIIEDVRERGPMEITDQQLLREEIRKVLGQLTVRERQVIELRFGLIDDHDH 275 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK+ VTRER+RQIE +AIRKL+HP S+ L+ +LD Sbjct: 276 TLEEVGKKLKVTRERVRQIEERAIRKLRHPQASRILKDYLD 316 >gi|301320481|gb|ADK69124.1| putative RNA polymerase sigma factor RpoD [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 506 Score = 244 bits (623), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 60/299 (20%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 207 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 266 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP +EIA ++ + G Sbjct: 267 IRQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNADEIANRVGEGITGD 326 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V ++ K++ EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V + Sbjct: 327 KVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPNEYTEKEILKEVMDKVFEDMP 386 Query: 622 PREERVLRMRFGI------------------------------GMNTDHTLEEV------ 645 PREE+V+RMR+GI ++ D +E+V Sbjct: 387 PREEKVIRMRYGIVPTRLRTLLRLTQECNDTNAKELKQAIEELDIHLDTPIEKVRKFNNQ 446 Query: 646 ------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFLDG 682 GK+ VTRERIRQIEAK IRKLK PS + K L+ F G Sbjct: 447 IINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSPNNKSGKTLKEFYKG 505 >gi|197294657|ref|YP_001799198.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] gi|171853984|emb|CAM11947.1| RNA polymerase sigma factor [Candidatus Phytoplasma australiense] Length = 476 Score = 244 bits (623), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 127/281 (45%), Positives = 190/281 (67%), Gaps = 21/281 (7%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 + K RN+ E +S E + + S + +A+ AK +VE+N RLV+S+AK+Y Sbjct: 207 LTKFRNQ------EIDLSDQEVKQLESQI----IQANQAKDVLVESNYRLVVSIAKRYIG 256 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG+ FLDLIQEGN+GLM+A +KFD+ G + STYA +WV Q +TR+IADQ+ TIRIPVH+ Sbjct: 257 RGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVTRAIADQARTIRIPVHI 316 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD--E 583 + I+K+ R+++ ++K++PT EE+A+K+ +P + +R + I K+PISLE P + E Sbjct: 317 VETINKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYIEKKPISLEVPPAENKE 376 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-----ASLTPREERVLRMRFGIGMNT 638 D + LGDFI D N +SP + ++E T ++L +LT REE+VL+MR+G Sbjct: 377 DETSLGDFISDPNVLSPHEYM----MKEVTQKLLDEVLENTLTEREEKVLKMRYGFLDGK 432 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 +TLEE+G F VTRERIRQIE+KA+R+L+ P++ KL+S Sbjct: 433 VYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSL 473 >gi|15827487|ref|NP_301750.1| RNA polymerase sigma factor SigB [Mycobacterium leprae TN] gi|221229964|ref|YP_002503380.1| RNA polymerase sigma factor SigB [Mycobacterium leprae Br4923] gi|699187|gb|AAA62952.1| u1764a [Mycobacterium leprae] gi|13093037|emb|CAC31395.1| RNA polymerase sigma factor [Mycobacterium leprae] gi|219933071|emb|CAR71109.1| RNA polymerase sigma factor [Mycobacterium leprae Br4923] Length = 319 Score = 244 bits (623), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 115/233 (49%), Positives = 173/233 (74%), Gaps = 2/233 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW++QA Sbjct: 86 LLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQA 145 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A + +P+E + +L Sbjct: 146 ITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGIPIEKINDLL 205 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTPREER 626 + +++P+SL+ P+G E+ + LGDFIED A+S ++A+ A L T R VLA+L RE + Sbjct: 206 EHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSA-ENAVIAELLHTDIRSVLATLDEREHQ 264 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 V+R+RFG+ TL+++GK F ++RER+RQIE + KL++ R+ +LRS+ Sbjct: 265 VIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMCKLRNGERADRLRSY 317 >gi|251733359|emb|CAR82429.1| RNA polymerase sigma factor [Rhizobium leguminosarum] Length = 202 Score = 244 bits (623), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 120/178 (67%), Positives = 145/178 (81%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++QG ELDP+W+ + WK F E +I IR EI++++ ETGISISEFR IV Sbjct: 83 QYQGAELDPNWMKSIGNLAARGWKEFARGENTTIRDIRQEIQNLATETGISISEFRRIVH 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|251733387|emb|CAR82443.1| RNA polymerase sigma factor [Sinorhizobium kostiense] gi|251733389|emb|CAR82444.1| RNA polymerase sigma factor [Sinorhizobium kostiense] gi|251733391|emb|CAR82445.1| RNA polymerase sigma factor [Sinorhizobium kostiense] Length = 202 Score = 244 bits (623), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 118/178 (66%), Positives = 144/178 (80%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLNQ+RID LVEQLYDISKR+ NEG LLRLA+SYG++R+ FLE Sbjct: 23 RYKELKDELIKAVKSLSLNQNRIDALVEQLYDISKRLTQNEGRLLRLAESYGVRREAFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E +I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYSGAELDPNWMKSISNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|18477825|emb|CAC83730.1| sigma factor [Rhodococcus fascians] Length = 323 Score = 244 bits (622), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 115/258 (44%), Positives = 181/258 (70%), Gaps = 4/258 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S + R++ +VR G S A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 68 LSAVKKRNLAIIVRDG----SAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 123 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 124 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 183 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T EE++ + + VE + +L +++P+SL+ P+G ++ + LGDFIED A S Sbjct: 184 QLGREATDEELSSESGIAVEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAE 243 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++ I L VL +L RE++V+R+R+G+ TL+++GK F ++RER+RQIE Sbjct: 244 NAVIAGLLHSDVRVVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIER 303 Query: 662 KAIRKLKHPSRSKKLRSF 679 + + KL+ R++KLRS+ Sbjct: 304 EVMVKLRQGDRAEKLRSY 321 >gi|42561001|ref|NP_975452.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|42492498|emb|CAE77094.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. mycoides SC str. PG1] Length = 522 Score = 244 bits (622), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 60/299 (20%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 223 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 282 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP +EIA ++ + G Sbjct: 283 IRQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNADEIANRVGEGITGD 342 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V ++ K++ EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V + Sbjct: 343 KVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPNEYTEKKILKEVMDKVFEDMP 402 Query: 622 PREERVLRMRFGI------------------------------GMNTDHTLEEV------ 645 PREE+V+RMR+GI ++ D +E+V Sbjct: 403 PREEKVIRMRYGIVPTRLRTLLRLTQECNDTNAKELKQAIEELDIHLDTPIEKVRKFNNQ 462 Query: 646 ------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFLDG 682 GK+ VTRERIRQIEAK IRKLK PS + K L+ F G Sbjct: 463 IINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSPNNKSGKTLKEFYKG 521 >gi|331703466|ref|YP_004400153.1| RNA polymerase sigma A factor [Mycoplasma mycoides subsp. capri LC str. 95010] gi|328802021|emb|CBW54175.1| RNA polymerase sigma A factor [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 506 Score = 244 bits (622), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 60/299 (20%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 207 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 266 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP +EIA ++ + G Sbjct: 267 IRQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNADEIANRVGEGITGD 326 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V ++ K++ EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V + Sbjct: 327 KVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPNEYTEKEILKEVMDKVFEDMP 386 Query: 622 PREERVLRMRFGI------------------------------GMNTDHTLEEV------ 645 PREE+V+RMR+GI ++ D +E+V Sbjct: 387 PREEKVIRMRYGIVPTRLRTLLRLAQECNDSNAKELKQAIEELDIHLDTPIEKVRKFNNQ 446 Query: 646 ------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFLDG 682 GK+ VTRERIRQIEAK IRKLK PS + K L+ F G Sbjct: 447 IINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSPNNKSGKTLKEFYKG 505 >gi|256383860|gb|ACU78430.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. capri str. GM12] gi|256384691|gb|ACU79260.1| RNA polymerase sigma-A factor [Mycoplasma mycoides subsp. capri str. GM12] gi|296455677|gb|ADH21912.1| RNA polymerase sigma-A factor [synthetic Mycoplasma mycoides JCVI-syn1.0] Length = 506 Score = 244 bits (622), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 60/299 (20%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 207 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 266 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP +EIA ++ + G Sbjct: 267 IRQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNADEIANRVGEGITGD 326 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V ++ K++ EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V + Sbjct: 327 KVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPNEYTEKEILKEVMDKVFEDMP 386 Query: 622 PREERVLRMRFGI------------------------------GMNTDHTLEEV------ 645 PREE+V+RMR+GI ++ D +E+V Sbjct: 387 PREEKVIRMRYGIVPTRLRTLLRLAQECNDSNAKELKQAIEELDIHLDTPIEKVRKFNNQ 446 Query: 646 ------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFLDG 682 GK+ VTRERIRQIEAK IRKLK PS + K L+ F G Sbjct: 447 IINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSPNNKSGKTLKEFYKG 505 >gi|305681000|ref|ZP_07403807.1| RNA polymerase sigma factor SigB [Corynebacterium matruchotii ATCC 14266] gi|305659205|gb|EFM48705.1| RNA polymerase sigma factor SigB [Corynebacterium matruchotii ATCC 14266] Length = 365 Score = 244 bits (622), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 113/241 (46%), Positives = 176/241 (73%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 124 EGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 183 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M ++ RE T EE+A++ + Sbjct: 184 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEELAEESGID 243 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A+LR + R V+ Sbjct: 244 ESKIELLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEAADA-ESAVVASLRHSDIRDVIG 302 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+RMR+G+ TL+++G+QF ++RER+RQIE + +RKL+ R++KLR Sbjct: 303 TLEDREQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMRKLRDGQRAEKLRE 362 Query: 679 F 679 + Sbjct: 363 Y 363 Score = 38.9 bits (89), Expect = 3.3, Method: Compositional matrix adjust. Identities = 30/97 (30%), Positives = 52/97 (53%), Gaps = 8/97 (8%) Query: 75 INVVDGDD----LEDEEGSEDSLDLASSASNSSVFL---QKRKDSADRSTDDPVRMYLRE 127 ++VV GD+ ++D+ G++D LD S + + +R + D + D VR+YL Sbjct: 15 LDVVMGDEPTDLVDDDPGADDILDPTDEESAFDLAVDRGSRRGQNNDNPSADLVRVYLNG 74 Query: 128 MGSIELLSREGEIAIAKRIEAG-RAMMMASLCESPLT 163 +G LL+ E E+ +A+ IE G A + + + PLT Sbjct: 75 IGKTALLTAEDEVHLAQTIEVGLYAEYLLTDSDEPLT 111 >gi|167745452|ref|ZP_02417579.1| hypothetical protein ANACAC_00143 [Anaerostipes caccae DSM 14662] gi|317472996|ref|ZP_07932299.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] gi|167655173|gb|EDR99302.1| hypothetical protein ANACAC_00143 [Anaerostipes caccae DSM 14662] gi|316899541|gb|EFV21552.1| sigma-70 family RNA polymerase sigma factor [Anaerostipes sp. 3_2_56FAA] Length = 347 Score = 243 bits (621), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 116/250 (46%), Positives = 178/250 (71%), Gaps = 1/250 (0%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYT-NRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + ++ E + AK +M+ +NLRLV+SVAK+Y G+ LDLIQEGNIGLMKA +KFD+ Sbjct: 97 LAKEIEAGSQSAKDKMINSNLRLVVSVAKRYAAGSGMALLDLIQEGNIGLMKAVDKFDYR 156 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYAMWW++Q++TR+IADQ+ TIRIPVHM++K+ KV AR+ + REP +E Sbjct: 157 RGYKFSTYAMWWIRQSVTRAIADQARTIRIPVHMKEKMGKVSGAARKFLEENGREPNADE 216 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A+ + + + + +++++ + +SL++P+G+E+ + L +F+ D++ +A Q L E Sbjct: 217 LAELMEISRDQMDEIMRLYSDTVSLDSPVGEEEDAMLMNFVADESMPEQYQTAEQGILSE 276 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L+ LT RE+ +LR+RFG N TLEEVG+++ VTRERIRQIE KA+RKLK Sbjct: 277 QINEILSELTEREQTILRLRFGFVENRIWTLEEVGREYHVTRERIRQIEGKALRKLKMKK 336 Query: 672 RSKKLRSFLD 681 +K LR++++ Sbjct: 337 ETKSLRAYIE 346 >gi|225021249|ref|ZP_03710441.1| hypothetical protein CORMATOL_01261 [Corynebacterium matruchotii ATCC 33806] gi|224945982|gb|EEG27191.1| hypothetical protein CORMATOL_01261 [Corynebacterium matruchotii ATCC 33806] Length = 391 Score = 243 bits (621), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 113/241 (46%), Positives = 176/241 (73%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 150 EGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 209 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M ++ RE T EE+A++ + Sbjct: 210 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEELAEESGID 269 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A+LR + R V+ Sbjct: 270 ESKIELLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEAADA-ESAVVASLRHSDIRDVIG 328 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+RMR+G+ TL+++G+QF ++RER+RQIE + +RKL+ R++KLR Sbjct: 329 TLEDREQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMRKLRDGQRAEKLRE 388 Query: 679 F 679 + Sbjct: 389 Y 389 Score = 38.5 bits (88), Expect = 3.5, Method: Compositional matrix adjust. Identities = 30/97 (30%), Positives = 52/97 (53%), Gaps = 8/97 (8%) Query: 75 INVVDGDD----LEDEEGSEDSLDLASSASNSSVFL---QKRKDSADRSTDDPVRMYLRE 127 ++VV GD+ ++D+ G++D LD S + + +R + D + D VR+YL Sbjct: 41 LDVVMGDEPTDLVDDDPGADDILDPTDEESAFDLAVDRGSRRGQNNDNPSADLVRVYLNG 100 Query: 128 MGSIELLSREGEIAIAKRIEAG-RAMMMASLCESPLT 163 +G LL+ E E+ +A+ IE G A + + + PLT Sbjct: 101 IGKTALLTAEDEVHLAQTIEVGLYAEYLLTDSDEPLT 137 >gi|206895369|ref|YP_002247042.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Coprothermobacter proteolyticus DSM 5265] gi|206737986|gb|ACI17064.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Coprothermobacter proteolyticus DSM 5265] Length = 360 Score = 243 bits (621), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 121/250 (48%), Positives = 172/250 (68%), Gaps = 1/250 (0%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + ++ E + A++E+++ NLRLVIS+AKKYTN+GL F++LIQEGNIGL+KA EKFDW Sbjct: 109 LAQRIEKNDAAAREELIKRNLRLVISIAKKYTNKGLSFMELIQEGNIGLIKAVEKFDWRK 168 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW+KQAITR++ADQS IR PVHM + H+ + + N++ REPT +E+ Sbjct: 169 GYKFSTYATWWIKQAITRALADQSRLIRRPVHMVEAYHQFQKKLNELYNQLGREPTVQEL 228 Query: 553 AKKLAMPVEGVRKVLKITK-EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 A+ L + V + +++ EP SL+ IGD+D S + DF+ D + + R Sbjct: 229 AEALGFSEDKVLALKQMSNPEPQSLDATIGDQDDSRVQDFVPDTGEGAADKYFWEEERRR 288 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 VL++L RE ++ MR+G+ +HTLEEVG F +TRER+RQIE KA+RKL+HP+ Sbjct: 289 VLEEVLSTLNKREREIIEMRYGLVDGVEHTLEEVGASFNITRERVRQIETKALRKLRHPT 348 Query: 672 RSKKLRSFLD 681 R +KLR +LD Sbjct: 349 RIRKLREYLD 358 >gi|269925789|ref|YP_003322412.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789449|gb|ACZ41590.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 363 Score = 243 bits (621), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 123/279 (44%), Positives = 189/279 (67%), Gaps = 8/279 (2%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D++ EI S+ + ++ E + + KG+ EA + V ANLRLV+S+AK+Y Sbjct: 90 DAVKIYLREIGSVPL---LTPKEEVELAKRIEKGDTEAL---QRFVLANLRLVVSIAKRY 143 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 RGL LDLIQEGNIGLM+A +KFDW G++FSTYA WW++QAITR+I D+S IR+P Sbjct: 144 VGRGLPLLDLIQEGNIGLMRAVQKFDWRKGHRFSTYATWWIRQAITRAIGDKSREIRLPA 203 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 H+ ++++++ R +++S + REPTPEEIA+K E VR++L ++P+SL+TP+G+E Sbjct: 204 HINEELNRINRIRQQLSQTVNREPTPEEIAEKAGTSPERVRELLGYLQQPVSLDTPVGEE 263 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTL 642 S LG+F+ D A +P + A L+ RVL LTPRE+RVL++R+G+G ++L Sbjct: 264 ADSTLGEFVPDVRA-NPEEEATDEVLKTEMDRVLDEVLTPREKRVLQLRYGLGDGHTYSL 322 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+VG++ VTRER+RQ+E +A+ KL+ +KL +++ Sbjct: 323 EKVGRELGVTRERVRQLEKQALEKLRRGPAIRKLAEYME 361 Score = 53.1 bits (126), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 11/122 (9%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 +++ K++I L + +G+VT ++ +P E + + L GI V+ + E E Sbjct: 10 EEAIKRLITLGKSKGHVTERDVFELVPEAEDNIDCFNQVSDALIREGIEVLPEETTEAEA 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G E+ LD + +L D V++YLRE+GS+ LL+ + E+ +AKRIE Sbjct: 70 GPEEDLDQTLEELENDGYLT-----------DAVKIYLREIGSVPLLTPKEEVELAKRIE 118 Query: 148 AG 149 G Sbjct: 119 KG 120 >gi|269126637|ref|YP_003300007.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268311595|gb|ACY97969.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 444 Score = 243 bits (621), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 113/236 (47%), Positives = 168/236 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAKKY++RGL LD++QEGN+GL++A EKFD+ G+KFSTYAMWW Sbjct: 207 AKSHMLEANLRLVVSVAKKYSDRGLSLLDVVQEGNLGLIRAVEKFDYTKGFKFSTYAMWW 266 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD + TIR+PVH+ + + K+ R R M ++ REPTPEE+A +L V Sbjct: 267 IRQAIQRGFADSARTIRLPVHVLEMLSKLSRVERDMHQRLGREPTPEELAAELDKSPAQV 326 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L+ +++PISL++ IG++ + +GD IED ++ + + + + R L+ L+PR Sbjct: 327 RELLRTSRQPISLDSTIGEDGETRIGDLIEDIDSPEASEMVDRQLMADQLRRSLSILSPR 386 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 EE ++ MRFG+ T TL+E+GK +TRERIRQ+E +++ KL+HPS + L F Sbjct: 387 EEMIMSMRFGLYDGTPRTLDEIGKHLGLTRERIRQLEKESLSKLRHPSNATPLLDF 442 >gi|317506478|ref|ZP_07964279.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974] gi|316255239|gb|EFV14508.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974] Length = 348 Score = 243 bits (621), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 112/264 (42%), Positives = 183/264 (69%), Gaps = 4/264 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I+ G++ R + ++VR G A+ ++EANLRLV+S+AK+YT RG+ LDLIQ Sbjct: 87 INTSEGLTPQRRRELKAVVRDGRA----ARTHLLEANLRLVVSLAKRYTGRGIPLLDLIQ 142 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R Sbjct: 143 EGNLGLIRAMEKFDYSKGFKFSTYATWWIRQAITRGVADQSRTIRLPVHLVEQVNKLSRI 202 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R + ++ RE T EE++++ +P + +L +++P+SL+ P+G ++ + LGDFIED Sbjct: 203 KRELHQQLGREATSEELSRETGIPEHRIADLLDHSRDPVSLDMPVGADEEAPLGDFIEDS 262 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 S ++ I L VLA+L+ E++V+R+R+G+ TL+++GK F ++RER Sbjct: 263 EGASAENAVIAGFLHRDVRSVLATLSDSEQQVIRLRYGLDDGQPRTLDQIGKIFSLSRER 322 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSF 679 +RQIE + + KL++ R+++LRS+ Sbjct: 323 VRQIEREVMVKLRNGDRAERLRSY 346 >gi|221633247|ref|YP_002522472.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159] gi|221156052|gb|ACM05179.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159] Length = 340 Score = 243 bits (620), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 114/241 (47%), Positives = 169/241 (70%), Gaps = 3/241 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA + V +NLRLV+S+AK+Y RGL LDLIQEGNIGLM+A EKFDW G Sbjct: 95 IKEGDTEA---LQRFVRSNLRLVVSIAKRYVGRGLSLLDLIQEGNIGLMRAVEKFDWRRG 151 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y+FSTYA WW++QAITR+IADQ TIR+PVHM D I + RT +++ ++ R+PTPEEIA Sbjct: 152 YRFSTYATWWIRQAITRAIADQGRTIRLPVHMTDSITRYHRTTTQLAQELGRQPTPEEIA 211 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + +++ E + ++++ + +SL+ P+ +ED + LGD I D+ A SP + A ++ +R Sbjct: 212 EAMSVQPEKIAQIVRAAQRAVSLDQPLSEEDETSLGDLIADELAQSPEELAEESLMRRDI 271 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L LTPRE VL++R+G+ TL EVG ++RER+RQIE +A+RKL+ +R Sbjct: 272 AEILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENEALRKLRRIARE 331 Query: 674 K 674 + Sbjct: 332 R 332 >gi|302035824|ref|YP_003796146.1| RNA polymerase sigma-70 factor [Candidatus Nitrospira defluvii] gi|300603888|emb|CBK40220.1| RNA polymerase sigma-70 factor [Candidatus Nitrospira defluvii] Length = 419 Score = 243 bits (620), Expect = 8e-62, Method: Compositional matrix adjust. Identities = 118/245 (48%), Positives = 166/245 (67%), Gaps = 1/245 (0%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E +S ++ AK E+V NLRLV++VAK YT RGL LDL+QEGNIGLMKAA Sbjct: 166 ELDAALSQLKASRITLETAKDELVRCNLRLVVNVAKHYTGRGLTLLDLVQEGNIGLMKAA 225 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 E++ G+KFSTYA WW++Q ITRS+ADQS TIRIPVH + ++++R +RR+ ++ R Sbjct: 226 ERYQHRKGFKFSTYATWWIRQGITRSLADQSRTIRIPVHQTEASNRILRASRRLVQQLGR 285 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 +P EE+A + M + + + ++ +EP++LE +GD T LG+ + D+ AV P Sbjct: 286 QPRLEEVASTMRMRPDRLHETIQAFQEPVALEHRVGDGGT-ELGELLPDQQAVPPDAHVN 344 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + L R+L +LTPRE+ V+R+RFGIG + TLE+VG+ VTRERIRQIEAKA++ Sbjct: 345 RTELTREMDRILGTLTPREQTVIRLRFGIGEDQARTLEQVGQHLSVTRERIRQIEAKALK 404 Query: 666 KLKHP 670 KLK P Sbjct: 405 KLKTP 409 >gi|156742838|ref|YP_001432967.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii DSM 13941] gi|156234166|gb|ABU58949.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus castenholzii DSM 13941] Length = 351 Score = 243 bits (619), Expect = 9e-62, Method: Compositional matrix adjust. Identities = 116/243 (47%), Positives = 167/243 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A A++ +++ANLRLV+SVAKKY L F+DL+QEGNIGLM+A EKFD G +FST Sbjct: 109 VQAEEARRRLIQANLRLVVSVAKKYIGGPLSFMDLVQEGNIGLMRAVEKFDASKGNRFST 168 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+QS IR+PVH+ D I +V R ARR+ ++REPT +EIA+ + M Sbjct: 169 YATWWIRQAITRAIAEQSRLIRLPVHLSDVIAQVRRVARRLEQSLEREPTIKEIAEAVGM 228 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P V+ +L+ + +PISLE PI ++ +G+ + D A +P++ A Q L+ + L Sbjct: 229 PERKVKMLLQASAQPISLEQPITNDGEGQIGELLADDGADAPMEIATQHMLQRDLEQALM 288 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE VLR+R+G+ TLEE+G F +TRER RQIEA A+R L+ P S +L++ Sbjct: 289 DLPDRERAVLRLRYGLTDGRRRTLEEIGSAFGITRERTRQIEADALRLLRRPGVSARLQA 348 Query: 679 FLD 681 +L+ Sbjct: 349 YLE 351 Score = 40.0 bits (92), Expect = 1.2, Method: Compositional matrix adjust. Identities = 23/56 (41%), Positives = 32/56 (57%), Gaps = 7/56 (12%) Query: 102 SSVFLQ-------KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 S VF Q ++ S+ + DD +MYLRE+G + LLS E+A+A I AGR Sbjct: 29 SDVFWQTDFADVVAQRASSGETLDDSTQMYLREIGQVSLLSAAEEVALANDISAGR 84 >gi|163848723|ref|YP_001636767.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222526666|ref|YP_002571137.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163670012|gb|ABY36378.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222450545|gb|ACM54811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 360 Score = 243 bits (619), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 111/238 (46%), Positives = 166/238 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+SVAKKY + F+DL+QEGNIGLM+A EKFD+ G +FSTYA WW Sbjct: 123 ARRRLIQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWW 182 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+QS IR+PVH+ + I + R R+ +++REPT EE+A L M V V Sbjct: 183 IRQAVTRAIAEQSRLIRLPVHLSESIVHLRRAIYRLEQELEREPTAEELAHALNMSVRKV 242 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++++ + +PISLE P+ +E + + + D+ SP++ A Q L T L L R Sbjct: 243 KRLIRASTQPISLEQPLNNEQEGRVSETLADETVASPMEIAEQKMLHAELTAALNELPER 302 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L++R+G+ TLEEVG F +TRER RQIEA+A+R+L+HPS ++L S+LD Sbjct: 303 ERKILQLRYGLIDGQRRTLEEVGATFGITRERTRQIEAEALRRLRHPSVGQRLHSYLD 360 >gi|313665390|ref|YP_004047261.1| RNA polymerase sigma factor RpoD [Mycoplasma leachii PG50] gi|312949647|gb|ADR24243.1| putative RNA polymerase sigma factor RpoD [Mycoplasma leachii PG50] Length = 498 Score = 243 bits (619), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 133/302 (44%), Positives = 182/302 (60%), Gaps = 66/302 (21%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 199 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 258 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP EEIA ++ EG+ Sbjct: 259 IRQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNAEEIANRVG---EGI 315 Query: 564 R--KVLKITK---EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 KV++I K EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V Sbjct: 316 TSDKVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPNEYTEKEILKEVMDKVFE 375 Query: 619 SLTPREERVLRMRFGI------------------------------GMNTDHTLEEV--- 645 + PREE+V+RMR+GI ++ D +E+V Sbjct: 376 DMPPREEKVIRMRYGIVPTRLRTLLRLAQECNDSSAKELKQAIEELDIHLDTPIEKVRKF 435 Query: 646 ---------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFL 680 GK+ VTRERIRQIEAK IRKLK PS + K L+ F Sbjct: 436 NNEIINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSLNNKSGKTLKEFY 495 Query: 681 DG 682 G Sbjct: 496 KG 497 >gi|72161811|ref|YP_289468.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71915543|gb|AAZ55445.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 438 Score = 243 bits (619), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 111/236 (47%), Positives = 167/236 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAKKY++RG+ LD++QEGN+GL++A EKFD+ GYKFSTYAMWW Sbjct: 201 AKAHMLEANLRLVVSVAKKYSDRGMPLLDVVQEGNLGLIRAVEKFDYAKGYKFSTYAMWW 260 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD + TIR+PVH+ + + K+ R R M + REPTP+E+A++L + Sbjct: 261 IRQAIQRGFADSARTIRLPVHVLELLSKLSRLERDMHQTLGREPTPDELAQELGKTPAQI 320 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+IT++PISL++ IG++ + +GD IED +A + + + + R L L PR Sbjct: 321 EELLRITRQPISLDSTIGEDGETRIGDLIEDVDASEASEVVDRQLMADQLRRALDDLEPR 380 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E ++ +RFG+ TL+E+GK +TRERIRQ+E +++ KL+HPSR+++L F Sbjct: 381 EATIMSLRFGLFDGRPRTLDEIGKHLGLTRERIRQLEKQSLSKLRHPSRARQLLDF 436 Score = 44.3 bits (103), Expect = 0.068, Method: Compositional matrix adjust. Identities = 35/141 (24%), Positives = 64/141 (45%), Gaps = 24/141 (17%) Query: 33 KMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDS 92 ++I R RG+V++ EL ++ + + LS+ G+ + + +D + G +D+ Sbjct: 24 ELIARGRARGHVSLSELRTAFSEAGITPAEGRSLLRELSDTGVRIANNEDTPVDPGDDDT 83 Query: 93 LD--LASSASNSSVFLQ--------KRKDSADRSTDDP--------------VRMYLREM 128 L+ L +++ S + + +TD P V YL+ + Sbjct: 84 LEAVLETTSKGSGRRRSAKKRSRKKQPAQAGAETTDAPEADLDDHSPALGDSVHTYLKAI 143 Query: 129 GSIELLSREGEIAIAKRIEAG 149 G ELL+ E E+ +AKRIEAG Sbjct: 144 GRRELLTAEQEVELAKRIEAG 164 >gi|302344687|ref|YP_003809216.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] gi|301641300|gb|ADK86622.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] Length = 363 Score = 243 bits (619), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 117/242 (48%), Positives = 166/242 (68%), Gaps = 1/242 (0%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 +V + + E A EMVEANLRL +S+AKKYT RGL F DLIQEGNIGLMKA ++ Sbjct: 111 QLVRDINRARREVEAAVSEMVEANLRLAVSIAKKYTFRGLSFADLIQEGNIGLMKAVNRY 170 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ GY+FST+A WW++Q I+R+I DQ+ TIRIP+H+ + K R + ++ REPT Sbjct: 171 DYRTGYRFSTFASWWIRQTISRAIYDQARTIRIPIHLLELRSKYFRVYYGLLKELGREPT 230 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 P+E+A+K+ + + V++++ +T + SLETP+G ED LGDFIE+K+A P + Sbjct: 231 PKEVAEKVGITEDKVKEIINLTLDSTSLETPVG-EDGDELGDFIENKDAEDPFSMVGETE 289 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L SL RE R+L MRFG+G +HTLEEVG+ F ++RER+RQIE KA+++L+ Sbjct: 290 MHGHLEAALDSLDGRERRILEMRFGLGDEDEHTLEEVGQVFGLSRERVRQIEKKALQRLR 349 Query: 669 HP 670 HP Sbjct: 350 HP 351 >gi|305644360|gb|ADM53781.1| RNA polymerase sigma factor [Aeromonas hydrophila] gi|305644362|gb|ADM53782.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 242 bits (618), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 115/176 (65%), Positives = 139/176 (78%) Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM 60 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ REP PEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 61 LQEMGREPNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLAL 120 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 P D+A +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRER Sbjct: 121 PADAATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 176 >gi|318058872|ref|ZP_07977595.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actG] gi|333027299|ref|ZP_08455363.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp. Tu6071] gi|332747151|gb|EGJ77592.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp. Tu6071] Length = 338 Score = 242 bits (618), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 119/238 (50%), Positives = 171/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 101 AKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWW 160 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR R + + EP+ E+A L + E V Sbjct: 161 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRGLLQERGHEPSHAEVAALLGLTKERV 220 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ +EP+SL TP+G ED LGD IED +A SP +SA LR VL++L R Sbjct: 221 GEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVLSTLGER 280 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G F VTRERIRQIEAK + KL+ + + +LR +LD Sbjct: 281 ERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHAFADQLRGYLD 338 >gi|251733365|emb|CAR82432.1| RNA polymerase sigma factor [Agrobacterium rubi] Length = 202 Score = 242 bits (618), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 119/178 (66%), Positives = 146/178 (82%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+ V SLSLNQ+R+D LVEQLYDISKR+M NEG+LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDQLITAVKSLSLNQNRVDSLVEQLYDISKRLMQNEGKLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E ++I IR EI++++ ETGISI+EFR IVS Sbjct: 83 QYHGAELDPNWMKSIANLAAKGWKEFAREENNTIRDIRLEIQNLAQETGISIAEFRRIVS 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545] gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545] Length = 587 Score = 242 bits (617), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 118/237 (49%), Positives = 169/237 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M++ANLRLV+S+AK+Y N+ + F DLIQEG +GL++ AEKFD+ GYKFSTYA WW Sbjct: 333 AKNQMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWW 392 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TRSI+DQS TIR+PVH+ + I ++ + R++ K R+PT EEIA+ + M VE + Sbjct: 393 IRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQLVMKYGRDPTTEEIAEVMDMTVEKI 452 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ K + PISL + D+D+ + + + D +A P D+ + L+E VL +L+PR Sbjct: 453 NQIQKASLVPISLSQSVNDDDSRTVEETLVDDHAEHPDDATGKVLLKEDLENVLNTLSPR 512 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ TLEE+G F VTRERIRQIEAKA+RKL+ PSR+ LR +L Sbjct: 513 ERDVLRLRYGMDDGRVKTLEEIGNVFSVTRERIRQIEAKALRKLRQPSRNGILREYL 569 >gi|83319868|ref|YP_424476.1| RNA polymerase sigma factor RpoD [Mycoplasma capricolum subsp. capricolum ATCC 27343] gi|83283754|gb|ABC01686.1| RNA polymerase sigma factor RpoD [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 505 Score = 242 bits (617), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 133/302 (44%), Positives = 181/302 (59%), Gaps = 66/302 (21%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E+NL+LVISVA+K+ NRGL F DLI+EGNIGLMKA +KF++ G+KFSTYA WW Sbjct: 207 GRNKLIESNLKLVISVARKHLNRGLDFADLIEEGNIGLMKAVDKFEYEKGFKFSTYATWW 266 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + QAITR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP EEIA ++ EG+ Sbjct: 267 ISQAITRAIADQARTIRIPVHMVETINKLARVERQLTQELGREPNAEEIANRVG---EGI 323 Query: 564 R--KVLKITK---EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 KV++I K EP+SLE P GDED +H GDF+EDK+ VSP + + L+E +V Sbjct: 324 TSDKVIEIKKLSIEPVSLEKPFGDEDDTHFGDFVEDKDMVSPSEYTEKEILKEVMDKVFE 383 Query: 619 SLTPREERVLRMRFGI------------------------------GMNTDHTLEEV--- 645 + PREE+V+RMR+GI ++ D +E+V Sbjct: 384 DMPPREEKVIRMRYGIVPTRLRTLLRLAQECNDTNAKELKQAIEELDIHLDTPIEKVRKF 443 Query: 646 ---------------------GKQFCVTRERIRQIEAKAIRKLKHPSRSKK----LRSFL 680 GK+ VTRERIRQIEAK IRKLK PS + K L+ F Sbjct: 444 NNEIINNNLAKYDSARTLEEVGKELNVTRERIRQIEAKTIRKLKQPSPNNKSGKTLKEFY 503 Query: 681 DG 682 G Sbjct: 504 KG 505 >gi|256375630|ref|YP_003099290.1| RNA polymerase sigma factor SigB [Actinosynnema mirum DSM 43827] gi|255919933|gb|ACU35444.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 330 Score = 242 bits (617), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 111/236 (47%), Positives = 168/236 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 93 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 152 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQ TIR+PVH+ ++++K+ R R + ++ RE T EE+A + + V Sbjct: 153 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATNEELAAESGLSPTKV 212 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L ++P+SL+ P+G E+ + LGDFIED +A + I L++ RVLA+L R Sbjct: 213 SDLLDHARDPVSLDMPVGAEEDAPLGDFIEDSDATDAESAVISGLLQDDLRRVLATLEQR 272 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+ V+R+R+G+ TL+++GKQF ++RER+RQIE + + KL+ R+ KLR++ Sbjct: 273 EQAVIRLRYGLEDGQPRTLDQIGKQFGLSRERVRQIEREVMSKLRQGERAAKLRAY 328 >gi|256371066|ref|YP_003108890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] gi|256007650|gb|ACU53217.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] Length = 337 Score = 241 bits (616), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 117/250 (46%), Positives = 165/250 (66%), Gaps = 4/250 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR+GE AK+ ++ANLRLV+S+AK+Y GL LDLIQEGN+GL+ A EKFDW Sbjct: 92 LVRQGEE----AKRAFIQANLRLVVSIAKRYQASGLPLLDLIQEGNMGLIHAVEKFDWRK 147 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITR IA+ TIR+PVH D + +V R ++ ++ R PT E+ Sbjct: 148 GFKFSTYATWWIRQAITRGIANTGRTIRLPVHAGDSLSRVQRAQVQLEVRLGRAPTVREL 207 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A ++ +P + + + L+ EP+SL P+ D+ + LGD +ED + +P D A + L Sbjct: 208 AAEVDLPYDKLVEALRFRAEPVSLSEPLRDDGDAELGDVVEDSQSATPFDVAAEHLLPSE 267 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +R+LA L RE +LR+R+G+ TLEEVG+ F +TRERIRQIEA+A+ KL+HPS Sbjct: 268 VSRLLAPLDGREREILRLRYGLDRGEPRTLEEVGEYFHLTRERIRQIEARAMSKLRHPSA 327 Query: 673 SKKLRSFLDG 682 R L G Sbjct: 328 DIGARDLLTG 337 >gi|318080032|ref|ZP_07987364.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] Length = 340 Score = 241 bits (616), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 119/238 (50%), Positives = 171/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 103 AKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWW 162 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR R + + EP+ E+A L + E V Sbjct: 163 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRGLLQERGHEPSHAEVAALLGLTKERV 222 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ +EP+SL TP+G ED LGD IED +A SP +SA LR VL++L R Sbjct: 223 GEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVLSTLGER 282 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G F VTRERIRQIEAK + KL+ + + +LR +LD Sbjct: 283 ERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHAFADQLRGYLD 340 >gi|309791990|ref|ZP_07686468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308225984|gb|EFO79734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 396 Score = 241 bits (616), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 115/238 (48%), Positives = 170/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++M ANLRLV+S+AK+Y +RGL LDLIQEG++GL++A EKFD G+KFSTYA WW Sbjct: 157 ARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDHDKGFKFSTYATWW 216 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA++R++ADQS +R+PVH+ + ++++ R+++ ++ REP E+A +L+M E + Sbjct: 217 IKQALSRALADQSRLVRLPVHLGETLNRIQAARRQLTQRLGREPYDSELADELSMSQEKL 276 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + ++P+SL TP+G+E S L DFI D +A+ D+A LR+ L LT R Sbjct: 277 RELRRTAQDPVSLATPVGEEADSTLADFIPDPHALDADDAAASGMLRQQIATALDQLTER 336 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VL +R+G+ TLEEVGK F VTRER+RQIE KA+RKL+HP K L+ +LD Sbjct: 337 ERKVLELRYGLTDGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRHPRLGKLLKDYLD 394 Score = 61.2 bits (147), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 42/120 (35%), Positives = 63/120 (52%), Gaps = 16/120 (13%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDD---LEDEEGSE 90 +I L RQRG+VT EE+ A +P E + + ++ A L+ I V D D LE+E S Sbjct: 22 LIALGRQRGFVTFEEIQALVPNPEEAIDAIDSLYATLAEASIPVRDSADDATLEEETIST 81 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 +DL S++ + D VR+YLRE+G + LL+ E E +A+ IE G+ Sbjct: 82 VVIDLDEGLSDALL-------------GDSVRLYLREIGQVPLLTAEQEKRLAQTIERGQ 128 >gi|298244288|ref|ZP_06968094.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297551769|gb|EFH85634.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 334 Score = 241 bits (616), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 110/236 (46%), Positives = 166/236 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++EANLRLV+S+AK+Y+N+GL LDLIQEGNIGLM+A +KFD+ G++FSTYA WW Sbjct: 96 ARQRLIEANLRLVVSIAKRYSNQGLPLLDLIQEGNIGLMRATQKFDYKRGFRFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI+R+IA+ S +I IPVH+ + I+K+ R RR+ + EP PE++A +L +P E V Sbjct: 156 IRQAISRAIAEHSRSIHIPVHVVELIYKIKRITRRLYQEQGVEPLPEQVAAELGLPRERV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L ++++PISL+ P+ D++ HL D +ED + +D Q RE + + L PR Sbjct: 216 VELLNVSEQPISLDAPMADDEEYHLSDMLEDTSMAPTIDVVSQQLQREHIEQAMTVLNPR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E ++ MR+G+ +L+EV F +TRERIRQIE KA+RKL++P R + LR Sbjct: 276 ERTIIEMRYGLKDGHSLSLDEVSVLFHLTRERIRQIEVKALRKLRYPERYEGLRDL 331 >gi|149183340|ref|ZP_01861778.1| RNA polymerase sigma factor RpoD [Bacillus sp. SG-1] gi|148848937|gb|EDL63149.1| RNA polymerase sigma factor RpoD [Bacillus sp. SG-1] Length = 330 Score = 241 bits (615), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 119/221 (53%), Positives = 161/221 (72%), Gaps = 3/221 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I +S E + + + +G+ EA K+ + EANLRLV+S+AK+Y RG+ Sbjct: 113 VRMYLKEIGRVDLLSAQEEISLANRIEEGDEEA---KRRLAEANLRLVVSIAKRYVGRGM 169 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLIQEGN+GL+KA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 170 LFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 229 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K++R R++ + REP+PEEIA+++ + E VR++LKI +EP+SLETPIG+ED SHL Sbjct: 230 INKLIRVQRQLLQDLGREPSPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHL 289 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 GDFIED A SP + A L+E VL +LT REE VLR Sbjct: 290 GDFIEDAEAQSPSEHAAYELLKEQLEDVLDTLTDREENVLR 330 Score = 61.2 bits (147), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 39/135 (28%), Positives = 72/135 (53%), Gaps = 4/135 (2%) Query: 28 DDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEE 87 D +++++L ++RG +T E++ L E+ S+ M++ L G+ +++ E+EE Sbjct: 24 DQVKEQLMELGKKRGVLTYEDIAEKLANFELESDTMDEFYEQLGEQGVEIIN----ENEE 79 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + ++ + A + L +DPVRMYL+E+G ++LLS + EI++A RIE Sbjct: 80 DDDPNIQQLNKADDEEFDLNDLSVPPGVKINDPVRMYLKEIGRVDLLSAQEEISLANRIE 139 Query: 148 AGRAMMMASLCESPL 162 G L E+ L Sbjct: 140 EGDEEAKRRLAEANL 154 >gi|271965471|ref|YP_003339667.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] gi|270508646|gb|ACZ86924.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Streptosporangium roseum DSM 43021] Length = 452 Score = 241 bits (615), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 111/233 (47%), Positives = 166/233 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAKKYT+RG+ LD++QEGN+GL++A EKFD+ GYKFSTYAMWW Sbjct: 215 AKDHMLEANLRLVVSVAKKYTDRGMALLDVVQEGNLGLIRAVEKFDYTKGYKFSTYAMWW 274 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD + TIR+PVH+ + + K+ R R M ++ REPTPEE+A +L + + Sbjct: 275 IRQAIQRGFADSARTIRLPVHVLEMLSKLSRVERDMHQRLGREPTPEELAVELDKTPDQI 334 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+ +++PISL IG++ + +GD IED ++ + + L E VL +L+PR Sbjct: 335 EELLRTSRQPISLNATIGEDGETTIGDLIEDVDSPEASEVVDRQLLGEQLRGVLGNLSPR 394 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E +++ +RFG+ HTL+E+GK +TRERIRQ+E +++ KL+HPS ++ L Sbjct: 395 EAKIMALRFGLVDGKPHTLDEIGKHLGLTRERIRQLEKESLSKLRHPSNTRPL 447 >gi|206889845|ref|YP_002248858.1| RNA polymerase sigma 70 factor [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741783|gb|ACI20840.1| RNA polymerase sigma 70 factor [Thermodesulfovibrio yellowstonii DSM 11347] Length = 427 Score = 241 bits (614), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 130/290 (44%), Positives = 189/290 (65%), Gaps = 7/290 (2%) Query: 394 EWKNFVACEVDSILKIRNEI---KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 E N E+D K R EI +++ TG++ EF ++K E + AK +M+E Sbjct: 139 ELTNMFVEELD---KFRREIIKGENLQPITGMTNEEFLDHFMTIKKIFNEFTEAKNKMIE 195 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +NL+LV+S+AKKYT RGL DLIQEGNIGLMKA EKF++ G+KFSTY+ WW++Q+I R Sbjct: 196 SNLKLVVSIAKKYTGRGLNLEDLIQEGNIGLMKAVEKFEYKKGFKFSTYSTWWIRQSINR 255 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IA+ S TIRIPVH+ D I K+ + R + + EP EEI+ L +P + + L I+ Sbjct: 256 AIAEHSKTIRIPVHVIDNICKINKIYRELYQNSENEPDIEEISLNLNIPSDKIADFLAIS 315 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEP+S++ + D+D S L +FIED N+ +P + A+ +L+ +V + L+ RE+ +L Sbjct: 316 KEPVSIDMSLRDDD-SLLKEFIEDMNSPNPYEEALHDDLKHLIEKVFSLLSKREKEILMR 374 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 R+GI +L+EVGK+F V+RERIRQIE +A+RKLK R K LR F+ Sbjct: 375 RYGINEEKPKSLDEVGKEFSVSRERIRQIELRAMRKLKRLCRLKWLREFI 424 >gi|37522577|ref|NP_925954.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] gi|35213578|dbj|BAC90949.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] Length = 305 Score = 241 bits (614), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 113/250 (45%), Positives = 172/250 (68%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + ++ G EA AK+ +V ANLRLV+S+AKKY NRG+ FLDLIQEG IGLM+AAEKFD Sbjct: 53 LAQVIATGGSEAEAAKRRLVRANLRLVVSIAKKYLNRGVPFLDLIQEGAIGLMRAAEKFD 112 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++Q ITR+IA QS T+R+PVHM +K+++V R R+++ ++ R+PT Sbjct: 113 FERGFKFSTYAYWWIRQGITRAIASQSRTVRLPVHMVEKLNQVKRVRRQLTQELARKPTK 172 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+A+ L + ++ + ++L + +SL +G E+ + L IED + +SP + L Sbjct: 173 PEMAEALELDIDKLDEILDAGRRTLSLHVKVGKEEDTELLQLIEDSDTISPSEVLDHNLL 232 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E +L LTPRE ++ +RFG+ +TL ++G+ + ++RER+RQI+AKA+RKL+H Sbjct: 233 VEQIESLLHLLTPRERDIIELRFGLADGNSYTLADIGEMYNLSRERVRQIQAKAMRKLRH 292 Query: 670 PSRSKKLRSF 679 P R LR + Sbjct: 293 PRRQVLLRDW 302 >gi|295839080|ref|ZP_06826013.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|295827312|gb|EDY44634.2| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 360 Score = 241 bits (614), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 119/238 (50%), Positives = 169/238 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++E+NLRLV+SVAK+Y RGL LDL+QEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 123 AKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGFKFSTYATWW 182 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++R++ADQ+ TIR+PVH+ + I++VVR R + + EP E+A L + E V Sbjct: 183 IRQAMSRALADQARTIRVPVHVVELINRVVRARRTLLQERGHEPCDAEVAAVLGLTPERV 242 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +VL++ +EP+SL TP+G ED LGD IED +A SP +SA LR VL++L R Sbjct: 243 GEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRHLEDVLSTLGER 302 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +V+++R+G+ TLEE+G F VTRERIRQIEAK + KL+ + +LR +LD Sbjct: 303 ERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHVFADQLRGYLD 360 >gi|269925873|ref|YP_003322496.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269789533|gb|ACZ41674.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 326 Score = 241 bits (614), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 115/238 (48%), Positives = 169/238 (71%), Gaps = 2/238 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ M+E NLRLV+S+A++Y RGL DLI+EGN+GLM+AA+KFD+ GY+FSTYA W Sbjct: 90 MARRRMIECNLRLVVSIARRYAGRGLPLSDLIEEGNLGLMRAADKFDYRRGYRFSTYATW 149 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QA+TR++A QS +R+PVH+ + +H + + + R+S ++ REPT EEIA +L + E Sbjct: 150 WIRQAVTRALASQSRVVRLPVHVTELMHNITKVSHRLSQELGREPTSEEIAAELNITPER 209 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR+V+K ++ P+SLE P G++ + + IED N SP D + LRE +L LT Sbjct: 210 VREVVKASQYPMSLEQPYGEDGDGTVEEIIEDPNIESPADQVSRDILREQILALLDDLTD 269 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +VL +R+G+ N +TLEEVGK VTRERIRQIE +A+ KL+ ++ LRSF+ Sbjct: 270 RERQVLDLRYGLTGNHSYTLEEVGKVLGVTRERIRQIEKEALSKLR--PHAESLRSFM 325 >gi|326384463|ref|ZP_08206143.1| RNA polymerase sigma factor SigB [Gordonia neofelifaecis NRRL B-59395] gi|326196808|gb|EGD54002.1| RNA polymerase sigma factor SigB [Gordonia neofelifaecis NRRL B-59395] Length = 332 Score = 240 bits (613), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 113/248 (45%), Positives = 180/248 (72%), Gaps = 6/248 (2%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR+GE A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ Sbjct: 88 LVREGEQ----ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAK 143 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++QAI+R +ADQS TIR+PVH+ ++++K+ R R + ++ RE T EE+ Sbjct: 144 GYKFSTYATWWIRQAISRGMADQSRTIRLPVHLVEQVNKLARIRRELHQQLGREATDEEL 203 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A + +P E + ++ +++P+SL+ P+G+++ + LGDFIED A S ++ + ANL + Sbjct: 204 ALESGIPAEKIADLMDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSA-ETVVIANLLHS 262 Query: 613 TTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 R VL++L RE +V+ MR+G+ TL+++G+ F ++RER+RQIE + + KL+ Sbjct: 263 DIRSVLSTLDEREMQVITMRYGLDDGQPRTLDQIGRAFGLSRERVRQIEREVMGKLRQGD 322 Query: 672 RSKKLRSF 679 R++KLR++ Sbjct: 323 RAEKLRAY 330 >gi|164687939|ref|ZP_02211967.1| hypothetical protein CLOBAR_01584 [Clostridium bartlettii DSM 16795] gi|164602352|gb|EDQ95817.1| hypothetical protein CLOBAR_01584 [Clostridium bartlettii DSM 16795] Length = 294 Score = 240 bits (613), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 125/251 (49%), Positives = 170/251 (67%), Gaps = 2/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K E AK++ + AN RLV+S+AKKY + LDLIQ GNIGL+KA EK+D+ Sbjct: 43 VELAKKVNEEIPEAKEDFINANYRLVVSIAKKYRKENVDILDLIQAGNIGLIKAVEKYDY 102 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW+KQ+ITR I D TIRIPVH+ +I+ V R + +SN ++REP+ E Sbjct: 103 TKGYKFSTYATWWIKQSITRYIDDCENTIRIPVHLHQRINFVKRKKQELSNVLQREPSLE 162 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP--LDSAIQAN 608 E+A M V+ V ++LK K +SL+TPI +++ S L +FI S + Q N Sbjct: 163 ELADICDMDVDKVIEILKRDKNVVSLDTPIKEDEDSSLVEFIPSDANFSDVVMHEVEQHN 222 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E +L L+ +E++VLRMRFG+ + TLEE+GK F VTRERIRQIEAKAIRKL+ Sbjct: 223 LKEKINELLTGLSEQEQKVLRMRFGLDDDDPKTLEEIGKVFGVTRERIRQIEAKAIRKLR 282 Query: 669 HPSRSKKLRSF 679 HPSR +L++F Sbjct: 283 HPSRLNQLKNF 293 >gi|300868700|ref|ZP_07113311.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506] gi|300333261|emb|CBN58503.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506] Length = 462 Score = 240 bits (613), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 116/243 (47%), Positives = 169/243 (69%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FST Sbjct: 217 TEGIQAKDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFST 276 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R + E+IA +L M Sbjct: 277 YAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTASIEDIAAELGM 336 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VR+VL +SLET +G+E + LGD ++D ++VSP + ++ L ++LA Sbjct: 337 TAPQVREVLLRVPRSVSLETKVGNEKDTELGDLLDDADSVSPEELLMREALHRDLQQLLA 396 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE V+ MRFG+G ++L E+G+ ++RER+RQIEAKA++KL+ P R ++R Sbjct: 397 DLTSRERDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRD 456 Query: 679 FLD 681 +L+ Sbjct: 457 YLE 459 Score = 39.3 bits (90), Expect = 2.5, Method: Compositional matrix adjust. Identities = 27/96 (28%), Positives = 52/96 (54%), Gaps = 7/96 (7%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVDGDDLED-EEGSEDSLDLASSASNSSVFLQKRKD 111 +PP +E D ++ +VV+GD + E+ ED +++ + K + Sbjct: 43 MPPTSFYAEAEYDEQLQGHSLQPDVVEGDAEQAVEDLQEDEIEVLDGDTA------KFNN 96 Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +A R T D VR+YL+E+G + LL R+ E++ A++++ Sbjct: 97 TASRRTTDLVRLYLQEIGRVRLLGRDEEVSEAQKVQ 132 >gi|296269678|ref|YP_003652310.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296092465|gb|ADG88417.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 478 Score = 240 bits (613), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 110/233 (47%), Positives = 170/233 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAKKYT+RG+ LD++QEGN+GL++A EKFD+ GYKFSTYAMWW Sbjct: 241 AKDHMLEANLRLVVSVAKKYTDRGMSLLDVVQEGNLGLIRAVEKFDYTKGYKFSTYAMWW 300 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD + TIR+PVH+ + + K+ R R M ++ REPTPEE+A +L + + Sbjct: 301 IRQAIQRGFADSARTIRLPVHVLEMLSKLSRVERDMHQRLGREPTPEELAVELDKTPDQI 360 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L+ +++PISL++ IG++ + +GD IED +++ + + L E +L +L+PR Sbjct: 361 EELLRTSRQPISLDSTIGEDGETCIGDLIEDVDSLEASEIVDRQLLAEQLKGMLDNLSPR 420 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E +++ +RFG+ HTL+E+GK+ +TRERIRQ+E +++ KL+HPS ++ L Sbjct: 421 EAKIMSLRFGLVDGKPHTLDEIGKRLGLTRERIRQLEKESLSKLRHPSNARPL 473 >gi|331696792|ref|YP_004333031.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951481|gb|AEA25178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudonocardia dioxanivorans CB1190] Length = 348 Score = 240 bits (613), Expect = 6e-61, Method: Compositional matrix adjust. Identities = 109/236 (46%), Positives = 170/236 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 111 ARNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQ+ TIR+PVH+ ++++K+ R R M ++ RE T E+A++ +P E + Sbjct: 171 IRQAITRGMADQARTIRLPVHLVEQVNKLARIKRDMHQRLGREATHAELAEESGLPEEKI 230 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L ++P+SL+ P+G E+ + LGDFIED A ++ I L + RVLA+L R Sbjct: 231 ADLLDHARDPVSLDMPVGSEEEAPLGDFIEDAEAADAENTVISHLLHDDLRRVLATLDER 290 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+ V+RMR+G+ TL+++G++F ++RER+RQIE + + KL+ R+ +LR++ Sbjct: 291 EQNVIRMRYGLDDGQPCTLDQIGRRFGLSRERVRQIEREVMAKLRVGERADRLRAY 346 >gi|38233998|ref|NP_939765.1| RNA polymerase sigma factor SigB [Corynebacterium diphtheriae NCTC 13129] gi|38605711|sp|P33118|RPSB_CORDI RecName: Full=RNA polymerase sigma factor sigB gi|38200260|emb|CAE49944.1| RNA polymerase sigma factor [Corynebacterium diphtheriae] Length = 329 Score = 240 bits (613), Expect = 6e-61, Method: Compositional matrix adjust. Identities = 112/241 (46%), Positives = 177/241 (73%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 88 EGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTY 147 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M ++ RE T EE+A++ + Sbjct: 148 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEELAEESGIE 207 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A+LR + R VL Sbjct: 208 ESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-ESAVVASLRHSDIRTVLD 266 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G+QF ++RER+RQIE + + KL+ +R++KLR+ Sbjct: 267 TLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMSKLRDGARAEKLRA 326 Query: 679 F 679 + Sbjct: 327 Y 327 >gi|86606677|ref|YP_475440.1| RNA polymerase sigma factor SigC [Synechococcus sp. JA-3-3Ab] gi|86555219|gb|ABD00177.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-3-3Ab] Length = 364 Score = 240 bits (612), Expect = 6e-61, Method: Compositional matrix adjust. Identities = 128/313 (40%), Positives = 189/313 (60%), Gaps = 35/313 (11%) Query: 371 LERHQGRELD-PHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 L++ GRE W + A +PE W N ++ I +I Sbjct: 84 LQKELGREPTLAEWAARANQYPE--WANLTPEKLQQIQRI-------------------- 121 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD Sbjct: 122 -----------GKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFD 170 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 GY+FSTYA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R PT Sbjct: 171 PKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTPTI 230 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+IA +L M V VR++L +SLET +G + + LGD +E + +SP ++ ++ L Sbjct: 231 EDIASELEMTVPQVRELLVRVPRSVSLETKVGKDKDTELGDLLETDD-ISPEETMMREAL 289 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++LA LT RE V+RMRFG+G ++L E+G+ ++RER+RQIEAKA++KL+ Sbjct: 290 HRDLQQLLADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQIEAKALQKLRQ 349 Query: 670 PSRSKKLRSFLDG 682 P R ++R +L+ Sbjct: 350 PKRRNRVRDYLEA 362 Score = 37.7 bits (86), Expect = 6.2, Method: Compositional matrix adjust. Identities = 18/37 (48%), Positives = 29/37 (78%), Gaps = 1/37 (2%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + A RSTD VR+YL+E+G + LL R+ E+A+A+R++ Sbjct: 37 EPARRSTD-LVRLYLQEIGRVPLLGRDEEVALAQRVQ 72 >gi|296393377|ref|YP_003658261.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus rotundus DSM 44985] gi|296180524|gb|ADG97430.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus rotundus DSM 44985] Length = 377 Score = 240 bits (612), Expect = 7e-61, Method: Compositional matrix adjust. Identities = 109/252 (43%), Positives = 177/252 (70%), Gaps = 4/252 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ R G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EK Sbjct: 128 RELKTVARDGQA----ARTHLLEANLRLVVSLAKRYTGRGIPLLDLIQEGNLGLIRAMEK 183 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + ++ RE Sbjct: 184 FDYAKGFKFSTYATWWIRQAITRGVADQSRTIRLPVHLVEQVNKLSRIKRELHQQLGREA 243 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE++++ +P + +L +++P+SL+ P+G ++ + LGDFIED S ++ I Sbjct: 244 TSEELSRETGIPEHRIADLLDHSRDPVSLDMPVGADEEAPLGDFIEDSEGASAENAVIAG 303 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L VLA+L E++V+R+R+G+ TL+++GK F ++RER+RQIE + + KL Sbjct: 304 FLHRDVRTVLATLNEVEQQVIRLRYGLDDGQPRTLDQIGKVFSLSRERVRQIEREVMVKL 363 Query: 668 KHPSRSKKLRSF 679 ++ R+++LRS+ Sbjct: 364 RNGDRAERLRSY 375 >gi|40353301|gb|AAR84414.1| essential primary sigma 70 factor [Frankia sp. ORS020607] gi|40353303|gb|AAR84415.1| essential primary sigma 70 factor [Frankia sp. CcI3] gi|40353305|gb|AAR84416.1| essential primary sigma 70 factor [Frankia sp. CeD] Length = 217 Score = 239 bits (611), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 110/192 (57%), Positives = 156/192 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 26 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 85 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 86 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 145 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 146 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 205 Query: 618 ASLTPREERVLR 629 +L+ RE++V++ Sbjct: 206 HTLSDREKKVIQ 217 >gi|213964561|ref|ZP_03392761.1| RNA polymerase sigma factor RpoD [Corynebacterium amycolatum SK46] gi|213952754|gb|EEB64136.1| RNA polymerase sigma factor RpoD [Corynebacterium amycolatum SK46] Length = 329 Score = 239 bits (610), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 110/241 (45%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YTNRG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 88 EGKAARAHLLEANLRLVVSLAKRYTNRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTY 147 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + ++ RE T EE+A++ +P Sbjct: 148 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKISRIKRELYQQLGREATNEELAEESGIP 207 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A + A+ A+LR R VL+ Sbjct: 208 EAKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDSEATDA-EEAVVASLRHHDVRKVLS 266 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+++R+G+ TL+++G+ F ++RER+RQIE + + KL+ R+ KLR Sbjct: 267 TLEIREQEVIKLRYGLDDGLPRTLDQIGRHFGLSRERVRQIEREVMSKLREGDRADKLRE 326 Query: 679 F 679 + Sbjct: 327 Y 327 >gi|296139548|ref|YP_003646791.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] gi|296027682|gb|ADG78452.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella paurometabola DSM 20162] Length = 330 Score = 239 bits (610), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 112/258 (43%), Positives = 181/258 (70%), Gaps = 4/258 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S S+ R + +VR G+ A++ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 75 LSASKKRDLAFIVRDGQA----ARQHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 130 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + Sbjct: 131 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIRRELHQ 190 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ RE T E+A + +P E + ++ +++P+SL+ P+G ++ + LGDFIED A S Sbjct: 191 QLGREATDAELAAESGIPAEKIADLMDHSRDPVSLDMPVGSDEEAPLGDFIEDAEAASAE 250 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + I + VLA+L RE++V+R+R+G+ TL+++GK F ++RER+RQIE Sbjct: 251 SAVISTLMHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIER 310 Query: 662 KAIRKLKHPSRSKKLRSF 679 + + KL++ R+ +LR++ Sbjct: 311 EVMSKLRNGERADRLRAY 328 >gi|40353311|gb|AAR84419.1| essential primary sigma 70 factor [Frankia sp. ACN14a] Length = 214 Score = 239 bits (610), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 110/192 (57%), Positives = 156/192 (81%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 23 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 82 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PEEIAK++ Sbjct: 83 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMD 142 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 143 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 202 Query: 618 ASLTPREERVLR 629 +L+ RE++V++ Sbjct: 203 HTLSDREKKVIQ 214 >gi|237785656|ref|YP_002906361.1| RNA polymerase sigma factor SigB [Corynebacterium kroppenstedtii DSM 44385] gi|237758568|gb|ACR17818.1| RNA polymerase sigma factor B [Corynebacterium kroppenstedtii DSM 44385] Length = 326 Score = 239 bits (610), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 113/237 (47%), Positives = 173/237 (72%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 90 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + + Sbjct: 150 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIDESKI 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 +LK +++P+SL+ P+G ++ + LGDFIED A + A+ A+LR + R VLA+L Sbjct: 210 DLLLKQSRDPVSLDMPVGTDEEAPLGDFIEDSEATDA-EEAVVASLRHSDIRTVLATLEK 268 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE+ V+R+RFG+ TL+++G++F ++RER+RQIE + + KL+ R+ KLRS+ Sbjct: 269 REQDVIRLRFGLDDGVPRTLDQIGREFGLSRERVRQIEREVMAKLRKGERADKLRSY 325 >gi|305644358|gb|ADM53780.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 239 bits (610), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 114/176 (64%), Positives = 138/176 (78%) Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM 60 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ REP PEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 61 LQEMGREPNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLAL 120 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 P D+A +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VT ER Sbjct: 121 PADAATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTVER 176 >gi|300858635|ref|YP_003783618.1| RNA polymerase sigma factor B [Corynebacterium pseudotuberculosis FRC41] gi|300686089|gb|ADK29011.1| RNA polymerase sigma factor B [Corynebacterium pseudotuberculosis FRC41] gi|302206344|gb|ADL10686.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis C231] gi|302330901|gb|ADL21095.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis 1002] gi|308276586|gb|ADO26485.1| RNA polymerase sigma factor sigB [Corynebacterium pseudotuberculosis I19] Length = 329 Score = 239 bits (609), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 112/237 (47%), Positives = 174/237 (73%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 92 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + + Sbjct: 152 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIDESKI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A+LR + R VL +L Sbjct: 212 EILLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-ESAVVASLRHSDIRSVLDTLER 270 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE+ V+RMR+G+ TL+++G+QF ++RER+RQIE + + KL+ +R+ KLR++ Sbjct: 271 REQDVIRMRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMTKLRDGARADKLRAY 327 >gi|219847826|ref|YP_002462259.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219542085|gb|ACL23823.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 361 Score = 239 bits (609), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 109/238 (45%), Positives = 165/238 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+SVAKKY + F+DL+QEGNIGLM+A EKFD+ G +FSTYA WW Sbjct: 124 ARRRLIQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWW 183 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+QS IR+PVH+ + I + R R+ +++REPTPEE+A L M + V Sbjct: 184 IRQAVTRAIAEQSRLIRLPVHLSESIVHLRRAIYRLEQELEREPTPEELAHALNMSLRKV 243 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L+ + +PISLE P+ + + + + D+ A SP++ A Q L+ L L R Sbjct: 244 KRLLRASTQPISLEQPLNADQEGRVSETLADETAASPMEIAEQNMLQAELNAALNELPER 303 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L++R+G+ TLEEVG F +TRER RQIEA+A+R+L+HPS +L +L+ Sbjct: 304 ERKILQLRYGLLDGQRRTLEEVGATFGITRERTRQIEAEALRRLRHPSVGNRLFGYLE 361 >gi|159896899|ref|YP_001543146.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus ATCC 23779] gi|159889938|gb|ABX03018.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon aurantiacus ATCC 23779] Length = 391 Score = 239 bits (609), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 109/238 (45%), Positives = 167/238 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++ +ANLRLV+SVAKKY + F+DLIQEGNIGLM+A EKFD+ G +FSTYA WW Sbjct: 154 GRRKLTQANLRLVVSVAKKYIGNHMSFMDLIQEGNIGLMRAVEKFDYRKGNRFSTYATWW 213 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+QS TIR+PVH+ + I ++ R A ++ ++RE TP+E+A L + + V Sbjct: 214 IRQAVTRAIAEQSRTIRLPVHLSESIAQMRRVAYQLEQALQREATPDELADALGVSLRKV 273 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L + +P+SLE PIG E +G+F+ D +PL+ A + L++ L+ L R Sbjct: 274 KRMLNASVQPVSLEQPIGKEGQGRVGEFLADDTDEAPLEQATRMMLQDELADALSQLPDR 333 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L +R+G+ TLEEVG +F +TRER RQIEA+A+R L+ P+ + LR++LD Sbjct: 334 ERQILLLRYGLADGKRRTLEEVGAEFGITRERTRQIEAEAMRHLRQPNVGQHLRAYLD 391 Score = 48.1 bits (113), Expect = 0.005, Method: Compositional matrix adjust. Identities = 23/47 (48%), Positives = 34/47 (72%) Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 V L+++K + +D V+MYLRE+G +ELL+ E EI +AK+IE GR Sbjct: 78 VNLRRKKTLYSEAVEDSVQMYLREIGEVELLTAEEEITLAKQIETGR 124 >gi|251733357|emb|CAR82428.1| RNA polymerase sigma factor [Rhizobium giardinii] Length = 202 Score = 238 bits (608), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 117/178 (65%), Positives = 142/178 (79%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+ V SLSLNQ+R+D LVEQLYDI+KR++ NEG LLRLA+SYG+KRD FLE Sbjct: 23 RYKELKDELITAVKSLSLNQNRVDSLVEQLYDINKRLVQNEGRLLRLAESYGVKRDSFLE 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 ++ G ELDP+W+ + WK F E I IR EI++++ ETGISISEFR IV Sbjct: 83 QYSGAELDPNWMKSIANLAAKGWKEFAKNENTMIRNIRAEIQNLATETGISISEFRRIVH 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 MV+KGE EA IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 MVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|305644356|gb|ADM53779.1| RNA polymerase sigma factor [Aeromonas hydrophila] Length = 176 Score = 238 bits (608), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 114/176 (64%), Positives = 138/176 (78%) Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M Sbjct: 1 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM 60 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ REP PEE+A ++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 61 LQEMGREPNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLAL 120 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 P D+A +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VT ER Sbjct: 121 PADAATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTWER 176 >gi|297561520|ref|YP_003680494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296845968|gb|ADH67988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 468 Score = 238 bits (608), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 109/236 (46%), Positives = 165/236 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLV+SVAKKY++RG+ LD++QEGN+GL++A EKFD+ G+KFSTYAMWW Sbjct: 231 AKSHMLEANLRLVVSVAKKYSDRGMSLLDVVQEGNLGLIRAVEKFDYTKGFKFSTYAMWW 290 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD + TIR+PVH+ + + KV R R M + REPTPEE+ +L + Sbjct: 291 IRQAIQRGFADSARTIRLPVHVLELLSKVSRLERDMHQALGREPTPEELGLELDKTPAQI 350 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++T++PISL++ IG++ + +GD IED +A + + + + L+ L PR Sbjct: 351 EELLRVTRQPISLDSTIGEDGETRIGDLIEDVDASEASEVVDRQLMADQLRNALSDLEPR 410 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E ++ +RFG+ TL+E+GK +TRERIRQ+E +++ KL+HPSR+++L F Sbjct: 411 EATIMSLRFGLMDGRPRTLDEIGKHLGLTRERIRQLEKQSLSKLRHPSRAQQLLDF 466 >gi|68536171|ref|YP_250876.1| RNA polymerase sigma factor SigB [Corynebacterium jeikeium K411] gi|260578869|ref|ZP_05846775.1| RNA polymerase principal sigma factor SigB [Corynebacterium jeikeium ATCC 43734] gi|68263770|emb|CAI37258.1| RNA polymerase sigma factor B [Corynebacterium jeikeium K411] gi|258603016|gb|EEW16287.1| RNA polymerase principal sigma factor SigB [Corynebacterium jeikeium ATCC 43734] Length = 343 Score = 238 bits (606), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 109/241 (45%), Positives = 175/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 102 EGKAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTY 161 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M ++ RE T EE++++ + Sbjct: 162 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEELSEESGIE 221 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +LK +++P+SL+ P+G ++ + LGDFIED +A ++A+ A+LR + R VL Sbjct: 222 ESKIEMLLKQSRDPVSLDMPVGSDEEAPLGDFIEDSDATDA-ETAVVASLRHSDVRAVLG 280 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+++R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ KLR Sbjct: 281 TLEEREQDVIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIEREVMAKLREGDRADKLRE 340 Query: 679 F 679 + Sbjct: 341 Y 341 >gi|300933022|ref|ZP_07148278.1| RNA polymerase sigma factor SigB [Corynebacterium resistens DSM 45100] Length = 337 Score = 238 bits (606), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 110/241 (45%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 96 EGKAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTY 155 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + Sbjct: 156 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIE 215 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +LK +++P+SL+ P+G ++ + LGDFIED +A ++A+ A+LR + R VL Sbjct: 216 ESKIELLLKQSRDPVSLDMPVGSDEEAPLGDFIEDSDATDA-EAAVVASLRHSDVRAVLG 274 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+++R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ KLR Sbjct: 275 TLEEREQDVIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIEREVMAKLREGHRADKLRE 334 Query: 679 F 679 + Sbjct: 335 Y 335 >gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri] gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri] Length = 525 Score = 237 bits (605), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 120/251 (47%), Positives = 170/251 (67%), Gaps = 1/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 VS +R+ + AK EM++ANLRLV+S+AKKY N + F DLIQEG +GL++ AEKFD+ Sbjct: 264 VSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYANTNMSFQDLIQEGCVGLIRGAEKFDF 323 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++QA+TRSI+DQS TIR+PVH+ + I ++ + ++ + R PT E Sbjct: 324 QRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRISKMEQKFALYNGRPPTLE 383 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANL 609 EIA ++ M VE + ++ K + P+SL +G E+ + D + D NA P + ++ L Sbjct: 384 EIASEMEMSVEKITQIKKAAQAPVSLAQTMGGENKGRTIEDTLIDANAEGPEKVSGKSLL 443 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +E VL +L PRE VLR+R+G+ TLEE+G F VTRERIRQIEAKA+RKLK Sbjct: 444 KEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRKLKQ 503 Query: 670 PSRSKKLRSFL 680 PSR++ L+ + Sbjct: 504 PSRNQVLQEYF 514 >gi|319941926|ref|ZP_08016247.1| hypothetical protein HMPREF9464_01466 [Sutterella wadsworthensis 3_1_45B] gi|319804579|gb|EFW01449.1| hypothetical protein HMPREF9464_01466 [Sutterella wadsworthensis 3_1_45B] Length = 779 Score = 237 bits (605), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 116/259 (44%), Positives = 172/259 (66%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + +SE R + ++ + AK +M+EANLRLVIS+AK Y NRGL DLIQEGN+GL Sbjct: 519 LKLSEQRELGRAMKLAQTNLMQAKAKMIEANLRLVISIAKGYVNRGLAMTDLIQEGNLGL 578 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KF++ GYKFSTYA WWV+Q++TR++AD TIRIPVHM + +K+ R ++ Sbjct: 579 MKAVDKFEYRRGYKFSTYATWWVRQSVTRAVADFGNTIRIPVHMTESYNKLRRQKQKFLQ 638 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R+PT +E+A+ +P++ V + + + S++ PIGDE+ + DF+ P Sbjct: 639 QHGRQPTEQELAELADLPLQKVNLLTQAMRGVESIDAPIGDEEDATKLDFVRGNERDDPG 698 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + ++ + + L L PRE +VLR+R+GIG N DHTLEEVG+ +TRER+RQIE+ Sbjct: 699 VAFQDRSMIDCIQKSLNELNPREAQVLRLRYGIGTNQDHTLEEVGRTLGLTRERVRQIES 758 Query: 662 KAIRKLKHPSRSKKLRSFL 680 AIRKL+ P +++LR +L Sbjct: 759 AAIRKLRTPDFTERLRDYL 777 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 45/162 (27%), Positives = 86/162 (53%), Gaps = 6/162 (3%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEV-SSEQMEDTVAMLSNMGINVVDGDDLEDE- 86 + + ++++L R RG+VT+ ++N +LP + +SE +++ L +GI V + ED+ Sbjct: 185 NGYGELVRLGRSRGWVTLADINDYLPESALRTSENLQEVTEQLGRLGIQVFEAPPDEDDI 244 Query: 87 --EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 G +++V L + + DP+R YLR +GS +LL+R GEI +AK Sbjct: 245 LINGMGGDNSDDIDEDDAAVMLTPEESVG--LSKDPLRAYLRGVGSHKLLTRAGEIEVAK 302 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 IE ++A++ E P+ + ++ + L D T + ++D Sbjct: 303 SIEQFTIKLVATIVEYPIAVEEILRLGEALKDENTAVDTVVD 344 >gi|1519638|gb|AAB07552.1| SigB [Chloroflexus aurantiacus J-10-fl] Length = 346 Score = 237 bits (604), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 110/233 (47%), Positives = 162/233 (69%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 ++ANLRLV+SVAKKY + F+DL+QEGNIGLM+A EKFD+ G +FSTYA WW++QA+ Sbjct: 114 IQANLRLVVSVAKKYIGSPMAFMDLVQEGNIGLMRAVEKFDYTKGNRFSTYATWWIRQAV 173 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IA+QS IR+PVH+ + I + R R+ +++REPT EE+A L M V V+++++ Sbjct: 174 TRAIAEQSRLIRLPVHLSESIVHLRRAIYRLEQELEREPTAEELAHALNMSVRKVKRLIR 233 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + +PISLE P+ +E + + + D+ SP++ A Q L T L L RE ++L Sbjct: 234 ASTQPISLEQPLNNEQEGRVSETLADETVASPMEIAEQKMLHAELTAALNELPERERKIL 293 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++R+G+ TLEEVG F +TRER RQIEA+A+R+L+HPS ++L S+LD Sbjct: 294 QLRYGLIDGQRRTLEEVGATFGITRERTRQIEAEALRRLRHPSVGQRLHSYLD 346 >gi|145295824|ref|YP_001138645.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum R] gi|12958494|gb|AAK09322.1|AF320818_1 sigma factor SigB [[Brevibacterium] flavum] gi|140845744|dbj|BAF54743.1| hypothetical protein [Corynebacterium glutamicum R] Length = 331 Score = 237 bits (604), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 109/237 (45%), Positives = 173/237 (72%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 94 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + + Sbjct: 154 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIEESKI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A++R + R VL +L P Sbjct: 214 EMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-ESAVVASMRHSDIRAVLNTLEP 272 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ +LR + Sbjct: 273 REQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMSKLRDGERASRLREY 329 >gi|319441590|ref|ZP_07990746.1| RNA polymerase sigma factor SigB [Corynebacterium variabile DSM 44702] Length = 397 Score = 237 bits (604), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 114/265 (43%), Positives = 186/265 (70%), Gaps = 8/265 (3%) Query: 418 VETG--ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 +ETG ++ + R + + R+G A+ ++EANLRLV+S+AK+YT RG+ LDLIQ Sbjct: 136 LETGEKLTRARKRDLKILAREGRA----ARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 191 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R Sbjct: 192 EGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRI 251 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R M + RE T EE+A++ + + +LK +++P+SL+ P+G ++ + LGDFIED Sbjct: 252 KREMYQHLGREATNEELAEESGIDESKIETLLKQSRDPVSLDMPVGSDEEAPLGDFIEDS 311 Query: 596 NAVSPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 ++ ++A+ A+LR + R VL +L RE+ V+++R+G+ TL+++G+ F ++RE Sbjct: 312 DSTDA-EAAVVASLRHSDVRAVLDTLEEREQDVIKLRYGLDDGMPRTLDQIGRSFGLSRE 370 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSF 679 R+RQIE + + KL+ R++KLR + Sbjct: 371 RVRQIEREVMAKLREGERAEKLREY 395 >gi|40353307|gb|AAR84417.1| essential primary sigma 70 factor [Frankia sp. ARgP5ag] Length = 217 Score = 237 bits (604), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 109/192 (56%), Positives = 155/192 (80%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + IAK+++VEANLRLV+S+AK+Y RG+ FLDLIQEGN+GL++A EKFD+ GYKFS Sbjct: 26 ERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 85 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP+PE IAK++ Sbjct: 86 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEVIAKEMD 145 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + VR++LK+++EP+SLETPIG+E+ SHLGDFIED +AV P+D+A L+E VL Sbjct: 146 LTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQLDSVL 205 Query: 618 ASLTPREERVLR 629 +L+ RE++V++ Sbjct: 206 HTLSDREKKVIQ 217 >gi|207723755|ref|YP_002254153.1| rna polymerase sigma d (sigma-70) factor protein [Ralstonia solanacearum MolK2] gi|206588959|emb|CAQ35921.1| rna polymerase sigma d (sigma-70) factor protein [Ralstonia solanacearum MolK2] Length = 773 Score = 237 bits (604), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 113/229 (49%), Positives = 162/229 (70%), Gaps = 3/229 (1%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 498 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQSRVVL 555 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 556 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 615 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 616 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 675 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 EP P +A+K+ MP + +RK++KI KEPIS++TPIGD+D SHLGDF Sbjct: 676 TGNEPDPATLAEKMEMPEDKIRKIMKIAKEPISMKTPIGDDDDSHLGDF 724 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V D + L + Sbjct: 205 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLND 264 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 265 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 323 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 324 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 362 >gi|257064907|ref|YP_003144579.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256792560|gb|ACV23230.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 314 Score = 236 bits (603), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 116/239 (48%), Positives = 172/239 (71%), Gaps = 4/239 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R ++ + R G+ AK ++V ANLRLV+S+AKKY RGL LDL+QEGN+GL++A Sbjct: 66 ECRKLLRVQRAGQE----AKDKLVAANLRLVVSIAKKYRGRGLPLLDLVQEGNLGLIRAV 121 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ G+K STYA WW++QA+TR+IAD++ TIR+PVH+ ++KVVR ++++++R Sbjct: 122 EKFDYTKGFKLSTYATWWIRQAVTRAIADKARTIRLPVHVVGLMNKVVRVQHELADELER 181 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 +P+P EIA +L + + V ++LK+ EP+SLETP+GD+ TS +GDFIED+N+ D+A Sbjct: 182 DPSPAEIADRLGISEQCVVELLKLGSEPLSLETPVGDDKTSEIGDFIEDRNSEDAFDAAA 241 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +A LR+ L+ L RE +++ +RFGI TL ++G Q VTRERIRQIE+K + Sbjct: 242 EAMLRDDVASALSRLPERERKIIELRFGIVDGEPRTLAQIGDQLGVTRERIRQIESKTL 300 >gi|37523928|ref|NP_927305.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] gi|35214934|dbj|BAC92300.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 344 Score = 236 bits (603), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 112/239 (46%), Positives = 167/239 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++ ANLRLV+S+AKKY R + FLDLIQEGNIGLM+A EKFD GY+FSTYA WW Sbjct: 106 AQRKLINANLRLVVSIAKKYIGRNVPFLDLIQEGNIGLMRATEKFDPEKGYRFSTYATWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR+IA+Q+ TIR+P+HM +K+ KV R R + ++ R P+ +E+A +LA+ V+ + Sbjct: 166 IRQSITRAIANQARTIRLPIHMVEKVRKVRREMRMATLELGRRPSEDELASRLAIKVKKL 225 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + +++++P+SL+ P+G E LG+ IED A P D +Q L + L P Sbjct: 226 RTIQEVSRQPVSLDMPVGSEGDISLGEMIEDGTAERPFDELVQKALASELYAAMNVLKPV 285 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E VL +RFG+ TL EVG++F +TRERIRQIE++A+RKL+ R + L+ ++ G Sbjct: 286 EREVLALRFGLKGEEGLTLREVGERFDLTRERIRQIESEALRKLRRSKRKQILQQYVGG 344 >gi|154506043|ref|ZP_02042781.1| hypothetical protein RUMGNA_03585 [Ruminococcus gnavus ATCC 29149] gi|153793542|gb|EDN75962.1| hypothetical protein RUMGNA_03585 [Ruminococcus gnavus ATCC 29149] Length = 297 Score = 236 bits (603), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 111/225 (49%), Positives = 161/225 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++M EANLRLV++VAK Y +G+QF+DLIQEGNIGLM+A EKFD+ G KFSTYA+WW Sbjct: 66 ARRKMEEANLRLVVAVAKHYAGKGMQFMDLIQEGNIGLMRAVEKFDYTKGSKFSTYAVWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K+AI R++ QS IR+PV + ++K+ +T R+M + RE EEIAK+L M E V Sbjct: 126 IKEAILRALDSQSREIRVPVRVAQNMNKISKTERKMEQTLGREVAAEEIAKELHMTTEEV 185 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ K P+SLETP+GDE+ S+L DFIED +P ++ +E +L++LT + Sbjct: 186 ERMQSYIKNPVSLETPVGDEENSNLEDFIEDTQEPTPEEAVAALVQKEEVQEMLSTLTEK 245 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++LR+R+G+ HTLEE G+ VTRERIRQ+E++A+ KL+ Sbjct: 246 EQKILRLRYGLEDGNVHTLEETGQILGVTRERIRQLESRALEKLR 290 >gi|86610159|ref|YP_478921.1| RNA polymerase sigma factor SigC [Synechococcus sp. JA-2-3B'a(2-13)] gi|86558701|gb|ABD03658.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-2-3B'a(2-13)] Length = 366 Score = 236 bits (602), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 189/315 (60%), Gaps = 39/315 (12%) Query: 371 LERHQGRELDP---HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 L++ GR DP WV+ A +PE W ++ I +I Sbjct: 86 LQKELGR--DPTLAEWVAKANQYPE--WAQLTPEKLQQIQRI------------------ 123 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EK Sbjct: 124 -------------GKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 170 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD GY+FSTYA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R P Sbjct: 171 FDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTP 230 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E+IA +L M VR++L +SLET +G + + LGD +E + +SP ++ ++ Sbjct: 231 TIEDIASELEMTPPQVRELLVRVPRSVSLETKVGKDKDTELGDLLETDD-ISPEETMMRE 289 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L ++L+ LT RE V+RMRFG+G ++L E+G+ ++RER+RQIEAKA++KL Sbjct: 290 ALHRDLQQLLSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQIEAKALQKL 349 Query: 668 KHPSRSKKLRSFLDG 682 + P R ++R +L+ Sbjct: 350 RQPKRRNRVRDYLEA 364 >gi|193216688|ref|YP_001999930.1| RNA polymerase sigma factor [Mycoplasma arthritidis 158L3-1] gi|193002011|gb|ACF07226.1| RNA polymerase sigma-70 factor [Mycoplasma arthritidis 158L3-1] Length = 513 Score = 236 bits (601), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 112/245 (45%), Positives = 167/245 (68%), Gaps = 9/245 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V+ NLRLVI+ AK+Y NRGL F+DLI EGN G+MKA K+D+ G+KFSTYA WW Sbjct: 260 ARDMLVKRNLRLVINNAKRYKNRGLSFIDLISEGNSGIMKAVSKYDYKKGFKFSTYATWW 319 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA--MPVE 561 ++QAITR++ADQ+ TIR+PVHM + I+K+++ R + + PT EEIAKK E Sbjct: 320 IRQAITRAVADQARTIRVPVHMVETINKILKIERELQQEFGYPPTDEEIAKKFGGDFTAE 379 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASL 620 VR + KI +PISL+ IG E+ S DF++D++ +SP D A Q L ++ +SL Sbjct: 380 KVRYIRKINIDPISLDKNIGKEENSSFSDFVKDESVISPNDFASQQELAVILNEMINSSL 439 Query: 621 TPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 P ++ ++R R+G+G + HTL+E+ K+ +++E++R++EAK +RKLKHP + K Sbjct: 440 DPEDQALIRKRYGVGQDPSGVPYRPHTLDELAKELNISKEKVRKLEAKILRKLKHPQKRK 499 Query: 675 KLRSF 679 KL+ F Sbjct: 500 KLKEF 504 >gi|227833285|ref|YP_002834992.1| RNA polymerase sigma factor B [Corynebacterium aurimucosum ATCC 700975] gi|262184270|ref|ZP_06043691.1| RNA polymerase sigma factor SigB [Corynebacterium aurimucosum ATCC 700975] gi|227454301|gb|ACP33054.1| RNA polymerase sigma factor B [Corynebacterium aurimucosum ATCC 700975] Length = 331 Score = 236 bits (601), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 108/241 (44%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 90 EGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 149 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + Sbjct: 150 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELAEESGIE 209 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ Sbjct: 210 ESKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRSVIG 268 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SL RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ +R+ +LR Sbjct: 269 SLEEREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMAKLREGNRADRLRE 328 Query: 679 F 679 + Sbjct: 329 Y 329 >gi|284991968|ref|YP_003410522.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] gi|284065213|gb|ADB76151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geodermatophilus obscurus DSM 43160] Length = 327 Score = 236 bits (601), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 114/242 (47%), Positives = 173/242 (71%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + AK+ ++EANLRLV+SVAK+YT G+ FLDLIQEGN+GL++A EKFD+ G+KFST Sbjct: 85 ADGKAAKRHLLEANLRLVVSVAKRYTGHGMTFLDLIQEGNVGLIRAVEKFDYTKGFKFST 144 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++AD TIR+PVH+ ++++KVVRT RR+ +++REPT EE+ +L M Sbjct: 145 YATWWIRQAITRAMADSGRTIRLPVHLAEQVNKVVRTRRRIHQELEREPTAEELGLELDM 204 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E + ++L+ +++ +SL+ +G ++ S LGDFIED +A D+ ++ VL+ Sbjct: 205 TPERITELLEYSRDLVSLDQTVGADEESRLGDFIEDADAAVAEDAVAFQMMKGDVRNVLS 264 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE V+ +RFG+ TLE++GKQF ++RER+RQIE + + KL+ P R+ LR Sbjct: 265 TLEERERDVVVLRFGLDGGQPRTLEQIGKQFGLSRERVRQIERETMAKLRDPQRADALRD 324 Query: 679 FL 680 +L Sbjct: 325 YL 326 >gi|227504896|ref|ZP_03934945.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC 6940] gi|227198489|gb|EEI78537.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC 6940] Length = 337 Score = 235 bits (600), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 112/259 (43%), Positives = 184/259 (71%), Gaps = 6/259 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ +E R + +VR+G+ A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL Sbjct: 82 ITRAEKRDLKILVREGKK----ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGL 137 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M Sbjct: 138 IRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQ 197 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + RE T EE+A++ + + +L+ +++P+SL+ P+G ++ + LGDFIED A Sbjct: 198 SLGREATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDA- 256 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++A+ A +R + R V+ +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE Sbjct: 257 ETAVVAAMRHSDIRGVIETLEEREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIE 316 Query: 661 AKAIRKLKHPSRSKKLRSF 679 + + KL+ +R+ +LR + Sbjct: 317 REVMAKLRDGNRADRLREY 335 >gi|19553123|ref|NP_601125.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC 13032] gi|62390759|ref|YP_226161.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC 13032] gi|1149591|emb|CAA89988.1| SigB sigma factor [Corynebacterium glutamicum] gi|21324689|dbj|BAB99312.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) (SigB) [Corynebacterium glutamicum ATCC 13032] gi|41326097|emb|CAF20260.1| RNA POLYMERASE SIGMA FACTOR [Corynebacterium glutamicum ATCC 13032] Length = 331 Score = 235 bits (600), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 108/237 (45%), Positives = 173/237 (72%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 94 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R + + RE T EE+A++ + + Sbjct: 154 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKRELYQHLGREATNEELAEESGIEESKI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 +L+ +++P+SL+ P+G ++ + LGDFIED A +SA+ A++R + R VL +L P Sbjct: 214 EMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-ESAVVASMRHSDIRAVLNTLEP 272 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ +LR + Sbjct: 273 REQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMSKLRDGERASRLREY 329 >gi|168009564|ref|XP_001757475.1| predicted protein [Physcomitrella patens subsp. patens] gi|162691169|gb|EDQ77532.1| predicted protein [Physcomitrella patens subsp. patens] Length = 591 Score = 235 bits (600), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 115/242 (47%), Positives = 164/242 (67%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +K +MV +NLRLV+S+ K Y RG+ DLIQEG++GL++ AEKFD G+KFSTY Sbjct: 346 EGRYSKDKMVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSMGLIRGAEKFDPDKGFKFSTY 405 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QA+TR+IADQS IR+P+H+ + I ++ + + + + R+P EE+A+ + M Sbjct: 406 AHWWIRQAVTRAIADQSRIIRLPIHLYEVISRINKAKKMLIQEHGRQPRDEEVAELVGMS 465 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE ++ ++K K P S++ IG E +G+ I DK+ SP D I+ L++ VL + Sbjct: 466 VEKLKFIVKSAKTPSSMDRLIGKEKDQSIGEMIADKDVESPEDDLIRQVLKQDVDGVLCT 525 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L PRE VLR+RFG+ TLEE+G F VTRERIRQIEAKA+RKL+ PSR+ LR + Sbjct: 526 LNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKAMRKLRQPSRNGVLREY 585 Query: 680 LD 681 LD Sbjct: 586 LD 587 >gi|148657263|ref|YP_001277468.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1] gi|148569373|gb|ABQ91518.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp. RS-1] Length = 345 Score = 235 bits (600), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 112/243 (46%), Positives = 165/243 (67%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A A++ +++ANLRLV+S+AKKY L F+DL+QEGNIGLM+A EKFD G +FST Sbjct: 103 MQAEEARRRLIQANLRLVVSIAKKYIGGPLSFMDLVQEGNIGLMRAVEKFDAGKGNRFST 162 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+QS IR+PVH+ D I ++ R ARR+ ++REPT EEIA + M Sbjct: 163 YATWWIRQAITRAIAEQSRLIRLPVHLSDVIAQLRRVARRLEQSLEREPTVEEIAAAIDM 222 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P V+ +L+ + +PISLE PI + + + + D +A +P++ A + L+ + L Sbjct: 223 PEHKVKLLLQASAQPISLEQPITSDGEGQISELLADDDADAPMEIATRRMLQHDLAQALM 282 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE VL++R+G+ TLEEVG F +TRER RQIEA A+R+L+ P +L++ Sbjct: 283 ELPDRERAVLQLRYGLTDGRRRTLEEVGSAFGITRERTRQIEADALRQLRRPGIGARLQA 342 Query: 679 FLD 681 +L+ Sbjct: 343 YLE 345 Score = 40.8 bits (94), Expect = 0.69, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 41/74 (55%), Gaps = 7/74 (9%) Query: 79 DGDDLEDEEGSE--DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSR 136 D +ED+ G+E DS L + L +++ S + DD +MYLRE+G + LLS Sbjct: 10 DQHRVEDDPGAEEIDSFWLTDISD-----LDEKRLSRSETIDDSTQMYLREIGQVSLLSA 64 Query: 137 EGEIAIAKRIEAGR 150 E EI +A I AGR Sbjct: 65 EEEITLANDIRAGR 78 >gi|284122199|ref|ZP_06386842.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] gi|283829365|gb|EFC33758.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] Length = 414 Score = 235 bits (599), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 117/233 (50%), Positives = 162/233 (69%), Gaps = 1/233 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V+ NLRLV+ +AK++T RG+ FLDLIQEGNIGLM+AAE+F + G+KFSTYA WW Sbjct: 179 AKEGLVQHNLRLVVDIAKRFTGRGMGFLDLIQEGNIGLMRAAERFQYRKGFKFSTYATWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+Q I R++ADQS TIR+PVH + ++++ + R++ K+ REP+ EEIA LA+ E V Sbjct: 239 VRQGILRAVADQSRTIRVPVHTTEAWQRMIKISHRLAQKLGREPSNEEIALALAVKPERV 298 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + EPIS + P D +T LGD + D +A P + + +R R+L LTPR Sbjct: 299 QHTTQAFLEPISFDQPNADGET-FLGDCLPDDHASPPDEHLQEEQMRSQLHRLLRVLTPR 357 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 EE+V+R+RFGIG TLEEVGK VTRERIRQIE A++KL+ P+ +L Sbjct: 358 EEQVIRLRFGIGNGQSRTLEEVGKLLNVTRERIRQIEVLAMKKLREPTVKAQL 410 >gi|332709863|ref|ZP_08429819.1| RNA polymerase, sigma subunit, RpsC/SigC [Lyngbya majuscula 3L] gi|332351234|gb|EGJ30818.1| RNA polymerase, sigma subunit, RpsC/SigC [Lyngbya majuscula 3L] Length = 417 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 116/245 (47%), Positives = 169/245 (68%), Gaps = 1/245 (0%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FS Sbjct: 172 QAEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFS 231 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R T ++IA +L Sbjct: 232 TYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQERGRTATIDDIAVELE 291 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VR+VL +SLE +G E + LGD +E + SP + ++ L+ ++L Sbjct: 292 MTAAQVREVLLRVPRSVSLEIKVGKERDTELGDLLETEE-TSPEEVLMREALQRDLQQLL 350 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE V+RMRFG+G N ++L E+G+ ++RER+RQIEAKA++KL+ P R ++R Sbjct: 351 ADLTNRERDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVR 410 Query: 678 SFLDG 682 +L+ Sbjct: 411 DYLEA 415 >gi|309790033|ref|ZP_07684607.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] gi|308227888|gb|EFO81542.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris trichoides DG6] Length = 358 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 103/238 (43%), Positives = 166/238 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ANLRLV+SVAKKY N + F+DL+QEGNIGLM+A EKFD G +FSTYA WW Sbjct: 121 ARRRLIQANLRLVVSVAKKYINSPMAFMDLVQEGNIGLMRAVEKFDHTKGNRFSTYATWW 180 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++RSIA+QS IR+PVH+ + + ++ R ++ + +REPT +EIA + + + V Sbjct: 181 IRQAVSRSIAEQSRVIRLPVHLSESLVQMRRAIYKLEQQFEREPTAQEIAHSMGLSLRKV 240 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L+ + +P+SLE P+ +E +G+ + D+N +P+D A Q + L L R Sbjct: 241 KRLLQASAQPVSLEQPLNNEQEGRVGEVLADENVETPMDLATQKMFHQELYAALNDLPDR 300 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L++R+G+ TLEEVG F +TRER RQIEA+A+R+L+ P ++L+++L+ Sbjct: 301 ERKILQLRYGLFDGQRRTLEEVGMAFGITRERTRQIEAEAMRRLRQPQVGQRLQAYLE 358 >gi|158335266|ref|YP_001516438.1| RNA polymerase sigma factor SigC [Acaryochloris marina MBIC11017] gi|158305507|gb|ABW27124.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 423 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 111/239 (46%), Positives = 169/239 (70%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FSTYA WW Sbjct: 184 AKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWW 243 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S R + E+IA+++ M E + Sbjct: 244 IRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQI 303 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L +SLE +G + + LGD +E + +SP + ++ +L++ ++LA LTPR Sbjct: 304 RELLVRVPRSVSLEIKVGKDKDTELGDLLETDD-ISPEELIMRESLQQELKQLLADLTPR 362 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E V+ MRFG+ H+L ++GK ++RER+RQIE+KA++KL+ P R ++R FL+ Sbjct: 363 ERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIESKALQKLRQPKRRNRIRDFLEA 421 >gi|220907205|ref|YP_002482516.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219863816|gb|ACL44155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 455 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 120/285 (42%), Positives = 186/285 (65%), Gaps = 10/285 (3%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 VA ++ ++L + + ++ G+ + E I + E AK+ M++ANLRLV Sbjct: 178 GVVAGQLKTLLAEGKQAWATAI--GMMVGELDQI-------QKEGVRAKEHMIQANLRLV 228 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 +SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FSTYA WW++Q ITR+IA QS Sbjct: 229 VSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQS 288 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIR+PVH+ +K++K+ + R++S + P+ E+IA +L M V VR++L +SL Sbjct: 289 RTIRLPVHITEKLNKIKKAQRKISQEKGHTPSIEDIATELEMTVPQVRELLVRVPRSVSL 348 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ET +G + + LGD +E + +SP + ++ +L ++LA LT RE V+ MRFG+G Sbjct: 349 ETKVGKDKDTELGDLLETDD-LSPEEMMMRESLHRELEKLLADLTSRERDVISMRFGLGD 407 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++L ++G+ ++RER+RQIEAKA++KL+ P R ++R +LD Sbjct: 408 GHAYSLADIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRDYLD 452 >gi|25028367|ref|NP_738421.1| RNA polymerase sigma factor SigB [Corynebacterium efficiens YS-314] gi|259507424|ref|ZP_05750324.1| RNA polymerase principal sigma factor SigB [Corynebacterium efficiens YS-314] gi|23493652|dbj|BAC18621.1| sigma factor SigB [Corynebacterium efficiens YS-314] gi|259164989|gb|EEW49543.1| RNA polymerase principal sigma factor SigB [Corynebacterium efficiens YS-314] Length = 333 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 109/241 (45%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 92 EGKKARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTY 151 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + Sbjct: 152 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATNEELAEESGIE 211 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R VL+ Sbjct: 212 ESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-ETAVVASMRHSDIRSVLS 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ KLR Sbjct: 271 TLEQREQDVIRLRYGLEDGVPRTLDQIGRRFGLSRERVRQIEREVMSKLRDGERAAKLRE 330 Query: 679 F 679 + Sbjct: 331 Y 331 >gi|313123887|ref|YP_004034146.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280450|gb|ADQ61169.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 378 Score = 234 bits (598), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 116/246 (47%), Positives = 170/246 (69%), Gaps = 5/246 (2%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKF 488 V + ++ E +AK E+ ANLRLV+S+AK+Y N + LDLIQEGNIGLMKA +KF Sbjct: 123 VEVAKRIENGDELAKDELAAANLRLVVSIAKRYAKHNGKMGILDLIQEGNIGLMKAVDKF 182 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ G+KFSTYA WW++QAITR++ADQ IRIPVH+ + I+K+ R R + + R+ Sbjct: 183 DYSKGFKFSTYATWWIRQAITRALADQDRMIRIPVHVVESINKMNRIQRILQQDLDRDAK 242 Query: 549 PEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PEE+A ++ P++ V++++ + K E SL+ P+G+E S LGD +ED A++P + Sbjct: 243 PEELAAEMNEPLQKVQEIITVAKNQETDSLDKPVGEEGDSQLGDLLEDNKAINPEEYTAS 302 Query: 607 ANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L++ + ++ LT RE +VL++RFG+ + HTLEEVG+ VTRER+RQIEAKA++ Sbjct: 303 EMLKDQLSSMMGEFLTDREAKVLKLRFGLENDEPHTLEEVGRSLGVTRERVRQIEAKAVK 362 Query: 666 KLKHPS 671 KLKH S Sbjct: 363 KLKHHS 368 Score = 46.2 bits (108), Expect = 0.017, Method: Compositional matrix adjust. Identities = 30/90 (33%), Positives = 46/90 (51%), Gaps = 1/90 (1%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 D VRMYL+E+G + LLSR+ E+ +AKRIE G + L + L I R ++G Sbjct: 102 DSVRMYLKEIGKVPLLSRDEEVEVAKRIENGDELAKDELAAANLRLVVSIAKRYAKHNGK 161 Query: 179 TLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + ++I E IG F ++G + Sbjct: 162 MGILDLIQ-EGNIGLMKAVDKFDYSKGFKF 190 >gi|119773417|ref|YP_926157.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Shewanella amazonensis SB2B] gi|119765917|gb|ABL98487.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Shewanella amazonensis SB2B] Length = 969 Score = 234 bits (597), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 142/362 (39%), Positives = 224/362 (61%), Gaps = 24/362 (6%) Query: 327 SLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKR---DVFLERHQGRELDPH 382 S+ L + +++L++ LY+ ++ + EL+ L + + R + E+ GREL Sbjct: 617 SIVLTEDALNILIKALYESIDKVSDIKTELVNLYTREIKLPRKTAESVAEQKMGREL--- 673 Query: 383 WVSYAK-DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEA 441 +S K ++P E K + +I +++ ++++I+ +TGI + + I S ++K + + Sbjct: 674 -ISQLKTEYPLCEDK--LERHAGAINRLQAQMQNINQKTGIDLYSLQDIGSKIKKLQRDI 730 Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S A+ EM+ NLRLV+SVA KY RGL+ DL+QEGNIGLMKA EKFD G+KFSTYA Sbjct: 731 SAARDEMITFNLRLVLSVANKYLGRGLELADLVQEGNIGLMKAVEKFDHRKGFKFSTYAT 790 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP-- 559 WW++QAITR+IADQ+ IRIPVH+ + ++K++ ++ +++K R P E++ L+MP Sbjct: 791 WWIRQAITRAIADQARIIRIPVHVNESLNKLISASKVLTHKFGRGPKISELSLILSMPET 850 Query: 560 -VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE ++++L + EP++ + H + D A+SP + I + +L Sbjct: 851 KVENLKQILVM--EPVA--------EADHNTNGYVDWAAMSPEEEIIDDDRDTNIKDLLK 900 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT +E++VL +RFGI T+ TLEEVG+QF VTRERIRQIEAK+++KL H SRS L Sbjct: 901 GLTDKEKKVLELRFGINAATELTLEEVGQQFDVTRERIRQIEAKSLKKLAHTSRSSHLAI 960 Query: 679 FL 680 F Sbjct: 961 FF 962 >gi|296117743|ref|ZP_06836327.1| RNA polymerase principal sigma factor SigB [Corynebacterium ammoniagenes DSM 20306] gi|295969474|gb|EFG82715.1| RNA polymerase principal sigma factor SigB [Corynebacterium ammoniagenes DSM 20306] Length = 334 Score = 234 bits (597), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 107/241 (44%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 93 EGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 152 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + Sbjct: 153 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELAEESGIE 212 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ Sbjct: 213 ENKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRDVIG 271 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ +R+ +LR Sbjct: 272 TLEQREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMAKLRDGNRADRLRE 331 Query: 679 F 679 + Sbjct: 332 Y 332 >gi|328480117|gb|EGF49090.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus MTCC 5462] Length = 206 Score = 234 bits (597), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 113/199 (56%), Positives = 150/199 (75%), Gaps = 1/199 (0%) Query: 405 SILKIRNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 S +KI + ++ E G +S+ V++ K E AK+ + EANLRLV+S+AK+Y Sbjct: 8 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQEAKQRLAEANLRLVVSIAKRY 67 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPV Sbjct: 68 VGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPV 127 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 HM + I+K++R R++ + REPTPEEI ++ MP E VR++LKI +EP+SLETPIG+E Sbjct: 128 HMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEE 187 Query: 584 DTSHLGDFIEDKNAVSPLD 602 D SHLGDFIED++A SP D Sbjct: 188 DDSHLGDFIEDQDATSPED 206 Score = 41.6 bits (96), Expect = 0.45, Method: Compositional matrix adjust. Identities = 20/45 (44%), Positives = 30/45 (66%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E+A+A +IE G L E+ L Sbjct: 13 NDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQEAKQRLAEANL 57 >gi|160902123|ref|YP_001567704.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359767|gb|ABX31381.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 418 Score = 234 bits (596), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 131/296 (44%), Positives = 191/296 (64%), Gaps = 10/296 (3%) Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 F + E K + + +KI +K IS +S S R + +KG+ +A + E++ Sbjct: 128 FSDTELKMYDNISLGDPIKIY--LKEISKVELLSPSRERQLARRAQKGDQKA---RDELI 182 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 +ANLRLVIS+AK+YT RGL FLDLIQEGNIGL+KA +KFDW G+KFSTYA WW++QAIT Sbjct: 183 KANLRLVISIAKRYTGRGLTFLDLIQEGNIGLIKAVDKFDWRKGFKFSTYATWWIRQAIT 242 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R+IADQ+ TIRIPVH+ + I+++ + R + P+ +E+A+ L P + + ++L Sbjct: 243 RAIADQARTIRIPVHLVETINRMNKVIREYLQENGDYPSAQELAEILDKPEDKINEILMS 302 Query: 570 TKEPISLETPI----GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 K+ +SL +PI GD++ S GDFI +P + A + ++E VL +L +E Sbjct: 303 AKDVLSLNSPISSGNGDDEESETGDFIS-TEETTPEEEAQKMIMKERLEEVLDTLNSKEA 361 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VL+MR+G TLEEVG+ F VTRERIRQIE KA+RKL+HP+R +L+ ++ Sbjct: 362 LVLKMRYGFLDGKQKTLEEVGQFFNVTRERIRQIETKALRKLRHPNRVAQLKDIVE 417 >gi|86608944|ref|YP_477706.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] gi|86557486|gb|ABD02443.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-2-3B'a(2-13)] Length = 320 Score = 234 bits (596), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 111/251 (44%), Positives = 171/251 (68%), Gaps = 3/251 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ +G AK+E+V ANLRLV+S+AKKY NRG+ FLDLIQEG IGL++AAEKF++ Sbjct: 67 LIAEGGAAGERAKRELVRANLRLVVSIAKKYLNRGVPFLDLIQEGTIGLIRAAEKFEYER 126 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++Q ITR++A+Q +RIPVHM +K+++V R R ++ + R PT EI Sbjct: 127 GYKFSTYAYWWIRQGITRAVANQGRLVRIPVHMVEKLNQVKRIRRELTETLNRRPTQAEI 186 Query: 553 AKKLAMP---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 A+ L + ++ + +L+ ++ +SL TP+G E+ L IED N+++P L Sbjct: 187 AEALEISPDKLDALLTLLEAGRQTLSLHTPVGKEEDRELMQLIEDANSLTPESQMDLHLL 246 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L L+PRE+ +L++R+G+ HTL E+G+ F ++RER+RQI+A+A+RKL+H Sbjct: 247 SAQLEEMLEQLSPREQEILKLRYGLKDGHLHTLSEIGQLFGLSRERVRQIQARAMRKLRH 306 Query: 670 PSRSKKLRSFL 680 P R + L ++ Sbjct: 307 PRRQEILADWM 317 >gi|254416308|ref|ZP_05030062.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196176990|gb|EDX72000.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 416 Score = 233 bits (595), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 117/245 (47%), Positives = 168/245 (68%), Gaps = 1/245 (0%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FS Sbjct: 171 QAEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFS 230 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R T E+IAK+L Sbjct: 231 TYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEQGRTATIEDIAKELE 290 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VR+VL +SLE +G E + LGD +E + SP D ++ L+ ++L Sbjct: 291 MDAPQVREVLMRVPRSVSLEIKVGKEKDTELGDLLETEE-TSPEDVLMREALQRDLQQLL 349 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A LT RE V+ MRFG+G ++L E+G+ ++RER+RQIEAKA++KL+ P R ++R Sbjct: 350 ADLTSRERDVICMRFGLGDGHPYSLAEIGRALELSRERVRQIEAKALQKLRQPKRRNRVR 409 Query: 678 SFLDG 682 +L+ Sbjct: 410 DYLEA 414 Score = 37.4 bits (85), Expect = 7.6, Method: Compositional matrix adjust. Identities = 16/36 (44%), Positives = 28/36 (77%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 SA+R T D VR+YL+E+G + LL R+ E++ A++++ Sbjct: 53 SANRRTTDLVRLYLQEIGRVRLLRRDEEVSEAQKVQ 88 >gi|164415557|gb|ABY53195.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415559|gb|ABY53196.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415561|gb|ABY53197.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415563|gb|ABY53198.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415565|gb|ABY53199.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415567|gb|ABY53200.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415569|gb|ABY53201.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415571|gb|ABY53202.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415573|gb|ABY53203.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415575|gb|ABY53204.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415577|gb|ABY53205.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415579|gb|ABY53206.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415581|gb|ABY53207.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415583|gb|ABY53208.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415585|gb|ABY53209.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415587|gb|ABY53210.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415589|gb|ABY53211.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415591|gb|ABY53212.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] gi|164415593|gb|ABY53213.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] Length = 166 Score = 233 bits (594), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 112/164 (68%), Positives = 135/164 (82%) Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+K+ KEPIS+E Sbjct: 1 TIRIPVHMMETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKVAKEPISME 60 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MN Sbjct: 61 TPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMN 120 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 121 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 164 >gi|300812193|ref|ZP_07092635.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496829|gb|EFK31909.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 378 Score = 233 bits (594), Expect = 9e-59, Method: Compositional matrix adjust. Identities = 114/233 (48%), Positives = 164/233 (70%), Gaps = 5/233 (2%) Query: 444 AKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK E+ ANLRLV+S+AK+Y N + LDLIQEGNIGLMKA +KFD+ G+KFSTYA Sbjct: 136 AKDELAAANLRLVVSIAKRYAKHNGKMGILDLIQEGNIGLMKAVDKFDYSKGFKFSTYAT 195 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR++ADQ IRIPVH+ + I+K+ R R + + R+ PEE+A ++ P++ Sbjct: 196 WWIRQAITRALADQDRMIRIPVHVVESINKMNRIQRTLQQDLDRDAKPEELAAEMNEPLQ 255 Query: 562 GVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V++++ + K E SL+ P+G+E S LGD +ED A++P + L++ + ++ Sbjct: 256 KVQEIITVAKNQETDSLDKPVGEEGDSQLGDLLEDNKAINPEEYTASEMLKDQLSIMMGE 315 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 LT RE +VL++RFG+ + HTLEEVG+ VTRER+RQIEAKA++KLKH S Sbjct: 316 FLTDREAKVLKLRFGLENDEPHTLEEVGRSLGVTRERVRQIEAKAVKKLKHHS 368 Score = 44.7 bits (104), Expect = 0.052, Method: Compositional matrix adjust. Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 1/90 (1%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 D VRMYL+E+G + LLSR+ E+ +AKRIE G L + L I R ++G Sbjct: 102 DSVRMYLKEIGKVPLLSRDEEVEVAKRIENGDESAKDELAAANLRLVVSIAKRYAKHNGK 161 Query: 179 TLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + ++I E IG F ++G + Sbjct: 162 MGILDLIQ-EGNIGLMKAVDKFDYSKGFKF 190 >gi|254423226|ref|ZP_05036944.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196190715|gb|EDX85679.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 431 Score = 233 bits (593), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 115/261 (44%), Positives = 177/261 (67%), Gaps = 8/261 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+S+ E I + E + AK+ M++ANLRLV+SVAKKY NRGL+ LDLIQEG +G Sbjct: 176 GMSVEEIVEI-------QNEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLG 228 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L +A EKFD GY+FSTYA WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S Sbjct: 229 LERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKIS 288 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 R E+IAK+L M V +R+VL +SL+T +G + + LGD +E ++ +SP Sbjct: 289 QTQGRTAKAEDIAKELDMTVAQIREVLLKVPRSVSLDTKVGKDRDTELGDLLETED-ISP 347 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ ++L LT RE+ V+ +RFG+ ++L E+G+ ++RER+RQIE Sbjct: 348 EDRLMRESLKRELHQLLTDLTTREQEVITLRFGLDDGVPYSLAEIGRTLELSRERVRQIE 407 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 +KA++KL+ P R ++R +L+ Sbjct: 408 SKALQKLRQPKRRNRVRDYLE 428 >gi|298242664|ref|ZP_06966471.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297555718|gb|EFH89582.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 394 Score = 233 bits (593), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 106/236 (44%), Positives = 165/236 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K +VEANLRLV+S+AK+Y N+G+ LDLIQEGN+GL++A +KFD G++FSTYA WW Sbjct: 158 AQKRLVEANLRLVVSIAKRYNNQGISLLDLIQEGNLGLIRAVQKFDPQRGFRFSTYATWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI+R++A+ + TI +PVH+ + I+K+ R R++ + R+P PEEIA+ + + E V Sbjct: 218 IRQAISRAVAEHTRTIHVPVHVVELIYKMKRITRQLYQDLGRDPFPEEIAQAINLTKERV 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ I + PISL+ P+ +++ HL D +ED +A +P + LR+ +R L +L+ R Sbjct: 278 VELQSIAEAPISLDAPLIEDEQYHLADMLEDTHAAAPAEVVTHQVLRDHISRALETLSQR 337 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E +V+ +R+G+ HTLEE+ F +TRERIRQIE KA+R L+HP + L + Sbjct: 338 ERQVIELRYGLYDGYCHTLEELSAYFKLTRERIRQIEVKALRTLRHPIQIHMLHDY 393 Score = 41.2 bits (95), Expect = 0.66, Method: Compositional matrix adjust. Identities = 34/114 (29%), Positives = 52/114 (45%), Gaps = 9/114 (7%) Query: 76 NVVDGDDLEDEEGSEDSLDLASSASNS---SVFLQKRKDS-----ADRSTDDPVRMYLRE 127 + +DGD +E G +A N VF ++ +++ +DR D+ +R YL E Sbjct: 73 SFLDGDSSNEESGGPTRRRRGKAAQNEMQDDVFFEEEEEAETEGESDREVDNAIRQYLAE 132 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLL 181 +G LL+ E E+ IA R+ G L E+ L I R N G +LL Sbjct: 133 IGRFPLLTSEQELTIAWRVANGDMEAQKRLVEANLRLVVSIAKRYN-NQGISLL 185 >gi|110004382|emb|CAK98720.1| probable rna polymerase sigma-a factor protein [Spiroplasma citri] Length = 445 Score = 233 bits (593), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 128/303 (42%), Positives = 182/303 (60%), Gaps = 60/303 (19%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + +++ +NL+LV+SVA+K+ NRGL F DLI+EGNIGLMKA +KFD+ G+KFSTY Sbjct: 143 EIRFGRDKLITSNLKLVVSVARKHLNRGLDFSDLIEEGNIGLMKAVDKFDYKRGFKFSTY 202 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL--A 557 A WW++QA TR+IADQ+ TIRIPVHM + I+K+ R R+++ ++ REP+ EIA+K+ Sbjct: 203 ATWWIRQATTRAIADQARTIRIPVHMVETINKLTRIERQLTQELGREPSYNEIAEKMGQG 262 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M E VR++ +++ EP+SLE PIGDED +H GDF++DK+ +P + + +LRE V Sbjct: 263 MVGEKVREIKRLSIEPVSLEKPIGDEDDTHFGDFVDDKDIFTPDEYTEKESLREVIDEVF 322 Query: 618 AS-LTPREERVLRMRFG------------------------------IGMNTDHTLEEV- 645 L+ REE+V+RMRFG + ++ D +E+V Sbjct: 323 HEILSAREEKVIRMRFGLLPTKLRTVLRLAKECEDETFPELVQTVKALDIHYDTPIEKVQ 382 Query: 646 -----------------------GKQFCVTRERIRQIEAKAIRKLK---HPSRSKKLRSF 679 GK+F VTRERIRQIEAK IRK K S++K L+ F Sbjct: 383 SQKHALIDKHLSKYDSPKTLEEVGKEFKVTRERIRQIEAKTIRKFKPNQANSKAKVLKDF 442 Query: 680 LDG 682 G Sbjct: 443 FKG 445 >gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299] gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299] Length = 595 Score = 232 bits (591), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 117/240 (48%), Positives = 163/240 (67%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M++ANLRLV+S+AK+Y N+ + F DLIQEG +GL++ AEKFD+ GYKFSTYA WW Sbjct: 345 AKNAMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWW 404 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TRSI+DQS TIR+PVH+ + I ++ + R+M K+ R+PT EE+A + M VE + Sbjct: 405 IRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQMVLKLGRDPTHEELADAMEMTVEKI 464 Query: 564 RKVLKITKEPISLETPIGD---EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +++ K + PISL + + ED + D + D P + L+E VL +L Sbjct: 465 KQIKKASLVPISLSQTVNNSNGEDKRTVEDTLIDDYTEHPEGETGKVLLKEDLENVLNTL 524 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE VLR+R+G+ TLEE+G F VTRERIRQIEAKA+RKL+ PSR+ LR +L Sbjct: 525 NPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERIRQIEAKALRKLRQPSRNGILREYL 584 Score = 37.4 bits (85), Expect = 8.5, Method: Compositional matrix adjust. Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 2/74 (2%) Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E GS + AS+A + RK++ + D ++ YL+++G++ LL+ E+ +AKR Sbjct: 237 EPGSAQEANEASAAESRRNRRIARKNADTKKQTDSMKTYLKDIGTVSLLTGAEEVELAKR 296 Query: 146 IEAGRAMMMASLCE 159 I+ M + S+CE Sbjct: 297 IQ--DLMYLNSVCE 308 >gi|251733351|emb|CAR82425.1| RNA polymerase sigma factor [Mesorhizobium loti] Length = 202 Score = 232 bits (591), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 112/178 (62%), Positives = 143/178 (80%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 + K LK++L+K V SLSLN +RI+ LVEQLYDI+KR++ NEG+LLRLA+SYG++R+ FL+ Sbjct: 23 RLKELKDQLIKAVKSLSLNTARIEALVEQLYDINKRLVQNEGKLLRLAESYGVRREEFLK 82 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 +QG ELDP+W + WK F E D+I +R EI++++ ET ISI EFR IV+ Sbjct: 83 EYQGSELDPNWTRAIGNLTSRGWKEFTKNEKDAIKDLRAEIQNLATETAISILEFRKIVN 142 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V+KGE EA+IAKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 143 QVQKGEREAAIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|298245985|ref|ZP_06969791.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297553466|gb|EFH87331.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 417 Score = 231 bits (590), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/281 (41%), Positives = 184/281 (65%), Gaps = 9/281 (3%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A E D+++ EI + + I+ R I + ++ E A K+ + ANLRLV+S+ Sbjct: 144 AGESDAVMTYLREIGRVPM-----ITHEREI-ELAQRIESGDRDAMKQFILANLRLVVSI 197 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AK+Y RGL LDLIQEGNIGL++A +++DW G++FST+A WW++QAI+R++AD+ TI Sbjct: 198 AKRYVGRGLTLLDLIQEGNIGLIRAVQRYDWRRGHRFSTHATWWIRQAISRAVADKGRTI 257 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVEGVRKVLKITKEPISLET 578 R+PV++ ++++ R +R+ ++ REP+ +E+A+ + PV + ++ P+SLE Sbjct: 258 RLPVYVNTALNRIRRERQRLLQELGREPSEQELAEATGLDPVRMI-ELQAAPGAPVSLEL 316 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMN 637 P+G++D LGD + D + SP D A L++ RVL S LTPRE+ VL++RFG+G Sbjct: 317 PVGEDDDQELGDVLPDTESASPEDLATTQTLKDEVQRVLESVLTPREQLVLQLRFGLGNG 376 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 H LE+VG++ +TRER+RQIEA A+ KL+ P ++LR Sbjct: 377 QAHPLEQVGRELGITRERVRQIEAGALAKLRQPPVLERLRG 417 Score = 37.7 bits (86), Expect = 5.9, Method: Compositional matrix adjust. Identities = 17/39 (43%), Positives = 26/39 (66%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + AD D V YLRE+G + +++ E EI +A+RIE+G Sbjct: 140 NGADAGESDAVMTYLREIGRVPMITHEREIELAQRIESG 178 >gi|227503471|ref|ZP_03933520.1| RNA polymerase sigma factor SigB [Corynebacterium accolens ATCC 49725] gi|306836281|ref|ZP_07469263.1| RNA polymerase principal sigma factor SigB [Corynebacterium accolens ATCC 49726] gi|227075974|gb|EEI13937.1| RNA polymerase sigma factor SigB [Corynebacterium accolens ATCC 49725] gi|304567873|gb|EFM43456.1| RNA polymerase principal sigma factor SigB [Corynebacterium accolens ATCC 49726] Length = 337 Score = 231 bits (590), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 106/241 (43%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 96 EGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 155 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE++++ + Sbjct: 156 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELSEESGID 215 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ Sbjct: 216 ENKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRGVID 274 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ +R+ +LR Sbjct: 275 TLEKREQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDGNRADRLRE 334 Query: 679 F 679 + Sbjct: 335 Y 335 >gi|227549119|ref|ZP_03979168.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum DSM 44291] gi|227078816|gb|EEI16779.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum DSM 44291] Length = 331 Score = 231 bits (590), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 103/236 (43%), Positives = 166/236 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 94 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R M + REPT EE++ + + + Sbjct: 154 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIRREMYQSLGREPTNEELSDESGIEESKI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L+ +++P+SL+ P+G ++ + LGDFIED A D+ + + + ++ L R Sbjct: 214 EMLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEATDAEDAVVSSLRHDDIQDIIGGLEQR 273 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+ V+R+R+G+ TL+++G+QF ++RER+RQIE + + KL+ R+ +LR + Sbjct: 274 EQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMAKLRVGERADRLRDY 329 >gi|291550766|emb|CBL27028.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus torques L2-14] Length = 280 Score = 231 bits (590), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 128/290 (44%), Positives = 188/290 (64%), Gaps = 17/290 (5%) Query: 389 DFPEGEWKNFVACEVDSILKIR-NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKE 447 + PEG EV LKI NEI I + +S E R + G+ +A +++ Sbjct: 6 NLPEG-------TEVTEPLKIYLNEIGQIPL---LSEEEERDLGCKSASGDEDA---RRK 52 Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + E NLRLV+S+AK YT RG+ +DLIQEGNIGLM AAEK+D+ +FSTYA WW+K+A Sbjct: 53 LEEGNLRLVVSLAKHYTGRGITLMDLIQEGNIGLMHAAEKYDYTKENRFSTYASWWIKEA 112 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEGVRKV 566 + R+I QS IR+PVH+ + + KV + ++ + K RE TPEEIA+++ E V+++ Sbjct: 113 MQRAIDQQSREIRVPVHVAENMKKVQKISKDLQQKFGREATPEEIAEEMKDKSPEFVKEI 172 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 L + P+SLETP+G++ ++LGD +EDK+A +P D+ Q +E +L SL RE + Sbjct: 173 LSYLQNPVSLETPVGEDGENNLGDMVEDKDATTPEDAMNQLVQKEEVQELLESLNDRERQ 232 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 V+R+RFG+ HTLEE+G + VTRER+RQIEA+A+ KL+ S++ KL Sbjct: 233 VIRLRFGLEDGKTHTLEEIGDELNVTRERVRQIEARAMEKLR--SKATKL 280 >gi|311739612|ref|ZP_07713447.1| RNA polymerase principal sigma factor SigB [Corynebacterium pseudogenitalium ATCC 33035] gi|311305428|gb|EFQ81496.1| RNA polymerase principal sigma factor SigB [Corynebacterium pseudogenitalium ATCC 33035] Length = 337 Score = 231 bits (590), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 106/241 (43%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 96 EGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 155 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE++++ + Sbjct: 156 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELSEESGID 215 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ Sbjct: 216 ENKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRGVID 274 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ +R+ +LR Sbjct: 275 TLEKREQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDGNRADRLRE 334 Query: 679 F 679 + Sbjct: 335 Y 335 >gi|227488742|ref|ZP_03919058.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51867] gi|227542262|ref|ZP_03972311.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51866] gi|227091164|gb|EEI26476.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51867] gi|227182091|gb|EEI63063.1| RNA polymerase sigma factor SigB [Corynebacterium glucuronolyticum ATCC 51866] Length = 327 Score = 231 bits (589), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 108/241 (44%), Positives = 173/241 (71%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ M+EANLRLV+S+AK+Y+ RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 86 EGDKARNHMLEANLRLVVSLAKRYSGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 145 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + Sbjct: 146 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQFGREVTNEELAEESGID 205 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + + + +++P+SL+ P+G ++ + LGDFIED A + A+ +LR + R V+ Sbjct: 206 ENKIEMLFRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDA-EEAVVVSLRHSDIRAVID 264 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+RMR+G+ TL+++G+++ ++RER+RQIE + + KL+ SR++KLR+ Sbjct: 265 TLEGREQDVIRMRYGLDDGVPRTLDQIGRRYGLSRERVRQIEREVMAKLREGSRAEKLRA 324 Query: 679 F 679 + Sbjct: 325 Y 325 >gi|325686024|gb|EGD28082.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 378 Score = 231 bits (588), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 114/233 (48%), Positives = 163/233 (69%), Gaps = 5/233 (2%) Query: 444 AKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK E+ ANLRLV+S+AK+Y N + LDLIQEGNIGLMKA +KFD+ G+KFSTYA Sbjct: 136 AKDELAAANLRLVVSIAKRYAKHNGKMGILDLIQEGNIGLMKAVDKFDYSKGFKFSTYAT 195 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR++ADQ IRIPVH+ + I+K+ R R + + R+ PEE+A ++ P++ Sbjct: 196 WWIRQAITRALADQDRMIRIPVHVVESINKMNRIQRILQQDLDRDAKPEELAAEMNEPLQ 255 Query: 562 GVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V++++ + K E SL+ P+G+E S LGD +ED A +P + L++ + ++ Sbjct: 256 KVQEIITVAKNQETDSLDKPVGEEGDSQLGDLLEDNKATNPEEYTAFEMLKDQLSSMMGE 315 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 LT RE +VL++RFG+ + HTLEEVG+ VTRER+RQIEAKA++KLKH S Sbjct: 316 FLTNREAKVLKLRFGLENDEPHTLEEVGRSLGVTRERVRQIEAKAVKKLKHHS 368 Score = 44.7 bits (104), Expect = 0.050, Method: Compositional matrix adjust. Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 1/90 (1%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGT 178 D VRMYL+E+G + LLSR+ E+ +AKRIE G L + L I R ++G Sbjct: 102 DSVRMYLKEIGKVPLLSRDEEVEVAKRIENGDESAKDELAAANLRLVVSIAKRYAKHNGK 161 Query: 179 TLLREIIDLEACIGPESKGGFFHGTEGHSY 208 + ++I E IG F ++G + Sbjct: 162 MGILDLIQ-EGNIGLMKAVDKFDYSKGFKF 190 >gi|86607249|ref|YP_476012.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab] gi|86555791|gb|ABD00749.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab] Length = 361 Score = 231 bits (588), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 117/254 (46%), Positives = 167/254 (65%), Gaps = 9/254 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I +S R S +R+GE A+++++ ANLRLV+SVAKKY NRG+ FLDLIQEGN+GL Sbjct: 109 IPVSTLR---SRIRQGEQ----AQRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNMGL 161 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKF+ G++FSTYA WW++Q ITR IA+Q+ TIR+PVHM DK+ + RT R + Sbjct: 162 IRATEKFNAERGFRFSTYAHWWIRQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMK 221 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 R PT E+A+ L + V+ +R + + P+SL+ P+G E S LGD + D+ P Sbjct: 222 ARGRRPTEAELAEALGIKVKKLRMIQQAAALPLSLDVPVGQEGESRLGDLLPDERQEQPF 281 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + +LR+ + +L P E +VL +R+G+ TL EVG F +TRERIRQIE Sbjct: 282 EEILVQSLRQDVRSAMQALKPIERQVLELRYGLDGQRARTLREVGDHFNLTRERIRQIER 341 Query: 662 KAIRKLK--HPSRS 673 A+RKL+ HPSR+ Sbjct: 342 DALRKLRLGHPSRA 355 >gi|255325135|ref|ZP_05366241.1| RNA polymerase sigma factor RpoD [Corynebacterium tuberculostearicum SK141] gi|255297700|gb|EET77011.1| RNA polymerase sigma factor RpoD [Corynebacterium tuberculostearicum SK141] Length = 365 Score = 230 bits (587), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 106/241 (43%), Positives = 174/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 124 EGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTY 183 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE++++ + Sbjct: 184 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELSEESGID 243 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + +L+ +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ Sbjct: 244 ENKIEMLLRQSRDPVSLDMPVGTDEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRGVID 302 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ +R+ +LR Sbjct: 303 TLEKREQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMAKLRDGNRADRLRE 362 Query: 679 F 679 + Sbjct: 363 Y 363 >gi|330040254|ref|XP_003239821.1| RNA-polymerase sigma factor [Cryptomonas paramecium] gi|327206746|gb|AEA38923.1| RNA-polymerase sigma factor [Cryptomonas paramecium] Length = 414 Score = 230 bits (587), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 117/231 (50%), Positives = 166/231 (71%), Gaps = 2/231 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+ ANLRLV+S+AK+Y+NRG+ DL+QEG++GL++A EKFD G+KFSTYA WW Sbjct: 159 AKERMIAANLRLVVSIAKRYSNRGMSLQDLVQEGSLGLIRATEKFDSEKGFKFSTYATWW 218 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+++R+IAD S TIR+PVH+ D + + +T R ++ ++ R PT EEIA K+ + V+ + Sbjct: 219 IKQSVSRAIADHSRTIRLPVHLYDTLSAIKKTTRILTIELGRSPTEEEIACKMDVTVDKL 278 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 R VL+ + +SLE PI D DT+ L DFIE + SP + ++ LR+ V+ SL+ Sbjct: 279 RSVLQSAQPTLSLEKPIKNDGDTAQLSDFIE-ADQESPDEHVEKSMLRDDLRDVINSLSL 337 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 RE V+RMR+G+ TLEE+G+ F VTRER+RQIEAKAIRKL+ P RS Sbjct: 338 RERDVIRMRYGLDDGKIRTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRS 388 >gi|170076898|ref|YP_001733536.1| group 2 sigma factor [Synechococcus sp. PCC 7002] gi|169884567|gb|ACA98280.1| Group 2 sigma factor [Synechococcus sp. PCC 7002] Length = 398 Score = 230 bits (586), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 116/273 (42%), Positives = 181/273 (66%), Gaps = 8/273 (2%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IR + + + G+S+ E I+ K AK+ M++ANLRLV+SVAKKY NRGL Sbjct: 131 IRQGKQRWAEQVGLSVKELDSILKAGAK-------AKEHMIQANLRLVVSVAKKYQNRGL 183 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 + LDLIQEG +GL +A +KFD GY+FSTYA WW++Q ITR+IA QS TIR+PVH+ +K Sbjct: 184 ELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEK 243 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++K+ + R++S P+ +++A+ L M E VR+VL+ +SLE +G + + L Sbjct: 244 LNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTEL 303 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GD +E ++A SP ++ ++ +L+ +L LT RE V+++R+G+G ++L E+G+ Sbjct: 304 GDLLETQDA-SPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRM 362 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++RER+RQIEAKA++KL+ P R +R +LD Sbjct: 363 LELSRERVRQIEAKALQKLRQPKRRNIMRDYLD 395 >gi|37523331|ref|NP_926708.1| RNA polymerase sigma factor SigC [Gloeobacter violaceus PCC 7421] gi|35214335|dbj|BAC91703.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421] Length = 362 Score = 229 bits (585), Expect = 9e-58, Method: Compositional matrix adjust. Identities = 116/242 (47%), Positives = 169/242 (69%), Gaps = 3/242 (1%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 S AKK+M+EANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA Sbjct: 120 GSRAKKKMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYA 179 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++Q ITR+IA QS TIR+PVH+ +K++++ +T R++S + R PT EIA++L M Sbjct: 180 YWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKTQRKLSQNLGRTPTISEIAEELEMEP 239 Query: 561 EGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VR+++ +SLET +G D+DT + + VSP +SA+Q +LR +L Sbjct: 240 AHVRELMSRVPRSVSLETRVGKDKDTEL--GELLEAEEVSPEESAVQESLRRDVKELLDD 297 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE V+ MR+G+ ++L E+G+ ++RER+RQIE+KA++KL+ P R K+R + Sbjct: 298 LTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQIESKALQKLRQPRRRAKVRDY 357 Query: 680 LD 681 L+ Sbjct: 358 LE 359 >gi|319948428|ref|ZP_08022566.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4] gi|319437910|gb|EFV92892.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4] Length = 322 Score = 229 bits (585), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 109/241 (45%), Positives = 172/241 (71%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFST Sbjct: 80 AEGEAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFST 139 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR +ADQS TIR+PVH+ ++++K+ R R + ++ RE T EE+A++ + Sbjct: 140 YATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATLEELAEESGI 199 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + ++L +++P+SL+ P+G ++ + LGDFIED A S ++ + + VLA Sbjct: 200 PAHKIEELLDHSRDPVSLDMPVGADEEAPLGDFIEDAEATSAENTVVSNVMHSDVRAVLA 259 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE++V+ +RFG+ TL+++GK+F ++RER+RQIE + + KL+ R+ KLRS Sbjct: 260 TLEEREQQVITLRFGLDDGQPRTLDQIGKRFGLSRERVRQIEREVMAKLREGRRADKLRS 319 Query: 679 F 679 + Sbjct: 320 Y 320 >gi|213616352|ref|ZP_03372178.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 508 Score = 229 bits (585), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 126/259 (48%), Positives = 172/259 (66%), Gaps = 6/259 (2%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+A+++ Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERM 489 Query: 557 AMPVEGVRKVLKITKEPIS 575 MP + +RKVLKI KEPIS Sbjct: 490 LMPEDKIRKVLKIAKEPIS 508 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 >gi|258653916|ref|YP_003203072.1| RNA polymerase sigma factor SigB [Nakamurella multipartita DSM 44233] gi|258557141|gb|ACV80083.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nakamurella multipartita DSM 44233] Length = 334 Score = 229 bits (584), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 103/236 (43%), Positives = 165/236 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ ANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 97 ARNHLLVANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI+R +ADQ TIR+PVH+ ++++K+ R R + ++ R+ T E+A + +P E + Sbjct: 157 IRQAISRGMADQGRTIRLPVHLVEQVNKLSRLKRELHQQLGRDATLAELAHESGIPEEKI 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L ++P+SL+ P+G ++ + LGDFIED + S + + + + RVL +L R Sbjct: 217 ADLLDHARDPVSLDMPVGSDEEAPLGDFIEDSESTSAEAAVVAGFMHDDINRVLRTLDDR 276 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+ V+R+R+G+ TL+E+G+ F ++RER+RQIE ++ KL+ RS+ LRS+ Sbjct: 277 EQTVVRLRYGLDDGRPRTLDEIGRHFGISRERVRQIERDSMAKLRVGDRSEVLRSY 332 >gi|330862244|emb|CBX72405.1| RNA polymerase sigma factor rpoD [Yersinia enterocolitica W22703] Length = 553 Score = 228 bits (582), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 129/290 (44%), Positives = 183/290 (63%), Gaps = 5/290 (1%) Query: 291 YRELRSLQDNA-VNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 + ELR +NA + +K+ +S KL ++ L + D LV + + R+ Sbjct: 263 FSELREQYENARLEIKKNGRSHANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRV 322 Query: 350 MHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSIL 407 E +++L + + + F+ E W +A G+ W + D + Sbjct: 323 RTQERIIMKLCVEQCKMPKKNFVTLFASNETSDTW--FAAAIAMGKPWSEKLKDVSDDVQ 380 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 381 RSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 440 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + Sbjct: 441 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 500 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 I+K+ R +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+E Sbjct: 501 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISME 550 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 94/158 (59%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 53 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 112 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 113 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 169 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G L ++I Sbjct: 170 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLI 207 >gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 344 Score = 228 bits (582), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 116/238 (48%), Positives = 161/238 (67%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM++ANLRLV+S+AKKY N + F DLIQEG +GL++ AEKFD+ GYKFSTYA WW Sbjct: 91 AKNEMIQANLRLVVSIAKKYANSNMSFQDLIQEGCVGLIRGAEKFDFQRGYKFSTYAHWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TRSI+DQS TIR+PVH+ + I ++ + ++ + R PT EEIA ++ M E + Sbjct: 151 IRQAVTRSISDQSRTIRLPVHLFEIISRISKMEQKFALHNGRNPTTEEIAAEMDMSAEKI 210 Query: 564 RKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ K + P+SL +T GD + D + D A P + ++ L+E VL +L P Sbjct: 211 TQIKKAAQAPVSLAQTMGGDNKGRTVEDTLVDVTAEGPEKVSGKSLLKEDLENVLNTLNP 270 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE VLR+R+G+ TLEE+G F VTRERIRQIEAKA+RKLK PSR+ L+ + Sbjct: 271 RERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRKLKQPSRNSILQEYF 328 >gi|26665386|dbj|BAC44904.1| principal sigma factor [Fischerella major NIES-592] Length = 203 Score = 228 bits (581), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 112/204 (54%), Positives = 152/204 (74%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R ++K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIVK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D + LRE +VL SL+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|86608149|ref|YP_476911.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-2-3B'a(2-13)] gi|86556691|gb|ABD01648.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-2-3B'a(2-13)] Length = 361 Score = 228 bits (581), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 115/259 (44%), Positives = 168/259 (64%), Gaps = 7/259 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 IS+S R S +R+GE A+++++ ANLRLV+SVAKKY NRG+ FLDLIQEGNIGL Sbjct: 109 ISVSTLR---SRIRQGEQ----AQRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNIGL 161 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKF+ G++FSTYA WW++Q ITR IA+Q+ TIR+PVHM DK+ + RT R + Sbjct: 162 IRATEKFNAERGFRFSTYAHWWIRQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMK 221 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 R PT E+A+ L + V+ +R + + P+SL+ P+G E S LGD ++D+ P Sbjct: 222 LQGRRPTEAELAEALGIKVKKLRMIQQAAALPLSLDVPVGQEGESRLGDLLQDERQEQPF 281 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + ++++ + +L P E +VL +R+G+ TL EVG F +TRERIRQIE Sbjct: 282 QGILVQSMQQDVRSAMQTLKPIERQVLELRYGLDGQQARTLREVGDHFNLTRERIRQIER 341 Query: 662 KAIRKLKHPSRSKKLRSFL 680 A+RKL+ S+ L ++ Sbjct: 342 DALRKLRVGYSSRALAQYI 360 >gi|56752254|ref|YP_172955.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 6301] gi|81300658|ref|YP_400866.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 7942] gi|56687213|dbj|BAD80435.1| group2 RNA polymerase sigma factor RpoD5 [Synechococcus elongatus PCC 6301] gi|81169539|gb|ABB57879.1| group2 RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 7942] Length = 398 Score = 228 bits (580), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 114/242 (47%), Positives = 165/242 (68%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E AK M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTY Sbjct: 155 EGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTY 214 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q ITR+IA QS TIR+PVH+ +K++++ + R+++ R EEIA++L M Sbjct: 215 AYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRKIAQTKGRTANLEEIAQELEMT 274 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + VR+VL + ISLET +G E + LGD +E + +P + Q +L R+L Sbjct: 275 PDQVREVLLRVPKSISLETRVGKEKDTELGDLLETTD-FTPEERLTQESLSNDLQRLLLE 333 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L RE V+RMRFG+ ++L E+G+ ++RER+RQIEAKA++KL+HP R ++R + Sbjct: 334 LNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKALQKLRHPRRRNQIRDY 393 Query: 680 LD 681 L+ Sbjct: 394 LE 395 >gi|297170837|gb|ADI21856.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured verrucomicrobium HF0130_25O04] Length = 303 Score = 228 bits (580), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 109/256 (42%), Positives = 175/256 (68%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ IS +++ E + S ++ G+ +A ++ M+ ANLRLV+ +AK+Y+N GL LD Sbjct: 13 LRQISTVPLLTVEEEIELASRIKNGDEKA---RETMITANLRLVVKIAKEYSNIGLSLLD 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIGLMKA E+FD G K STY WW+KQAI R++A+QS TIR+PVHM D++ ++ Sbjct: 70 LINEGNIGLMKAVERFDPSKGGKLSTYGAWWIKQAIKRALANQSKTIRLPVHMVDRVTQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 RT+ +++ K+ REPT EE+A ++ +PV + + ++++P SL++P+G+ D S LG+ + Sbjct: 130 RRTSVQLAEKLGREPTDEELAAEMNLPVARITLLKSVSRKPASLDSPLGENDGSTLGEMV 189 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D+ + +P + +L VLA L PRE ++R+RFG+ TLEEVG++ VT Sbjct: 190 ADEKSANPYEHLQSKSLVGDVNSVLAQLEPREADIIRLRFGLEGLEPLTLEEVGEKIGVT 249 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQ++ +A+R+L+ Sbjct: 250 RERVRQLQEQALRQLR 265 >gi|26554290|ref|NP_758224.1| RNA polymerase sigma factor [Mycoplasma penetrans HF-2] gi|26454299|dbj|BAC44628.1| RNA polymerase sigma factor [Mycoplasma penetrans HF-2] Length = 427 Score = 227 bits (579), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 115/243 (47%), Positives = 169/243 (69%), Gaps = 7/243 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +NLRLV S+AKKY NRGL DL+QEG++GLMKA KFD+ LG KFSTYA WW Sbjct: 179 AINQLMTSNLRLVTSIAKKYLNRGLDLEDLLQEGSLGLMKAITKFDYKLGNKFSTYATWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 ++QAITR+IADQ+ TIRIPVHM + I+K+ + R++ + R+PTPEE+A + G Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLSKAERQLMQEYGRDPTPEELADAMDGTAAGF 298 Query: 563 -VRKVLKITK---EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +K+L I K +P+SL+ P+G ++ S DF++D + ++P + + E +L Sbjct: 299 TAKKILNIKKLNIDPVSLDKPVGKDEESKFVDFVKDDDNLNPEQFTEKELMGEHIDDILK 358 Query: 619 S-LTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +EE ++RMR+G+ + TLEEVG+++ +TRER+RQIEAKA+RK+KHPS+S L Sbjct: 359 KFLQEKEEDIIRMRYGLPPYSHPMTLEEVGEKYGITRERVRQIEAKALRKIKHPSKSGIL 418 Query: 677 RSF 679 + F Sbjct: 419 KGF 421 >gi|126699102|ref|YP_001087999.1| RNA polymerase sigma factor rpoD [Clostridium difficile 630] gi|115250539|emb|CAJ68363.1| RNA polymerase sigma factor SigA2 (sigma-43) [Clostridium difficile] Length = 296 Score = 227 bits (579), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 117/243 (48%), Positives = 167/243 (68%), Gaps = 6/243 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +S+AK++ + +N RLV+S+AK+Y + LDLIQ GNIGL+KA EK+D+ GYKFSTYA Sbjct: 55 SSVAKEKFINSNYRLVVSIAKRYKRDSIDMLDLIQAGNIGLIKAVEKYDYKKGYKFSTYA 114 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+ITR I D TIRIP+H+ +I+ V + + + N + REPT +EIA + V Sbjct: 115 TWWIKQSITRYIDDCENTIRIPIHLHQRINFVKKKKQELLNVLLREPTIDEIADACGLEV 174 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIED----KNAVSPLDSAIQANLRETTTRV 616 + V ++L+ K +SL+TP+ +++ S L +FI K+ V + Q NL+E + Sbjct: 175 DKVLELLRRDKNVVSLDTPLKEDEDSSLVEFIPSDADFKDVV--IHEVEQHNLKEKIEEL 232 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L +E++VLRMRFGI + TLE++GK F VTRERIRQIEAKAIRKL+HPS+ K+L Sbjct: 233 LTGLGEQEQQVLRMRFGIDDDDPKTLEQIGKVFGVTRERIRQIEAKAIRKLRHPSKLKQL 292 Query: 677 RSF 679 + F Sbjct: 293 KHF 295 >gi|254975054|ref|ZP_05271526.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-66c26] gi|255092443|ref|ZP_05321921.1| RNA polymerase sigma factor rpoD [Clostridium difficile CIP 107932] gi|255100524|ref|ZP_05329501.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-63q42] gi|255308764|ref|ZP_05352935.1| RNA polymerase sigma factor rpoD [Clostridium difficile ATCC 43255] gi|255314181|ref|ZP_05355764.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-76w55] gi|255516860|ref|ZP_05384536.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-97b34] gi|255649961|ref|ZP_05396863.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-37x79] gi|306520043|ref|ZP_07406390.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-32g58] Length = 294 Score = 227 bits (579), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 117/243 (48%), Positives = 167/243 (68%), Gaps = 6/243 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +S+AK++ + +N RLV+S+AK+Y + LDLIQ GNIGL+KA EK+D+ GYKFSTYA Sbjct: 53 SSVAKEKFINSNYRLVVSIAKRYKRDSIDMLDLIQAGNIGLIKAVEKYDYKKGYKFSTYA 112 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+ITR I D TIRIP+H+ +I+ V + + + N + REPT +EIA + V Sbjct: 113 TWWIKQSITRYIDDCENTIRIPIHLHQRINFVKKKKQELLNVLLREPTIDEIADACGLEV 172 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIED----KNAVSPLDSAIQANLRETTTRV 616 + V ++L+ K +SL+TP+ +++ S L +FI K+ V + Q NL+E + Sbjct: 173 DKVLELLRRDKNVVSLDTPLKEDEDSSLVEFIPSDADFKDVV--IHEVEQHNLKEKIEEL 230 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L +E++VLRMRFGI + TLE++GK F VTRERIRQIEAKAIRKL+HPS+ K+L Sbjct: 231 LTGLGEQEQQVLRMRFGIDDDDPKTLEQIGKVFGVTRERIRQIEAKAIRKLRHPSKLKQL 290 Query: 677 RSF 679 + F Sbjct: 291 KHF 293 >gi|260683114|ref|YP_003214399.1| RNA polymerase sigma factor rpoD [Clostridium difficile CD196] gi|260686712|ref|YP_003217845.1| RNA polymerase sigma factor rpoD [Clostridium difficile R20291] gi|260209277|emb|CBA62619.1| RNA polymerase sigma factor rpoD [Clostridium difficile CD196] gi|260212728|emb|CBE03837.1| RNA polymerase sigma factor rpoD [Clostridium difficile R20291] Length = 301 Score = 227 bits (579), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 117/243 (48%), Positives = 167/243 (68%), Gaps = 6/243 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +S+AK++ + +N RLV+S+AK+Y + LDLIQ GNIGL+KA EK+D+ GYKFSTYA Sbjct: 60 SSVAKEKFINSNYRLVVSIAKRYKRDSIDMLDLIQAGNIGLIKAVEKYDYKKGYKFSTYA 119 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+ITR I D TIRIP+H+ +I+ V + + + N + REPT +EIA + V Sbjct: 120 TWWIKQSITRYIDDCENTIRIPIHLHQRINFVKKKKQELLNVLLREPTIDEIADACGLEV 179 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIED----KNAVSPLDSAIQANLRETTTRV 616 + V ++L+ K +SL+TP+ +++ S L +FI K+ V + Q NL+E + Sbjct: 180 DKVLELLRRDKNVVSLDTPLKEDEDSSLVEFIPSDADFKDVV--IHEVEQHNLKEKIEEL 237 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L +E++VLRMRFGI + TLE++GK F VTRERIRQIEAKAIRKL+HPS+ K+L Sbjct: 238 LTGLGEQEQQVLRMRFGIDDDDPKTLEQIGKVFGVTRERIRQIEAKAIRKLRHPSKLKQL 297 Query: 677 RSF 679 + F Sbjct: 298 KHF 300 >gi|160902085|ref|YP_001567666.1| RpoD family RNA polymerase sigma factor [Petrotoga mobilis SJ95] gi|160359729|gb|ABX31343.1| RNA polymerase, sigma 70 subunit, RpoD family [Petrotoga mobilis SJ95] Length = 424 Score = 227 bits (579), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 115/252 (45%), Positives = 168/252 (66%), Gaps = 5/252 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ + A++E+++ANLRLVIS+AK+Y GL FLDLIQEGNIGLMKA KFDW Sbjct: 171 LARRAQMGDKRAREELIKANLRLVISIAKRYVGHGLGFLDLIQEGNIGLMKAVAKFDWKK 230 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTY+ WW++QAITR+IADQ T+RIPVH+ + I+++ R + + P EE+ Sbjct: 231 GYKFSTYSYWWIRQAITRAIADQGRTVRIPVHLVETINRMNRVVNKYIQENGEVPDLEEL 290 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQAN 608 + + PV+ +++VL K SL PI + E S + DFI D ++ +P + + Sbjct: 291 SVLMDKPVDKMKEVLISAKNIFSLNAPISNDVDAEGESEVLDFI-DSDSPTPDEEGRKMI 349 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +R+ ++ +L+P+E +L+MR+G TLEEVG+ F VTRERIRQIE+K+IRKLK Sbjct: 350 IRQKMEMIIDTLSPKEAMILKMRYGFVDGKQKTLEEVGEFFNVTRERIRQIESKSIRKLK 409 Query: 669 HPSRSKKLRSFL 680 HP+R K + + + Sbjct: 410 HPARKKMIENII 421 >gi|26665382|dbj|BAC44902.1| principal sigma factor [Anabaena planctonica TAC421] Length = 203 Score = 227 bits (579), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 112/204 (54%), Positives = 150/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D + LRE +VL SL PRE VL Sbjct: 121 SAQSPISLETPIGKEEDSRLGDFIESEGE-TPEDQVSKNLLREDLEKVLDSLGPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|23978369|dbj|BAC21149.1| principal sigma factor [Pseudanabaena sp. PCC 7403] Length = 203 Score = 227 bits (578), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 111/204 (54%), Positives = 151/204 (74%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPDDQVAKSLLREDLESVLGTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|291566491|dbj|BAI88763.1| group 2 RNA polymerase sigma factor SigC [Arthrospira platensis NIES-39] Length = 385 Score = 227 bits (578), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 115/271 (42%), Positives = 182/271 (67%), Gaps = 2/271 (0%) Query: 412 EIKSISVETGISISEFRHI-VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 E+K I E +E ++ V +++ + E AK M++ANLRLV+SVAKKY NRGL+ Sbjct: 113 ELKQIMAEGKRCWAELANLSVEELKQVQREGIQAKDHMIKANLRLVVSVAKKYQNRGLEL 172 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEG +GL +A EKFD GY+FSTY+ WW++Q ITR+IA QS TIR+PVH+ +K++ Sbjct: 173 LDLIQEGTLGLERAVEKFDPTRGYRFSTYSYWWIRQGITRAIATQSRTIRLPVHITEKLN 232 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 K+ + R++S + R T ++IA +L M + +R+VL +SLET +G + + LGD Sbjct: 233 KIKKAQRKISQEKSRTATIDDIATELKMTPDQIREVLLRVPRSVSLETKVGTDKDTELGD 292 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E + + +P + ++ +L +LA L+ +E V++MR+G+G ++L E+G+ Sbjct: 293 LLETEES-TPEELLMRESLYRELQHILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALD 351 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++RER+RQIEAKA++KL+ P R ++R +LD Sbjct: 352 LSRERVRQIEAKALQKLRQPKRRNRVRDYLD 382 >gi|9837536|gb|AAG00589.1|AF288784_1 SigC [Synechococcus elongatus PCC 7942] Length = 398 Score = 227 bits (578), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 114/242 (47%), Positives = 164/242 (67%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E AK M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTY Sbjct: 155 EGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTY 214 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q ITR+IA QS TIR+PVH+ +K+ ++ + R+++ R EEIA++L M Sbjct: 215 AYWWIRQGITRAIATQSRTIRLPVHVTEKLTRIKKAQRKIAQTKGRTANLEEIAQELEMT 274 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + VR+VL + ISLET +G E + LGD +E + +P + Q +L R+L Sbjct: 275 PDQVREVLLRVPKSISLETRVGKEKDTELGDLLETTD-FTPEERLTQESLSNDLQRLLLE 333 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L RE V+RMRFG+ ++L E+G+ ++RER+RQIEAKA++KL+HP R ++R + Sbjct: 334 LNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKALQKLRHPRRRNQIRDY 393 Query: 680 LD 681 L+ Sbjct: 394 LE 395 >gi|218661052|ref|ZP_03516982.1| RNA polymerase sigma factor RpoD [Rhizobium etli IE4771] Length = 276 Score = 226 bits (577), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 148/301 (49%), Positives = 184/301 (61%), Gaps = 47/301 (15%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 M K N D++ E + + D + D SDD+ KKMIK A++RGYVT++ELNA LP +EV+S Sbjct: 1 MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS 60 Query: 61 EQMEDTVAMLSNMGINVVD-----------------GDDLEDEEGSEDSLDLASSASNSS 103 EQ+EDT++MLS+MGINV++ ED EG E LA S ++ Sbjct: 61 EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGGDEDSEGGE----LAPSG-GTA 115 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 + K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLT Sbjct: 116 LATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLT 174 Query: 164 FQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERD 221 FQALIIWRDELN+GTTLLREIIDLE GPE+K F E ++ +EK R Sbjct: 175 FQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR- 233 Query: 222 DVQETEGDIESAAKVSKDDRSKVDS---PPENAENDERNLDEDEDDSAHTLSAMEDQLRP 278 A+ DD + V PPE E DE S +L+AME +LRP Sbjct: 234 -----------RARSGDDDITDVGGEGLPPEEEEEDEDE-------SNLSLAAMEAELRP 275 Query: 279 K 279 + Sbjct: 276 Q 276 >gi|47459124|ref|YP_015986.1| RNA polymerase sigma factor [Mycoplasma mobile 163K] gi|47458453|gb|AAT27775.1| DNA-directed RNA polymerase sigma factor [Mycoplasma mobile 163K] Length = 488 Score = 226 bits (577), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 109/241 (45%), Positives = 163/241 (67%), Gaps = 9/241 (3%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ NLRLVI+ AKKY NRGL F+DLI EGN GL+KAA K+D+ G+KFSTYA WWV+QA Sbjct: 243 LIHHNLRLVINNAKKYKNRGLSFIDLISEGNAGLIKAATKYDYRRGFKFSTYATWWVRQA 302 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA--MPVEGVRK 565 ITR++ADQ+ +R+PVHM + I+K+++ R + ++ PT ++IA+K E V+ Sbjct: 303 ITRAVADQARIVRVPVHMVETINKIIKIERELHQELGVPPTDKQIAEKYGNNFTAEKVQY 362 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + KI +PISL+ IG +D S DF++D++ VSPL+ A Q L T +L E Sbjct: 363 IRKINIDPISLDKSIGKDDDSSFSDFVKDESVVSPLEFASQNELSGILTDILEKHLDEAE 422 Query: 626 R-VLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 R +++ RFGIG++ D H+LEE+ + +++E++R +E+K +RKLKHP + KKL+ Sbjct: 423 RDLIKKRFGIGVDKDGNRISSHSLEELAAELQISKEKVRSLESKILRKLKHPQKRKKLKE 482 Query: 679 F 679 F Sbjct: 483 F 483 >gi|255655509|ref|ZP_05400918.1| RNA polymerase sigma factor rpoD [Clostridium difficile QCD-23m63] Length = 294 Score = 226 bits (577), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 116/243 (47%), Positives = 167/243 (68%), Gaps = 6/243 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +S+AK++ + +N RLV+S+AK+Y + LDLIQ GNIGL+KA EK+D+ GYKFSTYA Sbjct: 53 SSVAKEKFINSNYRLVVSIAKRYKRDSIDMLDLIQAGNIGLIKAVEKYDYKKGYKFSTYA 112 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+ITR I D TIRIP+H+ +I+ V + + + N + REPT +EIA + V Sbjct: 113 TWWIKQSITRYIDDCENTIRIPIHLHQRINFVKKKKQELLNVLLREPTIDEIADACGLEV 172 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIED----KNAVSPLDSAIQANLRETTTRV 616 + V ++L+ K +SL+TP+ +++ S L +FI K+ V + Q NL+E + Sbjct: 173 DKVLELLRRDKNVVSLDTPLKEDEDSSLVEFIPSDADFKDVV--MHEVEQHNLKEKIEEL 230 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L +E++VLRMRFGI + TLE++G+ F VTRERIRQIEAKAIRKL+HPS+ K+L Sbjct: 231 LTGLGEQEQQVLRMRFGIDDDDPKTLEQIGRVFGVTRERIRQIEAKAIRKLRHPSKLKQL 290 Query: 677 RSF 679 + F Sbjct: 291 KHF 293 >gi|172040574|ref|YP_001800288.1| RNA polymerase sigma factor SigB [Corynebacterium urealyticum DSM 7109] gi|171851878|emb|CAQ04854.1| RNA polymerase sigma factor B [Corynebacterium urealyticum DSM 7109] Length = 340 Score = 226 bits (576), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 112/241 (46%), Positives = 175/241 (72%), Gaps = 2/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTY Sbjct: 99 EGKAARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYKKGFKFSTY 158 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ +P Sbjct: 159 ATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQHLGREATYEELAEESGIP 218 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLA 618 + + ++K +++P+SL+ P+G ++ + LGDFIED A ++A+ A+LR + R VLA Sbjct: 219 EDRIEMLMKQSRDPVSLDMPVGTDEEAPLGDFIEDSEAED-AEAAVVASLRHSDIRSVLA 277 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE+ V+ +R+G+ TL+++G+QF ++RER+RQIE + + KL+ R+ KLR Sbjct: 278 TLEQREQDVITLRYGLDDGLPRTLDQIGRQFGLSRERVRQIEREVMAKLREGQRADKLRE 337 Query: 679 F 679 + Sbjct: 338 Y 338 >gi|254421571|ref|ZP_05035289.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196189060|gb|EDX84024.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 390 Score = 226 bits (576), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 105/225 (46%), Positives = 159/225 (70%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K++M+EANLRLV++VAKKY R L+FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 154 SKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLERGVEKFDPMKGYKFSTYAYWW 213 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ R R +S K+ R P EI ++L + + V Sbjct: 214 IRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELSQKLGRSPNAAEIGQELELEPKQV 273 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ IGD + L D +ED A SP D +Q +LR R+L+ LT + Sbjct: 274 REYLSIARQPISLDVRIGDNQDTELQDLLEDDGA-SPEDYTVQQSLRSDIFRMLSELTSQ 332 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ +RFG+ +L +VG++ ++RER+RQ+E +A++ L+ Sbjct: 333 QQEVINLRFGLADGNPLSLAKVGQRMGISRERVRQLEQQALKHLR 377 >gi|218439766|ref|YP_002378095.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172494|gb|ACK71227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 418 Score = 226 bits (576), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 121/290 (41%), Positives = 178/290 (61%), Gaps = 9/290 (3%) Query: 394 EWKNFVACEVDSILKIRNEIKSISVE-TGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 +W + V + +I NE K G+ + E I +K EA K M++AN Sbjct: 135 KWADAAEVSVFEVKQILNEGKRHWANLAGLKVQELEQI----QKAGIEA---KNHMIKAN 187 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+SVAK+Y NRGL+ LDLIQEG +GL +A EKFD GY+FSTYA WW++Q ITR+I Sbjct: 188 LRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAI 247 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 A QS IR+PVH+ +K++K+ + R+M+ R PT EE+A ++ M +R+VL Sbjct: 248 ATQSRIIRLPVHITEKLNKIKKAQRKMAQIKGRTPTMEELAVEVDMTAPQIREVLMRVPR 307 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 +SLE +G E + L D +E A SP +S + LR+ +LA LT RE V++MR+ Sbjct: 308 SVSLEIKVGKEKDTELVDLLETTEA-SPEESLVNETLRQDLQNLLADLTTREREVIQMRY 366 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 G ++L ++G+ ++RER+RQIEAKAI+KL+ P R ++R + + Sbjct: 367 GFKDGKCYSLADIGRALQLSRERVRQIEAKAIQKLRQPKRRNQIRDYFEA 416 >gi|296451502|ref|ZP_06893237.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP08] gi|296880149|ref|ZP_06904116.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP07] gi|296259567|gb|EFH06427.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP08] gi|296428874|gb|EFH14754.1| RNA polymerase sigma factor rpoD [Clostridium difficile NAP07] Length = 301 Score = 226 bits (576), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 116/243 (47%), Positives = 167/243 (68%), Gaps = 6/243 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +S+AK++ + +N RLV+S+AK+Y + LDLIQ GNIGL+KA EK+D+ GYKFSTYA Sbjct: 60 SSVAKEKFINSNYRLVVSIAKRYKRDSIDMLDLIQAGNIGLIKAVEKYDYKKGYKFSTYA 119 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+ITR I D TIRIP+H+ +I+ V + + + N + REPT +EIA + V Sbjct: 120 TWWIKQSITRYIDDCENTIRIPIHLHQRINFVKKKKQELLNVLLREPTIDEIADACGLEV 179 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIED----KNAVSPLDSAIQANLRETTTRV 616 + V ++L+ K +SL+TP+ +++ S L +FI K+ V + Q NL+E + Sbjct: 180 DKVLELLRRDKNVVSLDTPLKEDEDSSLVEFIPSDADFKDVV--MHEVEQHNLKEKIEEL 237 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L +E++VLRMRFGI + TLE++G+ F VTRERIRQIEAKAIRKL+HPS+ K+L Sbjct: 238 LTGLGEQEQQVLRMRFGIDDDDPKTLEQIGRVFGVTRERIRQIEAKAIRKLRHPSKLKQL 297 Query: 677 RSF 679 + F Sbjct: 298 KHF 300 >gi|168009782|ref|XP_001757584.1| predicted protein [Physcomitrella patens subsp. patens] gi|162691278|gb|EDQ77641.1| predicted protein [Physcomitrella patens subsp. patens] Length = 583 Score = 226 bits (575), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 121/273 (44%), Positives = 175/273 (64%), Gaps = 15/273 (5%) Query: 408 KIRNEI-KSISVETGISISEFRHIVSM--------VRKGECEASIAKKEMVEANLRLVIS 458 KIR E+ + I E ++SE+ VS+ V++G AK ++V +NLRLV+S Sbjct: 304 KIRAELQRDIGREP--TLSEWSQAVSLDQTSLELRVKEGRS----AKDKLVNSNLRLVVS 357 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 + K Y RG+ DLIQEG++GL++ AEKFD +GYKFSTYA WW++QA+TR+IADQS Sbjct: 358 IVKNYQGRGMTLPDLIQEGSLGLIRGAEKFDPEMGYKFSTYATWWIRQAVTRAIADQSRI 417 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+PVH+ + I ++ + +S ++ R+P EE+A + M VE + ++K + P S++ Sbjct: 418 IRLPVHIYEVISRINKAKMTISQELGRQPRDEEVAAMVGMSVEKLLFIVKSARPPTSMDR 477 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIG + LG+ + DK SP D + L++ VL SL P E VLR+RFG+ Sbjct: 478 PIGKDGEQSLGEMVADKGVGSPEDDIMTQVLKQDIEDVLRSLNPMEREVLRLRFGLSGAQ 537 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 TL+++G F VTRERIRQIEAKA+RKL+HPS Sbjct: 538 SMTLKDLGIIFKVTRERIRQIEAKALRKLRHPS 570 >gi|153814577|ref|ZP_01967245.1| hypothetical protein RUMTOR_00791 [Ruminococcus torques ATCC 27756] gi|317501262|ref|ZP_07959466.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089991|ref|ZP_08338881.1| hypothetical protein HMPREF1025_02464 [Lachnospiraceae bacterium 3_1_46FAA] gi|145848071|gb|EDK24989.1| hypothetical protein RUMTOR_00791 [Ruminococcus torques ATCC 27756] gi|316897329|gb|EFV19396.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330402905|gb|EGG82471.1| hypothetical protein HMPREF1025_02464 [Lachnospiraceae bacterium 3_1_46FAA] Length = 273 Score = 226 bits (575), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 108/226 (47%), Positives = 155/226 (68%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + E NLRLV+S+AK YT RGL +DLIQEGNIGLM AAEK+D+ +FSTYA WW Sbjct: 44 ARARLEEGNLRLVVSIAKHYTGRGLPLMDLIQEGNIGLMHAAEKYDYTKDNRFSTYASWW 103 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 +K+AITR+I QS IR+PVH+ + I +V + A+ + + RE P EIAKKL E Sbjct: 104 IKEAITRAIDQQSREIRVPVHVAENIKRVQKAAKELQQEFGREAEPGEIAKKLGDRTEEE 163 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V+ +L + P+SLETP+G++ LGDF+ED++ +P D+ +E +L +L Sbjct: 164 VKNILSYIRNPVSLETPVGEDGEDSLGDFVEDRSETTPEDAMDVLVRKEEVQELLETLND 223 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ V+ +RFG+G + +TLEE+G+ +TRER+RQIE+KA+ KL+ Sbjct: 224 REKEVISLRFGLGKDRTYTLEEIGESLGITRERVRQIESKAMEKLR 269 >gi|81300366|ref|YP_400574.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus PCC 7942] gi|81169247|gb|ABB57587.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus PCC 7942] Length = 310 Score = 226 bits (575), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 107/234 (45%), Positives = 165/234 (70%), Gaps = 1/234 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+FLDLIQEG +GL +A EKFD GYKFSTYA WW Sbjct: 75 AKERMIKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFSTYAFWW 134 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ ++ + R +++++ R P+ +EIA+ + +P+ + Sbjct: 135 IRQSMTRAIACQSRTIRLPVHLTERLSQIRKVTRELAHELGRLPSRQEIAEAVQLPLNDL 194 Query: 564 RKVLKITKEPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ +++ SL+ P+ ED S LG+ I D N P+D A RE L LTP Sbjct: 195 ETILRQSRQCTSLDAPVSGEDGKSFLGELIADPNGNEPMDIMENAMQREQLDAWLEHLTP 254 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 +E +VL +RFG+G HTL E+G+ V+RER+RQ+E KA+RKL++ ++ ++ Sbjct: 255 QERQVLYLRFGLGDGERHTLAEIGRMMEVSRERVRQVEVKALRKLRNLTKRSRI 308 >gi|56750024|ref|YP_170725.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus PCC 6301] gi|56684983|dbj|BAD78205.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus PCC 6301] Length = 316 Score = 226 bits (575), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 107/234 (45%), Positives = 165/234 (70%), Gaps = 1/234 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+FLDLIQEG +GL +A EKFD GYKFSTYA WW Sbjct: 81 AKERMIKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFSTYAFWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ ++ + R +++++ R P+ +EIA+ + +P+ + Sbjct: 141 IRQSMTRAIACQSRTIRLPVHLTERLSQIRKVTRELAHELGRLPSRQEIAEAVQLPLNDL 200 Query: 564 RKVLKITKEPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ +++ SL+ P+ ED S LG+ I D N P+D A RE L LTP Sbjct: 201 ETILRQSRQCTSLDAPVSGEDGKSFLGELIADPNGNEPMDIMENAMQREQLDAWLEHLTP 260 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 +E +VL +RFG+G HTL E+G+ V+RER+RQ+E KA+RKL++ ++ ++ Sbjct: 261 QERQVLYLRFGLGDGERHTLAEIGRMMEVSRERVRQVEVKALRKLRNLTKRSRI 314 >gi|40353299|gb|AAR84413.1| alternative primary sigma 70 factor [Frankia sp. ORS020607] Length = 220 Score = 226 bits (575), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 152/207 (73%), Gaps = 4/207 (1%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +V+ G AK+++V ANLRLV+SVAKKY+ RG+ LDL+QEGN+GL++A EK Sbjct: 11 RDLGLLVKDGHA----AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEK 66 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD+ GYKFSTYA WW++QAI R++ADQ+ TIRIPVH+ ++I+K+ R R++ + + REP Sbjct: 67 FDYAKGYKFSTYATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREP 126 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EE+A +L MP+E V ++ + ++ +SLET +GD+ S LGDFIED +A SP D+A Sbjct: 127 TDEELALELDMPIEQVVELRRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYG 186 Query: 608 NLRETTTRVLASLTPREERVLRMRFGI 634 +++ VL L+PRE V+R+RFG+ Sbjct: 187 AMQDEIENVLGGLSPREREVMRLRFGL 213 >gi|209525810|ref|ZP_03274346.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209493783|gb|EDZ94102.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 407 Score = 225 bits (574), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 117/288 (40%), Positives = 183/288 (63%), Gaps = 9/288 (3%) Query: 395 WKNFVACEVDSILKIRNEIKSISVE-TGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 W V + +I E K E +S+ E + + + E AK M++ANL Sbjct: 125 WAAAGGVNVAQLKQIMAEGKRCWAELANLSVEELKQV-------QREGLQAKDHMIKANL 177 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FSTY+ WW++Q ITR+IA Sbjct: 178 RLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSYWWIRQGITRAIA 237 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 QS TIR+PVH+ +K++K+ + R++S + R T ++IA +L M + +R+VL Sbjct: 238 TQSRTIRLPVHITEKLNKIKKAQRKISQEKSRTATIDDIATELKMTPDQIREVLLRVPRS 297 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 +SLET +G + + LGD +E + + +P + ++ +L +LA L+ +E V++MR+G Sbjct: 298 VSLETKVGTDKDTELGDLLETEES-TPEELLMRESLYRELQNLLADLSGKERAVIQMRYG 356 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +G ++L E+G+ ++RER+RQIEAKA++KL+ P R ++R +LD Sbjct: 357 LGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRDYLD 404 >gi|168703618|ref|ZP_02735895.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM 2246] Length = 521 Score = 225 bits (574), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 113/276 (40%), Positives = 169/276 (61%), Gaps = 2/276 (0%) Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 ++ +++ ++ E +V ++RK +KE+ EANLRLV+S+AK Y NRG Sbjct: 244 RLGRQLRDAECRACMTADELAALVRVLRKRRLAYQAVRKELAEANLRLVVSIAKNYRNRG 303 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 L F DLIQEGN GLM+A +K++W L +KF TYA WWV+Q ITR++ D + T+R+P H Sbjct: 304 LPFSDLIQEGNRGLMRAVDKYEWRLEFKFGTYATWWVRQGITRALHDNARTVRVPCHQIS 363 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 + ++ + ++ REPT EE+A+ L + E R + + + P+SL +G + Sbjct: 364 LLSRMEKLRGELTVATGREPTSEELAEALGVKPEEARSLRIVGRHPVSLNDSVGGDGERA 423 Query: 588 LGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D + +SP + AN L+E VL SL PRE V+ +RFG+ T TL+EV Sbjct: 424 LEDFLSDTH-ISPPGEHVDANLLKERIGEVLKSLAPREREVIELRFGLKDGTPKTLDEVA 482 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 KQ+ +TRERIRQIEA+ + KL+ P+RS +L F D Sbjct: 483 KQYGITRERIRQIEARGLLKLRQPTRSCRLEEFADA 518 Score = 45.1 bits (105), Expect = 0.040, Method: Compositional matrix adjust. Identities = 22/44 (50%), Positives = 30/44 (68%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 DD + +YLR+MGSI LL+RE E+A+AKR+E R A+ P Sbjct: 68 DDALGLYLRQMGSIPLLNREKELALAKRLEHHRNRFRAAALLCP 111 >gi|189916717|gb|ACE62869.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 225 bits (574), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 108/159 (67%), Positives = 131/159 (82%) Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM++ I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ETPIGD Sbjct: 1 VHMKETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGD 60 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 61 DEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTL 120 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 121 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 159 >gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002] Length = 398 Score = 225 bits (574), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 115/273 (42%), Positives = 178/273 (65%), Gaps = 8/273 (2%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IR + + + G+S+ E I+ K AK+ M++ANLRLV+SVAKKY NRGL Sbjct: 131 IRQGKQRWAEQVGLSVKELDSILKAGAK-------AKEHMIQANLRLVVSVAKKYQNRGL 183 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 + LDLIQEG +GL +A +KFD GY+FSTYA WW++Q ITR QS TIR+PVH+ +K Sbjct: 184 ELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQGITRGDRTQSRTIRLPVHVTEK 243 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 ++K+ + R++S P+ +++A+ L M E VR+VL+ +SLE +G + + L Sbjct: 244 LNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTEL 303 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GD +E ++A SP ++ ++ +L+ +L LT RE V+++R+G+G ++L E+G+ Sbjct: 304 GDLLETQDA-SPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRM 362 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 V+RER+RQIEAKA++KL+ P R +R +LD Sbjct: 363 LDVSRERVRQIEAKALQKLRQPKRRNIMRDYLD 395 >gi|23978337|dbj|BAC21138.1| principal sigma factor [Pseudanabaena sp. PCC 7367] Length = 203 Score = 224 bits (572), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 110/204 (53%), Positives = 150/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPDDQVAKNLLREDLENVLGTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 ++R+G+ TLEE+G+ F VT Sbjct: 180 KLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|170076992|ref|YP_001733630.1| group II sigma-70 type sigma factor [Synechococcus sp. PCC 7002] gi|1769590|gb|AAB95227.1| sigma factor [Synechococcus sp. PCC 7002] gi|169884661|gb|ACA98374.1| Group II sigma-70 type sigma factor (RpoD family) [Synechococcus sp. PCC 7002] Length = 365 Score = 224 bits (572), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 109/260 (41%), Positives = 178/260 (68%), Gaps = 5/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + + + + S + KG +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL Sbjct: 109 LGLETVKQLNSALYKGR----VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGL 164 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +AAEKFD GYKFSTYA WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + Sbjct: 165 NRAAEKFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQ 224 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++R PT E+A++L + + + ++L++ ++ +SL +G + + L D +ED P Sbjct: 225 TLQRNPTEAELAQELDITADQLHQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDGLQLPE 284 Query: 602 DSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + +A +R+ VL LT RE+ V+ +R+G+ HTLEEVG F ++RER+RQI+ Sbjct: 285 ERMSEAMMRQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGMFNLSRERVRQIQ 344 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 +KA+RKL+ P +++L+S+L Sbjct: 345 SKAMRKLRRPQVARRLKSWL 364 >gi|194246700|ref|YP_002004339.1| probable RNA polymerase sigma factor RpoD [Candidatus Phytoplasma mali] gi|193807057|emb|CAP18493.1| probable RNA polymerase sigma factor RpoD [Candidatus Phytoplasma mali] Length = 419 Score = 224 bits (572), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 123/259 (47%), Positives = 176/259 (67%), Gaps = 8/259 (3%) Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 ISE I+ + K AK +VEAN RLV+S+AK+Y RGL+FLDLIQEGN GLM+ Sbjct: 163 ISELNDILKISNK-------AKHRLVEANYRLVVSIAKRYIRRGLEFLDLIQEGNRGLMR 215 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A EKF+ G K STYA +W+ Q I R++ADQ+ IR+PVH+ D+I+ + ++ K+ Sbjct: 216 AIEKFNIDKGCKLSTYATFWIVQKILRAVADQARIIRLPVHIVDRINIISMAKSKLRLKL 275 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPT EE+++ + + + +R + I K+PISLE +G++D S LG+FI D +++SP D Sbjct: 276 HREPTIEELSEFINISEKKLRIIEIIKKKPISLEARVGEKDDSSLGEFISDPDSLSPHDY 335 Query: 604 AIQANLRETTTRVLA-SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +Q ++ T +L +LT REE++LRMR+G+ HTLEEVG F VTRERIRQIEAK Sbjct: 336 MLQEIMKNTLNEILEDTLTDREEKILRMRYGLSNGKVHTLEEVGNVFGVTRERIRQIEAK 395 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A R+L+ P+R KL++ + Sbjct: 396 AFRRLRTPARQNKLKTLYN 414 >gi|22298374|ref|NP_681621.1| RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] gi|22294553|dbj|BAC08383.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 309 Score = 224 bits (572), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 108/251 (43%), Positives = 175/251 (69%), Gaps = 7/251 (2%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +++++GE AK++M+EANLRLV+SVAKKY R L+ LDL+QEG +GL + EKFD Sbjct: 64 LCNILKRGER----AKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFD 119 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 GYKFSTYA WW++QAITR+IA Q+ TIR+P+H+ +K++K+ RT R ++ K+ R TP Sbjct: 120 PTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 179 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+AK L + E +R+ L + ++P+SL+ +GD + LG+ +ED +++SP +L Sbjct: 180 AEVAKALELEPEQIREYLTLARQPVSLDLRVGDNQDTELGELLED-DSLSPEQFTTVESL 238 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ LA LTP++ +VL +R+G+G + +L +VG+Q ++RER+RQ+E +A+ L+ Sbjct: 239 RDDVNLWLAELTPQQRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALDHLRR 298 Query: 670 PSRSKKLRSFL 680 R +++ +L Sbjct: 299 --RRQQMYEYL 307 >gi|23978365|dbj|BAC21147.1| principal sigma factor [Leptolyngbya sp. PCC 7375] Length = 203 Score = 224 bits (572), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 110/204 (53%), Positives = 151/204 (74%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL++L+P E VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPEDEVSKSLLREDLEGVLSTLSPSERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|197302434|ref|ZP_03167489.1| hypothetical protein RUMLAC_01162 [Ruminococcus lactaris ATCC 29176] gi|197298332|gb|EDY32877.1| hypothetical protein RUMLAC_01162 [Ruminococcus lactaris ATCC 29176] Length = 283 Score = 224 bits (571), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 105/227 (46%), Positives = 161/227 (70%), Gaps = 1/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + E NLRLV+S+AK YT RG+ +DLIQEGNIGLM+A EK+D+ +FSTYA WW Sbjct: 53 ARRRLEEGNLRLVVSIAKHYTGRGIPLMDLIQEGNIGLMRAVEKYDFTKENRFSTYASWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 +K+AI R+I QS IR+PVH+ + + KV R ++ + + RE TPEEIA+KL E Sbjct: 113 IKEAIQRAIDQQSREIRVPVHVAEAMKKVQRISKELQQSLGREATPEEIAEKLGDKSTED 172 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V+ +L + P+SLETP+G++ ++LGD +EDK + +P ++ +E + +L +L Sbjct: 173 VKNILSYLQNPVSLETPVGEDGENNLGDMVEDKASPTPEEAMNLLVQKEEVSELLNALND 232 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE++V+R+R+G+ HTLEE+G++ VTRER+RQIE++A+ KL++ Sbjct: 233 REKQVIRLRYGLEDGKTHTLEEIGEELKVTRERVRQIESRAMEKLRN 279 >gi|148358826|ref|YP_001250033.1| stationary phase specific sigma factor RpoS [Legionella pneumophila str. Corby] gi|296106871|ref|YP_003618571.1| stationary phase specific sigma factor RpoS [Legionella pneumophila 2300/99 Alcoy] gi|148280599|gb|ABQ54687.1| stationary phase specific sigma factor RpoS [Legionella pneumophila str. Corby] gi|295648772|gb|ADG24619.1| stationary phase specific sigma factor RpoS [Legionella pneumophila 2300/99 Alcoy] Length = 341 Score = 224 bits (571), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 105/240 (43%), Positives = 170/240 (70%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++ KG+ EA +K+M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GLMK+ EKF Sbjct: 91 HYATLALKGDMEA---RKKMIESNLRLVVKIARRYLNRGLPLLDLIEEGNLGLMKSVEKF 147 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR+++ K+ EP+ Sbjct: 148 DPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARQLTQKLDHEPS 207 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA+ + P+E V+K+L + + S++TPIG ++T L D I D+N+++P + N Sbjct: 208 PEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDTIADENSLNPAELLTNEN 267 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ +L LT +++V+ RFG+ TLE+VGK+ +TRER+RQI+ +A++ L+ Sbjct: 268 LRQHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLTRERVRQIQVEALKTLR 327 >gi|5771430|gb|AAD51396.1|AF117715_5 stationary phase specific sigma factor homolog [Legionella pneumophila] Length = 341 Score = 224 bits (571), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 105/240 (43%), Positives = 170/240 (70%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++ KG+ EA +K+M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GLMK+ EKF Sbjct: 91 HYATLALKGDMEA---RKKMIESNLRLVVKIARRYLNRGLPLLDLIEEGNLGLMKSVEKF 147 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR+++ K+ EP+ Sbjct: 148 DPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARQLTQKLDHEPS 207 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA+ + P+E V+K+L + + S++TPIG ++T L D I D+N+++P + N Sbjct: 208 PEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDTIADENSLNPAELLTNEN 267 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ +L LT +++V+ RFG+ TLE+VGK+ +TRER+RQI+ +A++ L+ Sbjct: 268 LRQHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLTRERVRQIQVEALKTLR 327 >gi|54294183|ref|YP_126598.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Lens] gi|54297202|ref|YP_123571.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Paris] gi|53750987|emb|CAH12398.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Paris] gi|53754015|emb|CAH15486.1| RNA polymerase sigma factor RpoS [Legionella pneumophila str. Lens] gi|307609996|emb|CBW99528.1| RNA polymerase sigma factor RpoS [Legionella pneumophila 130b] Length = 341 Score = 224 bits (571), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 105/240 (43%), Positives = 170/240 (70%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++ KG+ EA +K+M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GLMK+ EKF Sbjct: 91 HYATLALKGDMEA---RKKMIESNLRLVVKIARRYLNRGLPLLDLIEEGNLGLMKSVEKF 147 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR+++ K+ EP+ Sbjct: 148 DPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARQLTQKLDHEPS 207 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA+ + P+E V+K+L + + S++TPIG ++T L D I D+N+++P + N Sbjct: 208 PEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDTIADENSLNPAELLTNEN 267 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ +L LT +++V+ RFG+ TLE+VGK+ +TRER+RQI+ +A++ L+ Sbjct: 268 LRQHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLTRERVRQIQVEALKTLR 327 >gi|330961077|gb|EGH61337.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. maculicola str. ES4326] Length = 167 Score = 224 bits (570), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 109/164 (66%), Positives = 134/164 (81%) Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ MP + +RKVLKI KEPIS+E Sbjct: 3 TIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISME 62 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLRMRFGI MN Sbjct: 63 TPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLRMRFGIDMN 122 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TDHTLEEVGKQF VTRERIRQIEAKA+RKL+HP+RS+ LRSFLD Sbjct: 123 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFLD 166 >gi|254421657|ref|ZP_05035375.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family, putative [Synechococcus sp. PCC 7335] gi|196189146|gb|EDX84110.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family, putative [Synechococcus sp. PCC 7335] Length = 467 Score = 224 bits (570), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 107/257 (41%), Positives = 175/257 (68%), Gaps = 1/257 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + F + +R+ +A AK+ M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A Sbjct: 210 TAFGYTEGQLRQKLRQARAAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRA 269 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 AEKFD GYKFSTYA WW++Q ITR+IA+ + TIR+P+H+ +K++K+ + R + +++ Sbjct: 270 AEKFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRKELQ 329 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 R PT E+A L M E +R + ++ ++ +SL +G + + L + +ED N++SP Sbjct: 330 RTPTEVEVAAALEMTPEQLRTLQQVQRKSLSLNHRVGKGEDTELMELLEDGNSLSPESQI 389 Query: 605 IQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +R+ + VL LT RE+ ++ +R+G+ HTLEEVG F ++RER+RQI+ KA Sbjct: 390 SESMMRQEISDVLTEVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKA 449 Query: 664 IRKLKHPSRSKKLRSFL 680 +RKL+ P + +L+++L Sbjct: 450 MRKLRRPQVAARLKNWL 466 >gi|23978350|dbj|BAC21142.1| principal sigma factor [Xenococcus sp. PCC 7307] Length = 203 Score = 224 bits (570), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 111/204 (54%), Positives = 150/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQERGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDQVSKSLLREDLESVLDTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|282897491|ref|ZP_06305492.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281197586|gb|EFA72481.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 429 Score = 224 bits (570), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 167/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA WW Sbjct: 190 AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 249 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E++A +L M V Sbjct: 250 IRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQV 309 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLET +G + + LG+ +E + ++P ++ ++ +L++ +L+ LT R Sbjct: 310 REVLLRVPRSVSLETKVGKDKDTELGELLE-TDTITPEETLMRESLQKDIHHLLSDLTTR 368 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P R +R +L+ Sbjct: 369 EREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQPKRRNLVRDYLE 426 >gi|52841515|ref|YP_095314.1| stationary phase specific sigma factor RpoS [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628626|gb|AAU27367.1| stationary phase specific sigma factor RpoS [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 359 Score = 224 bits (570), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 105/240 (43%), Positives = 170/240 (70%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++ KG+ EA +K+M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GLMK+ EKF Sbjct: 109 HYATLALKGDMEA---RKKMIESNLRLVVKIARRYLNRGLPLLDLIEEGNLGLMKSVEKF 165 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR+++ K+ EP+ Sbjct: 166 DPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARQLTQKLDHEPS 225 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA+ + P+E V+K+L + + S++TPIG ++T L D I D+N+++P + N Sbjct: 226 PEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDETKSLLDTIADENSLNPAELLTNEN 285 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ +L LT +++V+ RFG+ TLE+VGK+ +TRER+RQI+ +A++ L+ Sbjct: 286 LRQHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLTRERVRQIQVEALKTLR 345 >gi|23978335|dbj|BAC21137.1| principal sigma factor [Phormidium sp. IAM M-99] Length = 203 Score = 223 bits (569), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 110/204 (53%), Positives = 150/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++N RLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNFRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D + LRE VLA+L+PRE+ VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLEGVLATLSPREKDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+ +G+ TLEE+G+ F VT Sbjct: 180 RLHYGLDDGRMKTLEEIGQIFNVT 203 >gi|302867958|ref|YP_003836595.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|302570817|gb|ADL47019.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] Length = 314 Score = 223 bits (569), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 112/235 (47%), Positives = 162/235 (68%), Gaps = 3/235 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A+ M+EANLRLV+SVAK+Y G L LDLIQEG IGLM+A EKFD G KFSTYA W Sbjct: 76 ARHHMIEANLRLVVSVAKRYALAGRLPLLDLIQEGTIGLMRAVEKFDHRRGLKFSTYATW 135 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W+KQAI R++ DQS TIR+P H+ + +++V RT R ++ ++ REPTP E+A ++ +P E Sbjct: 136 WIKQAIGRALTDQSRTIRLPAHLVEVLNRVNRTRRTLAGELDREPTPAEVAARVEVPAEK 195 Query: 563 VRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V +L+ +EP+SL TP+ G T+ LGD + D+ A P + + R VL +L+ Sbjct: 196 VELLLRHDREPVSLHTPVAGAAGTTELGDLLPDE-APGPAGVVVSSWRRRYLDEVLGTLS 254 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 RE V+ R+G+ + TL+E+G + +TRER+RQIE++A+RKL+HP+R++ L Sbjct: 255 EREAAVICQRYGLDDDRPSTLDEIGTRIGLTRERVRQIESQALRKLRHPTRARVL 309 >gi|282900041|ref|ZP_06308000.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195073|gb|EFA70011.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 432 Score = 223 bits (569), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 167/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA WW Sbjct: 193 AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 252 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E++A +L M V Sbjct: 253 IRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQV 312 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLET +G + + LG+ +E + ++P ++ ++ +L++ +L+ LT R Sbjct: 313 REVLLRVPRSVSLETKVGKDKDTELGELLE-TDTITPEETLMRESLQKDIHHLLSDLTTR 371 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P R +R +L+ Sbjct: 372 EREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQPKRRNLVRDYLE 429 >gi|16331222|ref|NP_441950.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] gi|1001398|dbj|BAA10020.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 345 Score = 223 bits (569), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 102/225 (45%), Positives = 161/225 (71%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 109 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 168 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ +T R +S ++ R TP E+AK L + + Sbjct: 169 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRELSQQLGRSATPAEVAKALEIDPSQI 228 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L ++++PISL+ +GD + L + +ED+ VSP Q ++R+ +LA LTP+ Sbjct: 229 REYLSLSRQPISLDVRVGDNQDTELSELLEDE-GVSPDAYITQESMRQDLQNLLAELTPQ 287 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL MRFG+ + +L ++G+ ++RER+RQ+E +A+ +LK Sbjct: 288 QQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQLENQALAQLK 332 >gi|171322946|ref|ZP_02911628.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171091683|gb|EDT37240.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 498 Score = 223 bits (569), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 105/237 (44%), Positives = 153/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA E++D+ G++FSTYA WW Sbjct: 261 ARTGLFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWW 320 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + TP E+A + PV+ V Sbjct: 321 IRQAITHALADLGRTIRVPTHTVDALNKLSRLARAHRQRAGTAATPAELAVHMGEPVDKV 380 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + P+ E D D SP D+A A LR T T V+ L PR Sbjct: 381 RDLMAIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPEDAAGAAQLRRTITAVIDRLPPR 440 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ P LRSF+ Sbjct: 441 EAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLRAPDTLGLLRSFI 497 Score = 43.9 bits (102), Expect = 0.094, Method: Compositional matrix adjust. Identities = 36/111 (32%), Positives = 51/111 (45%), Gaps = 13/111 (11%) Query: 128 MGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL----NDGTTLLRE 183 MG+ LL+R+ E A A+RIE GRA A LC P AL+ R E+ + +T + Sbjct: 1 MGTTPLLTRDDEFAYAQRIERGRAASAAVLCGDPDALDALVSIRIEIAQCRSAASTYVIF 60 Query: 184 IIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAA 234 + D GP H G S ++ E RDD + IE++A Sbjct: 61 LDD-----GPRDNTTADHAEAGTS----ATAAGEPARDDDTQANTQIEASA 102 >gi|23978340|dbj|BAC21139.1| principal sigma factor [Stanieria cyanosphaera str. PCC 7437] Length = 203 Score = 223 bits (569), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 110/204 (53%), Positives = 150/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL +L+P E VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDQVSKSLLREDLENVLDTLSPSERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|254422659|ref|ZP_05036377.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196190148|gb|EDX85112.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 298 Score = 223 bits (568), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 113/262 (43%), Positives = 173/262 (66%), Gaps = 10/262 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GIS +E IV+ GE AK MVEANLRLV+SVAKKY R + LDLIQEG IG Sbjct: 47 GISEAELAAIVT---AGEQ----AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIG 99 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 + + EKFD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R+ + Sbjct: 100 MQRGVEKFDPSKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQFT 159 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + R PT EIA+ ++ VR+ L +++P+SL+ +GD + LGD +ED + +P Sbjct: 160 QQHGRTPTASEIAQATGFTIKQVREYLDRSRQPLSLDLKVGDNQDTQLGDLLED-DGQTP 218 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D A ++L+ R++A LTP++++V+ +RFG+ + TL ++G ++RER+RQIE Sbjct: 219 DDYATASSLKSDLKRIMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIE 278 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 +A+ KL+ R +R +L G Sbjct: 279 REALTKLR--KRQSDMREYLAG 298 >gi|189916711|gb|ACE62866.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] gi|189916713|gb|ACE62867.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] gi|189916715|gb|ACE62868.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 108/159 (67%), Positives = 130/159 (81%) Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+KI KEPIS+ETPIGD Sbjct: 1 VHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGD 60 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 61 DEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTL 120 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 121 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 159 >gi|307152078|ref|YP_003887462.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982306|gb|ADN14187.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 328 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 108/268 (40%), Positives = 186/268 (69%), Gaps = 6/268 (2%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSM----VRKGECEASIAKKEMVEANLRLVISVA 460 ++L+ ++E+ +I +E S++E+ + V M + + + AK++M+EANLRLV+++A Sbjct: 50 TLLEKKDEL-AIQLEREPSLTEWANHVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIA 108 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW++QAITR+IA Q+ TIR Sbjct: 109 KKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIR 168 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +P+H+ +K++K+ +T R +S ++ R TP EIAK L + + +R+ L ++++PISL+ + Sbjct: 169 LPIHITEKLNKIKKTQRELSQQLGRSATPSEIAKALDLEPDQIREFLSMSRQPISLDVRV 228 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GD + L + +ED+ +SP + Q +R+ +LA LTP++ VL +RFG+ + Sbjct: 229 GDNQDTELSELLEDE-GISPDNYITQELMRQDLQDLLAELTPQQREVLSLRFGLQDGKEL 287 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L ++G++ ++RER+RQ+E +A+ +L+ Sbjct: 288 SLAKIGQRMNISRERVRQLEHQALSQLR 315 >gi|3249733|gb|AAC26669.1| RNA polymerase sigma-like factor [Streptomyces peucetius] Length = 162 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 107/162 (66%), Positives = 131/162 (80%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REPTPEE+ +++ M Sbjct: 1 YATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEM 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ Sbjct: 61 PEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATRDVLS 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 121 GLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 162 >gi|298490007|ref|YP_003720184.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298231925|gb|ADI63061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 417 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 108/238 (45%), Positives = 167/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA WW Sbjct: 178 AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 237 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA S TIR+PVH+ +K++K+ + R++S + R PT E++A +L M V Sbjct: 238 IRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTLEDLAIELDMTPTQV 297 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLET +G + + LG+ +E ++++P + ++ +L++ +LA LT R Sbjct: 298 REVLLRVPRSVSLETKVGKDKDTELGELLE-TDSITPEEMLMRESLQKDLHHLLADLTSR 356 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P R +R +L+ Sbjct: 357 ERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNLIRDYLE 414 >gi|23978360|dbj|BAC21145.1| principal sigma factor [Pleurocapsa sp. PCC 7314] Length = 203 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 111/204 (54%), Positives = 149/204 (73%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V +NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQERGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D ++ LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIE-ADGETPEDQVSKSLLREDLESVLDTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|189916709|gb|ACE62865.1| RNA polymerase sigma 70 factor [Xylella fastidiosa] Length = 161 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 107/159 (67%), Positives = 130/159 (81%) Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VHM + I+K+ R +R+M + RE TPEE+AK++ MP + +RKV+K+ KEPIS+ETPIGD Sbjct: 1 VHMIETINKLNRISRQMLQQFGREATPEELAKEMDMPEDKIRKVMKVAKEPISMETPIGD 60 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 ++ SHLGDFIED N SP+D+ NL ET VLA LTPRE +VLRMRFGI MNTDHTL Sbjct: 61 DEDSHLGDFIEDPNVESPVDTTTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTL 120 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 EEVGKQF VTRERIRQIEAKA+RKL+HPSRS++LRSFLD Sbjct: 121 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLD 159 >gi|269114989|ref|YP_003302752.1| RNA polymerase sigma factor rpoD [Mycoplasma hominis] gi|268322614|emb|CAX37349.1| RNA polymerase sigma factor rpoD [Mycoplasma hominis ATCC 23114] Length = 538 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 108/248 (43%), Positives = 162/248 (65%), Gaps = 9/248 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V+ NLRLVI+ AK+Y NRGL F+DLI EGN G+MKA K+D+ G+KFSTYA WW Sbjct: 285 ARDMLVKRNLRLVINNAKRYKNRGLNFIDLISEGNAGIMKAVSKYDYTKGFKFSTYATWW 344 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA--MPVE 561 ++QAITR++ADQ+ T+R+PVHM + I+K+++ R + + PT EEIAKK E Sbjct: 345 IRQAITRAVADQARTVRVPVHMVETINKILKIERELQQENGYPPTDEEIAKKYGGDFTAE 404 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASL 620 VR + KI +PISL+ IG E+ S DF++D++ +SP A L ++ L Sbjct: 405 KVRYIRKINIDPISLDKNIGKEENSSFSDFVKDESVISPTSYASHEELSVIINEMIEEGL 464 Query: 621 TPREER-VLRMRFGI-----GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 + + +R ++R RFGI HTL+E+ K+ +++E++RQ+E K +RKLKHP + + Sbjct: 465 SDQADRDLIRKRFGINDLKGNKYKPHTLDELSKELGISKEKVRQLETKVLRKLKHPQKRR 524 Query: 675 KLRSFLDG 682 KL+ F + Sbjct: 525 KLKEFFNS 532 >gi|12045103|ref|NP_072914.1| RNA polymerase sigma factor [Mycoplasma genitalium G37] gi|255660251|ref|ZP_05405660.1| RNA polymerase sigma factor [Mycoplasma genitalium G37] gi|1350862|sp|P47491|RPOD_MYCGE RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1045940|gb|AAC71469.1| RNA polymerase sigma factor RpoD [Mycoplasma genitalium G37] gi|166078711|gb|ABY79329.1| RNA polymerase sigma factor RpoD [synthetic Mycoplasma genitalium JCVI-1.0] Length = 497 Score = 223 bits (567), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 114/245 (46%), Positives = 172/245 (70%), Gaps = 8/245 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V +NLRLV+S+AKK+ RGL F DLIQEGN+GL+KA KF+W LG KFSTYA WW Sbjct: 246 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 305 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 +KQAITR+IADQ+ T+RIPVHM + I+++ + R + ++ REPT EE+A+K+ EG Sbjct: 306 IKQAITRAIADQARTVRIPVHMVETINRLAKAERALYQELGREPTDEELAEKMGGQAEGF 365 Query: 563 -VRKVLKITK---EPISLETPIGDEDTSHLGDFIEDKNAVSPLD-SAIQANLRETTTRVL 617 V+K+ +I + +P+SL+ +G ++ S GDF++D +A +P + + ++N + + Sbjct: 366 NVKKIAEIKRLSLDPVSLDKTVGHDEESQFGDFVKDTDAQTPDEFTESRSNSEKIDELLN 425 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 +L+ +EE ++RMR G+ N TL+EVG++ + RE+IRQIE KAIRKL+H R+ + Sbjct: 426 NNLSEQEELIVRMRIGMPPYNEPKTLDEVGQKILIPREKIRQIENKAIRKLRHAVRNNPI 485 Query: 677 R-SFL 680 SFL Sbjct: 486 SMSFL 490 >gi|170700559|ref|ZP_02891561.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] gi|170134549|gb|EDT02875.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] Length = 519 Score = 222 bits (566), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 107/255 (41%), Positives = 164/255 (64%), Gaps = 1/255 (0%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + + G+ + + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EK Sbjct: 266 RALGAALSDGQQKVRDGTRAMLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEK 325 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ G+KFSTYA WW++QA+ R++AD+S TIR+PVH+ D+ +V R A R + R Sbjct: 326 FEYRRGFKFSTYATWWIRQAVARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRA 385 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP E+A + +P +R VL + EP+SL+TP+ D +T L D IED+ + SP + Sbjct: 386 TPAELAAESGLPEGKLRAVLALPAEPLSLDTPLPDAETG-LVDLIEDQASASPFERLADT 444 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +RE T +L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L Sbjct: 445 RMRECVTSLLRSVTPAEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATL 504 Query: 668 KHPSRSKKLRSFLDG 682 + + ++ SFLD Sbjct: 505 RTAAEAEGAESFLDA 519 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 41/148 (27%), Positives = 74/148 (50%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 +L D D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D Sbjct: 7 TLRADTPLDPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDE 66 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +D+ A + L ++ DP+ +Y+R + ++ LL RE EI Sbjct: 67 PAAPAPFAGAAPVDVDRDALDEGRALLGDLARGTSASTDPLALYMRRIHAVPLLKREDEI 126 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALI 168 +A+ IE GR ++ +L P AL+ Sbjct: 127 VLAREIETGRHQILHALAGYPAAVDALL 154 >gi|308189916|ref|YP_003922847.1| RNA polymerase sigma factor [Mycoplasma fermentans JER] gi|307624658|gb|ADN68963.1| RNA polymerase sigma factor [Mycoplasma fermentans JER] Length = 489 Score = 222 bits (566), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 114/269 (42%), Positives = 175/269 (65%), Gaps = 10/269 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I E + + + KG A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G+ Sbjct: 220 LTIEEEKKLAQEMEKGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGI 279 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA K++ G+KFSTYA WW++QAITR++ADQ+ TIR+PVHM + I+K+ + R + Sbjct: 280 VKAVSKYNVSKGFKFSTYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQQ 339 Query: 542 KIKREPTPEEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ EPT E IA++ E VR + KI +PISL+ IG E+ S DF++D++ V+ Sbjct: 340 ELGYEPTDEMIAERYGNGYDAEKVRYIRKINIDPISLDKQIGKENDSSFSDFVKDESVVN 399 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRM-RFGIGMNTD------HTLEEVGKQFCVT 652 P+D A Q L ET +L +ER+L RFG+G++ + H+LE++ ++ V+ Sbjct: 400 PVDYASQEELVETLNSILEKSLDDDERILICKRFGVGVDENGNKYPIHSLEKLAEERNVS 459 Query: 653 RERIRQIEAKAIRKLKHPSR-SKKLRSFL 680 +ERIRQIE K +RKLK +R + L+ F+ Sbjct: 460 KERIRQIENKILRKLKSSTRKGRHLKDFI 488 >gi|171920395|ref|ZP_02931720.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|183508771|ref|ZP_02958238.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186701631|ref|ZP_02971335.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|171902833|gb|EDT49122.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|182675710|gb|EDT87615.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186700864|gb|EDU19146.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 6 str. ATCC 27818] Length = 448 Score = 222 bits (566), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 114/252 (45%), Positives = 163/252 (64%), Gaps = 14/252 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 I K ++ +N+RLV S+AKKY NRGL DLIQEG+ GL+KA +KFD G+KFSTYA W Sbjct: 192 IGKNQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATW 251 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL------ 556 W++Q+ITR+IADQ+ IRIPVHM + I+K+ + R + ++ R+PT EEIA+ + Sbjct: 252 WIRQSITRAIADQARQIRIPVHMVETINKLTKAERNLIQELGRDPTAEEIAQAMNKVSQA 311 Query: 557 ------AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + + V ++ K+ +P+SL+ IG ++ S DFI D +SP + L Sbjct: 312 KNQKEQLITAQKVVEIKKLNVDPVSLDKQIGHDEESQFSDFISDDEIISPEKYTEKKALN 371 Query: 611 ETTTRVLAS-LTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L E+RV++MR+G + +TLEEVG+ VTRER RQIE+KAIRKLK Sbjct: 372 DQINEMFEKVLNDNEQRVIKMRYGLLPFERPYTLEEVGEYLGVTRERARQIESKAIRKLK 431 Query: 669 HPSRSKKLRSFL 680 HPS++ KLRSF+ Sbjct: 432 HPSKTAKLRSFI 443 >gi|171920947|ref|ZP_02932089.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|185178923|ref|ZP_02964687.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188024158|ref|ZP_02996885.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188518597|ref|ZP_03004049.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|188524519|ref|ZP_03004514.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195868018|ref|ZP_03080013.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198273631|ref|ZP_03206166.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209554143|ref|YP_002284749.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225550349|ref|ZP_03771298.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 2 str. ATCC 27814] gi|225551084|ref|ZP_03772030.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|171903184|gb|EDT49473.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|184209186|gb|EDU06229.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188018789|gb|EDU56829.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188997798|gb|EDU66895.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|195659715|gb|EDX53095.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195660310|gb|EDX53572.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198249659|gb|EDY74440.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209541644|gb|ACI59873.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225378899|gb|EEH01264.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|225379503|gb|EEH01865.1| RNA polymerase sigma factor [Ureaplasma urealyticum serovar 2 str. ATCC 27814] Length = 448 Score = 222 bits (566), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 114/252 (45%), Positives = 163/252 (64%), Gaps = 14/252 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 I K ++ +N+RLV S+AKKY NRGL DLIQEG+ GL+KA +KFD G+KFSTYA W Sbjct: 192 IGKNQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATW 251 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL------ 556 W++Q+ITR+IADQ+ IRIPVHM + I+K+ + R + ++ R+PT EEIA+ + Sbjct: 252 WIRQSITRAIADQARQIRIPVHMVETINKLTKAERSLIQELGRDPTAEEIAQAMNKASQA 311 Query: 557 ------AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + + V ++ K+ +P+SL+ IG ++ S DFI D +SP + L Sbjct: 312 KNQKEQLITAQKVVEIKKLNVDPVSLDKQIGHDEESQFSDFISDDEIISPEKYTEKKALN 371 Query: 611 ETTTRVLAS-LTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L E+RV++MR+G + +TLEEVG+ VTRER RQIE+KAIRKLK Sbjct: 372 DQINEMFEKVLNDNEQRVIKMRYGLLPFERPYTLEEVGEHLGVTRERARQIESKAIRKLK 431 Query: 669 HPSRSKKLRSFL 680 HPS++ KLRSF+ Sbjct: 432 HPSKTAKLRSFI 443 >gi|115358293|ref|YP_775431.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] gi|115283581|gb|ABI89097.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] Length = 516 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 107/255 (41%), Positives = 164/255 (64%), Gaps = 1/255 (0%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + + G+ + + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EK Sbjct: 263 RALGAALSDGQQKVRDGTRAMLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEK 322 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ G+KFSTYA WW++QA+ R++AD+S TIR+PVH+ D+ +V R A R + R Sbjct: 323 FEYRRGFKFSTYATWWIRQAVARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRA 382 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP E+A + +P +R VL + EP+SL+TP+ D +T L D IED+ + SP + Sbjct: 383 TPAELAAESGLPEGKLRAVLALPAEPLSLDTPLPDAETG-LVDLIEDQASASPFERLADT 441 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +RE T +L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L Sbjct: 442 RMRECVTSLLRSVTPAEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATL 501 Query: 668 KHPSRSKKLRSFLDG 682 + + ++ SFLD Sbjct: 502 RTAAEAEGAESFLDA 516 Score = 63.2 bits (152), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 41/148 (27%), Positives = 74/148 (50%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 +L D D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D Sbjct: 7 TLRADTPLDPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDE 66 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +D+ A + L ++ DP+ +Y+R + ++ LL RE EI Sbjct: 67 PASPAPFAGAAPVDVDRDALDEGRALLGDLARGTSASTDPLALYMRRIHAVPLLKREDEI 126 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALI 168 +A+ IE GR ++ +L P AL+ Sbjct: 127 VLAREIETGRHQILHALAGYPAAVDALL 154 >gi|119512139|ref|ZP_01631231.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414] gi|119463229|gb|EAW44174.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414] Length = 442 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 108/238 (45%), Positives = 166/238 (69%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA WW Sbjct: 203 AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 262 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E++A +L M V Sbjct: 263 IRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPTQV 322 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLET +G + + LG+ +E + V+P + ++ +L++ +LA LT R Sbjct: 323 REVLLKVPRSVSLETKVGKDKDTELGELLE-TDCVTPEEMLMRESLQKDLHSLLADLTSR 381 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P R +R +L+ Sbjct: 382 ERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNLIRDYLE 439 >gi|319777141|ref|YP_004136792.1| putative RNA polymerase sigma factor [Mycoplasma fermentans M64] gi|238810060|dbj|BAH69850.1| hypothetical protein [Mycoplasma fermentans PG18] gi|318038216|gb|ADV34415.1| Putative RNA polymerase sigma factor [Mycoplasma fermentans M64] Length = 489 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 114/269 (42%), Positives = 175/269 (65%), Gaps = 10/269 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I E + + + KG A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G+ Sbjct: 220 LTIEEEKKLAQEMEKGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGI 279 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA K++ G+KFSTYA WW++QAITR++ADQ+ TIR+PVHM + I+K+ + R + Sbjct: 280 VKAVSKYNVSKGFKFSTYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQQ 339 Query: 542 KIKREPTPEEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ EPT E IA++ E VR + KI +PISL+ IG E+ S DF++D++ V+ Sbjct: 340 ELGYEPTDEMIAERYGNGYDAEKVRYIRKINIDPISLDKQIGKENDSSFSDFVKDESVVN 399 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRM-RFGIGMNTD------HTLEEVGKQFCVT 652 P+D A Q L ET +L +ER+L RFG+G++ + H+LE++ ++ V+ Sbjct: 400 PVDYASQEELVETLNSILEKSLDDDERILICKRFGVGVDENGNKYPIHSLEKLAEERNVS 459 Query: 653 RERIRQIEAKAIRKLKHPSR-SKKLRSFL 680 +ERIRQIE K +RKLK +R + L+ F+ Sbjct: 460 KERIRQIENKILRKLKSSTRKGRHLKDFI 488 >gi|13357909|ref|NP_078183.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|170762330|ref|YP_001752432.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|11357048|pir||E82901 RNA polymerase sigma factor UU349 [imported] - Ureaplasma urealyticum gi|6899329|gb|AAF30758.1|AE002132_2 RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|168827907|gb|ACA33169.1| RNA polymerase sigma factor [Ureaplasma parvum serovar 3 str. ATCC 27815] Length = 448 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 114/252 (45%), Positives = 163/252 (64%), Gaps = 14/252 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 I K ++ +N+RLV S+AKKY NRGL DLIQEG+ GL+KA +KFD G+KFSTYA W Sbjct: 192 IGKNQLYTSNMRLVTSIAKKYLNRGLDLEDLIQEGSSGLLKAIDKFDHEKGHKFSTYATW 251 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL------ 556 W++Q+ITR+IADQ+ IRIPVHM + I+K+ + R + ++ R+PT EEIA+ + Sbjct: 252 WIRQSITRAIADQARQIRIPVHMVETINKLTKAERNLIQELGRDPTAEEIAQAMNKVSQA 311 Query: 557 ------AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + + V ++ K+ +P+SL+ IG ++ S DFI D +SP + L Sbjct: 312 KNQKEQLITAQKVVEIKKLNVDPVSLDKQIGHDEESQFSDFISDDEIISPEKYTEKKALN 371 Query: 611 ETTTRVLAS-LTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L E+RV++MR+G + +TLEEVG+ VTRER RQIE+KAIRKLK Sbjct: 372 DQINEMFEKVLNDNEQRVIKMRYGLLPFERPYTLEEVGEYLGVTRERARQIESKAIRKLK 431 Query: 669 HPSRSKKLRSFL 680 HPS++ KLRSF+ Sbjct: 432 HPSKTAKLRSFI 443 >gi|170782897|ref|YP_001711231.1| RNA polymerase principal sigma factor HrdD [Clavibacter michiganensis subsp. sepedonicus] gi|169157467|emb|CAQ02657.1| RNA polymerase principal sigma factor HrdD [Clavibacter michiganensis subsp. sepedonicus] Length = 347 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 112/239 (46%), Positives = 157/239 (65%), Gaps = 5/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V ANLRLV+S+AK+YT RGL FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 110 AKQHLVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQAGFKFSTYASWW 169 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+ITR +AD S TIRIPVH + I+++ R + +++ R+P+ EEIA++ PV V Sbjct: 170 IKQSITRGMADTSRTIRIPVHTVEHINRINAVQRELGDELGRDPSMEEIARESDTPVTKV 229 Query: 564 RKVLKITKEPISLETPI----GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R +L +EP+SL+ + GD DT + D IED + P+D Q + TR++ Sbjct: 230 RYLLDRAQEPMSLQVLVGGSGGDGDT-EMADLIEDADVTQPIDVVTQQLMAAHVTRLIDG 288 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R+ V+RMRFG+ +L V +Q VTRER+RQIE K + KL+ P +R Sbjct: 289 LAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKVLAKLRIPELEMYIRG 347 >gi|88809466|ref|ZP_01124974.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88786685|gb|EAR17844.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 376 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 128/357 (35%), Positives = 212/357 (59%), Gaps = 22/357 (6%) Query: 334 RIDLLV-EQLYDISKRIMHNEGELLR---LAQSYGIKRDVF-LERHQGRELD--PHWVSY 386 R+DLL E+ +S+++ E L++ L+ R + LE Q RE + HW + Sbjct: 31 RVDLLTSEEEVTLSRQVQQRERLLVQERDLSTRIAAIRVLLDLEELQQREANHISHWPTR 90 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSI-SVETGISISEFRHIVSMVRKGECEASIAK 445 EW + + ++ NE ++ + E+G+ E + + R+ A+ Sbjct: 91 Q------EWARAAELPLSELNRLLNEGYTLWAKESGLDTKELQQRLREGRR-------AR 137 Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW++ Sbjct: 138 DRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIR 197 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q ITR+IA QS TIR+PVH+ +K++++ R + ++++ R + ++AK+L + E VR+ Sbjct: 198 QGITRAIATQSRTIRLPVHITEKLNRIKRVQQEIASEKGRLASVSDLAKELGVSEETVRQ 257 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 L +SLET +G + + LGD +ED +A +P + + +L + +L L+PRE Sbjct: 258 TLARVPRSVSLETRVGKDQDTQLGDLLEDGHA-TPEQTLTRDSLHDDLEHLLEELSPREA 316 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 V+R RFG+ +T TL E+G+ ++RER+RQIE +A+ KL+ P R K+R ++ G Sbjct: 317 EVIRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQPQRRSKVRDYIQG 373 >gi|332708935|ref|ZP_08428906.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332352477|gb|EGJ32046.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 333 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 108/256 (42%), Positives = 170/256 (66%), Gaps = 10/256 (3%) Query: 432 SMVRKGECE-------ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S V K E E + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + Sbjct: 79 SYVNKSEAELKKAIDQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERG 138 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 EKFD GYKFSTYA WW++QAITR+IA Q+ IR+P+H+ +K++K+ + R +S + Sbjct: 139 VEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQTLG 198 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 R TP EIAK+L + +R+ L I ++PISL+ +GD + L + +ED + ++P++ Sbjct: 199 RNATPTEIAKELDLEPAQIREYLSIARQPISLDVRVGDNQDTELSELLED-DGLTPVNYT 257 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 Q +LR+ +LA LTP++ VL +RFG+ + +L +VGK+ ++RER+RQ+E +A+ Sbjct: 258 TQESLRQDLNLLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRERVRQLEHQAL 317 Query: 665 RKLKHPSRSKKLRSFL 680 +L+ R R ++ Sbjct: 318 AQLRR--RHANFREYI 331 >gi|116514228|ref|YP_813134.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|116093543|gb|ABJ58696.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] Length = 378 Score = 222 bits (565), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 111/233 (47%), Positives = 159/233 (68%), Gaps = 5/233 (2%) Query: 444 AKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK E+ ANLRLV+S+AK+Y N + LDLIQEGNIGLMKA +KFD+ G+KFSTYA Sbjct: 136 AKDELAAANLRLVVSIAKRYAKHNGKMGILDLIQEGNIGLMKAVDKFDYSKGFKFSTYAT 195 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR++ADQ IRIPVH+ + I+K+ R R + + R PEE+A ++ P++ Sbjct: 196 WWIRQAITRALADQDRMIRIPVHVVESINKMNRIQRTLQQDLDRNAKPEELAAEMNEPLQ 255 Query: 562 GVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V++++ + K E SL+ +G+E S LGD +ED A++P + L++ + ++ Sbjct: 256 KVQEIITVAKNQETDSLDKSVGEEGDSQLGDLLEDNKAINPEEYTAFEMLKDQLSGMMGE 315 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 LT RE +VL++RFG+ HTLEEVG+ VTRER+RQIE KA++KLK S Sbjct: 316 FLTDREAKVLKLRFGLENYEPHTLEEVGRSLGVTRERVRQIEDKAVKKLKQHS 368 Score = 43.1 bits (100), Expect = 0.16, Method: Compositional matrix adjust. Identities = 33/113 (29%), Positives = 52/113 (46%), Gaps = 14/113 (12%) Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 A+S+ N V+ D VRMYL+E+G + LLSR+ E+ +AKRI+ G Sbjct: 92 AASSDNDQVY-------------DSVRMYLKEIGKVPLLSRDEEVEVAKRIKNGDESAKD 138 Query: 156 SLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 L + L I R ++G + ++I E IG F ++G + Sbjct: 139 ELAAANLRLVVSIAKRYAKHNGKMGILDLIQ-EGNIGLMKAVDKFDYSKGFKF 190 >gi|218248849|ref|YP_002374220.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|257061911|ref|YP_003139799.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|218169327|gb|ACK68064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256592077|gb|ACV02964.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 417 Score = 221 bits (564), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 109/238 (45%), Positives = 167/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M++ANLRLV+SVAKKY +RGL+ LDLIQEG +GL +A EKFD GY+FSTYA WW Sbjct: 178 AKEQMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWW 237 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+I+ QS IR+PVH+ +K++K+ R R++S + R+ T EE++K+L M E + Sbjct: 238 IRQGITRAISTQSRIIRLPVHITEKLNKIKRAQRKLSQEKGRKATIEEMSKELDMSAEQI 297 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLE +G E + L D +E + SP +S I +LR+ +L LT R Sbjct: 298 REVLLRIPRSVSLEVKVGKEKDTELVDLLETE-CQSPEESLISESLRKDLQVLLEDLTER 356 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+ V+++R+G T ++L ++G+ ++RER+RQIEAKA++KL+ P R ++R + + Sbjct: 357 EQDVIKLRYGFEDGTCYSLADIGRVLELSRERVRQIEAKALQKLRQPRRRNQIRDYFE 414 >gi|104774138|ref|YP_619118.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|103423219|emb|CAI98047.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|325125917|gb|ADY85247.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 378 Score = 221 bits (564), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 111/233 (47%), Positives = 159/233 (68%), Gaps = 5/233 (2%) Query: 444 AKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 AK E+ ANLRLV+S+AK+Y N + LDLIQEGNIGLMKA +KFD+ G+KFSTYA Sbjct: 136 AKDELAAANLRLVVSIAKRYAKHNGKMGILDLIQEGNIGLMKAVDKFDYSKGFKFSTYAT 195 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR++ADQ IRIPVH+ + I+K+ R R + + R PEE+A ++ P++ Sbjct: 196 WWIRQAITRALADQDRMIRIPVHVVESINKMNRIQRTLQQDLDRNAKPEELAAEMNEPLQ 255 Query: 562 GVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V++++ + K E SL+ +G+E S LGD +ED A++P + L++ + ++ Sbjct: 256 KVQEIITVAKNQETDSLDKSVGEEGDSQLGDLLEDNKAINPEEYTAFEMLKDQLSGMMGE 315 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 LT RE +VL++RFG+ HTLEEVG+ VTRER+RQIE KA++KLK S Sbjct: 316 FLTDREAKVLKLRFGLENYEPHTLEEVGRSLGVTRERVRQIEDKAVKKLKQHS 368 Score = 43.1 bits (100), Expect = 0.16, Method: Compositional matrix adjust. Identities = 33/113 (29%), Positives = 52/113 (46%), Gaps = 14/113 (12%) Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 A+S+ N V+ D VRMYL+E+G + LLSR+ E+ +AKRI+ G Sbjct: 92 AASSDNDQVY-------------DSVRMYLKEIGKVPLLSRDEEVEVAKRIKNGDESAKD 138 Query: 156 SLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSY 208 L + L I R ++G + ++I E IG F ++G + Sbjct: 139 ELAAANLRLVVSIAKRYAKHNGKMGILDLIQ-EGNIGLMKAVDKFDYSKGFKF 190 >gi|189218244|ref|YP_001938886.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] gi|189185102|gb|ACD82287.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Methylacidiphilum infernorum V4] Length = 287 Score = 221 bits (564), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 110/236 (46%), Positives = 163/236 (69%), Gaps = 4/236 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA +++M++ANLRLV+ +A Y N GL DLI EGNIGLMKA ++FD G Sbjct: 33 IQQGDQEA---RRQMIQANLRLVVKIAHDYANSGLPLPDLISEGNIGLMKAVDRFDPSKG 89 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 K STYA WW+KQ+I R++A+QS TIR+PVH+ DKI K+ R A ++S + R+PT EE+A Sbjct: 90 GKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDKIAKMRRVAMQLSEILGRDPTDEELA 149 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 ++L M V ++ I P SL+ +G +ED + LG+ ++D++A SP S + NL+ T Sbjct: 150 EELGMSTTKVAELRTIAIRPASLDATVGEEEDGTALGELVKDESAASPDQSVLDQNLKNT 209 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L L RE ++L +RFG+ N TLEE+GK+F VTRERIRQ++ A+RK++ Sbjct: 210 IMELLPKLDERERKILSLRFGLEGNEQMTLEEIGKEFHVTRERIRQLQNIALRKIR 265 Score = 38.9 bits (89), Expect = 3.0, Method: Compositional matrix adjust. Identities = 19/47 (40%), Positives = 31/47 (65%), Gaps = 5/47 (10%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG-----RAMMMASL 157 + D +++YLRE+ I LL++E E+ +AKRI+ G R M+ A+L Sbjct: 3 NNDSALKLYLREISQIPLLTKEKEVELAKRIQQGDQEARRQMIQANL 49 >gi|172063054|ref|YP_001810705.1| RpoD family RNA polymerase sigma factor [Burkholderia ambifaria MC40-6] gi|171995571|gb|ACB66489.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria MC40-6] Length = 520 Score = 221 bits (564), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 105/237 (44%), Positives = 157/237 (66%), Gaps = 1/237 (0%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KFSTYA WW++ Sbjct: 285 RAMLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIR 344 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QA+ R++AD+S TIR+PVH+ D+ +V R A R + R TP E+A + +P +R Sbjct: 345 QAVARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAETGLPEGKLRA 404 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 VL + EP+SL+TP+ D +T L D IED+ + SP + +RE T +L S+TP E Sbjct: 405 VLALPAEPLSLDTPLPDAETG-LVDLIEDQASASPFERLADTRMRECVTSLLRSVTPAEA 463 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ SFLD Sbjct: 464 DVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRTAAEAEGAESFLDA 520 Score = 63.9 bits (154), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 41/148 (27%), Positives = 74/148 (50%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 +L D D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D Sbjct: 7 TLRADTPLDPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDE 66 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 +D+ A + L ++ DP+ +Y+R + ++ LL RE EI Sbjct: 67 PAAPAPFAGAAPVDVDRDALDEGRALLGDLARGTSASTDPLALYMRRIHAVPLLKREDEI 126 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALI 168 +A+ IE GR ++ +L P AL+ Sbjct: 127 VLAREIETGRHQILHALAGYPAAVDALL 154 >gi|186681474|ref|YP_001864670.1| RNA polymerase sigma factor SigC [Nostoc punctiforme PCC 73102] gi|186463926|gb|ACC79727.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 416 Score = 221 bits (564), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 107/239 (44%), Positives = 165/239 (69%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD GY+FSTYA WW Sbjct: 177 AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWW 236 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E++A +L M V Sbjct: 237 IRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLATELEMTPTQV 296 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLET +G + + LG+ +E + V+P + ++ +L+ +L+ LT R Sbjct: 297 REVLLRVPRSVSLETKVGKDKDTELGELLE-TDCVTPEEMLMRESLQRDLHHLLSDLTSR 355 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P R +R +L+ Sbjct: 356 ERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNLIRDYLES 414 >gi|81300555|ref|YP_400763.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus PCC 7942] gi|123556657|sp|Q31ME3|RPOD2_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD2 gi|81169436|gb|ABB57776.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus PCC 7942] Length = 320 Score = 221 bits (563), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 164/229 (71%), Gaps = 1/229 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+S+AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA QS TIR+P+H+ +K++K+ +T R +S ++ R T E+A+ L +P+E V Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEVLELPLEQV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ +++ ++P+SL+ +GD + L + +ED+ + SP D Q +LR ++A LTP+ Sbjct: 205 REYIQMNRQPVSLDVKVGDSQDTELQELLEDEQS-SPSDYVEQESLRRDLRNLMAELTPQ 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ V+ +R+G+ +L +VG++ ++RER+R++E +A+ L+ SR Sbjct: 264 QQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRRRSR 312 >gi|2385506|dbj|BAA22190.1| RpoD2 protein [Synechococcus elongatus PCC 7942] Length = 320 Score = 221 bits (563), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 164/229 (71%), Gaps = 1/229 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+S+AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA QS TIR+P+H+ +K++K+ +T R +S ++ R T E+A+ L +P+E V Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEVLELPLEQV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ +++ ++P+SL+ +GD + L + +ED+ + SP D Q +LR ++A LTP+ Sbjct: 205 REYIQMNRQPVSLDVKVGDSQDTELQELLEDEQS-SPSDYVEQESLRRDLRNLMAELTPQ 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ V+ +R+G+ +L +VG++ ++RER+R++E +A+ L+ SR Sbjct: 264 QQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRRRSR 312 >gi|56750962|ref|YP_171663.1| group2 RNA polymerase sigma factor RpoD4 [Synechococcus elongatus PCC 6301] gi|81299380|ref|YP_399588.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like [Synechococcus elongatus PCC 7942] gi|123769297|sp|Q31QR8|RPOD4_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD4 gi|56685921|dbj|BAD79143.1| group2 RNA polymerase sigma factor RpoD4 [Synechococcus elongatus PCC 6301] gi|81168261|gb|ABB56601.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like [Synechococcus elongatus PCC 7942] Length = 311 Score = 221 bits (563), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 106/226 (46%), Positives = 163/226 (72%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M++ANLRLV+SVAKKY N+GL+ LDLIQEG++GL +A EKFD LGYKFSTYA WW Sbjct: 74 AKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGYKFSTYAYWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+I + + TIR+P+H+ +KI ++ + R +++++KR P+ EIA+ L +P++ V Sbjct: 134 IRQSMTRAIDNHARTIRLPIHVSEKISRIKKMTRELTHQLKRLPSRAEIAEALKLPLQDV 193 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L + SL+ GD+ S LGD I D ++ P+D+ + E + LA LT Sbjct: 194 EMLLSQSTPCTSLDAQARGDDGRSFLGDLIPDPKSLEPMDAMDRHIQHEQISTWLAHLTE 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++VL++RFG+ HTL E+G++ V+RERIRQ+EA+A++KL+ Sbjct: 254 REQQVLQLRFGLHDGEQHTLAEIGRRLNVSRERIRQVEARALQKLR 299 >gi|75907387|ref|YP_321683.1| RNA polymerase sigma factor SigC [Anabaena variabilis ATCC 29413] gi|75701112|gb|ABA20788.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena variabilis ATCC 29413] Length = 416 Score = 221 bits (563), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 109/251 (43%), Positives = 170/251 (67%), Gaps = 1/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + K + + +K+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD Sbjct: 164 VEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDP 223 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E Sbjct: 224 TKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLE 283 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 ++A +L M VR+VL +SLET +G + + LG+ +E + V+P + ++ +L+ Sbjct: 284 DLAIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLE-TDGVTPEEMLMRESLQ 342 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA LT RE V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P Sbjct: 343 RDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQP 402 Query: 671 SRSKKLRSFLD 681 R +R +L+ Sbjct: 403 KRRNLIRDYLE 413 >gi|17229184|ref|NP_485732.1| RNA polymerase sigma factor SigC [Nostoc sp. PCC 7120] gi|20141790|sp|Q03066|RPSC_ANASP RecName: Full=RNA polymerase sigma-C factor gi|17135512|dbj|BAB78058.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] Length = 416 Score = 221 bits (563), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 109/251 (43%), Positives = 170/251 (67%), Gaps = 1/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + K + + +K+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD Sbjct: 164 VEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDP 223 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E Sbjct: 224 TKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLE 283 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 ++A +L M VR+VL +SLET +G + + LG+ +E + V+P + ++ +L+ Sbjct: 284 DLAIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLE-TDGVTPEEMLMRESLQ 342 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA LT RE V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P Sbjct: 343 RDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQP 402 Query: 671 SRSKKLRSFLD 681 R +R +L+ Sbjct: 403 KRRNLIRDYLE 413 >gi|58696753|ref|ZP_00372293.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila simulans] gi|58537061|gb|EAL60191.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila simulans] Length = 183 Score = 221 bits (563), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 108/183 (59%), Positives = 144/183 (78%), Gaps = 1/183 (0%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 A+ WV+Q+ITR+I +QS +RIP+HM + I K+ R R+M++++ REPT EE++ +L M Sbjct: 1 MALGWVRQSITRAIPEQSKVVRIPLHMVEIISKINRALRKMTHEMGREPTLEELSVELTM 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E +RKV+KI ++P+SLE P G +D+S GD IEDK P D+AI A+LR TT VLA Sbjct: 61 PLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSRPEDAAILADLRGITTNVLA 120 Query: 619 SLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LTP+EER+LRMRFG+G + +HTLEEVGK F VTRERIRQIEAKA+RKLKHPSR++KLR Sbjct: 121 TLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRARKLR 180 Query: 678 SFL 680 F Sbjct: 181 GFF 183 >gi|254496518|ref|ZP_05109389.1| stationary phase specific sigma factor RpoS [Legionella drancourtii LLAP12] gi|254354257|gb|EET12921.1| stationary phase specific sigma factor RpoS [Legionella drancourtii LLAP12] Length = 342 Score = 221 bits (562), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 106/256 (41%), Positives = 172/256 (67%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H ++ KG+ A+K+M+E+NLRLV+ ++++Y NRGL LD Sbjct: 76 LSEIGFSPLLSAEEEVHYATLALKGDV---AARKKMIESNLRLVVKISRRYLNRGLPLLD 132 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GLMK+ EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 133 LIEEGNLGLMKSVEKFDPNRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 192 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR+++ K+ EP+PEEIA+ + P+E V+K+L + + S++TPIG ++ L D I Sbjct: 193 LRAARQLTQKLDHEPSPEEIAEMVDKPLEDVQKLLGLNDKVASVDTPIGFDENKSLLDTI 252 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D+N+V+P + NLR +L LT +++V+ RFG+ TLE+VGK+ +T Sbjct: 253 ADENSVNPAELLTNENLRLHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLT 312 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ +A++ L+ Sbjct: 313 RERVRQIQVEALKTLR 328 >gi|142114|gb|AAA22047.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] Length = 416 Score = 221 bits (562), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 109/251 (43%), Positives = 170/251 (67%), Gaps = 1/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + K + + +K+ M++ANLRLV+SVAKKY NRGL+ LDL+QEG +GL +A EKFD Sbjct: 164 VEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDP 223 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW++Q ITR+IA S TIR+PVH+ +K++K+ + R+++ + R PT E Sbjct: 224 TKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLE 283 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 ++A +L M VR+VL +SLET +G + + LG+ +E + V+P + ++ +L+ Sbjct: 284 DLAIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLE-TDGVTPEEMLMRESLQ 342 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA LT RE V+ MRFG+ ++L E+G+ ++RER+RQIE+KA++KL+ P Sbjct: 343 RDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQP 402 Query: 671 SRSKKLRSFLD 681 R +R +L+ Sbjct: 403 KRRNLIRDYLE 413 >gi|186681941|ref|YP_001865137.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186464393|gb|ACC80194.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 339 Score = 221 bits (562), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 166/237 (70%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M++ANLRLV++VAKKY +R L+F+DLIQEG +GL + +KFD LGYKFSTYA WW Sbjct: 104 AKQKMIQANLRLVVAVAKKYQHRNLEFMDLIQEGTLGLERGVDKFDPALGYKFSTYAYWW 163 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA Q TIR+P+H+ +K++K+ R R +S ++ R PT EIA L++ V Sbjct: 164 IRQGITRAIAQQGRTIRLPIHVFEKLNKIKRVQRELSQQLGRVPTTAEIANALSLTPSQV 223 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++P SLE +G++ + L D +ED + SP D A++ +L + +LA L+P+ Sbjct: 224 RECLYLARQPFSLEARVGEQQDTELQDILED-DGPSPEDYAVEESLHQDLQDLLAKLSPQ 282 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + +L +RFG+ + +L ++G + ++RER+RQIE KA+ L+ + +++RS+L Sbjct: 283 QREILTLRFGLTDGYELSLAQIGDRMGISRERVRQIEQKALSLLRR--QKEQVRSYL 337 Score = 43.5 bits (101), Expect = 0.13, Method: Compositional matrix adjust. Identities = 29/92 (31%), Positives = 49/92 (53%), Gaps = 14/92 (15%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE------AGRAMMMASLCESPLTF 164 D R+TDD VR YL+E+G ++LL+RE E+ A++++ A + + L P T Sbjct: 22 DKKPRATDDIVRSYLQEIGRVDLLTREQEVIFAQQVQLMMNLLAAKEELAVKLDHEP-TL 80 Query: 165 QALIIWRDELNDGTTLLREIIDLEACIGPESK 196 Q W D + G E+++L+ G ++K Sbjct: 81 QE---WADRVELGA----EVLELQLSQGHQAK 105 >gi|282895449|ref|ZP_06303586.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281199482|gb|EFA74345.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 327 Score = 221 bits (562), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 157/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD +GYKFSTYA WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTMGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ K+ R P+P EIAK+L + + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTEIAKELELEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ +GD + L + +ED + +SP Q LR +LA LTP+ Sbjct: 212 REYLNIARQPISLDVRVGDNQDTELQEMLED-DGLSPEHYTTQEFLRHDLNNLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +RFG+ + +L +VG + ++RER+RQ+E +A+ L+ Sbjct: 271 QREVVTLRFGLEDGNEMSLAKVGDRLNISRERVRQLEHQALTHLR 315 >gi|56752354|ref|YP_173055.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus PCC 6301] gi|56687313|dbj|BAD80535.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus PCC 6301] Length = 320 Score = 221 bits (562), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 164/229 (71%), Gaps = 1/229 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+S+AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 85 AKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGFEKFDPSKGYKFSTYAYWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA QS TIR+P+H+ +K++K+ +T R +S ++ R T E+A+ L +P+E V Sbjct: 145 IRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEVLELPLEQV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ +++ ++P+SL+ +GD + L + +ED+ + SP D Q +LR ++A LTP+ Sbjct: 205 REYIQMNRQPVSLDVKVGDSQDTELQELLEDEQS-SPSDYVEQESLRRDLRNLMAELTPQ 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ V+ +R+G+ +L +VG++ ++RER+R++E +A+ L+ SR Sbjct: 264 QQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRRRSR 312 >gi|220907092|ref|YP_002482403.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7425] gi|219863703|gb|ACL44042.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 318 Score = 220 bits (561), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 111/249 (44%), Positives = 171/249 (68%), Gaps = 6/249 (2%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T +SE + +V +GE +AK++MVEANLRLV+SVAKKY R + LDLIQEG I Sbjct: 64 TAAKLSEA-ELQGVVNRGE----LAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTI 118 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 G+ + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R++ Sbjct: 119 GMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQL 178 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 S ++ R T E+A++L + + VR+ L+ +++P+SL+ +GD + LG+ +ED A S Sbjct: 179 SQQLGRAATIGELAQELELTPKQVREYLERSRQPLSLDVRVGDNQDTELGELLED-TAAS 237 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P D QA+LR R++A LTP++ +VL +RFG+ TL +VG ++RER+RQI Sbjct: 238 PEDFTSQASLRADLDRLMADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRERVRQI 297 Query: 660 EAKAIRKLK 668 E +A+ KL+ Sbjct: 298 EREALSKLR 306 >gi|172035560|ref|YP_001802061.1| RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] gi|171697014|gb|ACB49995.1| group 2 sigma-70 RNA polymerase sigma factor B [Cyanothece sp. ATCC 51142] Length = 328 Score = 220 bits (561), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 102/225 (45%), Positives = 161/225 (71%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ +T R +S + R TP EIA++L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQTLGRSATPAEIAQELEIEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ +GD + L + +ED+ VSP Q LR+ + ++A LTP+ Sbjct: 212 REFLSIARQPISLDVRVGDNQDTELSELLEDQ-GVSPDIYITQELLRQDLSNLMAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++GK+ ++RER+RQ+E +A+ +L+ Sbjct: 271 QRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQLEHQALAQLR 315 >gi|134293382|ref|YP_001117118.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] gi|134136539|gb|ABO57653.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] Length = 518 Score = 220 bits (561), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 105/255 (41%), Positives = 166/255 (65%), Gaps = 1/255 (0%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + +R G+ + + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EK Sbjct: 265 RALGAALRDGQQKLGDGTRAMLEANLRLVLSIARKYVNRGVDLPDLVQDGCLGLMRAIEK 324 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ G+KFSTYA WW++QA+ R++AD+S TIR+PVH+ D+ +V R A R + R Sbjct: 325 FEYRRGFKFSTYATWWIRQAVARAVADRSRTIRVPVHVGDQSQRVQRHALRFRQRHGRRA 384 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP E+A + + +R +L + EP+SL+TP+ D +T L D IED+ + SP + Sbjct: 385 TPAELAADTGLAEDKLRALLALPAEPLSLDTPLPDAETG-LVDLIEDQTSASPFERLANT 443 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +RE + +L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L Sbjct: 444 RMRECVSSLLRSVTPTEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATL 503 Query: 668 KHPSRSKKLRSFLDG 682 + ++++ +SFLD Sbjct: 504 RTAAQAEGAQSFLDA 518 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 45/149 (30%), Positives = 76/149 (51%), Gaps = 2/149 (1%) Query: 21 SLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG 80 +L D D +++ A ++GY+T +L LPPD S++ +E A L+++GI+V+D Sbjct: 7 TLRADTPLDPIIQLLARAGEQGYLTHADLVDALPPDSDSADALEVVRAALADIGIDVLDE 66 Query: 81 DDLEDEEGSEDSLDL-ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 +D+ + S L A STD P+ +Y+R + ++ LL RE E Sbjct: 67 PAAPAPFVGTTPVDVDRDTLDESRALLGDLARGASASTD-PMALYMRRIHAVPLLKREDE 125 Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALI 168 I +A+ IE GR ++ +L P AL+ Sbjct: 126 IVLAREIETGRHQILHALAGYPPAVDALL 154 >gi|158337052|ref|YP_001518227.1| RNA polymerase sigma factor SigD [Acaryochloris marina MBIC11017] gi|158307293|gb|ABW28910.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 220 bits (561), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 106/235 (45%), Positives = 164/235 (69%), Gaps = 1/235 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++K E AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKFD G Sbjct: 73 LQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ +T R++S K+ R T E+A Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQKLGRAATISELA 192 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + + VR+ L+ ++P+SL+ +GD + LG+ IED + SP + +QA+LR Sbjct: 193 TSLDLTTKQVREYLERARQPLSLDVRVGDNQDTELGELIEDPSE-SPENFTLQASLRGDL 251 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R++A LT ++++VL +RFG+ TL ++G + ++RER+RQIE +A+ KL+ Sbjct: 252 ERLMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKLR 306 >gi|126661338|ref|ZP_01732404.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126617371|gb|EAZ88174.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 328 Score = 220 bits (561), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 102/225 (45%), Positives = 161/225 (71%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ +T R +S + R TP EIA++L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQSLGRSATPAEIAQELEIEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ +GD + L + +ED+ VSP Q LR+ + ++A LTP+ Sbjct: 212 REFLSIARQPISLDVRVGDNQDTELSELLEDQ-GVSPDIYITQELLRQDLSNLMAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++GK+ ++RER+RQ+E +A+ +L+ Sbjct: 271 QRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQLEHQALAQLR 315 >gi|254253854|ref|ZP_04947171.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124898499|gb|EAY70342.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 547 Score = 220 bits (560), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 104/236 (44%), Positives = 159/236 (67%), Gaps = 1/236 (0%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KFSTYA WW++ Sbjct: 312 RAMLEANLRLVLSIARKYMNRGVDLPDLVQDGCVGLMRAIEKFEYRRGFKFSTYATWWIR 371 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QA+ R++AD+S TIR+PVH+ D+ +V R A R + R TP E+A + + + +R Sbjct: 372 QAVARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAETGLDEDKLRA 431 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +L + EP+SL+TP+ D DT L D IED+ + SP + A +RE T +L S+TP E Sbjct: 432 ILALPAEPVSLDTPLPDTDTG-LVDTIEDQASASPFERLADARMRECVTSLLRSVTPTEA 490 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ ++FLD Sbjct: 491 DVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALAALRTVAEAEGAQTFLD 546 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 42/140 (30%), Positives = 74/140 (52%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ S++ +E A L+++GI V+D Sbjct: 50 DPIIQLLALAGEQGYLTHADLVDALPPESDSADALEVVRAALADIGIAVLDEPPAPVPFT 109 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +D+ A + L ++ DP+ +Y+R M ++ LL+RE EIA+A+ IE Sbjct: 110 GAAPVDVDRDALDEGRALLGELARGASASTDPLALYMRRMHAVPLLTREDEIALAREIET 169 Query: 149 GRAMMMASLCESPLTFQALI 168 GR ++ +L P AL+ Sbjct: 170 GRHQVLHALAGCPAAVDALL 189 >gi|182415180|ref|YP_001820246.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177842394|gb|ACB76646.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 353 Score = 220 bits (560), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 113/248 (45%), Positives = 166/248 (66%), Gaps = 4/248 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I E + +RKG+ A+ M++ANLRLV+ +A Y + GL LDLI EGNIGL Sbjct: 64 LTIDEEISLAKRIRKGD---KAARDHMIKANLRLVVKIAMDYKDFGLPLLDLISEGNIGL 120 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA E+FD G K STYA WW+KQ+I R++A+QS TIR+PVH+ DKI K+ RTA ++ Sbjct: 121 IKAVERFDPRKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDKISKMRRTAMALTE 180 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSP 600 ++ REPT EE+A +L +P V + ++ P SL+ P+G+E D++ G+ + D NAVSP Sbjct: 181 ELGREPTDEELAIELQIPTSKVAHLKSVSVRPASLDAPVGEEGDSATFGEIVGDDNAVSP 240 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + NL ++ASL RE ++R+RFG+ + TLEEVG++F VTRERIRQ+E Sbjct: 241 FEGLREKNLNSDLHAMVASLDEREAEIIRLRFGLDGKDELTLEEVGRRFHVTRERIRQLE 300 Query: 661 AKAIRKLK 668 A+ K++ Sbjct: 301 YLALSKMR 308 >gi|26665384|dbj|BAC44903.1| principal sigma factor [Gloeobacter violaceus PCC 8105] Length = 203 Score = 220 bits (560), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 109/204 (53%), Positives = 148/204 (72%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+A KY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIALKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDF E + +P D + LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFSE-ADGETPEDKVAKNLLREDLEAVLNTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQLFNVT 203 >gi|282900289|ref|ZP_06308240.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] gi|281194794|gb|EFA69740.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis raciborskii CS-505] Length = 327 Score = 220 bits (560), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 157/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD +GYKFSTYA WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTMGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ K+ R P+P EIAK+L + + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTEIAKELELEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ +GD + L + +ED + +SP Q LR +LA LTP+ Sbjct: 212 REYLNIARQPISLDVRVGDNQDTELQEMLED-HGLSPEHYTTQEFLRHDLNNLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +RFG+ + +L +VG + ++RER+RQ+E +A+ L+ Sbjct: 271 QREVVILRFGLEDGNEMSLAKVGDRLNISRERVRQLEHQALTHLR 315 >gi|67924587|ref|ZP_00518002.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67853561|gb|EAM48905.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 328 Score = 220 bits (560), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 103/225 (45%), Positives = 160/225 (71%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA QS TIR+P+H+ +K++K+ +T R +S + R TP EIA++L + + Sbjct: 152 IRQAITRAIAQQSRTIRLPIHITEKLNKIKKTQRELSQTLGRSATPSEIAQELEIEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L I ++PISL+ +GD + L + +ED+ VSP Q LR+ ++A LTP+ Sbjct: 212 REFLSIARQPISLDVRVGDNQDTELSELLEDQ-GVSPDLYITQELLRQDLRNLMAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++GK+ ++RER+RQ+E +A+ +L+ Sbjct: 271 QRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQLEHQALAQLR 315 >gi|270157097|ref|ZP_06185754.1| RNA polymerase sigma factor RpoS [Legionella longbeachae D-4968] gi|289164492|ref|YP_003454630.1| RNA polymerase sigma factor RpoS [Legionella longbeachae NSW150] gi|269989122|gb|EEZ95376.1| RNA polymerase sigma factor RpoS [Legionella longbeachae D-4968] gi|288857665|emb|CBJ11508.1| RNA polymerase sigma factor RpoS [Legionella longbeachae NSW150] Length = 341 Score = 219 bits (559), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 106/256 (41%), Positives = 172/256 (67%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H ++ KG+ A+K+M+E+NLRLV+ ++++Y NRGL LD Sbjct: 75 LSEIGFSPLLSAEEEVHYATLALKGDV---AARKKMIESNLRLVVKISRRYLNRGLPLLD 131 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GLMK+ EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 132 LIEEGNLGLMKSVEKFDPKRGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 191 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR+++ K+ EP+PEEIA+ + P+E V+K+L + + S++TPIG ++ L D I Sbjct: 192 LRAARQLTQKLDHEPSPEEIAEMVDKPLEDVQKLLGLNDKVTSVDTPIGFDENKSLLDTI 251 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D+N+V+P + NLR +L LT +++V+ RFG+ TLE+VGK+ +T Sbjct: 252 PDENSVNPAELLTNENLRLHIESLLDKLTENQQQVIARRFGLRGFEKATLEDVGKEIDLT 311 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ +A++ L+ Sbjct: 312 RERVRQIQVEALKTLR 327 >gi|218439771|ref|YP_002378100.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7424] gi|218172499|gb|ACK71232.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 328 Score = 219 bits (557), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 162/225 (72%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ +T R +S ++ R TP EIAK L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQQLGRSATPAEIAKALDLEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L ++++PISL+ +GD + L + +ED+ +SP + Q +R+ +LA LTP+ Sbjct: 212 REFLSMSRQPISLDVRVGDNQDTELSELLEDE-GISPDNYITQELMRQDLHDLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++G++ ++RER+RQ+E +A+ +L+ Sbjct: 271 QREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQLEHQALSQLR 315 >gi|26665380|dbj|BAC44901.1| principal sigma factor [Chlorogloeopsis fritschii PCC 6912] Length = 198 Score = 219 bits (557), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 108/199 (54%), Positives = 146/199 (73%), Gaps = 1/199 (0%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 +V+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IAD Sbjct: 1 MVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIAD 60 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 QS TIR+PVH+ + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PI Sbjct: 61 QSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPI 120 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 SLETPIG E+ S LGDFIE + +P D + LRE +VL SL+PRE VLR+R+G+ Sbjct: 121 SLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGL 179 Query: 635 GMNTDHTLEEVGKQFCVTR 653 TLEE+G+ F VTR Sbjct: 180 DDGRMKTLEEIGQIFNVTR 198 >gi|221212711|ref|ZP_03585688.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD1] gi|221167810|gb|EEE00280.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD1] Length = 522 Score = 219 bits (557), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 109/255 (42%), Positives = 167/255 (65%), Gaps = 1/255 (0%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R +V+ + G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G IGLM+A EK Sbjct: 269 RALVAALNDGQQKVRDATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEK 328 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ G+KFSTYA WW++QAI R++AD++ TIR+PVH+ D+ +V R A R + R+P Sbjct: 329 FEYRRGFKFSTYATWWIRQAIARAVADRARTIRVPVHVGDQHQRVRRQALRFRQRTGRQP 388 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 TP E+A + + + +R +L + EP+SL+TP+ D DT L D IED+ + SP + Sbjct: 389 TPAELAAETGLAEDKLRAILALPAEPVSLDTPLPDADTG-LVDLIEDETSASPFEQLAGT 447 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +RE +L S+TP E VLR RFG+G T + + K ++RER+RQIE +A+ L Sbjct: 448 RMRECVRSLLRSVTPTEADVLRRRFGLGGTEPDTYDAIAKDAGMSRERVRQIEKRALAAL 507 Query: 668 KHPSRSKKLRSFLDG 682 + + ++ +FLD Sbjct: 508 RTAAEAEGAHAFLDA 522 Score = 68.9 bits (167), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 49/155 (31%), Positives = 76/155 (49%), Gaps = 30/155 (19%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----------- 77 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V Sbjct: 15 DPIIQLLALASEQGYLTHADLVDALPPESDSPDALDVVRAALADIGITVLDEPAAPPPFA 74 Query: 78 ----VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 VD D EEG DLA AS S+ DP+ +Y+R M ++ L Sbjct: 75 AAPAVDVDRDALEEGRALLGDLARGASAST---------------DPLALYMRRMHAVPL 119 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 L+RE EIA+A+ +E GR M+ +L P AL+ Sbjct: 120 LTREDEIALARELETGRHQMLHALAGCPPAVDALL 154 >gi|148271746|ref|YP_001221307.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147829676|emb|CAN00592.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 347 Score = 219 bits (557), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 111/239 (46%), Positives = 156/239 (65%), Gaps = 5/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V ANLRLV+S+AK+YT RGL FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 110 AKQHLVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQAGFKFSTYASWW 169 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+ITR +AD S TIRIPVH + I+++ R ++ ++ R+P+ EEIA++ PV V Sbjct: 170 IKQSITRGMADTSRTIRIPVHTVEHINRINAVQRELAVELGRDPSMEEIARESDTPVTKV 229 Query: 564 RKVLKITKEPISLETPI----GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R +L +EP+SL+ + GD DT + D IED + P+D Q + R++ Sbjct: 230 RYLLDRAQEPMSLQVLVGGSGGDGDT-EMADLIEDADVTQPIDVVTQQLMAAHVMRLIDG 288 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R+ V+RMRFG+ +L V +Q VTRER+RQIE K + KL+ P +R Sbjct: 289 LAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKVLAKLRIPELETYIRG 347 >gi|23978372|dbj|BAC21150.1| principal sigma factor [Synechococcus sp. PCC 7001] Length = 203 Score = 219 bits (557), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 109/204 (53%), Positives = 147/204 (72%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++ RLV+S+AKKY NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAI Sbjct: 1 VQSKFRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PVH+ + I ++ +T + +S + R+PT EEIA+ + M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P + LRE VLA+L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIE-ADIENPEQDVAKNLLREDLEGVLATLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFDVT 203 >gi|113477482|ref|YP_723543.1| RNA polymerase sigma factor SigD [Trichodesmium erythraeum IMS101] gi|110168530|gb|ABG53070.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 319 Score = 219 bits (557), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 108/247 (43%), Positives = 170/247 (68%), Gaps = 8/247 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S SE + I+ R+GE AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ Sbjct: 69 LSKSELQRII---REGER----AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 121 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R+++ Sbjct: 122 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKVQRQLTQ 181 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R T EIA++L + + +R+ L+ + P+SL+ +GD + LGD +ED A SP Sbjct: 182 QLGRSATTGEIAEELGLTPKQIRECLERARLPLSLDLRVGDNQDTELGDLLEDTGA-SPE 240 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D A+Q+++R ++ LTP++++VL +RFG+ TL ++G ++RER+RQIE Sbjct: 241 DYALQSSMRTDLESIMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIER 300 Query: 662 KAIRKLK 668 +A+ KL+ Sbjct: 301 EALSKLR 307 >gi|23978293|dbj|BAC21127.1| principal sigma factor [Arthrospira platensis] Length = 203 Score = 218 bits (556), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 109/204 (53%), Positives = 148/204 (72%), Gaps = 1/204 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V++NLRLV+S+AKKY NRGL F DLIQEG++GL++AAEK D GYKFSTYA WW++QAI Sbjct: 1 VQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKLDHEKGYKFSTYATWWIRQAI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IADQS TIR+PV + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K Sbjct: 61 TRAIADQSRTIRLPVLLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAK 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + PISLETPIG E+ S LGDFIE + +P D + LRE VL +L+PRE VL Sbjct: 121 SAQLPISLETPIGKEEDSRLGDFIES-DGETPEDQVSKNLLREDLESVLDTLSPRERDVL 179 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVT 652 R+R+G+ TLEE+G+ F VT Sbjct: 180 RLRYGLDDGRMKTLEEIGQIFNVT 203 >gi|300781025|ref|ZP_07090879.1| RNA polymerase principal sigma factor SigB [Corynebacterium genitalium ATCC 33030] gi|300532732|gb|EFK53793.1| RNA polymerase principal sigma factor SigB [Corynebacterium genitalium ATCC 33030] Length = 330 Score = 218 bits (556), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 102/236 (43%), Positives = 166/236 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANLRLV+S+AK+YT RG+ LDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 93 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWW 152 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +ADQS TIR+PVH+ ++++K+ R R M + REP+ EE+A++ + + Sbjct: 153 IRQAITRGMADQSRTIRLPVHLVEQVNKLSRIRREMYQSLGREPSNEELAEESGIDESKI 212 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L+ +++P+SL+ P+G ++ + LGDFIED A D+ + + ++ L R Sbjct: 213 EMLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEAADAEDAVVSVLRHDDIHDIINGLEQR 272 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 E+ V+R+R+G+ TL+++G++F ++RER+RQIE + + KL+ R+ +LR + Sbjct: 273 EQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMSKLRVGERADRLRDY 328 >gi|126660028|ref|ZP_01731150.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110] gi|126618706|gb|EAZ89453.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110] Length = 418 Score = 218 bits (556), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 109/239 (45%), Positives = 160/239 (66%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM++ANLRLV+SVAKKY +RGL+ LDLIQEG +GL KA EKFD GY+FSTYA WW Sbjct: 179 AKDEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPIKGYRFSTYAYWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS IR+PVH+ +K++K+ + R++S R T EEI K+L M V Sbjct: 239 IRQGITRAIATQSRIIRLPVHITEKLNKIKQVQRKISQAKGRSATLEEIGKELNMSSTQV 298 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R VL +SLE +G E + L D +E ++ +SP ++ +LR +L LT R Sbjct: 299 RDVLMKIPRSVSLEIKVGKEKDTELVDLLESED-ISPEENLAIESLRRDIGILLEDLTER 357 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E+ V+++R+G ++L ++G+ ++RER+RQIEAKA++KL+ P R ++R + + Sbjct: 358 EQEVIKLRYGFEDGVSYSLADIGRTLDLSRERVRQIEAKALQKLRQPRRRNQIRDYFES 416 >gi|145596092|ref|YP_001160389.1| RpoD family RNA polymerase sigma factor [Salinispora tropica CNB-440] gi|145305429|gb|ABP56011.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora tropica CNB-440] Length = 332 Score = 218 bits (556), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 101/261 (38%), Positives = 174/261 (66%), Gaps = 7/261 (2%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G+ +E + +V E + AK + ANLRLV+S+A++Y G+ LDLIQEG Sbjct: 77 VPAGVEKAELQRLV-------AEGARAKDLFIRANLRLVVSIARRYVRSGMPMLDLIQEG 129 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N GL++A EKFD+ G+KFSTYA WW++QAI+R+IA Q T+R+PVH+ + ++++ AR Sbjct: 130 NTGLVRAVEKFDYERGFKFSTYATWWIRQAISRAIAQQERTVRLPVHLVEDVNRMRNVAR 189 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +++ ++ +P PE+IA L + VE V ++++ +++ +SL+TP+GD+ ++LGD + D +A Sbjct: 190 QLTRELGSDPEPEQIATALGVTVERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDA 249 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP D + R+ +L+ L R ++R R+G+ +H+L EV +F ++RERIR Sbjct: 250 PSPEDIVLTGLERQRIEGLLSHLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIR 309 Query: 658 QIEAKAIRKLKHPSRSKKLRS 678 Q+E +A+ +L+ +R++ L++ Sbjct: 310 QLEIQALGRLRELARAEGLQA 330 >gi|302391919|ref|YP_003827739.1| RNA polymerase, sigma 70 subunit, RpoD [Acetohalobium arabaticum DSM 5501] gi|302203996|gb|ADL12674.1| RNA polymerase, sigma 70 subunit, RpoD [Acetohalobium arabaticum DSM 5501] Length = 273 Score = 218 bits (556), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 109/241 (45%), Positives = 172/241 (71%), Gaps = 3/241 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+KE++E NLRLV+S+AKKY +G++F D+IQEGN+GLMKA +KFD GY+FSTYA WW Sbjct: 34 ARKELIEHNLRLVVSIAKKYRGKGMEFEDMIQEGNLGLMKAIDKFDPDKGYRFSTYATWW 93 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR++ ++ TIR+PVH+ +K KV + ++ N++ REPT EEI+++ + E V Sbjct: 94 IRQSITRALP-EAKTIRVPVHVWEKTTKVFKAKEKLYNQLNREPTFEEISEETGIDSEKV 152 Query: 564 RKVLKITKEP--ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +++++I+ + SL +GD++ + LG+ I D + P+ + L+E VL LT Sbjct: 153 KEIIRISSDQNLASLNNLVGDDENTELGELIADDDVEEPMTDLNRQFLQEDLEEVLEELT 212 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE ++R+RFG+ N TL+EV +F ++RERIRQI+ KA+R+L+HPSRSK L++++ Sbjct: 213 DREAEIIRLRFGLKDNWPKTLQEVADRFKLSRERIRQIQEKALRRLRHPSRSKALKAYIA 272 Query: 682 G 682 G Sbjct: 273 G 273 >gi|307152083|ref|YP_003887467.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306982311|gb|ADN14192.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 418 Score = 218 bits (555), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 105/239 (43%), Positives = 161/239 (67%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M++ANLRLV+SVAK+Y NRGL+ LDLIQEG +GL +A +KFD GY+FSTYA WW Sbjct: 179 AKEQMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWW 238 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS IR+PVH+ +K++K+ + R+++ P+ EE++++L M + Sbjct: 239 IRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKIAQLKGATPSIEELSQELEMSPPQI 298 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+VL +SLE +G E + L D +E A SP D+ LR+ +LA LT R Sbjct: 299 REVLMRVPRSVSLEIKVGKEKDTELIDLLETTEA-SPEDNIANEALRQDLHNLLADLTTR 357 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E V+++R+G ++L ++G+ ++RER+RQIEAKAI+KL+ P R ++R + + Sbjct: 358 EREVIQLRYGFKDGKSYSLADIGRTLQLSRERVRQIEAKAIQKLRQPKRRNQIRDYFEA 416 >gi|298241844|ref|ZP_06965651.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297554898|gb|EFH88762.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 366 Score = 218 bits (555), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 103/246 (41%), Positives = 165/246 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + ++ +IA++++VE+NLRLVIS+A++YT+ G+ +DLIQEGN+GLM+AAEKFD Sbjct: 117 IDLAQRAAAGDTIARRKLVESNLRLVISIARRYTSTGVPLIDLIQEGNLGLMRAAEKFDH 176 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G F TYA WW++QA++R+ +QS I +P H+ ++ KV R + ++S + +P PE Sbjct: 177 QRGCHFGTYATWWIRQAVSRAAGEQSRMIHLPEHVSTRLRKVRRISAQLSQENGLDPMPE 236 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +IA+ V+ V+ +L + ++P+SL+TP+ DE LGD +ED +P ++A + L Sbjct: 237 QIAEACHFEVDEVKNLLGVIEQPVSLDTPVDDETRYSLGDTLEDDTTPAPAETASRHLLG 296 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E R LA LTPRE V+ +R+GIG TL EVGK+ ++RER+RQ+E A+ KL+ Sbjct: 297 EELHRALAVLTPRERSVVMLRYGIGDGRSRTLLEVGKELGISRERVRQLEVVALMKLRSV 356 Query: 671 SRSKKL 676 + ++ L Sbjct: 357 TNAQAL 362 >gi|16331621|ref|NP_442349.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803] gi|2500787|sp|Q59996|RPSC_SYNY3 RecName: Full=Probable RNA polymerase sigma-C factor gi|1001684|dbj|BAA10419.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 404 Score = 218 bits (555), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 110/247 (44%), Positives = 161/247 (65%), Gaps = 8/247 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+++ E +I E + AK M++ANLRLV+SVAKKY NRGL+ LDLIQEG +G Sbjct: 149 GLTVEELENI-------EKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLG 201 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L +A EKFD GY+FSTY+ WW++Q ITR+IA QS IR+PVH+ +K++K+ R R++S Sbjct: 202 LERAVEKFDPTKGYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKIS 261 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + P +E+A++L M E VR+VL +SLE +G + + L D +E + SP Sbjct: 262 QEKGHTPKIDEVAEELGMTPEQVREVLTQVPRSVSLELKVGQDKDTELMDLLE-TDTQSP 320 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ L+ +L LTPRE+ V+ +RFG H+L E+G+ ++RER+RQIE Sbjct: 321 EDELMREALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIE 380 Query: 661 AKAIRKL 667 AKA++KL Sbjct: 381 AKALQKL 387 >gi|220907004|ref|YP_002482315.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7425] gi|219863615|gb|ACL43954.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 327 Score = 218 bits (555), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 107/249 (42%), Positives = 168/249 (67%), Gaps = 7/249 (2%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + VR+G+ AK++M+EANLRLV+SVAKKY R L+ LDLIQEG +GL + EKFD Sbjct: 84 TAVRRGQR----AKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPT 139 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITR+IA Q+ T+R+P+H+ +K++K+ + R +S ++ R TP E Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQARTVRLPIHITEKLNKIKKAQRVLSQRLGRSATPAE 199 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 IA++L + +R+ L + ++P+SL+ +GD + L D +ED ++ SP LR+ Sbjct: 200 IAQELELEPSQIREYLTLARQPVSLDLRVGDNQDTELRDLLED-DSPSPEQYTTGEALRD 258 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +LA LTP++ VL +RFG+ + +L +VG+Q ++RER+RQ+E +A+ L+ Sbjct: 259 DVNHLLAELTPQQREVLTLRFGLEDGKELSLAKVGEQLSLSRERVRQLERQALDHLRR-- 316 Query: 672 RSKKLRSFL 680 R ++R +L Sbjct: 317 RKLQVREYL 325 >gi|166364164|ref|YP_001656437.1| RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166086537|dbj|BAG01245.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 328 Score = 218 bits (555), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 159/225 (70%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ RT R ++ K+ R TP EIA +L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATPAEIALELELEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++PISL+ +GD + L + +ED + VSP Q LR+ +LA LTP+ Sbjct: 212 REYLSMARQPISLDVRVGDNQDTELSELLED-SGVSPDTFITQELLRQDLANLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +RFG+ + +L ++G++ ++RER+RQ+E +A+ L+ Sbjct: 271 QREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLR 315 >gi|119487601|ref|ZP_01621211.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106] gi|119455770|gb|EAW36906.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106] Length = 404 Score = 218 bits (554), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 109/244 (44%), Positives = 164/244 (67%), Gaps = 1/244 (0%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E AK M++ANLRLV+SVAKKY NRGL+ LDLIQEG +GL +A EKFD GY+FS Sbjct: 159 QTEGIKAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFS 218 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TY+ WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R T ++IA +L Sbjct: 219 TYSYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRIATIDDIAAELE 278 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VR+VL +SLET +G D + + SP D ++ +L ++L Sbjct: 279 MTPAQVREVLLKVPRSVSLETKVGS-DKDTELGELLETEEASPEDQLMRESLHRDLQQLL 337 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A L+ RE V++MR+G+G ++L E+G++ ++RER+RQIEAKA++KL+ P R ++R Sbjct: 338 ADLSDRERDVIQMRYGLGNGHTYSLAEIGRELELSRERVRQIEAKALQKLRQPKRRNRVR 397 Query: 678 SFLD 681 +L+ Sbjct: 398 DYLE 401 Score = 42.4 bits (98), Expect = 0.25, Method: Compositional matrix adjust. Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 2/66 (3%) Query: 82 DLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIA 141 DLED LDL S QK K++ +R T D VR+YL+E+G + LL R+ E+A Sbjct: 13 DLEDLSKQPSDLDLESMEEIDPA--QKTKNNNNRRTTDLVRVYLQEIGRVRLLGRDEEVA 70 Query: 142 IAKRIE 147 A++++ Sbjct: 71 EAQKVQ 76 >gi|22297808|ref|NP_681055.1| RNA polymerase sigma factor SigD [Thermosynechococcus elongatus BP-1] gi|22293985|dbj|BAC07817.1| group2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 315 Score = 218 bits (554), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 107/240 (44%), Positives = 165/240 (68%), Gaps = 6/240 (2%) Query: 434 VRKGECEASI-----AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + +GE E I AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKF Sbjct: 65 ISEGELETIIENGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 124 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R++S ++ R T Sbjct: 125 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAAT 184 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 E+A +L + VR+ L+ ++P+SL+ +GD + LG+ +ED +++SP + A Q+ Sbjct: 185 INELAAELELTPAQVREYLERARQPLSLDVRVGDNQDTELGELLED-SSISPEEFATQSL 243 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR R++A LTP++ VL +RFG+ TL +VG+ ++RER+RQIE +A+ KL+ Sbjct: 244 LRSDLERLMAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRERVRQIEREALSKLR 303 >gi|291302005|ref|YP_003513283.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290571225|gb|ADD44190.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 323 Score = 218 bits (554), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 107/252 (42%), Positives = 164/252 (65%), Gaps = 10/252 (3%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+ E AK +++ANLRLV+S+AK+Y RG+ LDLIQEGN+GL++A EKFD+ G Sbjct: 76 LRQIVAEGRRAKSMLLKANLRLVVSIAKRYVGRGVALLDLIQEGNLGLIRAVEKFDYTKG 135 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QAITR++ADQ+ TIR+P H ++I+++ + R ++ + REP EEIA Sbjct: 136 FKFSTYATWWIRQAITRAMADQARTIRVPAHTAEQINRIAKIRRELTAEQGREPRHEEIA 195 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN----- 608 +++ + V ++L ++PISL+ P+ D+ + L D + P+D A + N Sbjct: 196 ERMGLEPYRVLELLSYDRDPISLDQPVSDDRQTPLSDLV-----ARPVDPAAEPNPANAQ 250 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ R L L RE VLR RFGI TLEEVG++ ++RER+RQ+E ++ KL+ Sbjct: 251 LRQELERALTDLPARERAVLRARFGIDDGRQRTLEEVGEELGLSRERVRQLEKLSLNKLR 310 Query: 669 HPSRSKKLRSFL 680 P ++ L +L Sbjct: 311 EPGMARALAEYL 322 >gi|282900303|ref|ZP_06308254.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii CS-505] gi|281194808|gb|EFA69754.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii CS-505] Length = 399 Score = 218 bits (554), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 108/242 (44%), Positives = 171/242 (70%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 157 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 216 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K R PT E+A+ L M Sbjct: 217 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEVEMAEFLEMT 276 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V+ +R++ ++ ++ +SL +G E+ + L D +ED++ SP + +R+ VL Sbjct: 277 VQQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGD 336 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPRE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 337 VLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 396 Query: 679 FL 680 +L Sbjct: 397 WL 398 >gi|160937287|ref|ZP_02084649.1| hypothetical protein CLOBOL_02177 [Clostridium bolteae ATCC BAA-613] gi|158439851|gb|EDP17600.1| hypothetical protein CLOBOL_02177 [Clostridium bolteae ATCC BAA-613] Length = 298 Score = 218 bits (554), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 116/244 (47%), Positives = 163/244 (66%), Gaps = 11/244 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTN--RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A+++M+ +NLRLVI+ AKKY + L LDLIQEGN+GL+KA EK++ LG++FSTYA Sbjct: 61 ARQKMISSNLRLVINQAKKYVTYTQSLTLLDLIQEGNLGLIKAVEKYNPELGFRFSTYAS 120 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP---TPEEIAKKLAM 558 WW+KQAITR+I+ IR+PVH + I KV +R +++I ++ TPE++ Sbjct: 121 WWIKQAITRAISVLDKAIRLPVHFCEDIQKV----KRATHEIMQQNDIVTPEKLKDITGF 176 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + K+L ISLETP+G+E T LGDF+ED S + A++ ++ +R + Sbjct: 177 SEGKIEKILMNMNHTISLETPVGEEAT--LGDFVEDTLTPSIEEQAMENAMQREISRQME 234 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L PRE+ +L +RFG+ HTLEEVGKQ VTRERIRQIE KA+RKL+HP+RS+ LR Sbjct: 235 CLRPREQTILALRFGLNGQNPHTLEEVGKQMGVTRERIRQIEMKALRKLRHPNRSRYLRE 294 Query: 679 FLDG 682 F+ G Sbjct: 295 FILG 298 >gi|22298042|ref|NP_681289.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] gi|22294220|dbj|BAC08051.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 375 Score = 217 bits (553), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 106/262 (40%), Positives = 178/262 (67%), Gaps = 8/262 (3%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 I++SE +HI E + AK ++++ANLRLV+++AKKY + G++FLDLIQEG++ Sbjct: 119 ANITLSELQHI-------ERQGQRAKNQLLQANLRLVVNIAKKYQHHGVEFLDLIQEGSL 171 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL +A EKFD G++FSTYA WW++Q+ITR++A QS TIR+P+HM +K++K+ R RR+ Sbjct: 172 GLERAVEKFDPTKGFRFSTYAYWWIRQSITRAVASQSRTIRLPIHMVEKLNKIKRAQRRL 231 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + + P+ +IA++L + V VR+VL + ++LE +G + + L + IE A + Sbjct: 232 AAQRGAMPSLADIAQELNLEVSQVRQVLMAVPKSVALEQRVGSDQETELQELIESP-APT 290 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P + ++ +LR T ++L+ L+PRE +V+ +R+G+G L EV ++RERIRQI Sbjct: 291 PDEVIMRESLRTTLKQLLSDLSPRERQVMELRYGLGEQPALELAEVAVLLGLSRERIRQI 350 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E +A++KL+ P R ++++ +L+ Sbjct: 351 EHRALQKLRQPQRRREIQDYLE 372 >gi|311897949|dbj|BAJ30357.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 323 Score = 217 bits (553), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 111/248 (44%), Positives = 157/248 (63%), Gaps = 7/248 (2%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+S E R I +A AK + +NLRLV++VA++Y GL LDLIQEGN G Sbjct: 72 GVSTEELRAIAE-------DAERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAG 124 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L++A EKFD+ G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ + R + Sbjct: 125 LVRAVEKFDYSKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRKVQREKA 184 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ REP P EIA +L + V+ VL ++P+SL + DE + GD +ED AVSP Sbjct: 185 KELGREPDPAEIAAELDTTEQRVKDVLDWARDPVSLNMAVDDEGETQFGDLVEDTGAVSP 244 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D+ + RE ++ L R ++R R+G+ + TL EVGKQ +TRERIRQIE Sbjct: 245 EDAVMVMLRREELDGLIGRLDDRTASIIRSRYGMEDGRERTLTEVGKQHGLTRERIRQIE 304 Query: 661 AKAIRKLK 668 A+ +LK Sbjct: 305 KHALAELK 312 >gi|298490639|ref|YP_003720816.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298232557|gb|ADI63693.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 327 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 101/235 (42%), Positives = 161/235 (68%), Gaps = 1/235 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V++ + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD G Sbjct: 82 VKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRG 141 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ K+ R P+P EIA Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTEIA 201 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+L + +R+ L + ++P+SL+ +GD + L + +ED+ SP Q LR+ Sbjct: 202 KELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDEGP-SPEYYTTQEFLRQDL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA LTP++ VL +RFG+ + +L +VG++ ++RER+RQ+E +A+ L+ Sbjct: 261 NNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLR 315 >gi|88858314|ref|ZP_01132956.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas tunicata D2] gi|88819931|gb|EAR29744.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas tunicata D2] Length = 339 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 108/231 (46%), Positives = 161/231 (69%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 97 CEAS--RKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 154 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+KL Sbjct: 155 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELTQKLDHEPTAEEIAEKLDR 214 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 PVE V K+L++ ++ S++TPIG + L D + D+ P +S IQ ++RE L Sbjct: 215 PVEDVTKMLRLNEKITSVDTPIGGDSEKALLDILADEKGGGP-ESCIQDEDIRENIVHWL 273 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VGK+ +TRER+RQI+ +A+R+LK Sbjct: 274 EELNAKQREVLARRFGLLGYEPSTLEDVGKEIGLTRERVRQIQVEALRRLK 324 >gi|48743|emb|CAA37174.1| unnamed protein product [Streptomyces coelicolor A3(2)] Length = 332 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 109/233 (46%), Positives = 152/233 (65%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTY Sbjct: 92 ESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTY 151 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP P EIA +L Sbjct: 152 ATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELGST 211 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 212 PERVHDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L PR +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 272 LDPRTASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|159027100|emb|CAO89285.1| rpoD [Microcystis aeruginosa PCC 7806] Length = 328 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 159/225 (70%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ RT R ++ K+ R TP EIA +L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATPAEIALELDLEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++PISL+ +GD + L + +ED + VSP Q LR+ +LA LTP+ Sbjct: 212 REYLSMARQPISLDVRVGDNQDTELSELLED-SGVSPDTFITQELLRQDLANLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +RFG+ + +L ++G++ ++RER+RQ+E +A+ L+ Sbjct: 271 QREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLR 315 >gi|221196694|ref|ZP_03569741.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2M] gi|221203363|ref|ZP_03576382.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2] gi|221177297|gb|EEE09725.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2] gi|221183248|gb|EEE15648.1| RNA polymerase sigma factor RpoD (Sigma-70) [Burkholderia multivorans CGD2M] Length = 524 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 108/246 (43%), Positives = 163/246 (66%), Gaps = 1/246 (0%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G IGLM+A EKF++ G+KF Sbjct: 280 GQQKVRDATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEKFEYRRGFKF 339 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI R++AD++ TIR+PVH+ D+ +V R A R + R+PTP E+A + Sbjct: 340 STYATWWIRQAIARAVADRARTIRVPVHVGDQHQRVRRQALRFRQRTGRQPTPAELAAET 399 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + +R +L + EP+SL+TP+ D DT L D IED+ + SP + A +RE + Sbjct: 400 GLAEDKLRAILALPAEPVSLDTPLPDADTG-LVDLIEDETSASPFEQLAGARMRECVRSL 458 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L S+TP E VLR RFG+G T + + K ++RER+RQIE +A+ L+ + ++ Sbjct: 459 LRSVTPAEADVLRRRFGLGGTEPDTYDAIAKDAGMSRERVRQIEKRALAALRTAAEAEGA 518 Query: 677 RSFLDG 682 +FLD Sbjct: 519 HAFLDA 524 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 41/140 (29%), Positives = 74/140 (52%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D Sbjct: 15 DPIIQLLALASEQGYLTHADLVDALPPESDSPDALDVVRAALADIGITVLDEPAAPPPFA 74 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ++D+ A L ++ DP+ +Y+R M ++ LL+RE EIA+A+ +E Sbjct: 75 AAPAVDVDRDALEEGRALLGDLARGASASTDPLALYMRRMHAVPLLTREDEIALARELET 134 Query: 149 GRAMMMASLCESPLTFQALI 168 GR M+ +L P AL+ Sbjct: 135 GRHQMLHALAGCPPAVDALL 154 >gi|13508091|ref|NP_110040.1| RNA polymerase sigma factor [Mycoplasma pneumoniae M129] gi|2500786|sp|P78022|RPOD_MYCPN RecName: Full=RNA polymerase sigma factor rpoD; Short=Sigma-A gi|1674175|gb|AAB96132.1| Sigma-70 Factor Family [Mycoplasma pneumoniae M129] gi|301633308|gb|ADK86862.1| RNA polymerase sigma factor RpoD [Mycoplasma pneumoniae FH] Length = 499 Score = 217 bits (553), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 112/247 (45%), Positives = 169/247 (68%), Gaps = 8/247 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V +NLRLV+S+AKK+ RGL F DLIQEGN+GL+KA KF+W LG KFSTYA WW Sbjct: 248 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 307 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG- 562 +KQAITR+IADQ+ T+RIPVHM + I+++ + R ++ ++ REPT EE+A+K+ EG Sbjct: 308 IKQAITRAIADQARTVRIPVHMVETINRLAKAERALNQELGREPTAEELAEKMGGQAEGF 367 Query: 563 -VRKVLKITK---EPISLETPIGDEDTSHLGDFIEDKNAVSPLD-SAIQANLRETTTRVL 617 V+K+ +I + +P+SL+ +G ++ S GDF+ D +A P + + ++N + + Sbjct: 368 TVKKIAEIKRLSLDPVSLDKTVGHDEESQFGDFVRDTDAQMPDEFTESRSNYEKIDELLN 427 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ +EE ++RMR G+ N TL+EV ++ + RE+IRQIE KAIRKL+ R+ + Sbjct: 428 NCLSEQEELIVRMRIGMPPYNETKTLDEVSQKIKIPREKIRQIETKAIRKLRQAVRNNHM 487 Query: 677 R-SFLDG 682 SF+ G Sbjct: 488 SLSFMRG 494 >gi|158335492|ref|YP_001516664.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] gi|158305733|gb|ABW27350.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 327 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 106/237 (44%), Positives = 159/237 (67%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+SVAKKY R L+ LDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 92 AKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ + R +S K+ R TP EIA+ L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKAQRELSQKLGRSATPAEIAEALELEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L I ++PISL+ +GD + L D +ED + SP LR+ ++L LTP+ Sbjct: 212 RDYLTIARQPISLDLRVGDNQDTELRDLLED-DGQSPEQFTTTEALRDDVNQLLKELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + VL +RFG+ + +L +VG+Q ++RER+RQ+E +A+ L+ R ++R ++ Sbjct: 271 QRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLRR--RKGEVREYI 325 >gi|6463986|dbj|BAA86958.1| group 2 sigma factor RpoD4 [Synechococcus sp. PCC 7942] Length = 311 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 105/226 (46%), Positives = 162/226 (71%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M++ANLRLV+SVAKK N+GL+ LDLIQEG++GL +A EKFD LGYKFSTYA WW Sbjct: 74 AKTKMLKANLRLVVSVAKKCQNQGLELLDLIQEGSLGLERAVEKFDPALGYKFSTYAYWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+I + + TIR+P+H+ +KI ++ + R +++++KR P+ EIA+ L +P++ V Sbjct: 134 IRQSMTRAIDNHARTIRLPIHVSEKISRIKKMTRELTHQLKRLPSRAEIAEALKLPLQDV 193 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L + SL+ GD+ S LGD I D ++ P+D+ + E + LA LT Sbjct: 194 EMLLSQSTPCTSLDAQARGDDGRSFLGDLIPDPKSLEPMDAMDRHIQHEQISTWLAHLTE 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++VL++RFG+ HTL E+G++ V+RERIRQ+EA+A++KL+ Sbjct: 254 REQQVLQLRFGLHDGEQHTLAEIGRRLNVSRERIRQVEARALQKLR 299 >gi|21221637|ref|NP_627416.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|256787171|ref|ZP_05525602.1| RNA polymerase principal sigma factor [Streptomyces lividans TK24] gi|289771070|ref|ZP_06530448.1| RNA polymerase principal sigma factor hrdD [Streptomyces lividans TK24] gi|19856654|sp|P18249|HRDD_STRCO RecName: Full=RNA polymerase principal sigma factor hrdD gi|7799522|emb|CAB90986.1| RNA polymerase principal sigma factor [Streptomyces coelicolor A3(2)] gi|289701269|gb|EFD68698.1| RNA polymerase principal sigma factor hrdD [Streptomyces lividans TK24] Length = 332 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 109/233 (46%), Positives = 152/233 (65%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTY Sbjct: 92 ESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTY 151 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP P EIA +L Sbjct: 152 ATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELGST 211 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 212 PERVTDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L PR +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 272 LDPRTASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|319953761|ref|YP_004165028.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319422421|gb|ADV49530.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 287 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 116/285 (40%), Positives = 185/285 (64%), Gaps = 6/285 (2%) Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 K E S+ K EI + + I+ E + ++KG+ +A++ K + +ANLR Sbjct: 8 KQVTNRETASLDKYLQEIGKVDL---ITADEEVELAQRIKKGD-QAALEK--LTKANLRF 61 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+Q Sbjct: 62 VVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQSILQALAEQ 121 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 S +R+P++ I+K+ +T + +R+P+PEEIAK+L M VE V++ LK + +S Sbjct: 122 SRIVRLPLNKIGSINKINKTFAFLEQAHERQPSPEEIAKELDMTVEDVKQSLKNSGRHVS 181 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 ++ P+ D + S+L D + + +P + +LR R L +LTPRE V+R+ FG+ Sbjct: 182 MDAPLIDGEDSNLYDVLRSGESPNPDRELLHESLRTEIERALETLTPREADVIRLYFGLA 241 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 242 GQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|254415890|ref|ZP_05029647.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196177317|gb|EDX72324.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 352 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 102/249 (40%), Positives = 169/249 (67%), Gaps = 3/249 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S ++K + + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD Sbjct: 105 SALKKIINQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 164 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++QAITR+IA Q+ IR+P+H+ +K++K+ + R +S ++ R TP E Sbjct: 165 RGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQRLGRNATPTE 224 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 I ++L + +R+ L I ++P+SL+ +GD + L D +ED + +P+ Q +LR+ Sbjct: 225 IGQELELEPAQIREYLSIARQPVSLDVRVGDNQDTELSDLLED-SGPTPVHYTTQESLRQ 283 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +LA LTP++ VL +RFG+ + +L +VG++ ++RER+RQ+E +A+ +L+ Sbjct: 284 DLDNLLAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERVRQLEHQALAQLRR-- 341 Query: 672 RSKKLRSFL 680 R +R ++ Sbjct: 342 RHATVREYI 350 >gi|77359643|ref|YP_339218.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas haloplanktis TAC125] gi|76874554|emb|CAI85775.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas haloplanktis TAC125] Length = 324 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 105/230 (45%), Positives = 157/230 (68%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CEAS--RKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA L Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELTQKLDHEPTAEEIAACLDK 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ ++ S++ PIG E+ + L D I D N V P ++ + L Sbjct: 197 PVEDVTKMLRLNEKIASVDMPIGGENDTALLDIIADDNNVGPEGEVQNNDMNKHIVDWLG 256 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+LK Sbjct: 257 ELNPKQREVLARRFGLLGYEPSTLEDVGREIGLTRERVRQIQVEALRRLK 306 >gi|72080402|ref|YP_287460.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 7448] Length = 489 Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 230 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 289 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 290 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 349 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 350 EEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 407 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 408 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 465 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 466 RQIEAKILKKLRTPHRRLSLRDF 488 >gi|167579340|ref|ZP_02372214.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis TXDOH] Length = 482 Score = 217 bits (552), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 102/246 (41%), Positives = 161/246 (65%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF++ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKVADRIERRSGARASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + E +R VL + +EP SL P+GD+D + GD +ED + S D+ Q + + T + Sbjct: 355 GLSAERLRAVLMLPREPRSLNAPLGDDDQAEFGDIVEDASTPSLFDALAQGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ Q V+RE+IR+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAAQAGVSREQIRRIEKRALQTLRITADACNA 474 Query: 677 RSFLDG 682 R FLD Sbjct: 475 RDFLDA 480 Score = 40.4 bits (93), Expect = 1.1, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 29/42 (69%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 109 DPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAET 150 >gi|83720670|ref|YP_440648.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] gi|167617444|ref|ZP_02386075.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis Bt4] gi|83654495|gb|ABC38558.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis E264] Length = 483 Score = 217 bits (552), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 102/246 (41%), Positives = 161/246 (65%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF++ G+KF Sbjct: 236 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKF 295 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 296 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKVADRIERRSGARASLAELSEAT 355 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + E +R VL + +EP SL P+GD+D + GD +ED + S D+ Q + + T + Sbjct: 356 GLSAERLRAVLMLPREPRSLNAPLGDDDQAEFGDIVEDASTPSLFDALAQGQMCDVVTSL 415 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ Q V+RE+IR+IE +A++ L+ + + Sbjct: 416 LKTMSAQEADILRRRFGIGGDEPWSYEQIAAQAGVSREQIRRIEKRALQTLRITADACNA 475 Query: 677 RSFLDG 682 R FLD Sbjct: 476 RDFLDA 481 Score = 40.0 bits (92), Expect = 1.2, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 29/42 (69%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 110 DPLALFVRRMHAVPLLTHAQEIALATEIEAGREQVLQALAET 151 >gi|76799605|ref|ZP_00781725.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae 18RS21] gi|76585040|gb|EAO61678.1| RNA polymerase major sigma factor RpoD [Streptococcus agalactiae 18RS21] Length = 278 Score = 217 bits (552), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 100/183 (54%), Positives = 141/183 (77%), Gaps = 3/183 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R +K I V ++ E + + V +G+ +AK+ + EANLRLV+S+AK+Y RG+ Sbjct: 99 VRMYLKEIGVVPLLTNEEEKELAVAVAEGDL---MAKQRLAEANLRLVVSIAKRYVGRGM 155 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 QFLDLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 215 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+VR R + ++ ++PTPE+IA+++ M + VR++LKI +EP+SLETPIG+ED SHL Sbjct: 216 INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDSHL 275 Query: 589 GDF 591 GDF Sbjct: 276 GDF 278 Score = 43.1 bits (100), Expect = 0.14, Method: Compositional matrix adjust. Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P + ++Q++D + L++ GI++ D +EG+ + + + ++ S Sbjct: 39 PFVLDADQIDDLLERLTDGGISITD------KEGNPSTKYVVEGPKPEELTDEELIGSNS 92 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ E E +A + G M L E+ L Sbjct: 93 AKVNDPVRMYLKEIGVVPLLTNEEEKELAVAVAEGDLMAKQRLAEANL 140 >gi|315127432|ref|YP_004069435.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas sp. SM9913] gi|315015946|gb|ADT69284.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudoalteromonas sp. SM9913] Length = 323 Score = 216 bits (551), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 105/230 (45%), Positives = 157/230 (68%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 78 CEAS--RKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 135 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+ L Sbjct: 136 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELTQKLDHEPTAEEIAESLDR 195 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ ++ S++ PIG E+ S L D I D+ V P ++ L Sbjct: 196 PVEDVTKMLRLNEKIASVDMPIGSENDSALLDVIADEKNVGPEGEVQNNDMNTHIIDWLG 255 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+LK Sbjct: 256 ELNPKQREVLARRFGLLGYEPSTLEDVGREIGLTRERVRQIQVEALRRLK 305 >gi|144575263|gb|AAZ53437.2| DNA-directed RNA polymerase sigma factor [Mycoplasma hyopneumoniae 7448] Length = 676 Score = 216 bits (551), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 417 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 476 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 477 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 536 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 537 EEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 594 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 595 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 652 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 653 RQIEAKILKKLRTPHRRLSLRDF 675 >gi|161936260|ref|YP_115577.2| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 232] Length = 489 Score = 216 bits (551), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 230 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 289 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 290 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 349 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 350 EEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 407 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 408 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 465 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 466 RQIEAKILKKLRTPHRRLSLRDF 488 >gi|148377531|ref|YP_001256407.1| RNA polymerase sigma factor [Mycoplasma agalactiae PG2] gi|148291577|emb|CAL58963.1| DNA directed RNA polymerase sigma factor(Sigma A) [Mycoplasma agalactiae PG2] Length = 509 Score = 216 bits (551), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 111/256 (43%), Positives = 168/256 (65%), Gaps = 10/256 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG + A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G++KA +K++ G+K Sbjct: 254 KGGFKGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGIIKAVQKYNVNKGFK 313 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR++ADQS T+R+PVHM + I+K+ + R + + +PT EEIA++ Sbjct: 314 FSTYATWWIRQAITRAVADQSRTVRVPVHMVETINKITKIERELQQENGVDPTDEEIAQR 373 Query: 556 LA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 E VR + KI +PISL+ IG E+ S DF++D++ V+P+D A L ET Sbjct: 374 YGNDFTAEKVRHIRKINIDPISLDKQIGKENDSSFSDFVKDESVVNPVDYASHEELVETL 433 Query: 614 TRVLA-SLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRK 666 +L +L E ++ R+G+G + + +LEE+ + V++ERIRQIE K +RK Sbjct: 434 NAILKDTLDADEYELICKRYGVGFDNNGEKYKVFSLEELALERNVSKERIRQIENKILRK 493 Query: 667 LK-HPSRSKKLRSFLD 681 LK P RS+ L+ F++ Sbjct: 494 LKSSPERSRYLKVFME 509 >gi|71893415|ref|YP_278861.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae J] Length = 489 Score = 216 bits (551), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 230 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 289 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 290 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 349 Query: 550 EEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 350 EEISERLDGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 407 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 408 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 465 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 466 RQIEAKILKKLRTPHRRLSLRDF 488 >gi|291566702|dbj|BAI88974.1| group 2 RNA polymerase sigma factor SigB [Arthrospira platensis NIES-39] Length = 334 Score = 216 bits (551), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 112/265 (42%), Positives = 172/265 (64%), Gaps = 12/265 (4%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S + G+S SE I++ R+ AK++M+EANLRLV+S+AKKY R ++FLDLIQE Sbjct: 79 SAKAGLSESEMTDIINRGRR-------AKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQE 131 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G +GL + EKFD GYKFSTYA WW++QAITR+IA S TIR+P+H+ +K++K+ R Sbjct: 132 GTLGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQ 191 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R + + R TP EIAK L + +R L ++ P+SL+ +GD + L D +ED++ Sbjct: 192 RELFQQYGRNATPTEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDES 251 Query: 597 AVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A + DS + Q LR+ ++A LTP++ VL +R+G+ + +L +VG Q ++RER Sbjct: 252 ASA--DSYVTQQLLRQDLKDMMADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRER 309 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFL 680 +RQ+E +A+ L+ R ++R +L Sbjct: 310 VRQLENQALNHLRR--RKAQVREYL 332 >gi|53987186|gb|AAV27387.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 232] Length = 676 Score = 216 bits (551), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 417 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 476 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 477 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 536 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 537 EEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 594 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 595 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 652 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 653 RQIEAKILKKLRTPHRRLSLRDF 675 >gi|186680839|ref|YP_001864035.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186463291|gb|ACC79092.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 378 Score = 216 bits (551), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 113/275 (41%), Positives = 189/275 (68%), Gaps = 6/275 (2%) Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 LK+ E + + + + ++E + + S + +G +AK++M+ +NLRLV+S+AK+Y NR Sbjct: 108 LKLGQEPTKLEIASELEMTE-KQLESRLYQG----RVAKRKMIRSNLRLVVSIAKRYLNR 162 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G+ FLDLIQEG +GL +A EKFD GYKFSTYA WW++QAITR+IA+ + TIR+P+H+ Sbjct: 163 GVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWWIRQAITRAIANDARTIRLPIHIV 222 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +K++K+ + R + K+ R PT E+A+ L + V+ +R++ ++ ++ +SL +G E+ + Sbjct: 223 EKLNKLKKAQRELKQKLCRNPTEGEMAEALDISVQQLRQLQQLRRQALSLNHRVGKEEDT 282 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEV 645 L D +ED++ +SP + +R+ VL LTPRE+ V+ +R+G+ + TLEEV Sbjct: 283 ELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEV 342 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G F ++RER+RQI++KA+RKL+ P +K+L+ +L Sbjct: 343 GNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGWL 377 >gi|167561013|ref|ZP_02353929.1| RNA polymerase sigma factor [Burkholderia oklahomensis EO147] Length = 476 Score = 216 bits (551), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 100/246 (40%), Positives = 164/246 (66%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +GE S A +M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A +KF++ G+K Sbjct: 228 EGEARISAATGKMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIQKFEYRRGFK 287 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 288 FSTYATWWIRQAISRAVADRARTIRLPVHVGDQARRVRKIADRIKQRSGMRASLAELSEA 347 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + E +R VL++ +EP SL TP+GD+D + GD +ED + S D+ A +R+ Sbjct: 348 TELSTERLRAVLELPREPRSLNTPLGDDDQAEFGDLVEDASTPSLFDALAGAQMRDVVAS 407 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L +++ +E +LR RFGIG + + E++ Q V+RE+IR+IE +A++ L+ + + Sbjct: 408 LLKTMSAQEADILRRRFGIGGDEPWSYEQIAAQSGVSREQIRRIEKRALQTLRVTAEACN 467 Query: 676 LRSFLD 681 FLD Sbjct: 468 AHDFLD 473 >gi|312601028|gb|ADQ90283.1| RNA polymerase sigma factor [Mycoplasma hyopneumoniae 168] Length = 676 Score = 216 bits (551), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 417 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 476 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 477 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 536 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 537 EEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 594 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 595 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 652 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 653 RQIEAKILKKLRTPHRRLSLRDF 675 >gi|226328647|ref|ZP_03804165.1| hypothetical protein PROPEN_02542 [Proteus penneri ATCC 35198] gi|225203380|gb|EEG85734.1| hypothetical protein PROPEN_02542 [Proteus penneri ATCC 35198] Length = 327 Score = 216 bits (550), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 102/233 (43%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++YTNRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 SRQRMIESNLRLVVKISRRYTNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA+ L PVE V Sbjct: 147 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSVEEIAESLDKPVEDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D+N P + NL+E + L L P+ Sbjct: 207 SKMLRLNERITSVDTPIGGDSDKALLDIISDENEEGPEATIQNNNLKENIIKWLFELNPK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+LK +S+ L Sbjct: 267 QREVLARRFGLLGYEAETLEDVGREIGLTRERVRQIQVEGLRRLKDILQSQGL 319 >gi|167568274|ref|ZP_02361148.1| RNA polymerase sigma factor [Burkholderia oklahomensis C6786] Length = 483 Score = 216 bits (550), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 100/246 (40%), Positives = 164/246 (66%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +GE S A +M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A +KF++ G+K Sbjct: 235 EGEARISAATGKMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIQKFEYRRGFK 294 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 FSTYATWWIRQAISRAVADRARTIRLPVHVGDQARRVRKIADRIKQRSGMRASLAELSEA 354 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + E +R VL++ +EP SL TP+GD+D + GD +ED + S D+ A +R+ Sbjct: 355 TELSTERLRAVLELPREPRSLNTPLGDDDQAEFGDLVEDASTPSLFDALAGAQMRDVVAS 414 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L +++ +E +LR RFGIG + + E++ Q V+RE+IR+IE +A++ L+ + + Sbjct: 415 LLKTMSAQEADILRRRFGIGGDEPWSYEQIAAQSGVSREQIRRIEKRALQTLRVTAEACN 474 Query: 676 LRSFLD 681 FLD Sbjct: 475 AHDFLD 480 >gi|261210105|ref|ZP_05924403.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC341] gi|260840870|gb|EEX67412.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC341] Length = 336 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 157/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D N P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSNNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 316 >gi|113477826|ref|YP_723887.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110168874|gb|ABG53414.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 384 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 110/267 (41%), Positives = 174/267 (65%), Gaps = 8/267 (2%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++V G + S+ H R +C AK+ M+ +NLRLV+S+AK+Y NRG+ FLDLIQ Sbjct: 123 VAVAAGFTESQLDH-----RLHQCRT--AKRRMISSNLRLVVSIAKRYLNRGVPFLDLIQ 175 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EG +GL +AAEKFD GYKFSTYA WW++Q ITR+IA+Q TIR+PVH+ ++I+K+ R Sbjct: 176 EGALGLNRAAEKFDPDKGYKFSTYAYWWIRQGITRTIANQGRTIRLPVHVVEQINKLRRV 235 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R + + R P EIA++L + + +R + +I ++ +SL +G ++ + L DF+ED Sbjct: 236 YRDLRRSLNRIPNDTEIAQELEISLPQLRNLQQIRRKTLSLNHRLGTDENTELLDFLEDN 295 Query: 596 NAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 +P +R+ VL L+ RE+ V+ +R+G+ HTL+EV + ++RE Sbjct: 296 ENSTPEAQMNDMMMRQDILEVLNHVLSNREQDVISLRYGLITGEPHTLDEVSRMINLSRE 355 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLD 681 R+RQI+AKA+RKL+ P +++L+ +L+ Sbjct: 356 RVRQIQAKAMRKLRRPQVAERLKGWLN 382 >gi|144227447|gb|AAZ44150.2| DNA-directed RNA polymerase sigma factor [Mycoplasma hyopneumoniae J] Length = 676 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 112/263 (42%), Positives = 168/263 (63%), Gaps = 20/263 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +K + + I KK +++ NLRLV++ AK+Y NRGL F+DLI EGN+G++KA K+D Sbjct: 417 LAKKMKIKGRIGKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYD 476 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 477 YTRGFKFSTYATWWIRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTA 536 Query: 550 EEIAKKL--AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEI+++L + +R + KI +PISL+ IG E+ S DFI+D+N +SP+D AI Sbjct: 537 EEISERLDGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAI-- 594 Query: 608 NLRETTTRVL-----ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 RE +VL ++L E ++ R+G+G N + H+ EE+ VT+ER+ Sbjct: 595 --REEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERV 652 Query: 657 RQIEAKAIRKLKHPSRSKKLRSF 679 RQIEAK ++KL+ P R LR F Sbjct: 653 RQIEAKILKKLRTPHRRLSLRDF 675 >gi|172065170|ref|YP_001815882.1| RpoD family RNA polymerase sigma factor [Burkholderia ambifaria MC40-6] gi|171997412|gb|ACB68329.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria MC40-6] Length = 621 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 150/237 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA E++D+ G++FSTYA WW Sbjct: 384 ARTGLFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWW 443 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + TP E+A + PV+ V Sbjct: 444 IRQAITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKV 503 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + P+ E D D SP D+A LR T V+ L PR Sbjct: 504 RDLMAIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPEDAAGATQLRRTIAAVIDRLPPR 563 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ LRSF+ Sbjct: 564 EAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLRASDTLGLLRSFI 620 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 52/144 (36%), Positives = 73/144 (50%), Gaps = 4/144 (2%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I RG+VT ++ LP D+ + ++ A+L +GI V D D E Sbjct: 28 LIATGLSRGFVTHGDIIDGLPDDDANDSGIDAVAAVLDELGIAVCDSADTASGWTLERYF 87 Query: 94 DLASSA---SNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 A A ++ + L A R+TD PVR+YLREMG+ LL+R+ E A A+RIE GR Sbjct: 88 RPAPPARAWADGAGTLAAADLLAPRTTD-PVRLYLREMGTTPLLTRDEEFAYARRIERGR 146 Query: 151 AMMMASLCESPLTFQALIIWRDEL 174 A A LC P AL+ R E+ Sbjct: 147 AASAAVLCGDPDALDALVSIRVEI 170 >gi|258623793|ref|ZP_05718750.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM603] gi|258583916|gb|EEW08708.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM603] Length = 336 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 157/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D N P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSNNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 316 >gi|258623525|ref|ZP_05718526.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM573] gi|262172378|ref|ZP_06040056.1| RNA polymerase sigma factor RpoS [Vibrio mimicus MB-451] gi|258584187|gb|EEW08935.1| RNA polymerase sigma-38 factor [Vibrio mimicus VM573] gi|261893454|gb|EEY39440.1| RNA polymerase sigma factor RpoS [Vibrio mimicus MB-451] Length = 336 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 157/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D N P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSNNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 316 >gi|262164038|ref|ZP_06031777.1| RNA polymerase sigma factor RpoS [Vibrio mimicus VM223] gi|262027566|gb|EEY46232.1| RNA polymerase sigma factor RpoS [Vibrio mimicus VM223] Length = 336 Score = 216 bits (550), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 157/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D N P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSNNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 316 >gi|291298947|ref|YP_003510225.1| RpoD subfamily RNA polymerase sigma-70 subunit [Stackebrandtia nassauensis DSM 44728] gi|290568167|gb|ADD41132.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stackebrandtia nassauensis DSM 44728] Length = 330 Score = 216 bits (549), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 159/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++ ++ANLRLV+S+A++Y G+ LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 80 AKEQFIKANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYQRGFKFSTYATWW 139 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI+R+IA Q T+R+PVH+ + ++++ TAR+++ ++ +P PE+IA L + VE V Sbjct: 140 IRQAISRAIAQQERTVRLPVHLVEDVNRMRNTARQLTRELGADPEPEQIANALGVTVERV 199 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ +++ +SL+TPIGD+ ++LGD + D + +P D I RE +L L R Sbjct: 200 NELIRWSQDTVSLDTPIGDDGDTNLGDLVADSDEPTPEDVVIAGMERERIDMMLGHLDER 259 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ R+G+ +H+L EV +F ++RERIRQ+E +A+ +LK Sbjct: 260 SAGIVKARYGLEDGREHSLTEVAHRFALSRERIRQLEIQALARLK 304 >gi|212711364|ref|ZP_03319492.1| hypothetical protein PROVALCAL_02436 [Providencia alcalifaciens DSM 30120] gi|212686093|gb|EEB45621.1| hypothetical protein PROVALCAL_02436 [Providencia alcalifaciens DSM 30120] Length = 328 Score = 216 bits (549), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 97/225 (43%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRQRMIESNLRLVVKISRRYNNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EP+PEEIA++L PVE V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNIYLRTARELAQKLDHEPSPEEIAERLDKPVEDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TPI + L + + D N P ++ NL+E + L L P+ Sbjct: 208 SRMLRLNERITSVDTPIAGDSEKSLLEVLSDDNESGPENTIQDNNLKENIVKWLYELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLEEVG++ +TRER+RQI+ + +R+LK Sbjct: 268 QREVLARRFGLLGYEAETLEEVGREIGLTRERVRQIQVEGLRRLK 312 >gi|118581147|ref|YP_902397.1| RpoD family RNA polymerase sigma factor [Pelobacter propionicus DSM 2379] gi|118503857|gb|ABL00340.1| RNA polymerase, sigma 70 subunit, RpoD family [Pelobacter propionicus DSM 2379] Length = 323 Score = 216 bits (549), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 111/279 (39%), Positives = 174/279 (62%), Gaps = 5/279 (1%) Query: 389 DFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEM 448 D E E V D +KI ++ I ++ + + + + KG+ A+ +M Sbjct: 43 DHAEAELPPAVLETFDDAIKIY--LRDIQRTPLLTAEQEKEVARQIEKGDM---AARNKM 97 Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F+ +FSTYA WW++QAI Sbjct: 98 IESNLRLVVKIAKRYINRGLPFLDLIEEGNLGLIKAVERFNLAKECRFSTYATWWIRQAI 157 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R++ +QS TIR+PVH+ D I+++ + RR+S ++REP EIA+++ + + VR+++ Sbjct: 158 DRALVNQSRTIRLPVHVSDDINRMAKVTRRLSQTLQREPHAHEIAEEMNVKLAYVRRLMT 217 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + + S+ETPIGD L D IED + V+P D + E + L+ E+++L Sbjct: 218 LLRRTCSMETPIGDGSDYFLIDTIEDTSMVAPSDLLENIDRYEQISEHFKELSESEQKIL 277 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL Sbjct: 278 ALRFGLDDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKL 316 >gi|171322339|ref|ZP_02911166.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171092333|gb|EDT37699.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 234 Score = 216 bits (549), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 104/235 (44%), Positives = 155/235 (65%), Gaps = 1/235 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KFSTYA WW++QA Sbjct: 1 MLEANLRLVLSIARKYMNRGVDLPDLVQDGCLGLMRAIEKFEYRRGFKFSTYATWWIRQA 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + R++AD+S TIR+PVH+ D+ +V R A R + R TP E+ + +P +R VL Sbjct: 61 VARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELIAETGLPEGKLRAVL 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + EP+SL+TP+ D +T L D IED+ + SP + +RE T +L S+TP E V Sbjct: 121 ALPAEPLSLDTPLPDAETG-LVDLIEDQASASPFEHLADTRMRECVTSLLRSVTPAEADV 179 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 LR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ SFLD Sbjct: 180 LRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALATLRTVAEAEGAESFLDA 234 >gi|119513754|ref|ZP_01632741.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414] gi|119461595|gb|EAW42645.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414] Length = 327 Score = 216 bits (549), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 92 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ K R PTP EIA +L + + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKFGRSPTPTEIAHELELEPMQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++P+SL+ +GD + L + +ED+ SP Q LR+ +LA LTP+ Sbjct: 212 REYLNMARQPVSLDVKVGDNQDTELQEMLEDEGP-SPEYYTTQEFLRQDLNNLLAELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +VL +RFG+ + +L +VG++ ++RER+RQ+E +A+ L+ Sbjct: 271 QRQVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLR 315 >gi|170704115|ref|ZP_02894732.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] gi|170130976|gb|EDS99686.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia ambifaria IOP40-10] Length = 575 Score = 216 bits (549), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 151/237 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA E++D+ G++FSTYA WW Sbjct: 338 ARTGLFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWW 397 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + TP E+A + PV+ V Sbjct: 398 IRQAITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKV 457 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + P+ E D D + SP D+A LR T V+ L PR Sbjct: 458 RDLMAIVKEPVSADVPVSPEGDMTFADVAADTSTPSPEDAAGATQLRRTIAAVIDRLPPR 517 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ LRSF+ Sbjct: 518 EAMVLKLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRASDALGLLRSFI 574 Score = 65.1 bits (157), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 63/125 (50%), Gaps = 4/125 (3%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSA---SNSSVFLQKR 109 +P D+ + ++ A+L +GI V D D E A ++ + L Sbjct: 1 MPDDDANDSGVDAVAAVLGELGIAVCDSADTASGWTLERYFRPTPPARAWADGAGTLVAA 60 Query: 110 KDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALII 169 A R+TD PVR+YLREMG+ LL+R+ E A A+RIE GRA A LC P AL+ Sbjct: 61 DLLAPRTTD-PVRLYLREMGTTPLLTRDEEFAYARRIERGRAASAAVLCGDPDALDALVS 119 Query: 170 WRDEL 174 R E+ Sbjct: 120 IRVEI 124 >gi|75907421|ref|YP_321717.1| sigma 28 (flagella/sporulation) [Anabaena variabilis ATCC 29413] gi|75701146|gb|ABA20822.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 378 Score = 216 bits (549), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 106/242 (43%), Positives = 171/242 (70%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 136 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 195 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K R P+ E+A+ L + Sbjct: 196 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMAEALEIS 255 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V +R++ ++ ++ +SL +G E+ + L D +ED++ +SP + +R+ VL Sbjct: 256 VPQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGD 315 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPRE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 316 VLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 375 Query: 679 FL 680 +L Sbjct: 376 WL 377 >gi|186684216|ref|YP_001867412.1| RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186466668|gb|ACC82469.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 327 Score = 216 bits (549), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 101/235 (42%), Positives = 160/235 (68%), Gaps = 1/235 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V++ + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD G Sbjct: 82 VQQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRG 141 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ + R PTP EIA Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPTPAEIA 201 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+L + +R+ L + ++P+SL+ +GD + L + +ED + SP Q LR+ Sbjct: 202 KELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLED-SGPSPEYYTNQEFLRQDL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA LTP++ VL +RFG+ + +L +VG++ ++RER+RQ+E +A+ L+ Sbjct: 261 NNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLR 315 >gi|17231741|ref|NP_488289.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] gi|8489803|gb|AAF75759.1|AF262218_1 group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] gi|17133384|dbj|BAB75948.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120] Length = 390 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 106/242 (43%), Positives = 171/242 (70%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 148 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 207 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K R P+ E+A+ L + Sbjct: 208 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMAEALEIS 267 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V +R++ ++ ++ +SL +G E+ + L D +ED++ +SP + +R+ VL Sbjct: 268 VPQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGD 327 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPRE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 328 VLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 387 Query: 679 FL 680 +L Sbjct: 388 WL 389 >gi|172036788|ref|YP_001803289.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC 51142] gi|171698242|gb|ACB51223.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC 51142] Length = 420 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/239 (44%), Positives = 160/239 (66%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K EM++ANLRLV+SVAKKY +RGL+ LDLIQEG +GL KA EKFD GY+FSTYA WW Sbjct: 181 SKDEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPIKGYRFSTYAYWW 240 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS IR+PVH+ +K++K+ + R++S R T EEI K+L M V Sbjct: 241 IRQGITRAIATQSRIIRLPVHVTEKLNKIKQVQRQISQAKGRNATLEEIGKELNMTPTQV 300 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+V +SLE +G E + L D +E ++ +SP ++ +LR +L LT R Sbjct: 301 REVFMKIPRSVSLEIKVGKEKDTELVDLLESED-ISPEENLAIESLRRDIGILLEDLTER 359 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E+ V+++R+G ++L ++G+ ++RER+RQIEAKA++KL+ P R ++R + + Sbjct: 360 EQEVIKLRYGFEDGVSYSLADIGRTLDLSRERVRQIEAKALQKLRQPRRRNQIRDYFES 418 >gi|254527154|ref|ZP_05139206.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538578|gb|EEE41031.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 313 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLASIRKVSRDLAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|161521004|ref|YP_001584431.1| RpoD family RNA polymerase sigma factor [Burkholderia multivorans ATCC 17616] gi|189352818|ref|YP_001948445.1| RNA polymerase sigma 38 subunit [Burkholderia multivorans ATCC 17616] gi|160345054|gb|ABX18139.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans ATCC 17616] gi|189336840|dbj|BAG45909.1| RNA polymerase sigma 38 subunit [Burkholderia multivorans ATCC 17616] Length = 525 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 106/239 (44%), Positives = 159/239 (66%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + M+EANLRLV+S+A+KY NRG+ DL+Q+G IGLM+A EKF++ G+KFSTYA WW Sbjct: 288 ATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCIGLMRAIEKFEYRRGFKFSTYATWW 347 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R++AD++ TIR+PVH+ D+ +V R A R + R+PTP E+A + + + + Sbjct: 348 IRQAIARAVADRARTIRVPVHVGDQHQRVRRQALRFRQRTGRQPTPAELAAETGLAEDKL 407 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +L + EP+SL+TP+ D DT L D IED+ + SP + +RE +L S+TP Sbjct: 408 RAILALPAEPVSLDTPLPDADTG-LVDLIEDETSASPFEQLAGTRMRECVRSLLRSVTPT 466 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E VLR RFG+G T + + K ++RER+RQIE +A+ L+ + ++ +FLD Sbjct: 467 EADVLRRRFGLGGTEPDTYDAIAKDAGMSRERVRQIEKRALAALRTAAEAEGAHAFLDA 525 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 77/157 (49%), Gaps = 34/157 (21%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV----------- 77 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V Sbjct: 15 DPIIQLLALASEQGYLTHADLVDALPPESDSPDALDVVRAALADIGITVLDEPAAPPPFA 74 Query: 78 ------VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSI 131 VD D LE EG DLA AS S+ DP+ +Y+R M ++ Sbjct: 75 AAPAVDVDRDTLE--EGRALLGDLARGASAST---------------DPLALYMRRMHAV 117 Query: 132 ELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 LL+RE EIA+A+ +E GR M+ +L P AL+ Sbjct: 118 PLLTREDEIALARELETGRHQMLHALAGCPPAVDALL 154 >gi|318042101|ref|ZP_07974057.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 309 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 106/230 (46%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 74 SKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ +EIA+ + MP++ + Sbjct: 134 IRQSMTRAIACQSRTIRLPVHLSERLTAIRKVSLDLAHKLGAMPSRKEIAEAMDMPIDEL 193 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + V PLD + E R L+ LT Sbjct: 194 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADNSHVEPLDQVERGMHHEQLGRWLSHLTE 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E +VL +RFG+ HTL E+G+ V+RER+RQ+E KA+RKL+H +R Sbjct: 254 QERQVLELRFGLEGEERHTLAEIGRMLDVSRERVRQVELKALRKLRHLTR 303 >gi|157413850|ref|YP_001484716.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388425|gb|ABV51130.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 313 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLASIRKVSRDLAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|123969020|ref|YP_001009878.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123199130|gb|ABM70771.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] Length = 313 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLASIRKVSRDLAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|126696812|ref|YP_001091698.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126543855|gb|ABO18097.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 313 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLASIRKVSRDLAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDANERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|115360900|ref|YP_778037.1| RNA polymerase, sigma 28 subunit [Burkholderia ambifaria AMMD] gi|115286228|gb|ABI91703.1| RNA polymerase, sigma 28 subunit [Burkholderia ambifaria AMMD] Length = 617 Score = 215 bits (548), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 150/237 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA E++D G++FSTYA WW Sbjct: 380 AKAGLFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIERYDHRRGFRFSTYATWW 439 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + TP E+A + PV+ V Sbjct: 440 IRQAITHALADLGRTIRVPTHTVDALNKLSRLAREHRQRAGTAATPAELAVHMGEPVDKV 499 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I KEP+S + P+ E D D SP D+A LR T V+ L PR Sbjct: 500 RELMAIVKEPVSADVPVSPEGDMTFADVAPDTTTPSPEDAAGATQLRRTIAAVIDRLPPR 559 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ LRSF+ Sbjct: 560 EAMVLKLRYGLHTDEGCSLRDIGRQLNLSAERVRQIEASALARLRASDTLGLLRSFV 616 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 64/197 (32%), Positives = 86/197 (43%), Gaps = 9/197 (4%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I RG+VT ++ LP D+ + ++ A+L +GI V D D E Sbjct: 28 LIATGLSRGFVTRGDIIDGLPDDDANDSGVDAVAAVLGELGIAVSDSADTASGWTLERYF 87 Query: 94 DLASSAS--NSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 A A D T DPVR+YLREMG+ LL+R+ E A A+RIE GRA Sbjct: 88 RPAPPARAWADGAGALAAADLLAPRTTDPVRLYLREMGTTPLLTRDEEFAYARRIERGRA 147 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLRE-IIDLEACIGPESKGGFFHGTEGHSYQK 210 A LC P AL+ R E+ T +I L+ GP H G S Sbjct: 148 ASAAVLCGDPDALDALVSIRVEIAQCRTAASTYVIFLDD--GPRDDTSADHAEAGTSAT- 204 Query: 211 REDSSQEKERDDVQETE 227 ++ E RDD +TE Sbjct: 205 ---ATGEPARDDDTQTE 218 >gi|159039487|ref|YP_001538740.1| RpoD family RNA polymerase sigma factor [Salinispora arenicola CNS-205] gi|157918322|gb|ABV99749.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora arenicola CNS-205] Length = 329 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 100/261 (38%), Positives = 173/261 (66%), Gaps = 7/261 (2%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 V G+ +E + +V E AK + ANLRLV+S+A++Y G+ LDLIQEG Sbjct: 75 VPAGVERAELQRLV-------AEGERAKDLFIRANLRLVVSIARRYVRSGMPMLDLIQEG 127 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 N GL++A EKFD+ G+KFSTYA WW++QAI+R+IA Q T+R+PVH+ + ++++ AR Sbjct: 128 NTGLVRAVEKFDYERGFKFSTYATWWIRQAISRAIAQQERTVRLPVHLVEDVNRMRNVAR 187 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 +++ ++ +P PE+IA L + VE V ++++ +++ +SL+TP+GD+ ++LGD + D +A Sbjct: 188 QLTRELGSDPEPEQIATALGVSVERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDA 247 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 SP + + R+ +L+ L R ++R R+G+ +H+L EV +F ++RERIR Sbjct: 248 PSPEEIVLTGLERQRIEGLLSHLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIR 307 Query: 658 QIEAKAIRKLKHPSRSKKLRS 678 Q+E +A+ +L+ +R++ L++ Sbjct: 308 QLEIQALGRLRELARAEGLQA 328 >gi|33861845|ref|NP_893406.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33640213|emb|CAE19748.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 313 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLATIRKISRELAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|238060708|ref|ZP_04605417.1| RNA polymerase sigma factor rpoD [Micromonospora sp. ATCC 39149] gi|237882519|gb|EEP71347.1| RNA polymerase sigma factor rpoD [Micromonospora sp. ATCC 39149] Length = 331 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 97/240 (40%), Positives = 164/240 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK + ANLRLV+S+A++Y G+ LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 91 AEGERAKDLFIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFST 150 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAI+R+IA Q T+R+PVH+ + ++++ AR+++ ++ +P PE+IA L + Sbjct: 151 YATWWIRQAISRAIAQQERTVRLPVHLVEDVNRMRNAARQLTRELGSDPEPEQIAAALGV 210 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE V ++++ +++ +SL+TP+GD+ ++LGD + D +A SP D + R+ +L Sbjct: 211 TVERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSPEDIVLTGLERQRIEGLLN 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R ++R R+G+ +H+L EV +F ++RERIRQ+E +A+ +L+ +R++ L++ Sbjct: 271 HLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQALGRLRELARAEGLQA 330 >gi|257061333|ref|YP_003139221.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8802] gi|256591499|gb|ACV02386.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 328 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 157/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ +T R +S K+ R TP EIA L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAAVLEIEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++PISL+ +GD + L + +ED A SP Q LR+ ++ LTP+ Sbjct: 212 RECLSMARQPISLDVRVGDNQDTELSELLEDHEA-SPDQYITQELLRQDLKNLMEELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++GK+ ++RER+RQ+E +A+ +L+ Sbjct: 271 QRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQLEHQALAQLR 315 >gi|229520830|ref|ZP_04410252.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TM 11079-80] gi|229342063|gb|EEO07059.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TM 11079-80] Length = 335 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ VRTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYVRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|209527735|ref|ZP_03276230.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209491813|gb|EDZ92173.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 332 Score = 215 bits (547), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 110/264 (41%), Positives = 169/264 (64%), Gaps = 10/264 (3%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S + G+S SE I++ R+ AK++M+EANLRLV+S+AKKY R ++FLDLIQE Sbjct: 77 SAKAGLSESEMTEIMNRGRR-------AKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQE 129 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G +GL + EKFD GYKFSTYA WW++QAITR+IA S TIR+P+H+ +K++K+ R Sbjct: 130 GTLGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQ 189 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R + + R TP EIAK L + +R L ++ P+SL+ +GD + L D +ED++ Sbjct: 190 RELFQQYGRNATPTEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDES 249 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A S + Q LR+ ++A LTP++ VL +R+G+ + +L +VG ++RER+ Sbjct: 250 A-SADNYVTQQLLRQDLKDLMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERV 308 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQ+E +A+ L+ R ++R +L Sbjct: 309 RQLENQALNHLRR--RKAQVREYL 330 >gi|298490014|ref|YP_003720191.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298231932|gb|ADI63068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 332 Score = 215 bits (547), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 104/230 (45%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E IAK+ MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 AEGEIAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S K+ R PT E+A +L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAIELADELEL 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VR+ L+ + P+SL+ +GD + LG+ +ED A +P D IQ++L R++ Sbjct: 212 TPRQVRECLEKARLPLSLDLRLGDNYDTELGEMLEDTGA-TPEDFVIQSSLSSDIERLMK 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+++ V+++RFG+ TL ++G+ ++RER+RQIE +A+ KL+ Sbjct: 271 ELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRERVRQIEREALTKLR 320 >gi|123966683|ref|YP_001011764.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201049|gb|ABM72657.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 313 Score = 215 bits (547), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLATIRKVSRELAHKLGAMPSRIEIAEAMEIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNNEEPLDQVEQKMHQEQLGKWLTHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|218247332|ref|YP_002372703.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8801] gi|218167810|gb|ACK66547.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] Length = 328 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 157/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ +T R +S K+ R TP EIA L + + Sbjct: 152 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAAVLEIEPSQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + ++PISL+ +GD + L + +ED A SP Q LR+ ++ LTP+ Sbjct: 212 RECLSMARQPISLDVRVGDNQDTELSELLEDHEA-SPDQYITQELLRQDLKNLMEELTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ + +L ++GK+ ++RER+RQ+E +A+ +L+ Sbjct: 271 QRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQLEHQALAQLR 315 >gi|119509984|ref|ZP_01629125.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119512944|ref|ZP_01632006.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119462397|gb|EAW43372.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] gi|119465308|gb|EAW46204.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414] Length = 389 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 106/242 (43%), Positives = 172/242 (71%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 147 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 206 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K+ R P E+A+ L + Sbjct: 207 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLCRNPNEAEMAEALEIS 266 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V+ +R++ ++ ++ +SL +G E+ + L D +ED++ +SP + +R+ VL Sbjct: 267 VQQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGD 326 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPRE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 327 VLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 386 Query: 679 FL 680 +L Sbjct: 387 WL 388 >gi|291320189|ref|YP_003515450.1| DNA directed RNA polymerase sigma factor [Mycoplasma agalactiae] gi|290752521|emb|CBH40493.1| DNA directed RNA polymerase sigma factor(Sigma A) [Mycoplasma agalactiae] Length = 509 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 111/256 (43%), Positives = 166/256 (64%), Gaps = 10/256 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G++KA +K++ G+K Sbjct: 254 KGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGIIKAVQKYNVNKGFK 313 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR++ADQS T+R+PVHM + I+K+ + R + + +PT EEIA++ Sbjct: 314 FSTYATWWIRQAITRAVADQSRTVRVPVHMVETINKITKIERELQQENGVDPTDEEIAQR 373 Query: 556 LA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 E VR + KI PISL+ IG E+ S DF++D++ V+P+D A L ET Sbjct: 374 YGNDFTAEKVRHIRKINIGPISLDKQIGKENDSSFSDFVKDESVVNPVDYASHEELVETL 433 Query: 614 TRVLA-SLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRK 666 +L +L E ++ R+G+G + + +LEE+ + V++ERIRQIE K +RK Sbjct: 434 NAILKDTLDADEYELICKRYGVGFDNNGEKYKVFSLEELALERNVSKERIRQIENKILRK 493 Query: 667 LK-HPSRSKKLRSFLD 681 LK P RS+ L+ F++ Sbjct: 494 LKSSPERSRYLKVFME 509 >gi|298492420|ref|YP_003722597.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae' 0708] gi|298234338|gb|ADI65474.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae' 0708] Length = 389 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 105/242 (43%), Positives = 171/242 (70%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 147 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 206 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K+ R P+ E+A L + Sbjct: 207 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMATALEIS 266 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 ++ +R++ ++ ++ +SL +G E+ + L D +ED++ SP + +R+ VL Sbjct: 267 IQQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGD 326 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LTPRE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 327 VLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 386 Query: 679 FL 680 +L Sbjct: 387 WL 388 >gi|239981636|ref|ZP_04704160.1| RNA polymerase principal sigma factor hrdD [Streptomyces albus J1074] gi|291453499|ref|ZP_06592889.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|17366575|sp|Q59914|HRDD_STRGR RecName: Full=RNA polymerase principal sigma factor hrdD gi|510454|emb|CAA56305.1| sigma factor [Streptomyces griseus] gi|291356448|gb|EFE83350.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 332 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 149/230 (64%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 91 AEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFST 150 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EIA +L+ Sbjct: 151 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNRENGRDPEPAEIAAELSS 210 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 211 TPERVTDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIG 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 271 QLDDRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 320 >gi|171909626|ref|ZP_02925096.1| RNA polymerase sigma factor [Verrucomicrobium spinosum DSM 4136] Length = 298 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 107/241 (44%), Positives = 158/241 (65%), Gaps = 3/241 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ EA + M+ ANLRLV+ +A+ Y N GL LDLI EGNIGLMKA E+FD G Sbjct: 35 IKKGDPEA---RSHMIRANLRLVVKIAQDYANYGLPLLDLISEGNIGLMKAVERFDPNKG 91 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 K STYA WW+KQ+I R++A+QS TIR+PVHM DKI K+ R A MS ++ REPT +E++ Sbjct: 92 GKLSTYAAWWIKQSIKRALANQSKTIRLPVHMVDKISKMRRVAMAMSEELGREPTDDELS 151 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ + + ++ + P SL+ PI ++D++ G+ + D+NA +P D N+ Sbjct: 152 EEIGIDRGKLSQLKVASMRPASLDAPISEDDSTEFGEIVGDENAQTPFDLLSHKNMHSQL 211 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L L RE +++ RFG+ TLEEVG++F VTRERIRQ++ A+RKL+ + Sbjct: 212 DGLLTVLDERERKIIDARFGLNGQKARTLEEVGQEFGVTRERIRQLQNIALRKLRRALQK 271 Query: 674 K 674 K Sbjct: 272 K 272 >gi|298250072|ref|ZP_06973876.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297548076|gb|EFH81943.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 319 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 106/259 (40%), Positives = 169/259 (65%), Gaps = 1/259 (0%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 +I + R + R + EA AK++++EANLRLV+ +A+KY G+ +DLIQEGN+GLM Sbjct: 60 NIRKQRGLSRSARLDDNEAQEAKRQLIEANLRLVMHIARKYRGFGVDLMDLIQEGNLGLM 119 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 A +KFD+ GY+FSTYA WW++Q ITR++++Q+ IR+P++ ++I ++ R R+M Sbjct: 120 HAVDKFDYKKGYRFSTYATWWIRQYITRALSEQAHMIRVPLYKIEEIKRLGRVKRKMQQG 179 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDFIEDKNAVSPL 601 EPT EE+A ++ + V V +L +E ISL+ P G +D L + +ED SP Sbjct: 180 ETGEPTLEELAVQMEISVPEVIALLSTNQETISLDMPRKGGDDEISLSEVLEDDPIYSPE 239 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + L+E +L LTPRE++VL++RFG+ N +H+L E GK+ ++ E +RQ+E Sbjct: 240 RVVLTQTLQEQVQDILNCLTPREKKVLQLRFGLNGNGEHSLTETGKKMGLSHEAVRQMEF 299 Query: 662 KAIRKLKHPSRSKKLRSFL 680 +A++KL HP R ++L+ FL Sbjct: 300 RALKKLGHPCRDRRLQDFL 318 >gi|78185087|ref|YP_377522.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|116072338|ref|ZP_01469605.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|78169381|gb|ABB26478.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] gi|116064860|gb|EAU70619.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 313 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 109/230 (47%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P EIA+ + +PVE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPNRLEIAEAMDIPVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D +A PLD Q E R L+ L+ Sbjct: 198 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSADEPLDIVEQRIHHEQLGRWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VLR+RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQNVLRLRFGLEGNERHTLAEIGRMMEVSRERVRQVELKALRKLRNLTR 307 >gi|78779769|ref|YP_397881.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78713268|gb|ABB50445.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] Length = 313 Score = 214 bits (546), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + +R +++K+ P+ EIA+ + + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLAAIRKVSRELAHKLGAMPSRIEIAEAMDIDVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL+ SL+ P+ GD+ S LGD I D N PLD Q +E + L+ L+ Sbjct: 198 DSVLRQALSTSSLDAPVNGDDGRSFLGDLIADSNTEEPLDKVEQKMHQEQLGKWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLRNLTR 307 >gi|332140079|ref|YP_004425817.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|332143123|ref|YP_004428861.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|327550101|gb|AEA96819.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] gi|327553145|gb|AEA99863.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii str. 'Deep ecotype'] Length = 330 Score = 214 bits (545), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 103/230 (44%), Positives = 156/230 (67%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+ +NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 85 CEAS--RKRMIVSNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 142 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +R +R +S K+ EPT EEIA L Sbjct: 143 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRASRELSQKLDHEPTAEEIAAALDK 202 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ + S++TPIG E+ L D I D+ SP +S ++++ L Sbjct: 203 PVEDVTKMLRLNERITSVDTPIGGENDKALLDIIADEKEFSPEESLQDSDIKSNIITWLE 262 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG + +TRER+RQI+ +A+R+L+ Sbjct: 263 ELNPKQREVLARRFGLMGYEPSTLEDVGAEIGLTRERVRQIQVEALRRLR 312 >gi|113954655|ref|YP_729975.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113882006|gb|ABI46964.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 313 Score = 214 bits (545), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 110/241 (45%), Positives = 164/241 (68%), Gaps = 5/241 (2%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 M+R G+ AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD Sbjct: 71 MIRVGQR----AKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTR 126 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EI Sbjct: 127 GYKFSTYAFWWIRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRLEI 186 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRE 611 ++ L MPVE + +L+ SL+ P+ ED S LGD I D +A PLD Q E Sbjct: 187 SEALDMPVEELDSLLRQALTTSSLDAPVNGEDGRSFLGDLIADSSAEEPLDKVEQRIHHE 246 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 R L+ L+ +E+ VL +RFG+ N HTL ++G+ V+RER+RQ+E K++RKL++ + Sbjct: 247 QLGRWLSHLSEQEQHVLTLRFGLNGNERHTLAQIGRLLDVSRERVRQVELKSLRKLRNLT 306 Query: 672 R 672 R Sbjct: 307 R 307 >gi|330469769|ref|YP_004407512.1| RNA polymerase, sigma 70 subunit, rpod subfamily protein [Verrucosispora maris AB-18-032] gi|328812740|gb|AEB46912.1| RNA polymerase, sigma 70 subunit, rpod subfamily protein [Verrucosispora maris AB-18-032] Length = 333 Score = 214 bits (545), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 97/240 (40%), Positives = 164/240 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK + ANLRLV+S+A++Y G+ LDLIQEGN GL++A EKFD+ GYKFST Sbjct: 93 AEGERAKDLFIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGYKFST 152 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAI+R+IA Q T+R+PVH+ + ++++ AR+++ ++ +P PE+IA L + Sbjct: 153 YATWWIRQAISRAIAQQERTVRLPVHLVEDVNRMRNVARQLTRELGSDPEPEQIAAALGV 212 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE V ++++ +++ +SL+TP+GD+ ++LGD + D +A SP + + R+ +L Sbjct: 213 TVERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSPEEIVLTGLERQRIEGLLN 272 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R ++R R+G+ +H+L EV +F ++RERIRQ+E +A+ +L+ +R++ L++ Sbjct: 273 HLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQALGRLRELARAEGLQA 332 >gi|78222633|ref|YP_384380.1| sigma 28 (flagella/sporulation) [Geobacter metallireducens GS-15] gi|78193888|gb|ABB31655.1| RNA polymerase, sigma 38 subunit, RpoS [Geobacter metallireducens GS-15] Length = 326 Score = 214 bits (545), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 107/260 (41%), Positives = 172/260 (66%), Gaps = 3/260 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I+ ++ I T ++ E + + S + KG+ A+ +M+E+NLRLV+ +AK+Y NRGL Sbjct: 58 IKLYLREIQRTTLLTADEEKVLASRIAKGD---KAARDKMIESNLRLVVKIAKRYINRGL 114 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 FLDLI+EGN+GL+KA E+F +FSTYA WW++Q+I R++ +QS TIR+PVH+ D Sbjct: 115 PFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDD 174 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+K+++ R + N+ REPT +E+A ++ + +R+++ + K+ S+E P+G+ L Sbjct: 175 INKMLKITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFL 234 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D IED ++VSP N E ++ ASL+ E+++L +RFG+ TL+ +G+ Sbjct: 235 IDTIEDTSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRS 294 Query: 649 FCVTRERIRQIEAKAIRKLK 668 F VTRERIRQIEAK++ KL+ Sbjct: 295 FGVTRERIRQIEAKSLEKLR 314 >gi|253988173|ref|YP_003039529.1| RNA polymerase sigma factor RpoS [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253779623|emb|CAQ82784.1| rna polymerase sigma factor (sigma-38) [Photorhabdus asymbiotica] Length = 332 Score = 214 bits (545), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 96/234 (41%), Positives = 165/234 (70%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA W Sbjct: 91 LARRRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATW 150 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+PEEIA++L PV+ Sbjct: 151 WIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSPEEIAEQLDKPVDD 210 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + IS++TPI + L D + D+N P + + +++++ + L L Sbjct: 211 VSRMLRLNERIISVDTPISSDSDKALLDVLSDENETGPEGTTQEDDMKKSIVKWLFELNS 270 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++ VL RFG+ TLE+VGK+ +TRER+RQI+ + +R+LK +++ L Sbjct: 271 KQREVLARRFGLLGYEAETLEDVGKEIGLTRERVRQIQVEGLRRLKDIMQTQGL 324 >gi|56267933|gb|AAV85439.1| RpoS [Listonella anguillarum] gi|56267935|gb|AAV85440.1| RpoS [Listonella anguillarum] gi|167987243|gb|ACA13292.1| RpoS [Listonella anguillarum] gi|222101826|gb|ACM44037.1| RNA polymerase sigma factor [Listonella anguillarum] Length = 333 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 102/226 (45%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 ARKRMIESNLRLVVKISRRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PVE V Sbjct: 150 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAFQLDKPVEDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++RE+ L L P+ Sbjct: 210 SKMLRLNERISSVDTPIGGDGDKALLDIIPDTNNSDPEISTQDDDIRESLLNWLDELNPK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 315 >gi|162450883|ref|YP_001613250.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161161465|emb|CAN92770.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 463 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 101/234 (43%), Positives = 154/234 (65%), Gaps = 1/234 (0%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 V ANLRLV + A++ +RG+ LDLIQEGN+GL++AAEKFD+ GY+FSTYAMWW+KQA+ Sbjct: 231 VRANLRLVAAAARQLRHRGVPLLDLIQEGNLGLIRAAEKFDYRRGYRFSTYAMWWIKQAL 290 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 +R++ Q IR+PVH+ + + ++ R + + RE PEE+A++ + +E ++ + + Sbjct: 291 SRALLYQGQVIRVPVHIAETRRRALQARRELEQEHAREAAPEEVAERSGLSMEKLQALRE 350 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + P+ L+ P+GD+D + GDF + A +P + + L + +L SLTPRE VL Sbjct: 351 MALPPVYLDAPVGDDDGARQGDFFASEGA-APDELLVHRRLHAQVSALLESLTPRERDVL 409 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 R+RFG+ HTL E+G F V+RER+RQIE A+ KL+ SR + L + L G Sbjct: 410 RLRFGLDGGQPHTLAEIGGMFSVSRERVRQIEESALSKLRTLSRRQALETPLGG 463 >gi|313678638|ref|YP_004056378.1| RNA polymerase sigma factor [Mycoplasma bovis PG45] gi|312950821|gb|ADR25416.1| RNA polymerase sigma factor [Mycoplasma bovis PG45] Length = 509 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 110/256 (42%), Positives = 167/256 (65%), Gaps = 10/256 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G++KA +K++ G+K Sbjct: 254 KGGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNSGIIKAVQKYNVNKGFK 313 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++QAITR++ADQS T+R+PVHM + I+K+ + R + + +PT EEIA++ Sbjct: 314 FSTYATWWIRQAITRAVADQSRTVRVPVHMVETINKITKIERELQQENGVDPTDEEIAQR 373 Query: 556 LA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 E VR + KI +PISL+ IG E+ S DF++D++ V+P++ A L ET Sbjct: 374 YGNDFTAEKVRHIRKINIDPISLDKQIGKENDSSFSDFVKDESVVNPVEYASHEELVETL 433 Query: 614 TRVLA-SLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRK 666 +L +L E ++ R+G+G + + +LEE+ + V++ERIRQIE K +RK Sbjct: 434 NTILKDTLDADEYELICKRYGVGFDNNGEKYKVFSLEELALERNVSKERIRQIENKILRK 493 Query: 667 LK-HPSRSKKLRSFLD 681 LK P RS+ L+ F++ Sbjct: 494 LKSSPERSRYLKVFME 509 >gi|260902364|ref|ZP_05910759.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ4037] gi|308110564|gb|EFO48104.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ4037] Length = 329 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 310 >gi|260878982|ref|ZP_05891337.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AN-5034] gi|260895455|ref|ZP_05903951.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus Peru-466] gi|157674653|gb|ABV60415.1| RpoS [Vibrio parahaemolyticus] gi|308088215|gb|EFO37910.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus Peru-466] gi|308090442|gb|EFO40137.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AN-5034] gi|328474140|gb|EGF44945.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 10329] Length = 329 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 310 >gi|197286082|ref|YP_002151954.1| RNA polymerase sigma factor RpoS [Proteus mirabilis HI4320] gi|227356592|ref|ZP_03840979.1| RNA polymerase sigma factor RpoS [Proteus mirabilis ATCC 29906] gi|194683569|emb|CAR44440.1| RNA polymerase sigma factor RpoS [Proteus mirabilis HI4320] gi|227163348|gb|EEI48275.1| RNA polymerase sigma factor RpoS [Proteus mirabilis ATCC 29906] Length = 329 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++YTNRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRQRMIESNLRLVVKISRRYTNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA+ L PV+ V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSVEEIAQTLDKPVDDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D+N P + NL+E + L L P+ Sbjct: 208 SKMLRLNERISSVDTPIGGDSDKALLDIISDENEEGPEATIQNNNLKENIVKWLFELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+LK Sbjct: 268 QREVLARRFGLLGYEAETLEDVGREIGLTRERVRQIQVEGLRRLK 312 >gi|12958587|gb|AAK09363.1|AF321124_1 RpoS [Vibrio harveyi] Length = 327 Score = 214 bits (544), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 84 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 143 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 144 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 203 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 204 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 264 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 308 >gi|196232822|ref|ZP_03131672.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] gi|196223021|gb|EDY17541.1| RNA polymerase, sigma 70 subunit, RpoD family [Chthoniobacter flavus Ellin428] Length = 296 Score = 214 bits (544), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 106/245 (43%), Positives = 161/245 (65%), Gaps = 3/245 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + + ++KG+ A+ M+ +NLRLV+ +A Y N GL LDLI EGNIGLMKA E+FD Sbjct: 34 LAAKIKKGD---KAARSLMIRSNLRLVVKIAHDYANLGLPLLDLISEGNIGLMKAVERFD 90 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G K STYA WW+KQ+I R++A+QS TIR+PVH+ DKI K+ R A +MS ++ REPT Sbjct: 91 PAKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDKISKMRRVALQMSEELGREPTD 150 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +E+A+++ + + ++ ++ P SL+ PI D+D++ G+ + D A++P + NL Sbjct: 151 DELAEEVGLSSGKISQLKTVSIRPASLDAPISDDDSTEFGEIVGDLEALTPFERLRDKNL 210 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ +L L RE++++ RFG+ TLEEVGK+F VTRERIRQ++ A+ KL+ Sbjct: 211 RDEVGDLLEVLDEREKKIIFSRFGLDGGKAKTLEEVGKKFGVTRERIRQLQNIALMKLRR 270 Query: 670 PSRSK 674 + K Sbjct: 271 ALQKK 275 >gi|153214922|ref|ZP_01949705.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 1587] gi|153826929|ref|ZP_01979596.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-2] gi|153829928|ref|ZP_01982595.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 623-39] gi|229530348|ref|ZP_04419736.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 12129(1)] gi|254226840|ref|ZP_04920411.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V51] gi|254291219|ref|ZP_04962015.1| RNA polymerase sigma factor RpoS [Vibrio cholerae AM-19226] gi|262190768|ref|ZP_06048995.1| RNA polymerase sigma factor RpoS [Vibrio cholerae CT 5369-93] gi|124114995|gb|EAY33815.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 1587] gi|125620637|gb|EAZ49000.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V51] gi|148874616|gb|EDL72751.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 623-39] gi|149739232|gb|EDM53500.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-2] gi|150422913|gb|EDN14864.1| RNA polymerase sigma factor RpoS [Vibrio cholerae AM-19226] gi|229332121|gb|EEN97609.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 12129(1)] gi|262033353|gb|EEY51864.1| RNA polymerase sigma factor RpoS [Vibrio cholerae CT 5369-93] Length = 335 Score = 214 bits (544), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|163846411|ref|YP_001634455.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus aurantiacus J-10-fl] gi|222524178|ref|YP_002568649.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp. Y-400-fl] gi|163667700|gb|ABY34066.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus aurantiacus J-10-fl] gi|222448057|gb|ACM52323.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp. Y-400-fl] Length = 313 Score = 214 bits (544), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 98/260 (37%), Positives = 169/260 (65%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + ++E + +++ V GE A+ +++ +NLRLV+S+A++Y GL LDLIQEG++GL Sbjct: 56 LPLAEKQRLIAQVNAGEQ----ARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSVGL 111 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 M+A +KFD G KFSTYA +W++Q+I R+IAD S T+R+PVH+ +++ ++ R + +S Sbjct: 112 MRAVDKFDASRGLKFSTYATYWIRQSIGRAIADHSRTVRLPVHLGERLSRLSRLRQELSQ 171 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REPT EE+A+ + VE V + + P SL+ P ++ L + + D +P Sbjct: 172 QLDREPTLEELAQAAGLSVEQVERAEQAGLAPTSLDEPHTEDGGGALAEILTDPLQPTPF 231 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D ++ L+ L L+PRE +LR+R+G+ HTLE++G++ +TRER+RQ+E Sbjct: 232 DEVSESMLQADVQHALQQLSPRERSILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEH 291 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 +A+RKL+ PS +L+ +++ Sbjct: 292 EALRKLRDPSLHPQLQGYVN 311 >gi|153802558|ref|ZP_01957144.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-3] gi|124121921|gb|EAY40664.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MZO-3] Length = 335 Score = 214 bits (544), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|37524720|ref|NP_928064.1| RNA polymerase sigma factor RpoS [Photorhabdus luminescens subsp. laumondii TTO1] gi|36784145|emb|CAE13014.1| RNA polymerase sigma factor (sigma-38) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 332 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 96/234 (41%), Positives = 165/234 (70%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA W Sbjct: 91 LARQRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATW 150 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+PEEIA++L PV+ Sbjct: 151 WIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSPEEIAEQLDKPVDD 210 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + IS++TPI + L D + D+N P + + +++++ + L L Sbjct: 211 VSRMLRLNERIISVDTPISGDSDKALLDVLSDENETGPEGTTQEDDMKKSIVKWLFELNS 270 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++ VL RFG+ TLE+VGK+ +TRER+RQI+ + +R+LK +++ L Sbjct: 271 KQREVLARRFGLLGYEAETLEDVGKEIGLTRERVRQIQVEGLRRLKDIMQTQGL 324 >gi|147674644|ref|YP_001216035.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|262169845|ref|ZP_06037535.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC27] gi|146316527|gb|ABQ21066.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|227012360|gb|ACP08570.1| RNA polymerase sigma factor RpoS [Vibrio cholerae O395] gi|262021579|gb|EEY40290.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC27] Length = 335 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|229512804|ref|ZP_04402271.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TMA 21] gi|229350053|gb|EEO15006.1| RNA polymerase sigma factor RpoS [Vibrio cholerae TMA 21] gi|327483355|gb|AEA77762.1| RNA polymerase sigma factor RpoS [Vibrio cholerae LMA3894-4] Length = 335 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|15640556|ref|NP_230185.1| RNA polymerase sigma-38 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121590676|ref|ZP_01678009.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 2740-80] gi|121728563|ref|ZP_01681585.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V52] gi|153819103|ref|ZP_01971770.1| RNA polymerase sigma factor RpoS [Vibrio cholerae NCTC 8457] gi|153823615|ref|ZP_01976282.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|227080717|ref|YP_002809268.1| RNA polymerase sigma factor RpoS [Vibrio cholerae M66-2] gi|229507145|ref|ZP_04396651.1| RNA polymerase sigma factor RpoS [Vibrio cholerae BX 330286] gi|229508992|ref|ZP_04398480.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|229519660|ref|ZP_04409103.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC9] gi|229606176|ref|YP_002876824.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MJ-1236] gi|254850774|ref|ZP_05240124.1| RNA polymerase sigma factor rpoS [Vibrio cholerae MO10] gi|255744238|ref|ZP_05418191.1| RNA polymerase sigma factor RpoS [Vibrio cholera CIRS 101] gi|262149032|ref|ZP_06028176.1| RNA polymerase sigma factor RpoS [Vibrio cholerae INDRE 91/1] gi|6094129|sp|O51804|RPOS_VIBCH RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 factor gi|2897902|gb|AAC38175.1| sigma S [Vibrio cholerae] gi|9654961|gb|AAF93702.1| RNA polymerase sigma-38 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121547462|gb|EAX57570.1| RNA polymerase sigma factor RpoS [Vibrio cholerae 2740-80] gi|121629175|gb|EAX61616.1| RNA polymerase sigma factor RpoS [Vibrio cholerae V52] gi|126510335|gb|EAZ72929.1| RNA polymerase sigma factor RpoS [Vibrio cholerae NCTC 8457] gi|126518864|gb|EAZ76087.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|227008605|gb|ACP04817.1| RNA polymerase sigma factor RpoS [Vibrio cholerae M66-2] gi|229344349|gb|EEO09324.1| RNA polymerase sigma factor RpoS [Vibrio cholerae RC9] gi|229353917|gb|EEO18851.1| RNA polymerase sigma factor RpoS [Vibrio cholerae B33] gi|229355890|gb|EEO20810.1| RNA polymerase sigma factor RpoS [Vibrio cholerae BX 330286] gi|229368831|gb|ACQ59254.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MJ-1236] gi|254846479|gb|EET24893.1| RNA polymerase sigma factor rpoS [Vibrio cholerae MO10] gi|255738178|gb|EET93570.1| RNA polymerase sigma factor RpoS [Vibrio cholera CIRS 101] gi|262031177|gb|EEY49797.1| RNA polymerase sigma factor RpoS [Vibrio cholerae INDRE 91/1] Length = 335 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|158969744|gb|ABW86844.1| RpoS [Vibrio alginolyticus] Length = 330 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 147 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 207 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 267 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 311 >gi|254230502|ref|ZP_04923875.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|262393289|ref|YP_003285143.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|151936974|gb|EDN55859.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] gi|262336883|gb|ACY50678.1| RNA polymerase sigma factor RpoS [Vibrio sp. Ex25] Length = 328 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 145 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 205 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 265 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 309 >gi|91227834|ref|ZP_01262007.1| DNA-directed RNA polymerase, sigma subunit [Vibrio alginolyticus 12G01] gi|269965239|ref|ZP_06179373.1| RNA polymerase sigma-38 factor [Vibrio alginolyticus 40B] gi|91188344|gb|EAS74640.1| DNA-directed RNA polymerase, sigma subunit [Vibrio alginolyticus 12G01] gi|269830225|gb|EEZ84452.1| RNA polymerase sigma-38 factor [Vibrio alginolyticus 40B] Length = 328 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 145 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 205 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 265 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 309 >gi|148240795|ref|YP_001226182.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147849334|emb|CAK24885.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 376 Score = 213 bits (543), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 101/235 (42%), Positives = 159/235 (67%), Gaps = 1/235 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW++Q Sbjct: 140 MIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQG 199 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IA QS TIR+PVH+ +K++++ R + ++++ R + ++AK+L + + VR+ L Sbjct: 200 ITRAIATQSRTIRLPVHITEKLNRIKRVQQEIASEQGRLASVSDLAKELGVSEDTVRQTL 259 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 +SLET +G + + LGD +ED +A +P + + L + +L L PRE V Sbjct: 260 ARVPRSVSLETRVGKDQDTQLGDLLEDGHA-TPEQTLTRDALHDDLEHLLDELNPREAEV 318 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +R RFG+ +T TL E+G+ ++RER+RQIE +A+ KL+ P R K+R ++ G Sbjct: 319 IRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQPQRRSKVRDYIQG 373 >gi|145284374|gb|ABP51953.1| RpoS [Vibrio alginolyticus] Length = 328 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 145 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 205 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 265 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 309 >gi|27364956|ref|NP_760484.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus CMCP6] gi|320155343|ref|YP_004187722.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus MO6-24/O] gi|27361102|gb|AAO10011.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus CMCP6] gi|319930655|gb|ADV85519.1| RNA polymerase sigma factor RpoS [Vibrio vulnificus MO6-24/O] Length = 330 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PV+ V Sbjct: 147 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVDDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++R + L L P+ Sbjct: 207 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDEDMRVSLIHWLEELNPK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 267 QKEVLARRFGLLGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLR 311 >gi|148240072|ref|YP_001225459.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147848611|emb|CAK24162.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 313 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 159/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + MPVE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRLEIAEAMDMPVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + PLD Q E R ++ L+ Sbjct: 198 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLEEPLDRVEQRMHHEQLGRWMSHLSD 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL +RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLTLRFGLNGNERHTLAEIGRLLDVSRERVRQVELKALRKLRNLTR 307 >gi|37680992|ref|NP_935601.1| DNA-directed RNA polymerase, sigma subunit [Vibrio vulnificus YJ016] gi|37199742|dbj|BAC95572.1| DNA-directed RNA polymerase, sigma subunit [Vibrio vulnificus YJ016] Length = 330 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PV+ V Sbjct: 147 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVDDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++R + L L P+ Sbjct: 207 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDEDMRVSLIHWLEELNPK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 267 QKEVLARRFGLLGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLR 311 >gi|239995277|ref|ZP_04715801.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas macleodii ATCC 27126] Length = 330 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 103/230 (44%), Positives = 156/230 (67%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+ +NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 85 CEAS--RKRMIVSNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 142 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +R +R +S K+ EPT EEIA L Sbjct: 143 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRASRELSQKLDHEPTAEEIALALDK 202 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ + S++TPIG E+ L D I D+ SP +S ++++ L Sbjct: 203 PVEDVTKMLRLNERITSVDTPIGGENDKALLDIIADEKEFSPEESLQDSDIKSNIVTWLE 262 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG + +TRER+RQI+ +A+R+L+ Sbjct: 263 ELNPKQREVLARRFGLMGYEPSTLEDVGAEIGLTRERVRQIQVEALRRLR 312 >gi|153835750|ref|ZP_01988417.1| RNA polymerase sigma factor RpoS [Vibrio harveyi HY01] gi|156975773|ref|YP_001446680.1| hypothetical protein VIBHAR_03517 [Vibrio harveyi ATCC BAA-1116] gi|148867581|gb|EDL66895.1| RNA polymerase sigma factor RpoS [Vibrio harveyi HY01] gi|156527367|gb|ABU72453.1| hypothetical protein VIBHAR_03517 [Vibrio harveyi ATCC BAA-1116] Length = 328 Score = 213 bits (543), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 145 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 205 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 265 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 309 >gi|329941264|ref|ZP_08290543.1| RNA polymerase principal sigma factor HrdD [Streptomyces griseoaurantiacus M045] gi|329299795|gb|EGG43694.1| RNA polymerase principal sigma factor HrdD [Streptomyces griseoaurantiacus M045] Length = 332 Score = 213 bits (543), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 150/230 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EIA +L E V Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEIAAELGSNAERV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 216 TDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGRLDQR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +RS Sbjct: 276 TASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARS 325 >gi|225159269|ref|ZP_03725570.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] gi|224802166|gb|EEG20437.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutaceae bacterium TAV2] Length = 373 Score = 213 bits (542), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 107/236 (45%), Positives = 159/236 (67%), Gaps = 4/236 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ A+ M+ ANLRLV+ +A Y + GL LDLI EGNIGL+KA E+FD G Sbjct: 86 IRRGD---KAARDHMISANLRLVVKIAMDYKDFGLPLLDLISEGNIGLVKAVERFDPRKG 142 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 K STYA WW+KQ+I R++A+QS TIR+PVH+ DKI ++ RTA ++ ++ REP+ EEIA Sbjct: 143 GKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDKIARMRRTAMALTEQLGREPSDEEIA 202 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 +L +P V + ++ P SL+ P+G D D+S G+ + D+NAVSP +S + + Sbjct: 203 MELQIPTSKVAHLKSVSVRPASLDAPVGEDGDSSTFGELVGDENAVSPFESLKERSRNAD 262 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ SL PRE ++R RFG+ + TLEEVG++F VTRER+RQ++ A+ K++ Sbjct: 263 LKEMVDSLEPREAEIIRYRFGLDGRDELTLEEVGQKFKVTRERVRQLQNLALSKMR 318 >gi|302392313|ref|YP_003828133.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] gi|302204390|gb|ADL13068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium arabaticum DSM 5501] Length = 275 Score = 213 bits (542), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 109/253 (43%), Positives = 169/253 (66%), Gaps = 2/253 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S+ RK + S AK +++ NLRLV+S+A K+ +GL DL+QEGNIGL+ A EKFD Sbjct: 23 ISLARKAQAGDSEAKDKLIRHNLRLVVSIANKHQGKGLDLQDLVQEGNIGLITAVEKFDP 82 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW+KQ +TR+IA+Q TIRIPVH+ K +K+ + + ++ REPT E Sbjct: 83 DKGYRFSTYASWWIKQRVTRAIANQGKTIRIPVHVWQKTNKIFKVKDDLQTELGREPTAE 142 Query: 551 EIAKKLAMPVEGVRKVLKITKEP--ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EIA++ + +E +++V+++ + SL +GD+ + LG + +A P++ Q Sbjct: 143 EIAEETDISLEKIKEVMRVITDQNLASLNQFVGDDRDTELGQLVPSGSADDPVEGTSQQL 202 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E +L L+ RE V+R+RFG+ + TL+EVG++ VTRERIRQI+ KA+ +LK Sbjct: 203 LKEDLEELLTELSDREAEVIRLRFGLRDSRPRTLKEVGEELGVTRERIRQIQLKALNRLK 262 Query: 669 HPSRSKKLRSFLD 681 HP+R K+L+ +L+ Sbjct: 263 HPTRIKQLKGYLE 275 >gi|186685842|ref|YP_001869038.1| RNA polymerase sigma factor SigD [Nostoc punctiforme PCC 73102] gi|186468294|gb|ACC84095.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 332 Score = 213 bits (542), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 102/230 (44%), Positives = 162/230 (70%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + IAK++MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 ADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S K+ R PT E+A++L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAGELAQELEL 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + VR+ L+ + P+SL+ +GD + LG+ +ED A SP + +Q++L R++ Sbjct: 212 TPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEEFVMQSSLSYDLDRLMG 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP++ V+ +RFG+ TL ++G+ ++RER+RQIE +A+ KL+ Sbjct: 271 DLTPQQREVITLRFGLTDGQALTLAKIGEILNISRERVRQIEREALTKLR 320 >gi|88809137|ref|ZP_01124646.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88787079|gb|EAR18237.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 313 Score = 213 bits (542), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 159/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + MPVE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLTSIRKVSLDLAHKLGAMPSRLEIAEAMDMPVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + PLD Q E R ++ L+ Sbjct: 198 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLEEPLDRVEQRIHHEQLGRWMSHLSD 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL +RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLTLRFGLNGNERHTLAEIGRLLDVSRERVRQVELKALRKLRNLTR 307 >gi|282895663|ref|ZP_06303788.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] gi|281199357|gb|EFA74222.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9] Length = 396 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 107/242 (44%), Positives = 170/242 (70%), Gaps = 1/242 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +A EKFD GYKFSTY Sbjct: 154 QGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTY 213 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K R PT E+A+ L M Sbjct: 214 AYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEAEMAEFLEMT 273 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V+ +R++ ++ ++ +SL +G E+ + L D +ED++ SP + +R+ VL Sbjct: 274 VQQLRQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGD 333 Query: 620 -LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT RE+ V+ +R+G+ + TLEEVG F ++RER+RQI++KA+RKL+ P +K+L+ Sbjct: 334 VLTSREKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQIQSKAMRKLRRPHIAKRLKG 393 Query: 679 FL 680 +L Sbjct: 394 WL 395 >gi|223936758|ref|ZP_03628668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223894609|gb|EEF61060.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 352 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 105/239 (43%), Positives = 161/239 (67%), Gaps = 3/239 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + + ++KG+ +A ++ M++ANLRLV+ +A+ Y GL LDLI EGNIGLMKA E+FD Sbjct: 106 LAARIKKGDKKA---RELMIKANLRLVVKIARDYEGIGLPLLDLISEGNIGLMKAVERFD 162 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G K STY WW+KQ+I R++A+QS TIR+PVH+ DKI K+ RTA ++ + REP+ Sbjct: 163 PAKGGKLSTYGSWWIKQSIKRALANQSKTIRLPVHLVDKISKMRRTALKLQEILGREPSD 222 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A +L + V ++ P SL+ PIGDED+++ + ++D+NA +P + + + Sbjct: 223 EELADELNISAMRVSQMRTAAIRPASLDAPIGDEDSNNFAEVVQDENADTPYEQLEEKTV 282 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ +L PRE +LR RFG+ TLEEVG++F VTRER+RQI+ A++KL+ Sbjct: 283 TKMLQELVKTLDPREATILRARFGLDGGNQKTLEEVGQKFGVTRERVRQIQNIALKKLR 341 >gi|261345855|ref|ZP_05973499.1| RNA polymerase sigma factor RpoS [Providencia rustigianii DSM 4541] gi|282566345|gb|EFB71880.1| RNA polymerase sigma factor RpoS [Providencia rustigianii DSM 4541] Length = 328 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRQRMIESNLRLVVKISRRYNNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EP+PEEIA++L PVE V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNIYLRTARELAQKLDHEPSPEEIAEQLDKPVEDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TPI + L + + D N P ++ +L+E + L L P+ Sbjct: 208 SRMLRLNERITSVDTPIAGDSEKSLLEVLSDDNDSGPENTIQDNDLKENIVKWLYELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLEEVG++ +TRER+RQI+ + +R+LK Sbjct: 268 QREVLARRFGLLGYEAETLEEVGREIGLTRERVRQIQVEGLRRLK 312 >gi|75908126|ref|YP_322422.1| RNA polymerase sigma factor [Anabaena variabilis ATCC 29413] gi|75701851|gb|ABA21527.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 327 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 99/235 (42%), Positives = 160/235 (68%), Gaps = 1/235 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V++ + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD G Sbjct: 82 VKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRG 141 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ + R P+P EIA Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSPAEIA 201 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+L + +R+ L + ++P+SL+ +GD + L + +ED+ SP Q LR+ Sbjct: 202 KELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDEGP-SPEYYTTQEFLRQDL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA LTP++ V+ +RFG+ + +L +VG++ ++RER+RQ+E +A+ L+ Sbjct: 261 NTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQALAHLR 315 Score = 38.5 bits (88), Expect = 4.0, Method: Compositional matrix adjust. Identities = 17/37 (45%), Positives = 25/37 (67%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D+ + T D VR YLRE+G + LL+RE EI K+++ Sbjct: 10 DTNTKFTADMVRTYLREIGRVPLLTREQEIVYGKQVQ 46 >gi|163802977|ref|ZP_02196864.1| protein-L-isoaspartate O-methyltransferase [Vibrio sp. AND4] gi|159173267|gb|EDP58095.1| protein-L-isoaspartate O-methyltransferase [Vibrio sp. AND4] Length = 328 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 156/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 145 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 205 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLILWLEELNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 265 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLRE 310 >gi|302869477|ref|YP_003838114.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC 27029] gi|315504060|ref|YP_004082947.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Micromonospora sp. L5] gi|302572336|gb|ADL48538.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora aurantiaca ATCC 27029] gi|315410679|gb|ADU08796.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora sp. L5] Length = 333 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 96/240 (40%), Positives = 164/240 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK + ANLRLV+S+A++Y G+ LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 93 AEGERAKDLFIRANLRLVVSIARRYVRSGMPMLDLIQEGNTGLVRAVEKFDYERGFKFST 152 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAI+R+IA Q T+R+PVH+ + ++++ AR+++ ++ +P PE+IA L + Sbjct: 153 YATWWIRQAISRAIAQQERTVRLPVHLVEDVNRMRNVARQLTRELGSDPEPEQIATALGV 212 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 VE V ++++ +++ +SL+TP+GD+ ++LGD + D +A SP + + R+ +L Sbjct: 213 TVERVNELVRWSQDTVSLDTPVGDDGDTNLGDLVADSDAPSPEEIVLTGLERQRIEGLLN 272 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R ++R R+G+ +H+L EV +F ++RERIRQ+E +A+ +L+ +R++ L++ Sbjct: 273 HLDDRSAGIMRARYGLEDGREHSLTEVASRFSLSRERIRQLEIQALGRLRELARAEGLQA 332 >gi|28200488|gb|AAO31615.1| RNA polymerase subunit sigma factor S [Vibrio vulnificus] Length = 343 Score = 213 bits (542), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PV+ V Sbjct: 147 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVDDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++R + L L P+ Sbjct: 207 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDEDMRVSLIHWLEELNPK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 267 QKEVLARRFGLLGYEPSTLEEVGQEIGLTRERVRQIQVEGLRRLR 311 >gi|332532870|ref|ZP_08408743.1| RNA polymerase sigma factor RpoS [Pseudoalteromonas haloplanktis ANT/505] gi|332037716|gb|EGI74167.1| RNA polymerase sigma factor RpoS [Pseudoalteromonas haloplanktis ANT/505] Length = 324 Score = 213 bits (542), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 103/230 (44%), Positives = 156/230 (67%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CEAS--RKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT +EIA L Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELTQKLDHEPTADEIAACLDR 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ + S++ PIG E+ S L D I D+ + P ++ + L Sbjct: 197 PVEDVTKMLRLNERIASVDMPIGGENDSVLLDIIPDEKSAGPEGEVQNNDINKHIVDWLG 256 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+LK Sbjct: 257 ELNPKQREVLARRFGLLGYEPSTLEDVGREIGLTRERVRQIQVEALRRLK 306 >gi|302552062|ref|ZP_07304404.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302469680|gb|EFL32773.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 332 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 108/235 (45%), Positives = 152/235 (64%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 91 ADAERAKDIFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFST 150 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EIA +L Sbjct: 151 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPTEIAAELGS 210 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 211 TPERVTDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIG 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L R +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +RS Sbjct: 271 RLDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARS 325 >gi|17231292|ref|NP_487840.1| RNA polymerase sigma factor [Nostoc sp. PCC 7120] gi|8489801|gb|AAF75758.1|AF262217_2 group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120] gi|17132934|dbj|BAB75499.1| group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120] Length = 327 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 99/235 (42%), Positives = 160/235 (68%), Gaps = 1/235 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V++ + AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD G Sbjct: 82 VKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRG 141 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR+IA Q TIR+P+H+ +K++K+ + R ++ + R P+P EIA Sbjct: 142 YKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSPAEIA 201 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+L + +R+ L + ++P+SL+ +GD + L + +ED + SP Q LR+ Sbjct: 202 KELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLED-DGPSPEYYTTQEFLRQDL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA LTP++ V+ +RFG+ + +L +VG++ ++RER+RQ+E +A+ L+ Sbjct: 261 NTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQALAHLR 315 Score = 38.5 bits (88), Expect = 4.1, Method: Compositional matrix adjust. Identities = 17/37 (45%), Positives = 25/37 (67%) Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D+ + T D VR YLRE+G + LL+RE EI K+++ Sbjct: 10 DTNTKFTADMVRTYLREIGRVPLLTREQEIVYGKQVQ 46 >gi|317969130|ref|ZP_07970520.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 309 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 105/230 (45%), Positives = 161/230 (70%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 74 SKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ +EIA+++ MP++ + Sbjct: 134 IRQSMTRAIACQSRTIRLPVHLSERLTAIRKVSLELAHKLGAMPSRKEIAEEMDMPLDEL 193 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D++ PLD + +E R L LT Sbjct: 194 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADQSNSEPLDQVERGIHQEQLGRWLTHLTD 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E +VL +RFG+ HTL E+G+ V+RER+RQ+E KA+RKL+H +R Sbjct: 254 QERQVLELRFGLEGEERHTLAEIGRMLEVSRERVRQVELKALRKLRHLTR 303 >gi|218247827|ref|YP_002373198.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 8801] gi|257060853|ref|YP_003138741.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 8802] gi|218168305|gb|ACK67042.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] gi|256591019|gb|ACV01906.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 318 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 109/253 (43%), Positives = 167/253 (66%), Gaps = 7/253 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + + S + GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EK Sbjct: 71 KELRSAIEAGEA----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEK 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R++S + R Sbjct: 127 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAA 186 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E+A++L + VR+ L+ ++P+SL+ +GD + LGD +ED SP D A + Sbjct: 187 TIAELAEELELTPRQVREYLERARQPLSLDLRVGDNQDTELGDLLED-TGQSPEDYATHS 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ R++ LTP+++ VL +RFG+ TL ++G ++RER+RQIE +A+ KL Sbjct: 246 SLQLDLDRLMEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIEREALAKL 305 Query: 668 KHPSRSKKLRSFL 680 + R +R +L Sbjct: 306 R--KRKANIREYL 316 Score = 42.7 bits (99), Expect = 0.20, Method: Compositional matrix adjust. Identities = 22/49 (44%), Positives = 33/49 (67%), Gaps = 2/49 (4%) Query: 112 SADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 + +S+ DPVR YLRE+G + LL+ E EI AKR++ R + + +L ES Sbjct: 2 NVSKSSPDPVRAYLREIGRVPLLTHEEEILYAKRVQ--RFVALETLKES 48 >gi|119493081|ref|ZP_01624006.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106] gi|119452826|gb|EAW34001.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106] Length = 331 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 105/266 (39%), Positives = 177/266 (66%), Gaps = 8/266 (3%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++ TG+S +E H + IAK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQ Sbjct: 72 LATATGLSEAELNHQFQ-------QGIIAKQKMISSNLRLVVSIAKRYLNRGVPFLDLIQ 124 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EG +GL +A EKFD GYKFSTYA WW++Q ITR+IA+Q T+R+PVH+ ++++K+ Sbjct: 125 EGALGLNRATEKFDPDKGYKFSTYAYWWIRQGITRTIANQGRTVRLPVHVVEQLNKLQGI 184 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + + ++R+PT +E+A+ L++ + +R + ++ ++ +SL +G E+ S L D +ED Sbjct: 185 HQDLRRSLRRKPTEDELAEALSISPQQLRLLEQVRRKSLSLNHRVGSEENSELMDLLEDY 244 Query: 596 NAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 ++SP + +R+ VL S L RE+ +L +R+G+ +TL+EV ++RE Sbjct: 245 ESLSPESQINELMMRQELLEVLRSVLNEREQDILSLRYGLTTGVPYTLDEVSGMCSLSRE 304 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFL 680 R+RQI+AKA+RKL+ P +++L+ ++ Sbjct: 305 RVRQIQAKAMRKLRRPQVAERLKGWI 330 >gi|88798286|ref|ZP_01113872.1| RNA polymerase sigma factor RpoS [Reinekea sp. MED297] gi|88779062|gb|EAR10251.1| RNA polymerase sigma factor RpoS [Reinekea sp. MED297] Length = 344 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/256 (40%), Positives = 165/256 (64%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E + + RKGE +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 76 LNEIGFSPLLSPEEEVYFARLARKGE---PAGRKRMIESNLRLVVKIARRYLNRGLTLLD 132 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 133 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 192 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EPTPE+IA+ L PVE V+K+L + + S++TPIG L + I Sbjct: 193 LRAARELAQKLDHEPTPEDIAQLLEKPVEDVKKMLALNERVTSIDTPIGPSSEKSLLETI 252 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D A P D+ +L+ + R L L+ ++ V+ RFG+ TLE+VG++ +T Sbjct: 253 SDDRASDPSDTLQDDDLKASIDRWLDELSEKQREVVARRFGLRGYETSTLEDVGREIGLT 312 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ +++R+L+ Sbjct: 313 RERVRQIQVESLRRLR 328 >gi|260361829|ref|ZP_05774845.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus K5030] gi|308114475|gb|EFO52015.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus K5030] Length = 329 Score = 213 bits (541), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMFESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 310 >gi|166363676|ref|YP_001655949.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166086049|dbj|BAG00757.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 414 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 106/262 (40%), Positives = 169/262 (64%), Gaps = 8/262 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+ + E I+++ + AK++M++ANLRLV+SVAKKY NRGL+ LDLIQEG +G Sbjct: 159 GLEVGELEEIIAL-------GTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLG 211 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L +A +KFD GY+FSTYA WW++Q +TR+IA +S IR+PVH+ +K++++ + R++S Sbjct: 212 LERAVKKFDPTKGYRFSTYAYWWIRQGMTRAIATKSQIIRLPVHITEKLNRIKKAQRKIS 271 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 R T EEIA++LA+ E VR++L +SLE +G E + L D +E + AVS Sbjct: 272 QMRGRTATVEEIAQELALTPEAVRELLMTVPRSVSLEIKVGKEKDTELLDLLEIE-AVSS 330 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + +L+ +LA LT RE V+ +R+G H+L ++G+ ++RER+RQIE Sbjct: 331 ENHFVYESLQRDIRELLADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIE 390 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 KA++KL+ ++R + + Sbjct: 391 LKALQKLRQSQLHNQIRDYFEA 412 Score = 37.0 bits (84), Expect = 10.0, Method: Compositional matrix adjust. Identities = 31/104 (29%), Positives = 50/104 (48%), Gaps = 27/104 (25%) Query: 80 GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGE 139 G DLED DL SS K ++ +T D VR+YL+++G + LL R+ E Sbjct: 36 GSDLED--------DLVSSPE---------KSYSNGTTTDLVRLYLQDIGRVPLLKRDEE 78 Query: 140 IAIAKRIEAGRAMMMASLCESPL--------TFQALIIWRDELN 175 + A++++ R + + LC + + F LI RD+L Sbjct: 79 VEQAQQVQ--RHLSLLKLCAAAVKQGDAQVQQFVKLIEVRDQLT 120 >gi|162455526|ref|YP_001617893.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161166108|emb|CAN97413.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 715 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 159/238 (66%), Gaps = 8/238 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK V+ANLRLV+S+A++Y NRG L +DLIQEGNIGLMKA E+FD GY+FSTYA W Sbjct: 484 AKNRFVKANLRLVVSIARRY-NRGRLPLIDLIQEGNIGLMKAVERFDHSRGYRFSTYASW 542 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++ AI+R++AD+ +RIPVHM D ++V R + + + EPT EE+ K+ +P E Sbjct: 543 WIRHAISRALADKGRAVRIPVHMLDTYNRVARATQAIIARTGHEPTIEELEKETGVPREK 602 Query: 563 VRKVLKITKE-PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + KV E P SL+ P+GDED DF++++NA+SP D + R+L +LT Sbjct: 603 LDKVKDFYAETPFSLDRPVGDEDGRKFIDFLQEENALSPFDHLANRKWSDEVRRLLTTLT 662 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 P E R++R RFG+ + TL+E+G ++ ++RERIRQ++ +A+ K++ K++R + Sbjct: 663 PIESRIIRWRFGLDDEDELTLKEIGDKYNLSRERIRQLQEQALGKIR-----KQMRDY 715 >gi|189424151|ref|YP_001951328.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] gi|189420410|gb|ACD94808.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi SZ] Length = 320 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 105/243 (43%), Positives = 160/243 (65%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + R+ E A+ +M+EANLRLV+ +AK+Y NRGL FLDLI+EGN+GLMKA E+F Sbjct: 78 LARRVEQGDKAARNQMIEANLRLVVKIAKRYLNRGLPFLDLIEEGNLGLMKAVERFSLEK 137 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA WW++Q+I R++ +QS TIR+PVH+ D I ++++ +R++S ++ REP+ +E+ Sbjct: 138 ECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDISRMLKVSRQLSQELHREPSVQEL 197 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A + + +RK++ + + S++ PIG+ + L D IED NAVSP D + E Sbjct: 198 ADAMQIKPLHIRKLMILLRRTCSMDVPIGEGNDFFLVDTIEDTNAVSPADLLENIDRYEL 257 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L+ E +L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KLK ++ Sbjct: 258 IAEHFDQLSENERTILGLRFGLDDRDPQTLDTIGQSFGVTRERIRQIEAKSLEKLKALAK 317 Query: 673 SKK 675 S K Sbjct: 318 SSK 320 >gi|111018672|ref|YP_701644.1| sigma factor, sigma 70 type, group 2 [Rhodococcus jostii RHA1] gi|110818202|gb|ABG93486.1| sigma factor, sigma 70 type, probable group 2 [Rhodococcus jostii RHA1] Length = 520 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 113/265 (42%), Positives = 173/265 (65%), Gaps = 8/265 (3%) Query: 419 ETGISISEFRH--IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 + G +S+ RH + + R G+ AK+ +EANLRLV+S+A++Y RGL LDL+QE Sbjct: 260 DAGEKLSDQRHRDLHRVCRDGQH----AKRRFLEANLRLVVSIARRYQGRGLDLLDLVQE 315 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GN+GL++A EKFD+ G+KFSTYA WW++QAITR++ADQS IRIPVHM ++I ++ + Sbjct: 316 GNLGLIRAVEKFDYKTGFKFSTYATWWIRQAITRALADQSRVIRIPVHMVEQIDQLGKER 375 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R++ + REPTP E+A L +E + + K + +SL+ + ++ H G ED Sbjct: 376 ARLTKETGREPTPSELATALDTTIEHIGDLEKYDQRVLSLD--VLTDNAEHDGLDFEDDL 433 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 AV + A + ET VL+ L+ R+ +V+R+R+G+ + +TL+E+GK + VTRERI Sbjct: 434 AVVAEEVAERRRFYETLESVLSPLSERDAQVIRLRYGLTGSDPYTLDEIGKIYGVTRERI 493 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIE+K ++ +K S + LR F D Sbjct: 494 RQIESKLLKAMKEESVADILRPFYD 518 >gi|170078438|ref|YP_001735076.1| sigma factor [Synechococcus sp. PCC 7002] gi|169886107|gb|ACA99820.1| sigma factor [Synechococcus sp. PCC 7002] Length = 318 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 158/225 (70%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKFD GY+FSTYA WW Sbjct: 83 AKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA++S TIR+P+H+ +K++K+ + R+++ R + E+A +L + + V Sbjct: 143 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPELADELGLTTKQV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ +++P+SL+ +GD + + L + +ED + ++P D A A L+ R+L LT + Sbjct: 203 RDYLEKSRQPLSLDLRVGDNNDTELIELLED-DGLTPDDYATHAALKRDLARMLNDLTAQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL +RFG+ T HTL ++G+ ++RER+RQIE +A+ KL+ Sbjct: 262 QQEVLTLRFGLRDGTPHTLAKIGEHLSISRERVRQIEREALAKLR 306 >gi|148264661|ref|YP_001231367.1| RpoD family RNA polymerase sigma factor [Geobacter uraniireducens Rf4] gi|146398161|gb|ABQ26794.1| RNA polymerase, sigma 38 subunit, RpoS [Geobacter uraniireducens Rf4] Length = 336 Score = 212 bits (540), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 103/247 (41%), Positives = 165/247 (66%), Gaps = 3/247 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E + + + + KGE A+ +M+E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL Sbjct: 76 LTADEEKELAARIDKGE---KAARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGL 132 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA E+F +FSTYA WW++Q+I R++ +QS TIR+PVH+ D I+K++R R + Sbjct: 133 IKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDINKMLRITRELVQ 192 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K+ REP+ +E+A + + +R+++ + K+ S+E P+G+ + L D IED + VSP Sbjct: 193 KVNREPSIKEVATAMDVNSAYIRRLMVLLKKTYSIERPMGENNDYFLIDTIEDTSTVSPA 252 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + N E ++ +L+ E+R+L +RFG+ TL+ +G+ F VTRERIRQIEA Sbjct: 253 ELLEDVNRYEMVSKWFETLSDSEKRILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEA 312 Query: 662 KAIRKLK 668 K++ KL+ Sbjct: 313 KSLEKLR 319 >gi|300868245|ref|ZP_07112876.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506] gi|300333769|emb|CBN58060.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506] Length = 319 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/225 (45%), Positives = 155/225 (68%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKFD GY+FSTYA WW Sbjct: 84 AKRMMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 143 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA++ TIR+P+H+ +K++K+ + R ++ K+ R T E+A +L + + + Sbjct: 144 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQKLGRAATANELAAELELTPKQI 203 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ + P+SL+ +GD + LGD +ED A SP D A+QA+LR ++A LT + Sbjct: 204 REYLERARLPLSLDLRVGDNQDTELGDLLEDTGA-SPEDFALQASLRADLEMLMADLTQQ 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL +RFG+ TL ++G + ++RER+RQIE +A+ KL+ Sbjct: 263 QREVLALRFGLEDGQTLTLSKIGDRLNISRERVRQIEREALTKLR 307 >gi|126453822|ref|YP_001064420.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|167736534|ref|ZP_02409308.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 14] gi|217424965|ref|ZP_03456461.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|242317344|ref|ZP_04816360.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] gi|254188239|ref|ZP_04894751.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|254295684|ref|ZP_04963141.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|126227464|gb|ABN91004.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106a] gi|157805995|gb|EDO83165.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 406e] gi|157935919|gb|EDO91589.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pasteur 52237] gi|217391985|gb|EEC32011.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 576] gi|242140583|gb|EES26985.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1106b] Length = 482 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.87, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|167916992|ref|ZP_02504083.1| RNA polymerase sigma factor [Burkholderia pseudomallei BCC215] Length = 482 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.86, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|134284106|ref|ZP_01770800.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|167900733|ref|ZP_02487938.1| RNA polymerase sigma factor [Burkholderia pseudomallei NCTC 13177] gi|167908960|ref|ZP_02496051.1| RNA polymerase sigma factor [Burkholderia pseudomallei 112] gi|226194652|ref|ZP_03790247.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] gi|134244558|gb|EBA44662.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 305] gi|225933353|gb|EEH29345.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei Pakistan 9] Length = 482 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.4 bits (93), Expect = 0.89, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|297159879|gb|ADI09591.1| RNA polymerase principal sigma factor hrdD [Streptomyces bingchenggensis BCW-1] Length = 333 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 107/234 (45%), Positives = 149/234 (63%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E + AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 92 AEGARAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP EIA +L Sbjct: 152 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEHSEIAAELGS 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 212 TTERVSDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVMTLLRSEELEDLIG 271 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++ R+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 272 RLDDRTASIIKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELKKMAR 325 >gi|53717743|ref|YP_106729.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] gi|52208157|emb|CAH34087.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] Length = 482 Score = 212 bits (540), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVNASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.86, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|124024644|ref|YP_001018951.1| type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] gi|123964930|gb|ABM79686.1| Putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9303] Length = 376 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 124/349 (35%), Positives = 198/349 (56%), Gaps = 10/349 (2%) Query: 334 RIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP-E 392 R++LL + R++ LL+ + ++ E + EL +++ +P + Sbjct: 31 RVELLTHEEEVTLARLVQRREALLKQERQLASSQEAIKELQRLEELQQREANHSCHWPTK 90 Query: 393 GEWKNFVACEVDSIL-KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 EW + + KI K+ TG+ E + + R+ AK +M++A Sbjct: 91 QEWAMAAGLTLAELQDKIETGYKTWGALTGLDPLELKRSLRAGRR-------AKDQMIQA 143 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW++Q ITR+ Sbjct: 144 NLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPARGFRFSTYAYWWIRQGITRA 203 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IA QS TIR+P+H+ +K++++ R + +++ R + ++AK L + E VR L Sbjct: 204 IATQSRTIRLPMHITEKLNRIKRVQQEIASNQGRLASIADLAKALGLSEETVRLTLMRVP 263 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 ISLET IG E S LGD +ED NA +P + + L +L L+ RE V+R R Sbjct: 264 RSISLETRIGQEQDSQLGDLLEDSNA-TPEEKLTRDQLHNDLEILLDELSNREATVIRRR 322 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 FG+ +T TL ++G+ ++RER+RQIE+ A+ KL+ P R K+R ++ Sbjct: 323 FGLEDDTPQTLTQIGEAMHLSRERVRQIESHALLKLRQPQRRCKVRDYI 371 Score = 38.5 bits (88), Expect = 3.5, Method: Compositional matrix adjust. Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 5/59 (8%) Query: 95 LASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 + SS + L +R S D PVR+YL+++G +ELL+ E E+ +A+ ++ A++ Sbjct: 1 MKSSPQQTKTSLVRRSGSTD-----PVRLYLQDIGRVELLTHEEEVTLARLVQRREALL 54 >gi|330723944|gb|AEC46314.1| RNA polymerase sigma factor [Mycoplasma hyorhinis MCLD] Length = 524 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 109/265 (41%), Positives = 166/265 (62%), Gaps = 17/265 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 ++ ++ G A+ ++ NLRLVI+ AK+Y NRGL F+DLI EGN G++KA +K+ Sbjct: 264 NLAKQIKNGGRAGKRARHTLINRNLRLVINNAKRYKNRGLTFIDLISEGNQGILKAVDKY 323 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ GYKFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 324 DYTKGYKFSTYATWWIRQAITRAVADQARIIRIPVHMVETINKINKIERELQQEYGVTPT 383 Query: 549 PEEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+IA+ + E VR KI +PISL+ IG E+ S DFI+D++ +SP+D + Sbjct: 384 DEQIAEVMGGDFTAEKVRYTKKINIDPISLDKAIGKEEYSSFSDFIKDESVISPIDYS-- 441 Query: 607 ANLRETTTRVLASLTP----REERVLRM-RFGIGMNTD------HTLEEVGKQFCVTRER 655 RE T++L + +E+V M R+G G + + H+ +E+ K+ VT+ER Sbjct: 442 --EREEKTKILKQMIENNLDNDEKVFIMKRYGFGTDPNGEQYRIHSFDELAKERGVTKER 499 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFL 680 IRQIE+K ++KL+HP + K R + Sbjct: 500 IRQIESKILKKLRHPQKKWKQRDLI 524 >gi|260436706|ref|ZP_05790676.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] gi|260414580|gb|EEX07876.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] Length = 377 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 159/239 (66%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW Sbjct: 137 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS TIR+PVH+ +K++++ R + +++ R + ++A++L + + V Sbjct: 197 IRQGITRAIATQSRTIRLPVHVTEKLNRIKRVQQEIASNEGRIASIADLARELGISEDTV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L +SL+T +G E + LGD IED +A +P + L +L LT R Sbjct: 257 RQTLARVPRSVSLDTRVGREQDTQLGDLIEDGHA-TPEQTLTHDELHNDLEDLLDELTSR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E VLR RFG+ +T TL ++G++ ++RER+RQIE +A+ KL+ P R K+R ++ G Sbjct: 316 EAAVLRRRFGLEDDTPQTLAQIGEELKLSRERVRQIETRALLKLRQPQRRSKVRDYIQG 374 >gi|298248273|ref|ZP_06972078.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] gi|297550932|gb|EFH84798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ktedonobacter racemifer DSM 44963] Length = 1341 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 107/229 (46%), Positives = 161/229 (70%), Gaps = 1/229 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + IA+++++E NLRLVISVAKKY G Q DLIQEGN+GL++A EKFD GY+FSTY Sbjct: 1100 QGKIAREKLIEHNLRLVISVAKKYARVGRQLEDLIQEGNLGLIRACEKFDTDKGYRFSTY 1159 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRS+A+QS TIR+PV++ +K+H++ R R + ++ REPT EE+AK + Sbjct: 1160 ATWWIRQAITRSLAEQSRTIRLPVYLVEKLHQLHRGQRDLELQLGREPTLEELAKHQNLD 1219 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 ++ V++ L + ++ +SL+ PIG E + LG+ IE + P ++ +E ++++ + Sbjct: 1220 IDKVQEYLVLRQQILSLDAPIGAEQETTLGEMIEQPRS-DPQENINNYADKEAVSQLMQN 1278 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT R+ RV+ +RFG+ H LEE+G VTRER+RQIE KA+R+LK Sbjct: 1279 LTERQRRVISLRFGLEDGKIHKLEEIGSMLNVTRERVRQIEEKALRQLK 1327 >gi|167843756|ref|ZP_02469264.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei B7210] gi|254197157|ref|ZP_04903580.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] gi|169653899|gb|EDS86592.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei S13] Length = 482 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.85, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|262401766|ref|ZP_06078332.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC586] gi|262352183|gb|EEZ01313.1| RNA polymerase sigma factor RpoS [Vibrio sp. RC586] Length = 336 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/225 (43%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ + L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLGWMDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|4105839|gb|AAD02575.1| RNA polymerase sigma factor [Cyanidium caldarium] Length = 589 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 114/269 (42%), Positives = 167/269 (62%), Gaps = 11/269 (4%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 ++ET +S+SE R + R+ AK MV ANLRLVI AK++ NRG+ F DL+QE Sbjct: 311 AMETNMSVSELRGKLIKGRR-------AKNRMVAANLRLVICFAKRFRNRGVAFQDLVQE 363 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G+IGL++ EK+D G++FSTYA WW++Q I +++ + S R+PVH+ + I ++ R + Sbjct: 364 GSIGLIRGVEKYDANRGFRFSTYASWWIRQGIHKALLECSKMFRLPVHVNEMIKEIRRCS 423 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS----HLGDFI 592 + N + REPT EIA K+ MP E V +L+ + +SLE P+ D+S LGD + Sbjct: 424 YELMNILGREPTKLEIAMKVGMPEEKVIFLLQRAQTALSLEMPLRGSDSSLESRTLGDVV 483 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + SP DSA +LR R L+ L RE V+RMRFG+ +L EVG FCVT Sbjct: 484 SSTASPSPEDSAFGTSLRYDLERALSQLDFREREVIRMRFGLDDGRTKSLGEVGSLFCVT 543 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RER+RQIE +A+RKL+ P + L+ +++ Sbjct: 544 RERVRQIETRALRKLRDPRCNIFLKEYME 572 >gi|2618586|dbj|BAA23365.1| sigma factor [Vibrio cholerae] Length = 335 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/225 (43%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTY WW Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYTTWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 151 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D + P S ++RE+ L L P+ Sbjct: 211 TKMLRLNERISSVDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 315 >gi|328883104|emb|CCA56343.1| RNA polymerase principal sigma factor HrdD [Streptomyces venezuelae ATCC 10712] Length = 333 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 107/225 (47%), Positives = 148/225 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 97 AKDLFIKSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFSTYATWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP P EIA +L E V Sbjct: 157 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELDTKPERV 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 217 VDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIDKLDHR 276 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++RMR+GI + TL EVGK+ +TRERIRQIE A+ +LK Sbjct: 277 TASIIRMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELK 321 >gi|162448460|ref|YP_001610827.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161159042|emb|CAN90347.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 446 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 110/247 (44%), Positives = 167/247 (67%), Gaps = 1/247 (0%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G + AK E+V+ANLRL +++A+++ G+ LDL+QEGN+GL++AA+KF++ G++ Sbjct: 201 RGRRAVAQAKSELVQANLRLAVAIAREHQRFGVPLLDLVQEGNLGLIRAADKFEYRRGHR 260 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F TYA WW+KQAI R+I +Q +R+PVH+ +VVR R + + REP+ EEIA++ Sbjct: 261 FGTYAAWWIKQAIKRTILNQGKPVRMPVHLTAIRSQVVRARRDLVQERGREPSVEEIAER 320 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + VE VR + ++ EP+SL+ P+G+E + GD + + +P D + L E T Sbjct: 321 SGLTVEKVRVISELALEPLSLDAPVGEEGDTRYGDLLANDEP-TPADMLARRRLIEQTRE 379 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L SL PRE +LR RFG+ N D TLEE+G+ F +TRERIRQIEAK + KL+ SR ++ Sbjct: 380 LLDSLQPRERELLRRRFGLDGNEDETLEEIGQSFSLTRERIRQIEAKLLEKLRTRSRQRE 439 Query: 676 LRSFLDG 682 L S+L+G Sbjct: 440 LGSYLEG 446 Score = 41.6 bits (96), Expect = 0.45, Method: Compositional matrix adjust. Identities = 20/63 (31%), Positives = 35/63 (55%) Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 +Y R + + L+REGE+AI +RIEAG + SP+ + L +++ G LR Sbjct: 50 LYFRALAGSQPLTREGEVAIGRRIEAGALACFEAWVRSPVALRELASTAEDVQVGALSLR 109 Query: 183 EII 185 +++ Sbjct: 110 DLL 112 >gi|237810316|ref|YP_002894767.1| RNA polymerase sigma factor [Burkholderia pseudomallei MSHR346] gi|237504080|gb|ACQ96398.1| RNA polymerase sigma factor [Burkholderia pseudomallei MSHR346] Length = 482 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAVADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.86, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|254182275|ref|ZP_04888872.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] gi|184212813|gb|EDU09856.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1655] Length = 482 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAVADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.86, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|304373196|ref|YP_003856405.1| RNA polymerase sigma factor [Mycoplasma hyorhinis HUB-1] gi|304309387|gb|ADM21867.1| RNA polymerase sigma factor [Mycoplasma hyorhinis HUB-1] Length = 524 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 109/265 (41%), Positives = 166/265 (62%), Gaps = 17/265 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 ++ ++ G A+ ++ NLRLVI+ AK+Y NRGL F+DLI EGN G++KA +K+ Sbjct: 264 NLAKQIKNGGRAGKRARHTLINRNLRLVINNAKRYKNRGLTFIDLISEGNQGILKAVDKY 323 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D+ GYKFSTYA WW++QAITR++ADQ+ IRIPVHM + I+K+ + R + + PT Sbjct: 324 DYTKGYKFSTYATWWIRQAITRAVADQARIIRIPVHMVETINKINKIERELQQEYGVTPT 383 Query: 549 PEEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+IA+ + E VR KI +PISL+ IG E+ S DFI+D++ +SP+D + Sbjct: 384 DEQIAEVMGGDFTAEKVRYTKKINIDPISLDKAIGKEEDSSFSDFIKDESVISPIDYS-- 441 Query: 607 ANLRETTTRVLASLTP----REERVLRM-RFGIGMNTD------HTLEEVGKQFCVTRER 655 RE T++L + +E+V M R+G G + + H+ +E+ K+ VT+ER Sbjct: 442 --EREEKTKILKQMIENNLDNDEKVFIMKRYGFGTDPNGEQYRIHSFDELAKERGVTKER 499 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFL 680 IRQIE+K ++KL+HP + K R + Sbjct: 500 IRQIESKILKKLRHPQKKWKQRDLI 524 >gi|76812098|ref|YP_331741.1| RNA polymerase sigma factor [Burkholderia pseudomallei 1710b] gi|254261622|ref|ZP_04952676.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] gi|76581551|gb|ABA51026.1| RNA polymerase sigma factor [Burkholderia pseudomallei 1710b] gi|254220311|gb|EET09695.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 1710a] Length = 482 Score = 212 bits (539), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAVADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.8 bits (94), Expect = 0.86, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|282899735|ref|ZP_06307698.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis raciborskii CS-505] gi|281195350|gb|EFA70284.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis raciborskii CS-505] Length = 332 Score = 211 bits (538), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 159/229 (69%), Gaps = 1/229 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + IAK++MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FSTY Sbjct: 93 QGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFSTY 152 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R +S + R P+ E+A++L + Sbjct: 153 AYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRYLSQTLGRSPSIAELAQELEIT 212 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + VR L+ + P+SL+ +GD + LG+ +ED A SP D IQ++L R++ Sbjct: 213 PKQVRDCLEKARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEDYVIQSSLSSELDRMMTH 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP++ V+++RFG+ TL +G+ ++RER+RQIE +A+ +L+ Sbjct: 272 LTPQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREALTRLR 320 >gi|167834949|ref|ZP_02461832.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis MSMB43] Length = 301 Score = 211 bits (538), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/246 (39%), Positives = 161/246 (65%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+K+ +RGL DL+QEGN+GL++A EKF++ G+KF Sbjct: 54 GEARISAATARMAEANLRLVLSIARKHASRGLDLADLLQEGNLGLLRAIEKFEYRRGFKF 113 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D++ +V + A R+ + + E++ Sbjct: 114 STYATWWIRQAISRAIADRARTIRVPVHVGDEVRRVRKVADRIERRSGARASLAELSAAT 173 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +PVE +R +L + +EP SL P+G++D + GD +ED + S D+ + + T + Sbjct: 174 GLPVERLRAMLMLPREPRSLNAPLGNDDQAEFGDLVEDASTPSLFDALAHGQMCDVVTSL 233 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ Q V+RE++R+IE +A++ L+ + + Sbjct: 234 LKTMSAQEADILRRRFGIGGDEPWSYEQIAAQTGVSREQVRRIEKRALQTLRVTAEACNA 293 Query: 677 RSFLDG 682 FLD Sbjct: 294 HDFLDA 299 >gi|325285575|ref|YP_004261365.1| RpoD subfamily RNA polymerase sigma 70 subunit [Cellulophaga lytica DSM 7489] gi|324321029|gb|ADY28494.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga lytica DSM 7489] Length = 287 Score = 211 bits (538), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 104/250 (41%), Positives = 170/250 (68%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQVALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R+P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQAHERKPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M +E V++ LK + +S++ P+ D + S+L D + + +P + +LR Sbjct: 157 EIAKELDMTIEDVKQSLKNSGRHVSMDAPLIDGEDSNLYDVLRSGESPNPDRELLIESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLAEQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|268591356|ref|ZP_06125577.1| RNA polymerase sigma factor RpoS [Providencia rettgeri DSM 1131] gi|291313333|gb|EFE53786.1| RNA polymerase sigma factor RpoS [Providencia rettgeri DSM 1131] Length = 328 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRQRMIESNLRLVVKISRRYNNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EP+PEEIA++L PVE V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNIYLRTARELAQKLDHEPSPEEIAEQLDKPVEDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TPI + L + + D N P ++ +L+E + L L P+ Sbjct: 208 SRMLRLNERITSVDTPIAGDSEKSLLEVLSDDNDSGPENTIQDNDLKENIVKWLYELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLEEVG++ +TRER+RQI+ + +++LK Sbjct: 268 QREVLARRFGLLGYEAETLEEVGREIGLTRERVRQIQVEGLKRLK 312 >gi|294055548|ref|YP_003549206.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] gi|293614881|gb|ADE55036.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita akajimensis DSM 45221] Length = 342 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 150/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+ +A Y N GL +DLI EGNIGL+KA E+FD G K STYA WW Sbjct: 79 ARDHMISANLRLVVKIAHDYNNFGLPLMDLISEGNIGLVKAVERFDPSKGGKLSTYAAWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I R++A+QS TIR+PVH+ DKI + + +++++ REPT EEIA + MPV V Sbjct: 139 IKQSIKRALANQSKTIRLPVHLVDKIAYMRKITAELADELDREPTDEEIAYTMGMPVNKV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ P SL+ P+G++ + G+ + D+N +PL++ + +L ++A L R Sbjct: 199 AHLKSVSVRPSSLDAPVGEDGDTSFGELVGDENQATPLENLQEKSLSNDMHSMIALLDQR 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++R+RFG+ TLEEVG+QF +TRER+RQI+ AI K++ Sbjct: 259 EAEIIRLRFGLDGEHPLTLEEVGEQFKITRERVRQIQNIAIHKMR 303 >gi|260767191|ref|ZP_05876133.1| RNA polymerase sigma factor RpoS [Vibrio furnissii CIP 102972] gi|260617799|gb|EEX42976.1| RNA polymerase sigma factor RpoS [Vibrio furnissii CIP 102972] gi|315181178|gb|ADT88092.1| RNA polymerase sigma factor RpoS [Vibrio furnissii NCTC 11218] Length = 329 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 156/226 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAVELDKPVDDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++R++ L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGDKALLDIIPDINNSDPEVSTQDDDIRDSLVAWLDELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 311 >gi|260063687|ref|YP_003196767.1| putative sigma factor A [Robiginitalea biformata HTCC2501] gi|88783132|gb|EAR14305.1| putative sigma factor A [Robiginitalea biformata HTCC2501] Length = 287 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 104/237 (43%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ EEIAK+L M VE V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQAHERVPSAEEIAKELDMTVEDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ LK + +S++ P+ D + S+L D + + +P + +LR R L +LTPR Sbjct: 170 KQSLKNSGRHVSMDAPLIDGEDSNLYDVLRSGESPNPDKELLHESLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLAGQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|78062752|ref|YP_372660.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] gi|77970637|gb|ABB12016.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] Length = 511 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 105/246 (42%), Positives = 162/246 (65%), Gaps = 1/246 (0%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G++GLM+A EKF++ G+KF Sbjct: 267 GQQKVRDATRAMLEANLRLVLSIARKYMNRGVDLPDLVQDGSLGLMRAIEKFEYRRGFKF 326 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR++AD++ TIR+PVH+ D+ +V R A R + R TP E+A + Sbjct: 327 STYATWWIRQAITRAVADRARTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAET 386 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + +R VL + EP+SL+ P+ D DT L + IED+ + SP + +RE + Sbjct: 387 GLDEDKLRAVLALPAEPVSLDAPLPDADTG-LVELIEDQASASPFEQLADTRMRECVRSL 445 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ Sbjct: 446 LRSVTPAEADVLRRRFGLGGTEPDTYDAIAQDAGMSRERVRQIEKRALAALRTAAEAENA 505 Query: 677 RSFLDG 682 +SFLD Sbjct: 506 QSFLDA 511 Score = 68.6 bits (166), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 40/140 (28%), Positives = 73/140 (52%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D Sbjct: 15 DPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDEPAAPAPFA 74 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +D+ A + + ++ DP+ +Y+R M ++ LL+REGEI +A+ IE Sbjct: 75 GSAPVDVDRDALDEGRAMLGDLARGTGASTDPLALYMRRMQAVPLLTREGEIVLAREIET 134 Query: 149 GRAMMMASLCESPLTFQALI 168 GR ++ +L P AL+ Sbjct: 135 GRHQILHALAGYPAAVDALL 154 >gi|89901840|ref|YP_524311.1| sigma 28 [Rhodoferax ferrireducens T118] gi|89346577|gb|ABD70780.1| sigma 28 [Rhodoferax ferrireducens T118] Length = 726 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 112/241 (46%), Positives = 152/241 (63%), Gaps = 6/241 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +MV ANL+LV+ +AKKY G DL+QEGNIGL+KA +++DW G+K STYA WW Sbjct: 371 ARDQMVIANLKLVLFIAKKYLYSGQPLDDLLQEGNIGLIKAVDRYDWRRGFKLSTYATWW 430 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R +AD+S TIR+PVH+ K ++ A + R PT EEIAKK+ MP V Sbjct: 431 IRQQVGRYVADKSKTIRLPVHVYVKTQQIAHAAHAIELATGRMPTIEEIAKKMEMPASKV 490 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS--PLDSAIQANLRETTTRVLASLT 621 + EP+ PI D D L N V+ P+D + L + R LA+L Sbjct: 491 APLALAIPEPL----PIHDVDVDSLIAIDAQDNYVARDPMDIVSDSQLIGSIDRFLATLK 546 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 P++E+VLR+RFGIG + TLEE+G + VTRERIRQIEAKAI LKHP+R ++L L+ Sbjct: 547 PKDEQVLRLRFGIGAHEAMTLEEIGTRLEVTRERIRQIEAKAICHLKHPARLERLLRDLN 606 Query: 682 G 682 G Sbjct: 607 G 607 >gi|183600216|ref|ZP_02961709.1| hypothetical protein PROSTU_03759 [Providencia stuartii ATCC 25827] gi|188022512|gb|EDU60552.1| hypothetical protein PROSTU_03759 [Providencia stuartii ATCC 25827] Length = 328 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRQRMIESNLRLVVKISRRYNNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EP+ EEIA++L PVE V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNIYLRTARELAQKLDHEPSAEEIAEQLDKPVEDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TPI + L + + D+N P + NL+E + L L P+ Sbjct: 208 SRMLRLNERITSVDTPIAGDSEKSLLEVLSDENESGPEHTIQDNNLKENIVKWLFELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLEEVG++ +TRER+RQI+ + +R+LK Sbjct: 268 QREVLARRFGLLGYEAETLEEVGREIGLTRERVRQIQVEGLRRLK 312 >gi|302560146|ref|ZP_07312488.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] gi|302477764|gb|EFL40857.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus Tu4000] Length = 332 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 106/229 (46%), Positives = 149/229 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP P E+A +L E V Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEVAAELGSTPERV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 216 VDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGRLDQR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 276 TASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|297200336|ref|ZP_06917733.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] gi|197709451|gb|EDY53485.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083] Length = 332 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 107/234 (45%), Positives = 152/234 (64%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTY Sbjct: 92 ESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTY 151 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EIA +L Sbjct: 152 ATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEIAAELGSN 211 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V VL ++P+SL + D+ + GD +ED +AVSP S + E ++ Sbjct: 212 AERVVDVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L R +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +RS Sbjct: 272 LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARS 325 >gi|116073370|ref|ZP_01470632.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116068675|gb|EAU74427.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 313 Score = 211 bits (538), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 106/230 (46%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + MP+E + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRLEIAEAMDMPLEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D ++ PL Q+ E R L+ L+ Sbjct: 198 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADNSSDEPLAKVEQSIHHEQLGRWLSHLSD 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL +RFG+ N HTL E+G+ V+RERIRQ+E KA+RKL++ +R Sbjct: 258 QEQHVLNLRFGLNGNERHTLAEIGRLLEVSRERIRQVELKALRKLRNLTR 307 >gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa] Length = 427 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 111/243 (45%), Positives = 164/243 (67%), Gaps = 7/243 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNR-GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A+ +V++NLR V+S+AKKY N+ + DLIQEG+IGLMKAAE+FD G+KF TYA W Sbjct: 178 ARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFDLDKGFKFLTYATW 237 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAI RS+ DQ TIR+PVH+ D ++ + +T +++++++ R PTPEE+A +L +PV Sbjct: 238 WIRQAIFRSLQDQGRTIRLPVHVHDSLYLIKKTRQQLASRLGRIPTPEELADELNIPVSR 297 Query: 563 VRKVLKITKEPISLETPIGDEDTS-----HLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + + + PISLE+PI E +S +LGDFIE + + P + + LRE VL Sbjct: 298 LAFITQAASLPISLESPISSETSSTKARNNLGDFIESE-CLQPDEQLERTMLREDLENVL 356 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 A+L RE ++RMR+G+ + TL+E+G+ +TRERIRQIE A+RKLK P R L Sbjct: 357 ATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIRQIEQSAMRKLKAPYRKAILC 416 Query: 678 SFL 680 ++ Sbjct: 417 DYI 419 >gi|159026170|emb|CAO88820.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 318 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 104/238 (43%), Positives = 164/238 (68%), Gaps = 3/238 (1%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EKFD GY+FSTYA W Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYW 141 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IA++S TIR+P+H+ +K++K+ + R+++ R T E+A++L + + Sbjct: 142 WIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAELAEELDLTPKQ 201 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR L+ +++P+SL+ +GD + LG+ +ED +SP D ++L+ +++A LTP Sbjct: 202 VRDYLERSRQPLSLDLKVGDNQDTELGELLED-TGLSPEDYTAHSSLQVDLEKLMADLTP 260 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +++ V+ +RFG+ TL ++G + ++RER+RQIE +AI KL+ R K+R +L Sbjct: 261 QQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR--KRKAKIREYL 316 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 2/46 (4%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DPVR YLRE+G + LLS E EI AK+++ R + + + ES Sbjct: 5 KNPTDPVRAYLREIGRVPLLSHEEEILYAKQVQ--RLIFLEKIKES 48 >gi|72382695|ref|YP_292050.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus str. NATL2A] gi|124026414|ref|YP_001015529.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|72002545|gb|AAZ58347.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus str. NATL2A] gi|123961482|gb|ABM76265.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 313 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 105/230 (45%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + + +E + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLATIRKVSLDLAHKLGAMPSRIEIAEAMEIELEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ GDE S LGD I D + PLD Q +E R L+ L+ Sbjct: 198 DSILRQALTTSSLDAPVNGDEGRSFLGDLIADGSGEEPLDKVEQKIHQEQLGRWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ V+R+RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVIRLRFGLEGNERHTLAEIGRLLQVSRERVRQVELKALRKLRNLTR 307 >gi|254388870|ref|ZP_05004102.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|294813166|ref|ZP_06771809.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|326441537|ref|ZP_08216271.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|197702589|gb|EDY48401.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] gi|294325765|gb|EFG07408.1| RNA polymerase principal sigma factor hrdD [Streptomyces clavuligerus ATCC 27064] Length = 333 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 106/234 (45%), Positives = 149/234 (63%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK + +NLRLV++VA++Y GL LDL+QEGN GL++A EKFD+ G+KFST Sbjct: 92 AEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLVQEGNAGLVRAVEKFDYSKGFKFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP EIA++L Sbjct: 152 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREKGREPEAAEIAQELGS 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V VL ++P+SL + D + GD +ED +AVSP S + E ++ Sbjct: 212 TPERVTDVLDWARDPVSLNMAVDDAGETQFGDLLEDTSAVSPEQSVLTLLRSEGLDDLIG 271 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R ++RMR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 272 KLDQRTASIIRMRYGIMDGRERTLTEVGKEHGLTRERIRQIEKHALLELKRMAR 325 >gi|87125501|ref|ZP_01081346.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86166801|gb|EAQ68063.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 312 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 110/245 (44%), Positives = 166/245 (67%), Gaps = 5/245 (2%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H M+R G+ AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKF Sbjct: 67 HDRRMIRVGKR----AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D GYKFSTYA WW++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ Sbjct: 123 DPTRGYKFSTYAFWWIRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPS 182 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EIA+ + MP++ + +L+ SL+ P+ G+E S LGD I D + PLD Q+ Sbjct: 183 RVEIAEAMDMPLDELDALLRQALTTSSLDAPVNGEEGRSFLGDLIADTSHDEPLDKVEQS 242 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E R L+ L+ +E+ VL +RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL Sbjct: 243 IHHEQLGRWLSHLSEQEQYVLGLRFGLNGNERHTLAEIGRLMEVSRERVRQVELKALRKL 302 Query: 668 KHPSR 672 ++ +R Sbjct: 303 RNLTR 307 >gi|239930706|ref|ZP_04687659.1| RNA polymerase principal sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291439071|ref|ZP_06578461.1| sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291341966|gb|EFE68922.1| sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 332 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 106/233 (45%), Positives = 151/233 (64%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTY Sbjct: 92 DAERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTY 151 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P E+A +L Sbjct: 152 ATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEVAAELGST 211 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 212 PERVTDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGR 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 272 LDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|78185801|ref|YP_378235.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78170095|gb|ABB27192.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] Length = 377 Score = 211 bits (537), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 119/352 (33%), Positives = 201/352 (57%), Gaps = 10/352 (2%) Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP- 391 R+DLL + R++ LL+ + E H+ EL ++ +P Sbjct: 31 GRVDLLTSEEEVTLARLVQRRETLLKQQRELSDTNQAIGELHRLEELQRREANHHSHWPT 90 Query: 392 EGEWKNFVACEVDSIL-KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 + EW A + + +I ++ + + I E + + R+ AK M++ Sbjct: 91 KQEWARAAALTLQELQNRIDAGYEAWAEKAAIDAKELKLSLRNGRR-------AKDHMIQ 143 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW++Q +TR Sbjct: 144 ANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQGMTR 203 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 +IA QS TIR+PVH+ +K++++ R + +++ R + ++A++L + + VR+ L+ Sbjct: 204 AIATQSRTIRLPVHVTEKLNRIKRVQQEIASNEGRIASIADLARELGISEDTVRQTLERV 263 Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 +SL++ +G + + LGD IED A +P ++ L +L LTPRE VLR Sbjct: 264 PRSVSLDSRVGKDQDTQLGDLIEDGKA-TPEETLTHDELHNDLEGLLDELTPREASVLRR 322 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RFG+ +T TL ++G++ ++RER+RQIE +A+ KL+ P + K+R ++ G Sbjct: 323 RFGLEDDTPQTLAQIGEELKLSRERVRQIETRALLKLRQPQKRSKIRDYIQG 374 >gi|90416198|ref|ZP_01224130.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] gi|90331923|gb|EAS47137.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] Length = 306 Score = 211 bits (537), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 102/233 (43%), Positives = 158/233 (67%), Gaps = 1/233 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL+ LDLI+EGNIGLM+A EKFD LGY+FSTYA WW Sbjct: 63 ARKRMIESNLRLVVKIARRYVNRGLELLDLIEEGNIGLMRAVEKFDPELGYRFSTYATWW 122 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R + +Q+ TIR+PVH+ +++ VR +R+++ ++ PTPEEIA+++ PVE V Sbjct: 123 IRQTIERGLMNQTRTIRLPVHIVKELNVYVRASRKLAQRLDHTPTPEEIAEEVDKPVEDV 182 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+ +++ S++ P+ + + S L + I + A SP NL E + LA L + Sbjct: 183 LKIFSLSERISSIDIPVAENEKS-LIETISAEGASSPERQVEGENLSEVLNKWLAQLPEK 241 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ + + TLE+VG++ +TRER+RQI+ A+R+L+ R L Sbjct: 242 QREVLVRRFGLLHHQEETLEQVGREIGLTRERVRQIQVDALRRLRDVLRKHGL 294 >gi|87301096|ref|ZP_01083937.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87284064|gb|EAQ76017.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 308 Score = 211 bits (537), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 105/226 (46%), Positives = 158/226 (69%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 73 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 132 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ V R + +++K+ P+ EIA+ +A+P++ + Sbjct: 133 IRQSMTRAIACQSRTIRLPVHLSERLSAVRRVSLELAHKLGAMPSRSEIAEAMAIPIQEL 192 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ + SL+ P+ G+E S LGD I D + PLD + E R L+ L+ Sbjct: 193 DGLLRQSLTTSSLDAPVNGEEGRSFLGDLIADSSHDEPLDQVERGMHHEQLERWLSYLSE 252 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +VL +RFG+ + HTL E+G+ V+RER+RQ+E KA+RKL+ Sbjct: 253 QERQVLDLRFGLDGHERHTLAEIGRLLDVSRERVRQVELKALRKLR 298 >gi|323495851|ref|ZP_08100919.1| RNA polymerase sigma factor RpoS [Vibrio sinaloensis DSM 21326] gi|323319067|gb|EGA72010.1| RNA polymerase sigma factor RpoS [Vibrio sinaloensis DSM 21326] Length = 331 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA KL PV+ V Sbjct: 148 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIATKLDKPVDDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 208 SKMLRLNERISSVDTPIGGDGEKALLDIIPDVNNSDPEVSTQDDDIKNSLIHWLDELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 268 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 312 >gi|302336705|ref|YP_003801911.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301633890|gb|ADK79317.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 322 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 155/238 (65%), Gaps = 2/238 (0%) Query: 433 MVRKGECEASIAKKE--MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + RK EA + K M+ +NLRLV+S+AKKY +RGL FLDLI EGNIGL++A E+FD+ Sbjct: 73 LFRKRTIEAVLRKSRDRMITSNLRLVVSIAKKYQHRGLSFLDLIDEGNIGLIEAVERFDY 132 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 KFSTY WW++Q++ +++AD+ TIRIP+H+ + I K+ + ++ ++ R+P+ Sbjct: 133 TKRCKFSTYGTWWIQQSVIKALADKGRTIRIPIHVLNIIRKLFSVTKHLTQELGRDPSSA 192 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + +PVE V +L+ + E SL+ + DE+ + L D + + + P +S L+ Sbjct: 193 EIAAYMDLPVERVESILQYSGETASLDVTVDDENITSLSDLVFSDDYIEPFESVFHVTLK 252 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L L+ RE+ ++++RFG+ T TLEE+G +TRER+RQI+ KAI KL+ Sbjct: 253 DLLDTILGQLSEREQTIIKLRFGLADRTPLTLEEIGSILGITRERVRQIQNKAIEKLR 310 >gi|225011103|ref|ZP_03701566.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-3C] gi|225004737|gb|EEG42696.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-3C] Length = 287 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 102/250 (40%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + ++A + + ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDAVALERLTTANLRFVVSVAKQYQNQGLTLPDLINEGNVGLVKAAKRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++QAI +++A+Q+ +R+P++ I+K+ + + +R P+PE Sbjct: 97 TRGFKFISYAVWWIRQAILQALAEQARIVRLPLNKIGSINKINKAFSYLEQAHQRPPSPE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M V V++ LK + +S++ P+ D + S L D ++ ++ P + IQ++L Sbjct: 157 EIAKELEMTVSDVKQSLKNSGRHVSMDAPLIDGENSSLYDVLDYGDSPRPDQALIQSSLH 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 TR L +L+PRE V+++ +GIG TL E+G F +TRER+RQI KAIRKL+H Sbjct: 217 TEITRALDTLSPREADVIKLFYGIGEQPPMTLAEIGLTFDLTRERVRQIREKAIRKLRHS 276 Query: 671 SRSKKLRSFL 680 S++K L+++L Sbjct: 277 SKNKLLKTYL 286 >gi|113474616|ref|YP_720677.1| RNA polymerase sigma factor [Trichodesmium erythraeum IMS101] gi|110165664|gb|ABG50204.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 336 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 160/237 (67%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 101 AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWW 160 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q+ TIR+P+H+ +K++K+ R R + + R PTP EIA+ L + + Sbjct: 161 IRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELIQSLGRSPTPSEIAQALELEPSQI 220 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L + + PISL+ +GD + L + +ED+ + SP D LR+ +LA L+ + Sbjct: 221 REYLLMARHPISLDLRVGDNQDTELQELLEDETS-SPDDYITGELLRQDINTLLAELSEQ 279 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + RVL +RFG+ + +L +VG + ++RER+RQ+E +A+ L+ R K+R ++ Sbjct: 280 QRRVLVLRFGLEDGKEMSLAKVGDKLQLSRERVRQLEHQALAFLRR--RQAKVREYV 334 >gi|119489578|ref|ZP_01622338.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119454490|gb|EAW35638.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 319 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 103/249 (41%), Positives = 164/249 (65%), Gaps = 8/249 (3%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 G+S+ E + + + AK++MVEANLRLV+SVAKKY R + LDLIQEG I Sbjct: 67 AGVSLKELKQALE-------DGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTI 119 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 G+ + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R + Sbjct: 120 GMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRSL 179 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + + R T E+A +L + + +R+ L+ + P+SL+ +GD + LGD +ED A S Sbjct: 180 AQDLGRAATIAELADELDLNPKQIREYLERARLPLSLDLRVGDNQDTELGDLLEDDGA-S 238 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P D A+Q+++R ++A LT ++ +VL +RFG+ TL ++G + ++RER+RQI Sbjct: 239 PEDYALQSSMRSDLEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQI 298 Query: 660 EAKAIRKLK 668 E +A+ KL+ Sbjct: 299 EREALTKLR 307 >gi|78212423|ref|YP_381202.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196882|gb|ABB34647.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 312 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 77 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 136 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + +P++ + Sbjct: 137 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRVEIAEAMDIPLDEL 196 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + PLD Q E R L+ L+ Sbjct: 197 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLDEPLDIVEQRIHHEQLGRWLSHLSE 256 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VLRMRFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 257 QEQHVLRMRFGLEGNERHTLAEIGRLMEVSRERVRQVELKALRKLRNLTR 306 >gi|300865041|ref|ZP_07109868.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506] gi|300336978|emb|CBN55018.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506] Length = 334 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 103/264 (39%), Positives = 173/264 (65%), Gaps = 10/264 (3%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 +++ +S +E + ++ R+ AK++M+EANLRLV+++AKKY R ++FLDLIQE Sbjct: 79 ALQVQLSEAELKRLMHQGRR-------AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQE 131 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G +GL + EKFD GYKFSTYA WW++QAITR+IA + TIR+P+H+ +K++K+ + Sbjct: 132 GTLGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPIHITEKLNKIKKVQ 191 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R ++ ++ R PTP EI L + +R+ L + + P+SL+ +GD + L + +ED++ Sbjct: 192 RELAQQLGRSPTPAEIGSALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLEDES 251 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A SP D LR+ ++A LTP++ VL +RFG+ + +L +VG++ ++RER+ Sbjct: 252 A-SPDDYITGELLRQDLNNLMAELTPQQRDVLSLRFGLEDGHEMSLAKVGERLKLSRERV 310 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQ+E +A+ L+ R ++R +L Sbjct: 311 RQLEHQALAHLRR--RQAQVREYL 332 >gi|282865528|ref|ZP_06274579.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] gi|282559572|gb|EFB65123.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp. ACTE] Length = 333 Score = 211 bits (536), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 108/236 (45%), Positives = 151/236 (63%), Gaps = 5/236 (2%) Query: 438 ECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 E EA +A+ E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ Sbjct: 86 ELEALVAEGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAK 145 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EI Sbjct: 146 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHAEI 205 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L E V VL ++P+SL + D+ + GD +ED +AVSP S + E Sbjct: 206 AAELGSNTERVGNVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVMTLLRSEE 265 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R ++RMR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 266 LEDLIGKLDNRTASIIRMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 321 >gi|294629875|ref|ZP_06708435.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] gi|292833208|gb|EFF91557.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14] Length = 332 Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 106/229 (46%), Positives = 149/229 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EIA +L E V Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNRENGRDPEPAEIAAELGSTPERV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 216 ADVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVMTLLRSEELDDLIGRLDQR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 276 TASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|172038507|ref|YP_001805008.1| RNA polymerase sigma factor SigD [Cyanothece sp. ATCC 51142] gi|171699961|gb|ACB52942.1| group 2 sigma-70 RNA polymerase sigma factor D [Cyanothece sp. ATCC 51142] Length = 318 Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 109/247 (44%), Positives = 167/247 (67%), Gaps = 8/247 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S EFR S+V GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ Sbjct: 68 LSKREFR---SIVESGEA----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGM 120 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + EKFD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R +S Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQ 180 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R T E+A++L + + VR+ L+ ++P+SL+ +GD + LGD +ED + SP Sbjct: 181 QKGRAATVTELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLED-DGQSPE 239 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D A ++L+ R++ LT +++ V+ +RFG+ TL ++G + ++RER+RQIE Sbjct: 240 DFATHSSLQFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299 Query: 662 KAIRKLK 668 +A+ KL+ Sbjct: 300 EALSKLR 306 Score = 39.7 bits (91), Expect = 1.9, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 24/33 (72%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +S DPVR YL+E+G + LL+ E EI AKR++ Sbjct: 5 KSNPDPVRAYLKEIGRVPLLTHEEEILYAKRVQ 37 >gi|148978207|ref|ZP_01814737.1| DNA-directed RNA polymerase, sigma subunit [Vibrionales bacterium SWAT-3] gi|145962629|gb|EDK27905.1| DNA-directed RNA polymerase, sigma subunit [Vibrionales bacterium SWAT-3] Length = 326 Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA KL PV V Sbjct: 143 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIASKLDKPVGDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++++ + L L P+ Sbjct: 203 SKMLRLNERVSSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDSDIKNSLIFWLDELNPK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 263 QKEVLARRFGLLGYEPSTLEEVGREISLTRERVRQIQVEGLRRLRE 308 >gi|289746505|ref|ZP_06505883.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis 02_1987] gi|289687033|gb|EFD54521.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis 02_1987] Length = 216 Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 103/202 (50%), Positives = 143/202 (70%) Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 G ++ EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + Sbjct: 15 GADRSVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQREL 74 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + REPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV Sbjct: 75 LQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVV 134 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +D+ L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQI Sbjct: 135 AVDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQI 194 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E+K + KL+HPSRS+ LR +LD Sbjct: 195 ESKTMSKLRHPSRSQVLRDYLD 216 >gi|86146341|ref|ZP_01064665.1| DNA-directed RNA polymerase, sigma subunit [Vibrio sp. MED222] gi|85835820|gb|EAQ53954.1| DNA-directed RNA polymerase, sigma subunit [Vibrio sp. MED222] Length = 326 Score = 211 bits (536), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA KL PV V Sbjct: 143 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIASKLDKPVGDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++++ + L L P+ Sbjct: 203 SKMLRLNERVSSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDSDIKNSLIFWLDELNPK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 263 QKEVLARRFGLLGYEPSTLEEVGREISLTRERVRQIQVEGLRRLRE 308 >gi|308048570|ref|YP_003912136.1| RNA polymerase, sigma 38 subunit, RpoS [Ferrimonas balearica DSM 9799] gi|307630760|gb|ADN75062.1| RNA polymerase, sigma 38 subunit, RpoS [Ferrimonas balearica DSM 9799] Length = 328 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 101/238 (42%), Positives = 160/238 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ + + + ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 75 VYYARRAQRDCAKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 134 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++ + EPT E Sbjct: 135 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHTLDHEPTAE 194 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA KL PVE V ++LK+ ++ S++TPIG + L D I D + V P A ++ Sbjct: 195 EIAMKLDKPVEDVSRMLKLNEKISSVDTPIGGDSDKALLDVIADDDRVCPEVQAQDDDIN 254 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + R L L ++ VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+L+ Sbjct: 255 GSVVRWLGELNSKQREVLARRFGLLGYEPSTLEDVGREIGLTRERVRQIQVEALRRLR 312 >gi|78214100|ref|YP_382879.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78198559|gb|ABB36324.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] Length = 377 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 158/237 (66%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW Sbjct: 137 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS TIR+PVH+ +K++++ R + +++ R + ++A++L + + V Sbjct: 197 IRQGITRAIATQSRTIRLPVHVTEKLNRIKRVQQEIASNEGRIASIADLARELGISEDTV 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L +SL+T +G E + LGD IED +A +P + L +L LT R Sbjct: 257 RQTLARVPRSVSLDTRVGREQDTQLGDLIEDGHA-TPEQTLTHDELHNDLEHLLDELTSR 315 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR RFG+ +T TL ++G++ ++RER+RQIE +A+ KL+ P R K+R ++ Sbjct: 316 EAAVLRRRFGLEDDTPQTLAQIGEELKLSRERVRQIETRALLKLRQPQRRSKIRDYI 372 >gi|153840560|ref|ZP_01993227.1| RpoS [Vibrio parahaemolyticus AQ3810] gi|149745777|gb|EDM56907.1| RpoS [Vibrio parahaemolyticus AQ3810] Length = 415 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 31 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ T R+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 91 IRQTIERALMNQTRTTRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 151 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 210 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 211 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 255 >gi|33864481|ref|NP_896041.1| putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33641261|emb|CAE22391.1| Putative type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] Length = 376 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 123/349 (35%), Positives = 197/349 (56%), Gaps = 10/349 (2%) Query: 334 RIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFP-E 392 R++LL + R++ LL+ + ++ E + EL +++ +P + Sbjct: 31 RVELLTNEEEVTLARLVQRREALLKQERKLASNQEAIKELQRLEELQQREANHSCHWPTK 90 Query: 393 GEWKNFVACEVDSIL-KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEA 451 EW + + KI K+ TG+ E + + R+ AK +M++A Sbjct: 91 QEWAMAAGLTLAELQEKIETGYKTWGALTGLDPLELKRSLRAGRR-------AKDQMIQA 143 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW++Q ITR+ Sbjct: 144 NLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQGITRA 203 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 IA QS TIR+P+H+ +K++++ R + +++ R + ++AK L + E VR L Sbjct: 204 IATQSRTIRLPMHITEKLNRIKRVQQEIASSQGRLASIADLAKALGLSEETVRLTLMRVP 263 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 ISLET IG E + LGD +ED NA +P + + L +L L+ RE V+R R Sbjct: 264 RSISLETRIGQEQDTQLGDLLEDSNA-TPEEKLTRNQLHNDLEILLDELSNREATVIRRR 322 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 FG+ +T TL ++G+ ++RER+RQIE A+ KL+ P R K+R ++ Sbjct: 323 FGLEDDTPQTLTQIGEAMHLSRERVRQIETHALLKLRQPQRRCKVRDYI 371 Score = 37.7 bits (86), Expect = 5.8, Method: Compositional matrix adjust. Identities = 14/37 (37%), Positives = 28/37 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 + DPVR+YL+++G +ELL+ E E+ +A+ ++ A++ Sbjct: 18 STDPVRLYLQDIGRVELLTNEEEVTLARLVQRREALL 54 >gi|293363636|ref|ZP_06610388.1| putative RNA polymerase sigma factor RpoD [Mycoplasma alligatoris A21JP2] gi|292552792|gb|EFF41550.1| putative RNA polymerase sigma factor RpoD [Mycoplasma alligatoris A21JP2] Length = 492 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 108/264 (40%), Positives = 171/264 (64%), Gaps = 11/264 (4%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + + + KG A+ +++ NLRLVI+ AKKY NRGL F+DLI EGN G++KA +K Sbjct: 227 KQLAKQMEKGGFRGKRARDKLIMRNLRLVINNAKKYKNRGLTFIDLISEGNAGILKAVQK 286 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 ++ G+KFSTYA WW++QAITR++ADQ+ TIR+PVHM + I+K+ + R + ++ EP Sbjct: 287 YNVEKGFKFSTYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQQELGHEP 346 Query: 548 TPEEIAKKLAMPV--EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 T +IA + E VR + KI +PISL+ IG E+ S DF++D N ++P+D A Sbjct: 347 TDSQIANRFGNDYTEEKVRYIRKINVDPISLDKQIGKENDSSFSDFVKDDNILNPVDYAS 406 Query: 606 QANLRETTTRVL-ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQ-FCVTRERIR 657 Q L E ++ SL E ++ R+G+G++++ H+L+E+ ++ V++ERIR Sbjct: 407 QEQLSELLIDLIDKSLEKDERELICKRYGVGVDSNGEKYRVHSLDELARERGGVSKERIR 466 Query: 658 QIEAKAIRKLKHPSRS-KKLRSFL 680 QIE K +RKLK+ S++ + L+ F+ Sbjct: 467 QIENKILRKLKNSSKNGRHLKDFI 490 >gi|332994558|gb|AEF04613.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonas sp. SN2] Length = 330 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 101/230 (43%), Positives = 155/230 (67%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+ +NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 85 CEAS--RKRMIVSNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 142 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EPT EEIA L Sbjct: 143 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPTAEEIALALDK 202 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ + S++TPIG E+ L D + D+ P ++ ++++ L Sbjct: 203 PVEDVTKMLRLNERITSVDTPIGGENDKALLDILADEKEFGPEENLQDSDIKSNIVGWLE 262 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P++ VL RFG+ TLE+VG + +TRER+RQI+ +A+R+L+ Sbjct: 263 ELNPKQREVLARRFGLMGYEPSTLEDVGAEIGLTRERVRQIQVEALRRLR 312 >gi|148242803|ref|YP_001227960.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851113|emb|CAK28607.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 309 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 108/230 (46%), Positives = 158/230 (68%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 74 SKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ V + +++K+ P+ EIA +L M +E + Sbjct: 134 IRQSMTRAIACQSRTIRLPVHLSERLATVRKATMDLAHKLGAMPSRREIATELGMGLEEL 193 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ PI G+E S LG+ I D PLD+ + E R L+ LT Sbjct: 194 DGLLRQALTTSSLDAPISGEEGRSFLGELIADPRNEEPLDAVERRMHHEQLGRWLSYLTA 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E++VL MRFG+G HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 254 QEKQVLEMRFGLGGEQRHTLAEIGRLMEVSRERVRQVELKALRKLRNLTR 303 >gi|302543058|ref|ZP_07295400.1| RNA polymerase principal sigma factor HrdD [Streptomyces hygroscopicus ATCC 53653] gi|302460676|gb|EFL23769.1| RNA polymerase principal sigma factor HrdD [Streptomyces himastatinicus ATCC 53653] Length = 333 Score = 210 bits (535), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 107/234 (45%), Positives = 150/234 (64%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E + AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 92 AEGARAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP EIA++L Sbjct: 152 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEHMEIAEELGS 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V VL ++P+SL + DE + GD +ED +AVSP S + E ++ Sbjct: 212 TPERVSDVLDWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVMTLLRSEELEDLIG 271 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++ R+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 272 RLDDRTASIIKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELKKMAR 325 >gi|29830237|ref|NP_824871.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607348|dbj|BAC71406.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 331 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 107/230 (46%), Positives = 150/230 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 95 AKDVFIKSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 154 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + REP P EIA +L V Sbjct: 155 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELDSNPARV 214 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 215 TDVLDWARDPVSLNMHVDDEGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGRLDQR 274 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +RS Sbjct: 275 TASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARS 324 >gi|218245053|ref|YP_002370424.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 8801] gi|218165531|gb|ACK64268.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8801] Length = 375 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 107/238 (44%), Positives = 172/238 (72%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 137 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A++L M + Sbjct: 197 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQKLQRNPNEKELAQELEMTPPQL 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED++ P + + LR + VL+ LT Sbjct: 257 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEEQMNEGMLRNEISAVLSDVLTE 316 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 317 REKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 374 >gi|167813607|ref|ZP_02445287.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 91] Length = 302 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 55 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 114 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 115 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 174 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 175 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 235 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 294 Query: 677 RSFLD 681 FLD Sbjct: 295 HDFLD 299 >gi|225011624|ref|ZP_03702062.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-2A] gi|225004127|gb|EEG42099.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacteria bacterium MS024-2A] Length = 287 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 104/250 (41%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQIALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTYAFLEQAHERAPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M + V++ LK + +S++ P+ + + S+L D + + +P + +LR Sbjct: 157 EIAKELDMTINDVKESLKNSGRHVSMDAPLVEGEDSNLYDVLNSGESPNPDRVLLHESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVVRLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 Score = 38.1 bits (87), Expect = 5.6, Method: Compositional matrix adjust. Identities = 19/57 (33%), Positives = 36/57 (63%), Gaps = 1/57 (1%) Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 YL+E+G ++L++ E E+ +A+RI+AG + + L ++ L F + + + N G TL Sbjct: 21 YLQEIGKVDLITAEEEVELAQRIKAGDQIALEKLTKANLRF-VVSVAKQYQNQGLTL 76 >gi|163787530|ref|ZP_02181977.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] gi|159877418|gb|EDP71475.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] Length = 287 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 103/250 (41%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQIALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQSHERPPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M + V++ +K + +S++ P+ + + S+L D + + +P + +LR Sbjct: 157 EIAKELDMTINDVKESMKNSGRHVSMDAPLVEGEDSNLYDVLRSGESPNPDRDLLHESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|332878128|ref|ZP_08445857.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332683866|gb|EGJ56734.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 287 Score = 210 bits (535), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 104/237 (43%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIA++L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQANERVPSAEEIARELDMSVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + IS++ P+ + + S+L D I + +P I A+LR R L +LTPR Sbjct: 170 KESMKNSGRHISMDAPLVEGEDSNLYDVIRSNESPNPDKELILASLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|126441635|ref|YP_001057174.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] gi|126221128|gb|ABN84634.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 668] Length = 482 Score = 210 bits (534), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IA+++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIAERARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.4 bits (93), Expect = 0.89, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|257058077|ref|YP_003135965.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] gi|256588243|gb|ACU99129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 8802] Length = 375 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 107/238 (44%), Positives = 172/238 (72%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 137 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 196 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A++L M + Sbjct: 197 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQKLQRNPNEKELAQELEMTPPQL 256 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED++ P + + LR + VL+ LT Sbjct: 257 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEEQMNEGMLRNEISAVLSDVLTE 316 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 317 REKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 374 >gi|332292552|ref|YP_004431161.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] gi|332170638|gb|AEE19893.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] Length = 287 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 164/237 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SV+K+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVSKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+PEEIAK+L M + V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQANERPPSPEEIAKELDMSINDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ LK + IS++ P+ + + S+L D + + +P + +L+ R L +LTPR Sbjct: 170 KESLKNSGRHISMDAPLVEGEDSNLYDVLNSGESPNPDRELLHESLKTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLGDQQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|218710550|ref|YP_002418171.1| RNA polymerase sigma factor RpoS [Vibrio splendidus LGP32] gi|218323569|emb|CAV19793.1| RNA polymerase sigma factor rpoS (Sigma-38 factor) [Vibrio splendidus LGP32] Length = 335 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA KL PV V Sbjct: 152 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIASKLDKPVGDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++++ + L L P+ Sbjct: 212 SKMLRLNERVSSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDSDIKNSLIFWLDELNPK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 272 QKEVLARRFGLLGYEPSTLEEVGREISLTRERVRQIQVEGLRRLRE 317 >gi|53724654|ref|YP_101962.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 23344] gi|121599433|ref|YP_994127.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|167001162|ref|ZP_02266961.1| RNA polymerase sigma factor [Burkholderia mallei PRL-20] gi|238561900|ref|ZP_00441190.2| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|254176911|ref|ZP_04883568.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|254203640|ref|ZP_04910000.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|254208616|ref|ZP_04914964.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|254360328|ref|ZP_04976598.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|52428077|gb|AAU48670.1| RNA polymerase sigma factor RpoD, putative [Burkholderia mallei ATCC 23344] gi|121228243|gb|ABM50761.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei SAVP1] gi|147745152|gb|EDK52232.1| RNA polymerase sigma factor RpoD [Burkholderia mallei FMH] gi|147750492|gb|EDK57561.1| RNA polymerase sigma factor RpoD [Burkholderia mallei JHU] gi|148029568|gb|EDK87473.1| RNA polymerase sigma factor RpoD [Burkholderia mallei 2002721280] gi|160697952|gb|EDP87922.1| RNA polymerase sigma factor RpoD [Burkholderia mallei ATCC 10399] gi|238523583|gb|EEP87020.1| RNA polymerase sigma factor RpoD [Burkholderia mallei GB8 horse 4] gi|243062992|gb|EES45178.1| RNA polymerase sigma factor [Burkholderia mallei PRL-20] Length = 482 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IA+++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIAERARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.4 bits (93), Expect = 0.89, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|149197281|ref|ZP_01874333.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149139827|gb|EDM28228.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 404 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 99/229 (43%), Positives = 150/229 (65%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MVE NLRLVIS+A+KY+N FLDLIQEGNIGL+ A EK+D GY FSTYA WW++QA Sbjct: 172 MVEGNLRLVISIARKYSNSQEGFLDLIQEGNIGLVSAVEKYDASFGYTFSTYATWWIRQA 231 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ++R+ + T+++P ++ K++K+ RT R + K RE T +E+++ + + +R + Sbjct: 232 VSRARTELVRTMKLPANIMVKVNKIYRTERELFQKFGREATIDEVSEAVELSPAKIRSLK 291 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ ++PISL+T + +E T LGD + + + V P Q L E+ +L L RE+ + Sbjct: 292 RMCQQPISLQTTVSEEHTGELGDIVSNDDDVLPDAEVEQKQLHESLVAMLDILNEREQEI 351 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LRMRFG+ HTLE + +F ++RERIRQIE A++KL+ P+ K L Sbjct: 352 LRMRFGLADGEYHTLENIANEFGISRERIRQIETSALKKLRRPTAVKCL 400 >gi|113953359|ref|YP_732042.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp. CC9311] gi|113880710|gb|ABI45668.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp. CC9311] Length = 376 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 122/356 (34%), Positives = 210/356 (58%), Gaps = 24/356 (6%) Query: 334 RIDLLVEQLYDISKRIMHNEGELLRLAQSYG-----IKRDVFLERHQGRELD--PHWVSY 386 R+DLL + + R++ L R + + I+R + LE Q RE + HW + Sbjct: 31 RVDLLTAEDEVVLSRLVQQYERLKREERQFAEDHPAIERLLCLEELQLREANHLSHWPT- 89 Query: 387 AKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISI--SEFRHIVSMVRKGECEASIA 444 EW + + N+ + ET ++ ++ R + +R+G A Sbjct: 90 -----RQEWARAAEMPLQEL----NKGLTQGYETWANLISTDSRELQLRLRRGRK----A 136 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + M++ANLRLV++VAKKY +RG++ LDL+QEG +GL +A EKFD G++FSTY+ WW+ Sbjct: 137 RDRMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERAVEKFDSTRGFRFSTYSYWWI 196 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +Q ITR+IA QS TIR+PVH+ +K++++ R + +++ R + ++A++L++ + VR Sbjct: 197 RQGITRAIATQSRTIRLPVHITEKLNRIKRVQQEIASNEGRTASMTDLARELSVSEDTVR 256 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + L +SLET +G + + LG+ +ED++A +P + + +L + +L LTPRE Sbjct: 257 QTLARVPRSVSLETKVGRDQDTQLGELLEDEHA-TPEQTLTRDSLHDDLEHLLNELTPRE 315 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+R RFG+ +T TL ++G+ ++RER+RQIE +A+ KL+ P R K+R ++ Sbjct: 316 ATVIRCRFGLEDDTPRTLAQIGEDMNLSRERVRQIETRALLKLRQPQRRNKVRDYI 371 >gi|85712119|ref|ZP_01043172.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina baltica OS145] gi|85694109|gb|EAQ32054.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina baltica OS145] Length = 333 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 100/233 (42%), Positives = 158/233 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 ARKRMIESNLRLVVKIARRYCNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EPT E+IA L PVE + Sbjct: 152 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELAHKLDHEPTAEDIAASLNKPVEDI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG ++ L D + D+ P +L+E T L +L P+ Sbjct: 212 TKMLRLNERVTSVDTPIGGDNDKALLDILTDEADDGPEGVLQDGDLKERITEWLDALNPK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+RKL+ R + L Sbjct: 272 QKEVLARRFGLLGYEPSTLEDVGHEIGLTRERVRQIQVEALRKLRDFLRQQGL 324 >gi|124386302|ref|YP_001028216.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126449023|ref|YP_001081831.1| RNA polymerase sigma factor [Burkholderia mallei NCTC 10247] gi|126450673|ref|YP_001081854.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] gi|124294322|gb|ABN03591.1| putative RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10229] gi|126241893|gb|ABO04986.1| RNA polymerase sigma factor [Burkholderia mallei NCTC 10247] gi|126243543|gb|ABO06636.1| RNA polymerase sigma factor RpoD [Burkholderia mallei NCTC 10247] Length = 482 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 235 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 294 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IA+++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 295 STYATWWIRQAISRAIAERARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 354 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 355 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 414 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 415 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 474 Query: 677 RSFLD 681 FLD Sbjct: 475 HDFLD 479 Score = 40.4 bits (93), Expect = 0.90, Method: Compositional matrix adjust. Identities = 17/45 (37%), Positives = 31/45 (68%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DP+ +++R M ++ LL+ EIA+A IEAGR ++ +L E+ Sbjct: 106 ASTDPLALFVRRMHAVPLLTHAQEIALAAEIEAGREQVLQALAEA 150 >gi|167822153|ref|ZP_02453624.1| RNA polymerase sigma factor RpoD [Burkholderia pseudomallei 9] Length = 299 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 99/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 52 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 111 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R+IAD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 112 STYATWWIRQAISRAIADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 171 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 172 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 231 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 232 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 291 Query: 677 RSFLD 681 FLD Sbjct: 292 HDFLD 296 >gi|153839213|ref|ZP_01991880.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ3810] gi|149747278|gb|EDM58264.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus AQ3810] Length = 274 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 31 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ T R+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 91 IRQTIERALMNQTRTTRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 151 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 210 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 211 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 255 >gi|84390122|ref|ZP_00991384.1| DNA-directed RNA polymerase, sigma subunit [Vibrio splendidus 12B01] gi|84376776|gb|EAP93651.1| DNA-directed RNA polymerase, sigma subunit [Vibrio splendidus 12B01] Length = 326 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA KL PV V Sbjct: 143 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIASKLDKPVGDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++++ + L L P+ Sbjct: 203 SKMLRLNERVSSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDSDIKNSLIFWLDELNPK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 263 QKEVLARRFGLLGYEPSTLEEVGREISLTRERVRQIQVEGLRRLRE 308 >gi|290959686|ref|YP_003490868.1| sigma factor HrdD [Streptomyces scabiei 87.22] gi|260649212|emb|CBG72326.1| sigma factor HrdD [Streptomyces scabiei 87.22] Length = 332 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 107/240 (44%), Positives = 153/240 (63%), Gaps = 5/240 (2%) Query: 438 ECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 E EA +A E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ Sbjct: 85 ELEALVADSERAKDIFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRK 144 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P EI Sbjct: 145 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEI 204 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L + V VL ++P+SL + D+ + GD +ED +AVSP S + E Sbjct: 205 AAELGSNADRVTDVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVLTLLRSEE 264 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ L R +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 265 LDDLIGRLDQRTASIIKMRYGIEDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|149190125|ref|ZP_01868401.1| RNA polymerase sigma-38 factor [Vibrio shilonii AK1] gi|148836014|gb|EDL52975.1| RNA polymerase sigma-38 factor [Vibrio shilonii AK1] Length = 325 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 154/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 82 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA+KL PV V Sbjct: 142 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAQKLDKPVSDV 201 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D P S +++ + L L P+ Sbjct: 202 SKMLRLNERISSVDTPIGGDGEKALLDIIPDSTHSDPEVSTQDDDIKSSLIHWLDELNPK 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 262 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 306 >gi|307151291|ref|YP_003886675.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306981519|gb|ADN13400.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 318 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 104/247 (42%), Positives = 165/247 (66%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+ AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EKFD G Sbjct: 73 LRRTMAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKG 132 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R+++ K R T E+A Sbjct: 133 YRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKQGRAATISELA 192 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L + VR+ L+ ++P+SL+ +GD + LG+ +ED SP D A ++L+ Sbjct: 193 QELELTPRQVREYLERARQPLSLDLRVGDNQDTELGELLED-TGTSPEDYATHSSLQLDL 251 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 ++++ LTP++ VL +RFG+ TL ++G + ++RER+RQIE +A+ KL+ R Sbjct: 252 EKLMSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALSKLR--KRK 309 Query: 674 KKLRSFL 680 ++ +L Sbjct: 310 ANIKEYL 316 Score = 42.0 bits (97), Expect = 0.33, Method: Compositional matrix adjust. Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 6/54 (11%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM------MMASLCESPL 162 ++ DPVR YLRE+G + LL+ E EI +AKR++ A+ + +L PL Sbjct: 5 KNPTDPVRAYLREIGRVPLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPL 58 >gi|17231302|ref|NP_487850.1| RNA polymerase sigma factor SigD [Nostoc sp. PCC 7120] gi|8489797|gb|AAF75755.1|AF262216_2 group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120] gi|17132944|dbj|BAB75509.1| group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120] Length = 332 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 101/230 (43%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + IAK++MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 ADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S ++ R PT E+A +L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGELANELEL 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + VR+ L+ + P+SL+ +GD + LG+ +ED A SP D +Q++L ++ Sbjct: 212 TPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEDFVMQSSLSNDLEVLME 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+++ V+ +RFG+ TL +G+ ++RER+RQIE +A+ KL+ Sbjct: 271 QLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLR 320 >gi|107026582|ref|YP_624093.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] gi|116692228|ref|YP_837761.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] gi|105895956|gb|ABF79120.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] gi|116650228|gb|ABK10868.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] Length = 514 Score = 210 bits (534), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 105/246 (42%), Positives = 161/246 (65%), Gaps = 1/246 (0%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KF Sbjct: 270 GQQKVRDATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKF 329 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI R++AD+S TIR+PVH+ D+ +V R A R + R TP E+A + Sbjct: 330 STYATWWIRQAIARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAET 389 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + +R VL + EP+SL+TP+ D DT L + IED+ + SP + +R+ + Sbjct: 390 GLAEDKLRAVLALPAEPVSLDTPLPDADTG-LVELIEDQASASPFEQLADTRMRDCVRSL 448 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ Sbjct: 449 LRSVTPTEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALAALRTAAEAENA 508 Query: 677 RSFLDG 682 +SFLD Sbjct: 509 QSFLDA 514 Score = 67.8 bits (164), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 39/140 (27%), Positives = 75/140 (53%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ SS+ ++ A L+++GI V+D + Sbjct: 15 DPIIQLLALAGEQGYLTHADLVDALPPESDSSDALDVVRAALADIGIAVLDEPAVPAPFA 74 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +++ A + + ++ DP+ +Y+R M ++ LL+REGEI +A+ IE Sbjct: 75 GAAPVEVDRDALDEGRAMLGDLARGTSASTDPLALYMRRMHAVPLLTREGEIVLAREIET 134 Query: 149 GRAMMMASLCESPLTFQALI 168 GR ++ ++ P AL+ Sbjct: 135 GRHQVLHAIAGYPPAVDALL 154 >gi|305664513|ref|YP_003860800.1| putative sigma factor A [Maribacter sp. HTCC2170] gi|88708530|gb|EAR00766.1| putative sigma factor A [Maribacter sp. HTCC2170] Length = 287 Score = 210 bits (534), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 105/250 (42%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQIALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQAHERMPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M VE V++ LK + +S++ P+ + S+L D + + +P + +LR Sbjct: 157 EIAKELDMTVEDVKQSLKNSGRHVSMDAPLIAGEDSNLYDVLRSGESPNPDRELLHESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLAGQHSMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|113474981|ref|YP_721042.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110166029|gb|ABG50569.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 496 Score = 210 bits (534), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 110/238 (46%), Positives = 159/238 (66%), Gaps = 4/238 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +MV ANLRLV SVAK+Y NRGL F DLIQEG IGL++A EKFD GYKFSTY +WW Sbjct: 261 AKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFDHTKGYKFSTYGIWW 320 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP-TPEEIAKKLAMPVEG 562 ++QAITR+I D S +R+PV++ + I ++ + +++S I+ P T EE+A ++ M E Sbjct: 321 IRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQIS--IECSPLTAEEVATRMEMTTEK 378 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ +++ +E +SL+ PI + + I+ N +P + L+E VL +LT Sbjct: 379 LQFIIECAQETLSLDYPINKGENIIYKEMIKF-NGETPTKYVFENCLQEDVESVLKTLTE 437 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE VL+MRFG+ + TL+E+G F +TRERIRQIEAKA+RKL+ P R+ LR ++ Sbjct: 438 RERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALRKLEDPKRNHILREYI 495 >gi|228472793|ref|ZP_04057551.1| RNA polymerase sigma factor RpoD [Capnocytophaga gingivalis ATCC 33624] gi|228275844|gb|EEK14610.1| RNA polymerase sigma factor RpoD [Capnocytophaga gingivalis ATCC 33624] Length = 287 Score = 210 bits (534), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 104/250 (41%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA + + +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDKIALERLTKANLRFVVSVAKQYQNQGLTLPDLINEGNMGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQTHERVPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M V V++ +K + IS++ P+ + + S+L D + + +P + +L+ Sbjct: 157 EIAKELDMSVNDVKESMKNSGRHISMDAPLVEGEDSNLYDVLRSGESPNPDKELMHESLK 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G N TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLGENYPMTLEEIGETFELTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|167717486|ref|ZP_02400722.1| RNA polymerase sigma factor [Burkholderia pseudomallei DM98] Length = 294 Score = 210 bits (534), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 159/245 (64%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE S A M EANLRLV+S+A+KY +RGL DL+QEGN+GL++A EKF+ G+KF Sbjct: 47 GEARISAATARMAEANLRLVLSIARKYASRGLDLADLLQEGNLGLLRAIEKFEHRRGFKF 106 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI+R++AD++ TIR+PVH+ D+ +V + A R+ + + E+++ Sbjct: 107 STYATWWIRQAISRAVADRARTIRVPVHVGDEARRVRKAADRIERRSGVSASLAELSEAT 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P E +R VL + +EP SL P+GD+D + GD +ED + S D+ + + T + Sbjct: 167 GLPAERLRAVLTLPREPRSLNAPLGDDDQAEFGDIVEDTSTPSLFDALAHGQMCDVVTSL 226 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L +++ +E +LR RFGIG + + E++ + V+RE++R+IE +A++ L+ + + Sbjct: 227 LKTMSAQEADILRRRFGIGGDEPWSYEQIAARAGVSREQVRRIEKRALQTLRVTAEACNA 286 Query: 677 RSFLD 681 FLD Sbjct: 287 HDFLD 291 >gi|254386169|ref|ZP_05001481.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] gi|194345026|gb|EDX25992.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] Length = 325 Score = 210 bits (534), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 105/234 (44%), Positives = 150/234 (64%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK+ + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 84 AEGERAKEVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFST 143 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA +L Sbjct: 144 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHTEIAAELDT 203 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + V VL ++P+SL + D+ + GD +ED +A+SP S + E +L Sbjct: 204 TAKRVGDVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAISPEQSVLSLLRSEELEDLLG 263 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 264 KLDQRTASIIKMRYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELKKMAR 317 >gi|154706690|ref|YP_001423754.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] gi|154355976|gb|ABS77438.1| RNA polymerase sigma factor [Coxiella burnetii Dugway 5J108-111] Length = 352 Score = 209 bits (533), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 100/240 (41%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I V KG+ +A +K+M+EANLRLV+ +A+ Y NRGL FLDLI+EGN+GLM A EKFD Sbjct: 102 IARRVHKGDPKA---RKQMIEANLRLVVKIARHYVNRGLPFLDLIEEGNLGLMSAVEKFD 158 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G++FSTYA WW++Q I R+I +QS T+R+P+H+ +++ +RTA++++ ++ E TP Sbjct: 159 PERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHVIKELNVYLRTAKKLTQEVDHEATP 218 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E++A + PV+ +R+++ + S++ PI ++ L D + D N + P +L Sbjct: 219 EDVAHLIDKPVQEIRRIMDLAPSATSIDVPISEDGQKSLVDTLADDNNIDPARLIQNVDL 278 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ R LA L R V+ +RFG+ N TLE VGK +TRER+RQI+ A+++L+H Sbjct: 279 QDHIERWLAQLDERHREVVILRFGLHENEKGTLEAVGKAVGLTRERVRQIQIDALQQLRH 338 >gi|254509205|ref|ZP_05121302.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 16] gi|219547863|gb|EED24891.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus 16] Length = 331 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 148 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIATQLDKPVDDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 208 SKMLRLNERISSVDTPIGGDGEKALLDIIPDVNNSDPEVSTQDDDIKSSLVHWLDELNPK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 268 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 312 >gi|332518972|ref|ZP_08395439.1| RNA polymerase sigma factor, sigma-70 family [Lacinutrix algicola 5H-3-7-4] gi|332044820|gb|EGI81013.1| RNA polymerase sigma factor, sigma-70 family [Lacinutrix algicola 5H-3-7-4] Length = 287 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 102/250 (40%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQVALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQAHERPPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M + V++ +K + +S++ P+ + + S+L D + + +P + +LR Sbjct: 157 EIAKELDMTINDVKESMKNSGRHVSMDAPLVEGEDSNLYDVLNSGESPNPDRELLHESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|330446961|ref|ZP_08310612.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328491152|dbj|GAA05109.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 333 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 156/226 (69%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 90 VARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 149 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA++L PV+ Sbjct: 150 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIAQQLEKPVDD 209 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + S++ PIG + L D I D+ SP S +++ + L L P Sbjct: 210 VNRMLRLNERVSSVDNPIGGDSEKALLDIIPDEKGGSPESSTQDDDIKNSIVHWLQELNP 269 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 KQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 315 >gi|251733353|emb|CAR82426.1| RNA polymerase sigma factor [Bradyrhizobium japonicum] Length = 205 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 105/178 (58%), Positives = 133/178 (74%) Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 K + LK++++ V SL LNQ+RID LVEQLYDI+KR++ +EG L+RLA S+G+ R+ FL Sbjct: 26 KYRKLKDEIIVEVKSLRLNQARIDSLVEQLYDINKRLVSHEGRLMRLADSHGVAREDFLR 85 Query: 373 RHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 + G ELDP W++ WKNFV E D I +R+E+ ++ TG+ I EFR IV Sbjct: 86 NYTGSELDPRWLNRVSKLSAKGWKNFVHIEKDRIKDLRHEVHQLAALTGLEIVEFRKIVH 145 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V+KGE EA AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 SVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 203 >gi|163754266|ref|ZP_02161389.1| RNA polymerase sigma-70 factor [Kordia algicida OT-1] gi|161326480|gb|EDP97806.1| RNA polymerase sigma-70 factor [Kordia algicida OT-1] Length = 287 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 103/250 (41%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQIALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKTFAYLEQSHERIPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M V V++ +K + +S++ P+ + + S+L D + + +P + +L+ Sbjct: 157 EIAKELDMTVNDVKESMKNSGRHVSMDAPLVEGEDSNLYDVLNSGESPNPDKELLHESLK 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLGNQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|124023660|ref|YP_001017967.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123963946|gb|ABM78702.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 313 Score = 209 bits (533), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 109/245 (44%), Positives = 165/245 (67%), Gaps = 5/245 (2%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H M+R G AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKF Sbjct: 67 HQRRMIRIGRR----AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D GYKFSTYA WW++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ Sbjct: 123 DPTRGYKFSTYAFWWIRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPS 182 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EIA+ + +PV+ + +L+ SL+ P+ G+E S LGD I D + PLD Q Sbjct: 183 RSEIAEAMDIPVDELDSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLGEPLDKVEQR 242 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E R L+ L+ +E+ VL++RFG+ + HTL E+G+ V+RER+RQ+E KA+RKL Sbjct: 243 IHHEQLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRLMEVSRERVRQVELKALRKL 302 Query: 668 KHPSR 672 ++ +R Sbjct: 303 RNLTR 307 >gi|222056415|ref|YP_002538777.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] gi|221565704|gb|ACM21676.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. FRC-32] Length = 358 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +M+E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 117 ARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 176 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K++R R + KI REP+ +E+A + + + Sbjct: 177 IRQSIERALVNQSRTIRLPVHVSDDINKMLRITRELLQKINREPSIKEVATAMEVNSAYI 236 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ + L D IED + VSP + N E ++ +L+ Sbjct: 237 RRLMVLLKKTYSIERPMGENNDYFLIDTIEDTSTVSPAELLEDVNRYEMVSKWFDTLSDN 296 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL+ Sbjct: 297 EKKILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLR 341 >gi|90580346|ref|ZP_01236153.1| putative RNA polymerase sigma-38 factor [Vibrio angustum S14] gi|90438648|gb|EAS63832.1| putative RNA polymerase sigma-38 factor [Vibrio angustum S14] Length = 337 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 156/226 (69%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 94 VARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 153 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA++L PV+ Sbjct: 154 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIAQQLEKPVDD 213 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + S++ PIG + L D I D+ SP S +++ + L L P Sbjct: 214 VNRMLRLNERVSSVDNPIGGDSEKALLDIIPDEKGGSPESSTQDDDIKNSIVHWLQELNP 273 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 274 KQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 319 >gi|75908113|ref|YP_322409.1| RNA polymerase sigma factor SigD [Anabaena variabilis ATCC 29413] gi|75701838|gb|ABA21514.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413] Length = 332 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 100/230 (43%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + +AK++MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 ADGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S ++ R PT E+A +L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGELANELEL 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + VR+ L+ + P+SL+ +GD + LG+ +ED A SP D +Q++L ++ Sbjct: 212 TPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEDFVMQSSLSNDLEVLME 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+++ V+ +RFG+ TL +G+ ++RER+RQIE +A+ KL+ Sbjct: 271 QLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLR 320 >gi|22124745|ref|NP_668168.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM 10] gi|45440189|ref|NP_991728.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Microtus str. 91001] gi|108808779|ref|YP_652695.1| RNA polymerase sigma factor RpoS [Yersinia pestis Antiqua] gi|108810903|ref|YP_646670.1| RNA polymerase sigma factor RpoS [Yersinia pestis Nepal516] gi|145600262|ref|YP_001164338.1| RNA polymerase sigma factor RpoS [Yersinia pestis Pestoides F] gi|153997601|ref|ZP_02022701.1| RNA polymerase sigma factor RpoS [Yersinia pestis CA88-4125] gi|162420853|ref|YP_001605522.1| RNA polymerase sigma factor RpoS [Yersinia pestis Angola] gi|165925871|ref|ZP_02221703.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. F1991016] gi|165936700|ref|ZP_02225267.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. IP275] gi|166010016|ref|ZP_02230914.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. E1979001] gi|166212931|ref|ZP_02238966.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. B42003004] gi|167398742|ref|ZP_02304266.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167421704|ref|ZP_02313457.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167423190|ref|ZP_02314943.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Mediaevalis str. K1973002] gi|218930373|ref|YP_002348248.1| RNA polymerase sigma factor RpoS [Yersinia pestis CO92] gi|229838982|ref|ZP_04459141.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229896462|ref|ZP_04511630.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Pestoides A] gi|229899549|ref|ZP_04514690.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229901116|ref|ZP_04516239.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Nepal516] gi|270489294|ref|ZP_06206368.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM D27] gi|294505063|ref|YP_003569125.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|21957564|gb|AAM84419.1|AE013686_2 RNA polymerase, sigma S (sigma38) factor [Yersinia pestis KIM 10] gi|45435045|gb|AAS60605.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Microtus str. 91001] gi|108774551|gb|ABG17070.1| RNA polymerase sigma factor RpoS [Yersinia pestis Nepal516] gi|108780692|gb|ABG14750.1| RNA polymerase sigma factor RpoS [Yersinia pestis Antiqua] gi|115348984|emb|CAL21944.1| RNA polymerase sigma factor RpoS [Yersinia pestis CO92] gi|145211958|gb|ABP41365.1| RNA polymerase sigma factor RpoS [Yersinia pestis Pestoides F] gi|149289238|gb|EDM39318.1| RNA polymerase sigma factor RpoS [Yersinia pestis CA88-4125] gi|162353668|gb|ABX87616.1| RNA polymerase sigma factor RpoS [Yersinia pestis Angola] gi|165915349|gb|EDR33959.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. IP275] gi|165922483|gb|EDR39660.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. F1991016] gi|165990923|gb|EDR43224.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. E1979001] gi|166205718|gb|EDR50198.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. B42003004] gi|166960623|gb|EDR56644.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167051246|gb|EDR62654.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167057360|gb|EDR67106.1| RNA polymerase sigma factor RpoS [Yersinia pestis biovar Mediaevalis str. K1973002] gi|224483372|gb|ACN50513.1| RpoS [Yersinia pestis] gi|229681841|gb|EEO77934.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Nepal516] gi|229687041|gb|EEO79116.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229695348|gb|EEO85395.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229700536|gb|EEO88567.1| RNA polymerase, sigma S (sigma 38) factor [Yersinia pestis Pestoides A] gi|262363123|gb|ACY59844.1| RNA polymerase sigma factor [Yersinia pestis D106004] gi|262367053|gb|ACY63610.1| RNA polymerase sigma factor [Yersinia pestis D182038] gi|270337798|gb|EFA48575.1| RNA polymerase sigma factor RpoS [Yersinia pestis KIM D27] gi|294355522|gb|ADE65863.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|320016550|gb|ADW00122.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 332 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|153207564|ref|ZP_01946247.1| RNA polymerase sigma factor RpoS [Coxiella burnetii 'MSU Goat Q177'] gi|161829847|ref|YP_001597499.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 331] gi|165918356|ref|ZP_02218442.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 334] gi|212211994|ref|YP_002302930.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212218001|ref|YP_002304788.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] gi|120576532|gb|EAX33156.1| RNA polymerase sigma factor RpoS [Coxiella burnetii 'MSU Goat Q177'] gi|161761714|gb|ABX77356.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 331] gi|165918006|gb|EDR36610.1| RNA polymerase sigma factor RpoS [Coxiella burnetii RSA 334] gi|212010404|gb|ACJ17785.1| RNA polymerase sigma factor [Coxiella burnetii CbuG_Q212] gi|212012263|gb|ACJ19643.1| RNA polymerase sigma factor [Coxiella burnetii CbuK_Q154] Length = 352 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 100/240 (41%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I V KG+ +A +K+M+EANLRLV+ +A+ Y NRGL FLDLI+EGN+GLM A EKFD Sbjct: 102 IARRVHKGDPKA---RKQMIEANLRLVVKIARHYVNRGLPFLDLIEEGNLGLMTAVEKFD 158 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G++FSTYA WW++Q I R+I +QS T+R+P+H+ +++ +RTA++++ ++ E TP Sbjct: 159 PERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHVIKELNVYLRTAKKLTQEVDHEATP 218 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E++A + PV+ +R+++ + S++ PI ++ L D + D N + P +L Sbjct: 219 EDVAHLIDKPVQEIRRIMDLAPSATSIDVPISEDGQKSLVDTLADDNNIDPARLIQNVDL 278 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ R LA L R V+ +RFG+ N TLE VGK +TRER+RQI+ A+++L+H Sbjct: 279 QDHIERWLAQLDERHREVVILRFGLHENEKGTLEAVGKAVGLTRERVRQIQIDALQQLRH 338 >gi|86132636|ref|ZP_01051229.1| RNA polymerase sigma-70 factor RpoD [Dokdonia donghaensis MED134] gi|85816878|gb|EAQ38063.1| RNA polymerase sigma-70 factor RpoD [Dokdonia donghaensis MED134] Length = 287 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 166/237 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SV+K+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEQLTKANLRFVVSVSKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+PEEIAK+L M ++ V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQANERPPSPEEIAKELDMTIKDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ LK + IS++ P+ + + S+L D + + +P + + +L+ R L +LTPR Sbjct: 170 KESLKNSGRHISMDAPLVEGEDSNLYDVLNSGESPNPDRALLHESLKTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G +LEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLGDQRPMSLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|87123422|ref|ZP_01079273.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] gi|86169142|gb|EAQ70398.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] Length = 376 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 104/239 (43%), Positives = 156/239 (65%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV++VAKKY RGL+ LDL+QEG +GL +A EKFD G++FSTYA WW Sbjct: 136 ARDRMIAANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS TIR+PVH+ +K++++ R + ++++ R T ++A+KL + E V Sbjct: 196 IRQGITRAIATQSRTIRLPVHVTEKLNRIKRVQQEIASQEGRIATLTDLAQKLGLSEETV 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L +SLE +G E + LGD +ED A +P + L +L LT R Sbjct: 256 RLTLMRVPRSVSLELRVGKEQDTQLGDLLEDGKA-TPEQELTRDALHHDLEHLLDELTDR 314 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E V+R+RFG+ +T TL ++G+ ++RER+RQIE +A+ KL+ P R K+R ++ G Sbjct: 315 EAAVIRLRFGLDNDTPCTLAQIGETMALSRERVRQIETRALLKLRQPQRRCKVRDYIQG 373 >gi|95930284|ref|ZP_01313022.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] gi|95133747|gb|EAT15408.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM 684] Length = 296 Score = 209 bits (533), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 101/251 (40%), Positives = 166/251 (66%), Gaps = 3/251 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E R + + V G+ +A + +M+E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL Sbjct: 42 LTAEEERALATKVEAGDEQA---RAKMIESNLRLVVKIAKRYMNRGLPFLDLIEEGNMGL 98 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA E+F +FSTYA WW++Q+I R++ +QS TIR+PVH+ D ++++++ + + Sbjct: 99 IKAVERFQVAKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDNVNRMLKATKEVLK 158 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K+ EP+ +IA+ + PVE VR++ ++ K+ S+E P+GD D L D +ED + ++P Sbjct: 159 KLNHEPSEAQIAEAMGAPVEEVRRLQQLVKKTYSIEHPLGDNDNYSLMDTLEDSSVINPA 218 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + + + L+SL E +L +RFG+ TL+ +GK++ VTRERIRQIEA Sbjct: 219 ELLENQDQYDFVNKWLSSLKENERDILMLRFGLNDCEPETLDTIGKRYGVTRERIRQIEA 278 Query: 662 KAIRKLKHPSR 672 K++ KL+ R Sbjct: 279 KSLDKLRRMMR 289 >gi|89075068|ref|ZP_01161509.1| putative RNA polymerase sigma-38 factor [Photobacterium sp. SKA34] gi|89049155|gb|EAR54720.1| putative RNA polymerase sigma-38 factor [Photobacterium sp. SKA34] Length = 337 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 156/226 (69%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 94 VARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 153 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA++L PV+ Sbjct: 154 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIAQQLEKPVDD 213 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + S++ PIG + L D I D+ SP S +++ + L L P Sbjct: 214 VNRMLRLNERVSSVDNPIGGDSEKALLDIIPDEKGGSPESSTQDDDIKNSIVHWLQELNP 273 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 274 KQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 319 >gi|170735771|ref|YP_001777031.1| RpoD family RNA polymerase sigma factor [Burkholderia cenocepacia MC0-3] gi|169817959|gb|ACA92541.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia cenocepacia MC0-3] Length = 511 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 106/246 (43%), Positives = 160/246 (65%), Gaps = 1/246 (0%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KF Sbjct: 267 GQQKVRDATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKF 326 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI R++AD+S TIR+PVH+ D+ +V R A R + R TP E+A + Sbjct: 327 STYATWWIRQAIARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAET 386 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + +R VL + EP+SL+TP+ D DT L + IED+ + SP + +RE + Sbjct: 387 GLDEGKLRAVLALPAEPVSLDTPLPDADTG-LVELIEDQASASPFEQLADTRMRECVRAL 445 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ Sbjct: 446 LRSVTPTEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALAALRTAAEAENA 505 Query: 677 RSFLDG 682 +SFLD Sbjct: 506 QSFLDA 511 Score = 64.3 bits (155), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 37/140 (26%), Positives = 73/140 (52%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D + Sbjct: 15 DPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDEPAVPAPFA 74 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +++ A + + ++ DP+ +Y+R M ++ LL+REGEI +A+ IE Sbjct: 75 GAAPVEVDRDALDEGRAMLGDLARGTSASTDPLALYMRRMHAVPLLTREGEIVLAREIET 134 Query: 149 GRAMMMASLCESPLTFQALI 168 GR ++ ++ P L+ Sbjct: 135 GRHQVLHAIAGYPPAVDVLL 154 >gi|1350861|sp|P47765|RPOS_YEREN RecName: Full=RNA polymerase sigma factor rpoS gi|687583|gb|AAC43391.1| RpoS [Yersinia enterocolitica] Length = 331 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 211 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 271 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 323 >gi|260775503|ref|ZP_05884400.1| RNA polymerase sigma factor RpoS [Vibrio coralliilyticus ATCC BAA-450] gi|260608684|gb|EEX34849.1| RNA polymerase sigma factor RpoS [Vibrio coralliilyticus ATCC BAA-450] Length = 327 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 84 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 143 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 144 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIATQLDKPVDDV 203 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 204 SKMLRLNERISSVDTPIGGDGEKALLDIIPDVNNSDPEVSTQDDDIKSSLIHWLDELNPK 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 264 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 308 >gi|238754524|ref|ZP_04615879.1| RNA polymerase sigma factor rpoS [Yersinia ruckeri ATCC 29473] gi|238707353|gb|EEP99715.1| RNA polymerase sigma factor rpoS [Yersinia ruckeri ATCC 29473] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|291515538|emb|CBK64748.1| RNA polymerase sigma factor, sigma-70 family [Alistipes shahii WAL 8301] Length = 286 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 176/268 (65%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ EA +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGKEELITVEEEVELAQRIKKGDQEAL---EKLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + R + +R P+PEE+A +L +P E V L++ +S++ P D + + L D + Sbjct: 139 NKAFARFEQEHERTPSPEELATELELPKEKVTDTLRVAGRHVSVDAPFADGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + ++ + I +L R L +LT RE +++ FGIG ++ TLEE+G++F +T Sbjct: 199 VNPDSPNADRGLINESLSTEVDRALETLTERERDIIKYFFGIG-TSEMTLEEIGEKFDLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H SRSK L+S+L Sbjct: 258 RERVRQIKEKAIRRLRHSSRSKLLKSYL 285 >gi|260434805|ref|ZP_05788775.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] gi|260412679|gb|EEX05975.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109] Length = 312 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 106/230 (46%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 77 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 136 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + +P++ + Sbjct: 137 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRVEIAEAMDIPLDEL 196 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + PL+ Q E R L+ L+ Sbjct: 197 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLDEPLEIVEQRIHHEQLGRWLSHLSE 256 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VLRMRFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 257 QEQHVLRMRFGLEGNERHTLAEIGRLMEVSRERVRQVELKALRKLRNLTR 306 >gi|238786006|ref|ZP_04629967.1| RNA polymerase sigma factor rpoS [Yersinia bercovieri ATCC 43970] gi|238713067|gb|EEQ05118.1| RNA polymerase sigma factor rpoS [Yersinia bercovieri ATCC 43970] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|238758207|ref|ZP_04619386.1| RNA polymerase sigma factor rpoS [Yersinia aldovae ATCC 35236] gi|238703537|gb|EEP96075.1| RNA polymerase sigma factor rpoS [Yersinia aldovae ATCC 35236] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|309792450|ref|ZP_07686915.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] gi|308225522|gb|EFO79285.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris trichoides DG6] Length = 311 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 92/238 (38%), Positives = 157/238 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ +NLRLV+S+A++Y GL LDLIQEG++GLM+A +KFD G KFSTYA +W Sbjct: 74 ARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSLGLMRAVDKFDPSRGLKFSTYATYW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++ R+IAD T+R+PVH+ +++ ++ R +R++ ++ R+PTPEE+A +L + + V Sbjct: 134 IRQSVGRAIADHGRTVRLPVHLGERLSRLARARQRLTQRLDRDPTPEEVADELGITTDQV 193 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + P SL+ D+ T L + I D +PLD LR+ ++ LT R Sbjct: 194 TRAEQAALTPASLDETHSDDGTGALAEVISDPLEPTPLDHVAHGLLRDDLCEAMSHLTQR 253 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +L +R+G+ T TLE++G++ +TRER+RQ+E++A+RKL+ P ++L + + Sbjct: 254 ERSILNLRYGLEGETALTLEQIGQRLSLTRERVRQLESEALRKLRDPHLGRRLHGYFE 311 >gi|238761664|ref|ZP_04622639.1| RNA polymerase sigma factor rpoS [Yersinia kristensenii ATCC 33638] gi|238700178|gb|EEP92920.1| RNA polymerase sigma factor rpoS [Yersinia kristensenii ATCC 33638] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDRPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 324 >gi|269925235|ref|YP_003321858.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] gi|269788895|gb|ACZ41036.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum terrenum ATCC BAA-798] Length = 344 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 98/247 (39%), Positives = 158/247 (63%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++K E A+ +++E NLRLV+S+A++Y G+ DLI+EGN+GLM+AAEKFDW G Sbjct: 97 LKKAVEEGKAARHKLIEHNLRLVVSIARRYVGHGMPLADLIEEGNLGLMRAAEKFDWRRG 156 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++QA+TR +A+ TIR+PVH+ + + K+ R +R+S ++ REPT +E+A Sbjct: 157 FRFSTYATWWIRQAVTRGLAEGGRTIRLPVHVGEALTKIGRETQRLSLELGREPTNQELA 216 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + E + + ++ P+SLE P+G++ ++LG+ +ED A +P A L E Sbjct: 217 EATGLSPERIDEYKNASRLPLSLEAPLGEDGETNLGEVLEDTEAANPEHIADHTMLGEDI 276 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L L R+ ++ MR+G+ TLE G++ VTRER RQIE +A+ +L+ Sbjct: 277 KRALERLNERQRAIIIMRYGLYGGQPMTLEAAGRKLGVTRERARQIEQEALNRLRQSDAK 336 Query: 674 KKLRSFL 680 + L S + Sbjct: 337 QFLASHV 343 >gi|16330303|ref|NP_441031.1| RNA polymerase sigma factor SigD [Synechocystis sp. PCC 6803] gi|1652792|dbj|BAA17711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 318 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 105/242 (43%), Positives = 161/242 (66%), Gaps = 5/242 (2%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R + +++GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + E Sbjct: 70 IRELEKAIKEGER----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVE 125 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R++S + R Sbjct: 126 KFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRA 185 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + E+A+ L + + VR+ L+ ++ P+SL+ +GD + LGD +ED + P D A Sbjct: 186 ASIAELAEHLELTPKQVREYLERSRHPLSLDLRVGDNQDTELGDLLEDDGPL-PEDFATY 244 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 A+L+ ++A LTP++ VL +RFG+ TL +G ++RER+RQIE +A+ K Sbjct: 245 ASLQLDLDSLMAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISRERVRQIEREALNK 304 Query: 667 LK 668 L+ Sbjct: 305 LR 306 >gi|313159603|gb|EFR58965.1| putative RNA polymerase sigma factor RpoD [Alistipes sp. HGB5] Length = 286 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 176/268 (65%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ EA +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGKEELITVEEEVELAQRIKKGDQEAL---EKLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + R + +R P+PEE+A +L +P E V L++ +S++ P D + + L D + Sbjct: 139 NKAFARFEQEHERTPSPEELATELELPKEKVTDTLRVAGRHVSVDAPFADGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + ++ + I +L R L +LT RE +++ FGIG ++ TLEE+G++F +T Sbjct: 199 VNPDSPNADRGLINESLSTEVDRALETLTDRERDIIKYFFGIG-TSEMTLEEIGEKFDLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H SRSK L+S+L Sbjct: 258 RERVRQIKEKAIRRLRHSSRSKLLKSYL 285 >gi|51595126|ref|YP_069317.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 32953] gi|153948385|ref|YP_001402250.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 31758] gi|170025640|ref|YP_001722145.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis YPIII] gi|186894139|ref|YP_001871251.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis PB1/+] gi|51588408|emb|CAH20016.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Yersinia pseudotuberculosis IP 32953] gi|152959880|gb|ABS47341.1| RNA polymerase sigma factor RpoS [Yersinia pseudotuberculosis IP 31758] gi|169752174|gb|ACA69692.1| RNA polymerase, sigma 70 subunit, RpoD family [Yersinia pseudotuberculosis YPIII] gi|186697165|gb|ACC87794.1| RNA polymerase, sigma 70 subunit, RpoD family [Yersinia pseudotuberculosis PB1/+] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|238791265|ref|ZP_04634904.1| RNA polymerase sigma factor rpoS [Yersinia intermedia ATCC 29909] gi|238729398|gb|EEQ20913.1| RNA polymerase sigma factor rpoS [Yersinia intermedia ATCC 29909] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|318040801|ref|ZP_07972757.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 381 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 103/281 (36%), Positives = 181/281 (64%), Gaps = 9/281 (3%) Query: 401 CEVDSIL-KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 C V + +IR + ++ + + +S++E + + R+ A+ M++ANLRLV++V Sbjct: 99 CTVSELREQIRQKQQAWAEHSNLSVAELKQALHHGRR-------ARDRMIQANLRLVVAV 151 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 AKKY RG++ LDL+QEG +GL +A EK+D G++FSTYA WW++Q ITR+IA QS TI Sbjct: 152 AKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWWIRQGITRAIATQSRTI 211 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 R+PVH+ +K++++ + R+++ + R + ++A++L + E VR L +SL+T Sbjct: 212 RLPVHVTEKLNRIKKAQRQIATEHGRLASVSDLARELGLSEEVVRLTLMRVPRSVSLDTR 271 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G E + LGD +ED +A +P + +L + +L LT RE V+R+R+G+ +T Sbjct: 272 VGREQDTQLGDLLEDSHA-TPEQELTRESLHDDLESLLEELTAREAAVIRLRYGLEDDTP 330 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TL ++G+ ++RER+RQIE++A+ KL+ P R +++ ++ Sbjct: 331 QTLSQIGEDLHLSRERVRQIESRALLKLRQPQRRCRVQDYM 371 >gi|238797130|ref|ZP_04640632.1| RNA polymerase sigma factor rpoS [Yersinia mollaretii ATCC 43969] gi|238718977|gb|EEQ10791.1| RNA polymerase sigma factor rpoS [Yersinia mollaretii ATCC 43969] Length = 332 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|54310169|ref|YP_131189.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum SS9] gi|46914610|emb|CAG21387.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum SS9] Length = 342 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 96/226 (42%), Positives = 155/226 (68%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 98 IARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 157 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA KL PV+ Sbjct: 158 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIALKLEKPVDD 217 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + S++ PIG + L D I D+ SP S +++ + L L P Sbjct: 218 VNRMLRLNERVSSVDNPIGGDSEKALLDIIPDEKGGSPESSTQDDDIKNSIVHWLQELNP 277 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 278 KQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 323 >gi|206563110|ref|YP_002233873.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] gi|198039150|emb|CAR55114.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] Length = 508 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 105/246 (42%), Positives = 161/246 (65%), Gaps = 1/246 (0%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + A + M+EANLRLV+S+A+KY NRG+ DL+Q+G +GLM+A EKF++ G+KF Sbjct: 264 GQQKVRDATRAMLEANLRLVLSIARKYLNRGVDLSDLVQDGCLGLMRAIEKFEYRRGFKF 323 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAI R++AD+S TIR+PVH+ D+ +V R A R + R TP E+A + Sbjct: 324 STYATWWIRQAIARAVADRSRTIRVPVHVGDQYQRVQRHALRFRQRTGRRATPAELAAET 383 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + +R VL + EP+SL+TP+ D DT L + IED+ + SP + +R+ + Sbjct: 384 GLAEDKLRAVLALPAEPVSLDTPLPDADTG-LVELIEDQASASPFEQLADTRMRDCVRSL 442 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L S+TP E VLR RFG+G T + + + ++RER+RQIE +A+ L+ + ++ Sbjct: 443 LRSVTPTEADVLRRRFGLGGAEPDTYDAIAQDAGMSRERVRQIEKRALAALRTAAEAENA 502 Query: 677 RSFLDG 682 +SFLD Sbjct: 503 QSFLDA 508 Score = 66.6 bits (161), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 38/140 (27%), Positives = 74/140 (52%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEG 88 D +++ LA ++GY+T +L LPP+ S + ++ A L+++GI V+D + Sbjct: 15 DPIIQLLALAGEQGYLTHADLVDALPPESDSPDALDVVRAALADIGIAVLDEPAVPAPFA 74 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 +++ A + + ++ DP+ +Y+R M ++ LL+REGEI +A+ IE Sbjct: 75 GAAPVEVDRDALDEGRAMLGDLARGTSASTDPLALYMRRMHAVPLLTREGEIVLAREIET 134 Query: 149 GRAMMMASLCESPLTFQALI 168 GR ++ ++ P AL+ Sbjct: 135 GRHQVLHAIAGYPPAVDALL 154 >gi|295838256|ref|ZP_06825189.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] gi|197698235|gb|EDY45168.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74] Length = 341 Score = 209 bits (532), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 105/225 (46%), Positives = 146/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 105 AKDVFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA +L E V Sbjct: 165 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHAEIAAELGSTPERV 224 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 225 SDVLDWARDPVSLNMSVDDEGDTQFGDLLEDTSAVSPEQSVMTLLRSEELDELIGRLDER 284 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 285 TASIIKMRYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 329 >gi|323493642|ref|ZP_08098763.1| RNA polymerase sigma factor RpoS [Vibrio brasiliensis LMG 20546] gi|323312165|gb|EGA65308.1| RNA polymerase sigma factor RpoS [Vibrio brasiliensis LMG 20546] Length = 326 Score = 209 bits (531), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 143 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIATQLDKPVDDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 203 SKMLRLNERISSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDDDIKNSLIHWLDELNPK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 263 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 307 >gi|215404668|ref|ZP_03416849.1| RNA polymerase sigma factor [Mycobacterium tuberculosis 02_1987] gi|298526173|ref|ZP_07013582.1| hypothetical protein TBAG_01589 [Mycobacterium tuberculosis 94_M4241A] gi|298495967|gb|EFI31261.1| hypothetical protein TBAG_01589 [Mycobacterium tuberculosis 94_M4241A] Length = 197 Score = 209 bits (531), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 102/196 (52%), Positives = 140/196 (71%) Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD+ GYKFSTYA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + R Sbjct: 2 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGR 61 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPTPEE+AK++ + E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ Sbjct: 62 EPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVS 121 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L++ VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + Sbjct: 122 FTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMS 181 Query: 666 KLKHPSRSKKLRSFLD 681 KL+HPSRS+ LR +LD Sbjct: 182 KLRHPSRSQVLRDYLD 197 >gi|123441128|ref|YP_001005116.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332160357|ref|YP_004296934.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122088089|emb|CAL10877.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318604409|emb|CBY25907.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica Y11] gi|325664587|gb|ADZ41231.1| RNA polymerase sigma factor RpoS [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859888|emb|CBX70219.1| RNA polymerase sigma factor rpoS [Yersinia enterocolitica W22703] Length = 332 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 324 >gi|134291946|ref|YP_001115715.1| RpoD family RNA polymerase sigma factor [Burkholderia vietnamiensis G4] gi|134135135|gb|ABO59460.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia vietnamiensis G4] Length = 628 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/237 (42%), Positives = 152/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA +++D G++FSTYA WW Sbjct: 391 ARMGLFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWW 450 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D I+K+ R AR + TP E+A ++ P++ V Sbjct: 451 IRQAITHALADLGRTIRVPTHTVDAINKLTRIAREHRQRSGAAATPHELAVQMGEPLDKV 510 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + P+ E D D + SP D+A A LR+T ++ L R Sbjct: 511 RDLMSIVKEPMSADAPVSPEGEMTFVDVAPDVSTPSPEDAAGAAQLRDTIAAMIGRLPAR 570 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VLR+R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ LR+F+ Sbjct: 571 EATVLRLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRASDGLDVLRAFI 627 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 53/152 (34%), Positives = 75/152 (49%), Gaps = 11/152 (7%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I RG+VT ++ LP D+ ++ T AML +GI V DG + +L Sbjct: 33 LISTGLTRGFVTHGDIIDALPDDDAHQGGVDATAAMLRELGIAVSDG-----AHAAGWTL 87 Query: 94 DLASSASNSS------VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D + S+ + + T DPVR+YLREMG LL+R+ EI A+RIE Sbjct: 88 DRYFQPTPSARAWAEGAGALAAAELSAPRTTDPVRLYLREMGMTPLLTRDEEIMHAQRIE 147 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTT 179 GRA +A LC P AL+ R E+ +G T Sbjct: 148 RGRAASVAVLCGDPQALDALVAMRIEIAEGRT 179 >gi|261250229|ref|ZP_05942805.1| RNA polymerase sigma factor RpoS [Vibrio orientalis CIP 102891] gi|260939345|gb|EEX95331.1| RNA polymerase sigma factor RpoS [Vibrio orientalis CIP 102891] Length = 323 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 80 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 139 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 140 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIATQLDKPVDDV 199 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 200 SKMLRLNERISSVDTPIGGDGEKALLDIIPDINNSDPEVSTQDDDIKSSLIHWLDELNPK 259 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 260 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 304 >gi|302519838|ref|ZP_07272180.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302428733|gb|EFL00549.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 341 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 105/225 (46%), Positives = 146/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 105 AKDVFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA +L E V Sbjct: 165 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHAEIAAELGSTPERV 224 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 225 SDVLDWARDPVSLNMSVDDEGDTQFGDLLEDTSAVSPEQSVMTLLRSEELDELIGRLDER 284 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 285 TASIIKMRYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 329 >gi|317493947|ref|ZP_07952364.1| RNA polymerase sigma factor RpoS [Enterobacteriaceae bacterium 9_2_54FAA] gi|316918274|gb|EFV39616.1| RNA polymerase sigma factor RpoS [Enterobacteriaceae bacterium 9_2_54FAA] Length = 328 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 162/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDRPVTDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 208 SRMLRLNERITSVDTPLGGDSEKALLDILTDENESGPEDTTQSDDMKQSIVKWLFELNAK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 268 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 320 >gi|213963182|ref|ZP_03391440.1| RNA polymerase sigma factor RpoD [Capnocytophaga sputigena Capno] gi|213954266|gb|EEB65590.1| RNA polymerase sigma factor RpoD [Capnocytophaga sputigena Capno] Length = 287 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 104/237 (43%), Positives = 162/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIA++L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQANERVPSAEEIARELDMSVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K IS++ P+ + + S+L D I + +P S I +LR R L +LTPR Sbjct: 170 KESMKNAGRHISMDAPLVEGEDSNLYDVIRSNESPNPDKSLILDSLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLGDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|269960386|ref|ZP_06174759.1| RNA polymerase sigma-38 factor [Vibrio harveyi 1DA3] gi|269834813|gb|EEZ88899.1| RNA polymerase sigma-38 factor [Vibrio harveyi 1DA3] Length = 255 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 101/231 (43%), Positives = 157/231 (67%), Gaps = 1/231 (0%) Query: 439 CEA-SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 C A + K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FS Sbjct: 6 CVAMKLLDKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFS 65 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L Sbjct: 66 TYATWWIRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLD 125 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 +PVE V K+L++ + S++TPIG + L D I D N P S +++ + L Sbjct: 126 IPVEDVSKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWL 185 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P+++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 186 EELNPKQKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLR 236 >gi|33862619|ref|NP_894179.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33634535|emb|CAE20521.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 313 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 109/245 (44%), Positives = 165/245 (67%), Gaps = 5/245 (2%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H M+R G AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKF Sbjct: 67 HQRRMIRIGRR----AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D GYKFSTYA WW++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ Sbjct: 123 DPTRGYKFSTYAFWWIRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAIPS 182 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EIA+ + +PV+ + +L+ SL+ P+ G+E S LGD I D + PLD Q Sbjct: 183 RSEIAEAMDIPVDELDSLLRQALTTSSLDAPVNGEERRSFLGDLIADSSLGEPLDKVEQR 242 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E R L+ L+ +E+ VL++RFG+ + HTL E+G+ V+RER+RQ+E KA+RKL Sbjct: 243 IHHEQLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRLMEVSRERVRQVELKALRKL 302 Query: 668 KHPSR 672 ++ +R Sbjct: 303 RNLTR 307 >gi|312883942|ref|ZP_07743659.1| hypothetical protein VIBC2010_01628 [Vibrio caribbenthicus ATCC BAA-2122] gi|309368400|gb|EFP95935.1| hypothetical protein VIBC2010_01628 [Vibrio caribbenthicus ATCC BAA-2122] Length = 325 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 99/226 (43%), Positives = 155/226 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 82 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L PV+ V Sbjct: 142 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIALQLDKPVDDV 201 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 202 SKMLRLNERISSVDTPIGGDGEKALLDIIPDVNNSDPEVSTQDDDIKSSLIDWLDELNPK 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 262 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 307 >gi|119511025|ref|ZP_01630145.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] gi|119464276|gb|EAW45193.1| RNA polymerase sigma factor [Nodularia spumigena CCY9414] Length = 332 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 99/230 (43%), Positives = 162/230 (70%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + AK++MVEANLRLV+SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 ADGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S ++ R P+ E+A++L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQQLGRAPSAAELAQELDL 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + VR+ L+ + P+SL+ +GD + LG+ +ED A SP + +Q++L R++ Sbjct: 212 TPKQVREYLERARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEEFVMQSSLSYDLERLME 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+++ V+++RFG+ TL ++G ++RER+RQIE +A+ KL+ Sbjct: 271 ELTPQQKEVIKLRFGLLDGQALTLAKIGDILNISRERVRQIEREALTKLR 320 >gi|86141299|ref|ZP_01059845.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] gi|85831858|gb|EAQ50313.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] Length = 287 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 162/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+PEEIAK+L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQANERPPSPEEIAKELDMTVNEV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ LK +S++ P+ + + S+L D + + +P + +L R L +LTPR Sbjct: 170 KESLKNAGRHVSMDAPLIEGEDSNLYDVLRSGESPNPDRELLSESLSTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLGHQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|167754493|ref|ZP_02426620.1| hypothetical protein ALIPUT_02789 [Alistipes putredinis DSM 17216] gi|167659118|gb|EDS03248.1| hypothetical protein ALIPUT_02789 [Alistipes putredinis DSM 17216] Length = 286 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 176/268 (65%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ EA +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGKEELITVEEEVELAQRIKKGDQEAL---EKLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + R + +R P+PEE+A +L +P E V L++ +S++ P D + + L D + Sbjct: 139 NKAFARFEQEHERTPSPEELANELELPKEKVTDTLRVAGRHVSVDAPFADGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + ++ + I +L R L +LT RE +++ FGIG ++ TLEE+G++F +T Sbjct: 199 VNPDSPNADRGLINESLSTEVDRALETLTERERDIIKYFFGIGC-SEMTLEEIGEKFDLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H SRSK L+S+L Sbjct: 258 RERVRQIKEKAIRRLRHSSRSKLLKSYL 285 >gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium] Length = 591 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 108/242 (44%), Positives = 162/242 (66%), Gaps = 10/242 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+S+AK+Y+NRG+ DLIQEG+IGL++ EKFD G++FSTYA WW Sbjct: 352 AKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIRGVEKFDAERGFRFSTYATWW 411 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR+I+D S +IR+PVH+ D I + + + + ++ R P+ EEI + + + Sbjct: 412 IRQSITRAISDSSRSIRLPVHVHDTISLIRKQTKALQVELGRPPSEEEICESVGIDRAKY 471 Query: 564 RKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQA----NLRETTTRVLA 618 R V++ ++ +SLETP+ D H LG+ + ++P + A + LRE+ +VL Sbjct: 472 RLVMECSRNIVSLETPLRSGDDVHFLGESL-----IAPEERAEENCSRDTLRESIEKVLH 526 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L+ RE V+RMRFG+ TLEEVG +F VTRERIRQIE+KA++KL+ P+ + L Sbjct: 527 CLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTRERIRQIESKALKKLRTPAENNFLDE 586 Query: 679 FL 680 +L Sbjct: 587 YL 588 >gi|219849586|ref|YP_002464019.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus aggregans DSM 9485] gi|219543845|gb|ACL25583.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus aggregans DSM 9485] Length = 314 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/279 (35%), Positives = 173/279 (62%), Gaps = 4/279 (1%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +I + R + ++ E + +E + + + V GE A+ +++ +NLRLV+S+A++ Sbjct: 37 AQTIAQGRRAAERLTNEPSLHSTEKKRLAAQVAAGEQ----ARAQLINSNLRLVVSIARR 92 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL LDLIQEG+IGLM+A +KFD G KFSTYA +W++Q+I R+IAD S T+R+P Sbjct: 93 YQGHGLTLLDLIQEGSIGLMRAVDKFDAGRGLKFSTYATYWIRQSIGRAIADHSRTVRLP 152 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 VH+ +++ ++ R + ++ ++ REPT EE+A + VE V + + P SL+ + Sbjct: 153 VHLGERLSRLARLRQELAQQLDREPTLEELANAAGLSVEQVERAEQAGLAPTSLDEAHTE 212 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 + L + + D +P D + L+ L+ L+PRE +LR+R+G+ HTL Sbjct: 213 DGGGALSEILTDPLQPTPFDEVSEGMLQADVQAALSQLSPRERNILRLRYGLDGEPMHTL 272 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++G++ +TRER+RQ+E +A+RKL+ PS +L+ +++ Sbjct: 273 EQIGQRLRLTRERVRQLEYEALRKLRDPSLYPQLQGYVN 311 >gi|14994233|gb|AAK73284.1| RNA polymerase sigma-70 factor [Xylella fastidiosa] Length = 144 Score = 209 bits (531), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/137 (72%), Positives = 116/137 (84%) Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 RE TPEE+AK++ MP + +RKV+KI KEPIS+ETPIGD++ SHLGDFIED N SP+D+ Sbjct: 6 REATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTT 65 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 NL ET VLA LTPRE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+ Sbjct: 66 TNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 125 Query: 665 RKLKHPSRSKKLRSFLD 681 RKL+HPSRS++LRSFLD Sbjct: 126 RKLRHPSRSEQLRSFLD 142 >gi|90020900|ref|YP_526727.1| RNA polymerase sigma factor RpoS [Saccharophagus degradans 2-40] gi|89950500|gb|ABD80515.1| RNA polymerase sigma factor RpoS [Saccharophagus degradans 2-40] Length = 333 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 98/230 (42%), Positives = 158/230 (68%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 89 CEAS--RKRMIESNLRLVVKIARRYVNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 146 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EP+PEEIA L Sbjct: 147 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPSPEEIATLLEK 206 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P+E V ++L + + S++ PIG + D + D++ P++ +++L ++ L Sbjct: 207 PLEDVERMLALNERVTSMDVPIGPSSEKTVVDTVADQDVSDPVELLQESDLSQSLDGWLD 266 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ ++ V+ RFG+ + TLEEVGK+ +TRER+RQI+ +A+R+L+ Sbjct: 267 ELSEKQREVVARRFGLRGHETSTLEEVGKEIGLTRERVRQIQVEALRRLR 316 >gi|302535003|ref|ZP_07287345.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] gi|302443898|gb|EFL15714.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C] Length = 325 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 106/234 (45%), Positives = 149/234 (63%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK+ + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 84 AEGERAKEVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFST 143 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA L Sbjct: 144 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRIQREFNRENGRDPEHAEIAAALDS 203 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + V VL ++P+SL + DE + GD +ED +A+SP S + E +L Sbjct: 204 TEKRVGDVLDWARDPVSLNMSVDDEGDTQFGDLLEDTSAISPEQSVLSLLRSEELEDLLG 263 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 264 KLDQRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELKRMAR 317 >gi|148243538|ref|YP_001228695.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851848|emb|CAK29342.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 370 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 164/238 (68%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV++VAKKY +RG++ LDL+QEG +GL + EK+D G++FSTYA WW Sbjct: 131 AKERMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERGVEKYDPTRGFRFSTYAYWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA QS TIR+PVH+ +K++++ + R +++++ R T ++++++L + E V Sbjct: 191 IRQGITRAIATQSRTIRLPVHITEKLNRIKKAQRDIASRLGRTATLKDLSQELQLSEEVV 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L +SL+T +G + + LGD +ED +P + L + +L L+ R Sbjct: 251 RQTLMRVPRSVSLDTRVGRDMDTELGDLLED-GMPTPEQRLTREKLHDDLLVLLNELSGR 309 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RV+R+RFG+ +T TL E+GK ++RER+RQIE++A+ KL+ P R ++R +++ Sbjct: 310 EARVIRLRFGLDDDTPQTLAEIGKTLDLSRERVRQIESRALHKLRLPERRGRVRDYME 367 >gi|17158751|ref|NP_478262.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] gi|464687|sp|Q03065|RPSB_ANASP RecName: Full=RNA polymerase sigma-B factor gi|424021|pir||B47017 probable transcription initiation factor sigma SigB - Anabaena sp gi|142112|gb|AAA22046.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120] gi|17134700|dbj|BAB77258.1| transcription initiation factor sigma [Nostoc sp. PCC 7120] Length = 332 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 156/229 (68%), Gaps = 1/229 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + IAK++M++ANLRLV+S+AKKY R L+FLDLIQEG +GL + EKFD LGYKFSTY Sbjct: 93 QGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTY 152 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q ITR+IA QS TIR+P+HM DK++K+ R +S K+ EIA+ L + Sbjct: 153 AYWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLE 212 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +R+ L++ ++P+SL+ IG E + L D ++D + +SP A + L + +LA Sbjct: 213 PSQIREYLQLVRQPVSLDMRIGFEQDTQLQDLLKD-DGMSPERYAERELLYQDIHNLLAK 271 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+++ VL +RFG+ + TL ++ ++ ++RER+RQ+E +A+ L+ Sbjct: 272 LTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQALTLLR 320 >gi|166367266|ref|YP_001659539.1| RNA polymerase sigma factor SigD [Microcystis aeruginosa NIES-843] gi|166089639|dbj|BAG04347.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 318 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 103/238 (43%), Positives = 163/238 (68%), Gaps = 3/238 (1%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EKFD GY+FSTYA W Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYW 141 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IA++S TIR+P+H+ +K++K+ + R+++ R T E+A++L + + Sbjct: 142 WIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAELAEELDLTPKQ 201 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VR L+ +++P+SL+ +GD + LG+ +ED +SP D ++L+ +++A LTP Sbjct: 202 VRDYLERSRQPLSLDLKVGDNQDTELGELLED-TGLSPEDYTAYSSLQVDLEKLMADLTP 260 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +++ V+ +RFG+ TL ++G + ++RER+RQIE +AI KL+ R +R +L Sbjct: 261 QQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLRK--RKGNIREYL 316 Score = 38.1 bits (87), Expect = 4.9, Method: Compositional matrix adjust. Identities = 19/46 (41%), Positives = 30/46 (65%), Gaps = 2/46 (4%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 ++ DPVR YLRE+G + LL+ E EI AK+++ R + + + ES Sbjct: 5 KNPTDPVRAYLREIGRVPLLTHEEEILYAKQVQ--RLIFLEKIKES 48 >gi|238750591|ref|ZP_04612091.1| RNA polymerase sigma factor rpoS [Yersinia rohdei ATCC 43380] gi|238711239|gb|EEQ03457.1| RNA polymerase sigma factor rpoS [Yersinia rohdei ATCC 43380] Length = 332 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 159/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 316 >gi|11133042|sp|Q60012|HRDD_STRVF RecName: Full=RNA polymerase principal sigma factor hrdD gi|1407711|gb|AAB03580.1| sigma factor [Streptomyces viridifaciens] Length = 332 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 104/229 (45%), Positives = 148/229 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P P E+A +L E V Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEVAAELGSTPERV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + D + GD +ED +AVSP S + E ++ L R Sbjct: 216 IDVLDWARDPVSLNMAVDDAGETQFGDLLEDTSAVSPEQSVLTLLRSEELDDLIGRLDQR 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +++MR+GI + TL EVGK+ +TRERIRQIE A+ +LK +R Sbjct: 276 TASIIKMRYGIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLAR 324 >gi|333030005|ref|ZP_08458066.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides coprosuis DSM 18011] gi|332740602|gb|EGJ71084.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides coprosuis DSM 18011] Length = 286 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 180/271 (66%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ +A +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIKKGD---RVALEKLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+P+E+A +L MPV+ V LK++ IS++ P + ED S L Sbjct: 139 SKAFAKFEQEYERRPSPQELADELEMPVDKVTDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L E R L++L RE+++++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLSEEIDRALSTLEDREKQIIKMFFGIGCQ-EMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQNNRSKLLKSYL 285 >gi|33240812|ref|NP_875754.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238341|gb|AAQ00407.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 313 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 104/230 (45%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P EIA+++ + VE + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLATIRKVSLDLAHKLGAMPNRLEIAEEMDIEVEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ GD+ S LGD I D + PLD Q+ +E R L L+ Sbjct: 198 DSILRQALTTSSLDAPVNGDDGRSFLGDLIADSSVEEPLDKVEQSIHQEQLGRWLTHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E K++RKL++ +R Sbjct: 258 QEQHVLKLRFGLEGNDRHTLAEIGRLLEVSRERVRQVELKSLRKLRNLTR 307 >gi|329960773|ref|ZP_08299079.1| putative RNA polymerase sigma factor RpoD [Bacteroides fluxus YIT 12057] gi|328532374|gb|EGF59175.1| putative RNA polymerase sigma factor RpoD [Bacteroides fluxus YIT 12057] Length = 286 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 108/269 (40%), Positives = 178/269 (66%), Gaps = 6/269 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ IA +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RIALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + D + ++ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F + Sbjct: 199 VNDDSPMAD-RSLVNESLAREIDRALSTLTEREKEIIQMFFGIGQQ-EMTLEEIGDKFGL 256 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 257 TRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|186683480|ref|YP_001866676.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186465932|gb|ACC81733.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 332 Score = 208 bits (530), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/237 (42%), Positives = 160/237 (67%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M++ANLRLV+S+AKKY L FLDLIQEG++GL + EKFD GYKFSTY WW Sbjct: 97 AKQKMIQANLRLVVSIAKKYQRHNLDFLDLIQEGSLGLERGVEKFDPTKGYKFSTYGYWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+Q TIR+P+H+ +K++K+ R R ++ K+ R PT +IA++L++ + + Sbjct: 157 IRQAITRAIAEQGRTIRLPIHITEKLNKIKRIQRELTQKLGRTPTAVDIAEELSLDPKQI 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L + ++P+SLE +G + L D +ED N +SP A L++ +L+ L P+ Sbjct: 217 RDYLLLARQPVSLELRVGSDKDIELQDMLED-NGLSPELYADHKFLQQNIQNLLSKLNPQ 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + ++L RFG+ + +L E+G++ ++RER+RQIE +A+ L+ K+ S+L Sbjct: 276 QRQILTFRFGLTDGNELSLAEIGQRMGISRERVRQIEQQALGSLRR--HKDKIHSYL 330 >gi|189467039|ref|ZP_03015824.1| hypothetical protein BACINT_03421 [Bacteroides intestinalis DSM 17393] gi|224535443|ref|ZP_03675982.1| hypothetical protein BACCELL_00305 [Bacteroides cellulosilyticus DSM 14838] gi|319901765|ref|YP_004161493.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides helcogenes P 36-108] gi|189435303|gb|EDV04288.1| hypothetical protein BACINT_03421 [Bacteroides intestinalis DSM 17393] gi|224522909|gb|EEF92014.1| hypothetical protein BACCELL_00305 [Bacteroides cellulosilyticus DSM 14838] gi|319416796|gb|ADV43907.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides helcogenes P 36-108] Length = 286 Score = 208 bits (529), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 108/269 (40%), Positives = 178/269 (66%), Gaps = 6/269 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ IA +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RIALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + D + ++ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F + Sbjct: 199 VNDDSPMAD-RSLVNESLAREIDRALSTLTDREKEIIQMFFGIGQQ-EMTLEEIGDKFGL 256 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 257 TRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|254495200|ref|ZP_05108124.1| RNA polymerase sigma-70 factor RpoD [Polaribacter sp. MED152] gi|85819552|gb|EAQ40709.1| RNA polymerase sigma-70 factor RpoD [Polaribacter sp. MED152] Length = 287 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 164/237 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAKRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + + +R P+PEEIAKKL M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAFLEQENERPPSPEEIAKKLDMTVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P + +LR R L +LTPR Sbjct: 170 KESMKNSGRHVSMDAPLIEGEDSNLYDVLNSGESPNPDRVLLHESLRIEINRALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+++ FG+G + TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L ++L Sbjct: 230 EADVVKLYFGLGEHQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILMTYL 286 >gi|90412104|ref|ZP_01220111.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum 3TCK] gi|90327082|gb|EAS43461.1| putative RNA polymerase sigma-38 factor [Photobacterium profundum 3TCK] Length = 334 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 155/226 (68%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 90 IARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 149 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA +L PV+ Sbjct: 150 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIALQLEKPVDD 209 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V ++L++ + S++ PIG + L D I D+ SP S +++ + L L P Sbjct: 210 VNRMLRLNERVSSVDNPIGGDSEKALLDIIPDEKGGSPESSTQDDDIKNSIVHWLQELNP 269 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 KQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 315 >gi|318056947|ref|ZP_07975670.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actG] gi|318078687|ref|ZP_07986019.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actF] Length = 307 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 105/225 (46%), Positives = 146/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 71 AKDVFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 130 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA +L E V Sbjct: 131 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHAEIAAELGSTPERV 190 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL ++P+SL + DE + GD +ED +AVSP S + E ++ L R Sbjct: 191 SDVLDWARDPVSLNMSVDDEGDTQFGDLLEDTSAVSPEQSVMTLLRSEELDELIGRLDER 250 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 251 TASIIKMRYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 295 >gi|29654959|ref|NP_820651.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] gi|81788312|sp|Q9KI19|RPOS_COXBU RecName: Full=RNA polymerase sigma factor rpoS gi|7340285|gb|AAF61172.1|AF244357_1 stress response sigma factor RpoS [Coxiella burnetii] gi|29542228|gb|AAO91165.1| RNA polymerase sigma factor [Coxiella burnetii RSA 493] Length = 352 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I V KG+ +A +K+M+EANLRLV+ +A+ Y NRGL FLDLI+EGN+GL+ A EKFD Sbjct: 102 IARRVHKGDPKA---RKQMIEANLRLVVKIARHYVNRGLPFLDLIEEGNLGLLTAVEKFD 158 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G++FSTYA WW++Q I R+I +QS T+R+P+H+ +++ +RTA++++ ++ E TP Sbjct: 159 PERGFRFSTYATWWIRQTIERAIMNQSRTVRLPIHVIKELNVYLRTAKKLTQEVDHEATP 218 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E++A + PV+ +R+++ + S++ PI ++ L D + D N + P +L Sbjct: 219 EDVAHLIDKPVQEIRRIMDLAPSATSIDVPISEDGQKSLVDTLADDNNIDPARLIQNVDL 278 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ R LA L R V+ +RFG+ N TLE VGK +TRER+RQI+ A+++L+H Sbjct: 279 QDHIERWLAQLDERHREVVILRFGLHENEKGTLEAVGKAVGLTRERVRQIQIDALQQLRH 338 >gi|307324239|ref|ZP_07603447.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] gi|306889970|gb|EFN20948.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces violaceusniger Tu 4113] Length = 334 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 104/225 (46%), Positives = 146/225 (64%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ G+KFSTYA WW++QA Sbjct: 102 FIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYTKGFKFSTYATWWIRQA 161 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITRSIADQS TIR+PVH+ +++ ++ R R + + REP EIA +L +E V VL Sbjct: 162 ITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEHAEIAVELGSTMERVSDVL 221 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++P+SL + DE + GD +ED +AVSP S + E ++ L R + Sbjct: 222 DWARDPVSLNMSVDDEGETQFGDLLEDTSAVSPEQSVMTLLRSEELEDLIGRLDDRTASI 281 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ R+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 282 IKARYGIDDGRERTLTEVGKQHGLTRERIRQIEKHALLELKKMAR 326 >gi|218440063|ref|YP_002378392.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172791|gb|ACK71524.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 372 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 173/238 (72%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 134 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++ R PT +E+A+ L + E + Sbjct: 194 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPTEKELAQALEVDAENL 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED++ P + +A +R+ + VL LT Sbjct: 254 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDEDLQLPEEKMNEAMMRQDISAVLTDVLTE 313 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 314 REKDVIALRYGLSTSQPYTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 371 >gi|110638185|ref|YP_678394.1| RNA polymerase sigma-70 factor [Cytophaga hutchinsonii ATCC 33406] gi|110280866|gb|ABG59052.1| RNA polymerase sigma-70 factor [Cytophaga hutchinsonii ATCC 33406] Length = 287 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 100/247 (40%), Positives = 167/247 (67%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QLALEKLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ +T + K +REP+P+E+A Sbjct: 100 FKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSELEQKYEREPSPDELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L + V LKI+ +S++ P + + L D +E+ + +P S + +LR Sbjct: 160 EVLEVSTAEVVDTLKISGRHVSMDAPFVQGEENSLLDVLENSSESAPDSSLMNDSLRREV 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L++LT RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRS Sbjct: 220 QRALSTLTQREADVISLYFGLNGEHSMTLEEIGEKFNLTRERVRQIKEKAIRRLRHTSRS 279 Query: 674 KKLRSFL 680 K L+ +L Sbjct: 280 KALKPYL 286 >gi|124006216|ref|ZP_01691051.1| RpoD [Microscilla marina ATCC 23134] gi|123988140|gb|EAY27798.1| RpoD [Microscilla marina ATCC 23134] Length = 287 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 100/247 (40%), Positives = 168/247 (68%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QVALEKLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ +T + K +REP+P+E+A Sbjct: 100 FKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSELEQKYEREPSPDELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L + V LKI+ +S++ P + + L D +E+++ V P + +LR+ Sbjct: 160 EVLDVTTSEVVDTLKISGRHVSMDAPFVQGEENSLLDVLENESEVKPDSELMNDSLRKEV 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L++LT RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRS Sbjct: 220 QRALSTLTQREADVITLYFGLNGEHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHTSRS 279 Query: 674 KKLRSFL 680 K L+ +L Sbjct: 280 KALKPYL 286 >gi|218441429|ref|YP_002379758.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7424] gi|218174157|gb|ACK72890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 318 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 101/225 (44%), Positives = 156/225 (69%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EKFD GY+FSTYA WW Sbjct: 83 AKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA++S TIR+P+H+ +K++K+ + R++S R T E+A++L + V Sbjct: 143 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQAKGRAATISELAEELELTPRQV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ ++P+SL+ +GD + LG+ +ED SP D A ++L+ ++++ LTP+ Sbjct: 203 RDYLERARQPLSLDLKVGDNQDTELGELLED-TGTSPEDYATHSSLQVDLEKLMSDLTPQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL +RFG+ TL ++G + ++RER+RQIE +A+ KL+ Sbjct: 262 QKEVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALSKLR 306 Score = 41.2 bits (95), Expect = 0.57, Method: Compositional matrix adjust. Identities = 18/38 (47%), Positives = 27/38 (71%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 ++ DPVR YLRE+G + LL+ E EI +AKR++ A+ Sbjct: 5 KNPTDPVRAYLREIGRVPLLTHEEEIVLAKRVQRFMAL 42 >gi|33866155|ref|NP_897714.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639130|emb|CAE08136.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 313 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 105/230 (45%), Positives = 160/230 (69%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + +P++ + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPSRVEIAEAMDIPLDEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D + PLD Q E R L+ L+ Sbjct: 198 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSLDEPLDIVEQRIHHEQLGRWLSHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E KA+RKL++ +R Sbjct: 258 QEQHVLKLRFGLEGNERHTLAEIGRLMDVSRERVRQVELKALRKLRNLTR 307 >gi|119468990|ref|ZP_01612015.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonadales bacterium TW-7] gi|119447642|gb|EAW28909.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Alteromonadales bacterium TW-7] Length = 324 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 102/230 (44%), Positives = 155/230 (67%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CEAS--RKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+ L Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELTQKLDHEPTAEEIAECLDK 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 PVE V K+L++ ++ S++ PIG E+ S L D + D+ P + + L Sbjct: 197 PVEDVTKMLRLNEKIASVDMPIGGENDSVLLDILPDEKGNGPEGEVQDTEINKHIVDWLG 256 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+LK Sbjct: 257 ELNLKQREVLARRFGLLGYEPSTLEDVGREIGLTRERVRQIQVEALRRLK 306 >gi|39996625|ref|NP_952576.1| RNA polymerase sigma-70 factor family [Geobacter sulfurreducens PCA] gi|39983506|gb|AAR34899.1| RNA polymerase sigma-70 factor family [Geobacter sulfurreducens PCA] gi|298505638|gb|ADI84361.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter sulfurreducens KN400] Length = 328 Score = 208 bits (529), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 154/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +M+E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 92 ARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K+++ R + ++ REP+ +E+A ++ + V Sbjct: 152 IRQSIERALVNQSRTIRLPVHVSDDINKMLKITRELVQRLNREPSVKEVATEMKVNSAYV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ L D IED + VSP N E ++ ASL+ Sbjct: 212 RRLMVLLKKTYSIERPMGENSDYFLIDTIEDTSTVSPAVLLEDLNKYEIVSKWFASLSEN 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ +L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL+ Sbjct: 272 EQTILTLRFGLEDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLR 316 >gi|320010254|gb|ADW05104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces flavogriseus ATCC 33331] Length = 333 Score = 207 bits (528), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 106/236 (44%), Positives = 151/236 (63%), Gaps = 5/236 (2%) Query: 438 ECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 E EA +A+ E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ Sbjct: 86 ELEALVAESERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAK 145 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EI Sbjct: 146 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHTEI 205 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L E V VL ++P+SL + D+ + GD +ED +A+SP S + E Sbjct: 206 AAELDTNAERVGNVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAISPEQSVMTLLRSEE 265 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 266 LEDLIGKLDNRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 321 >gi|326335966|ref|ZP_08202143.1| RNA polymerase sigma-70 factor [Capnocytophaga sp. oral taxon 338 str. F0234] gi|325691930|gb|EGD33892.1| RNA polymerase sigma-70 factor [Capnocytophaga sp. oral taxon 338 str. F0234] Length = 287 Score = 207 bits (528), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 102/250 (40%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + +A + + +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDKVALERLTKANLRFVVSVAKQYQNQGLTLPDLINEGNMGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQTHERIPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L M V V++ +K + IS++ P+ + + S+L D + + +P + +L+ Sbjct: 157 EIARELDMSVSDVKESMKNSGRHISMDAPLVEGEDSNLYDVLRSGESPNPDKELMHESLK 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE V+R+ FG+G N TLEE+G+ F +TRER+RQI+ KAIR+LKH Sbjct: 217 TEIERALETLTPREADVIRLYFGLGENYPMTLEEIGETFELTRERVRQIKEKAIRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 >gi|253573078|ref|ZP_04850470.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 1_1_6] gi|251837335|gb|EES65434.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 1_1_6] Length = 286 Score = 207 bits (528), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLAREIDRALSTLTEREKEIIQMFFGIGQQ-EMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|223937956|ref|ZP_03629855.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] gi|223893357|gb|EEF59819.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [bacterium Ellin514] Length = 353 Score = 207 bits (528), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 100/235 (42%), Positives = 158/235 (67%), Gaps = 3/235 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ +A +++M++ANLRLV+ +A++Y + G+ LDLI EGN+GLMKA E+FD G Sbjct: 109 IKKGDKKA---REQMIKANLRLVVKIAREYEDYGMPLLDLINEGNMGLMKAVERFDPAKG 165 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 K STY+ WW+KQ+I R++A+QS TIR+PVH+ DK+ + + + ++ + REPT EE+ Sbjct: 166 AKLSTYSAWWIKQSIKRALANQSKTIRLPVHVVDKLFHMRQASVKLQEVLGREPTDEELG 225 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +L + V ++ P SLE P+GD++TS + D + D+ A +P + + Sbjct: 226 DELGFSAQKVAQLRTAAIRPASLEAPLGDDETSRIADVVRDETADTPYEQLEEKTNTSML 285 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++A+L PRE +LR RFG+ + + TLEEVG++F VTRERIRQI+ A+ KL+ Sbjct: 286 RELVATLDPREAEILRYRFGLDGDPERTLEEVGQKFGVTRERIRQIQNVALNKLR 340 >gi|294634769|ref|ZP_06713298.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda ATCC 23685] gi|291091828|gb|EFE24389.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda ATCC 23685] Length = 328 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 89 SRKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 148 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV V Sbjct: 149 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLEKPVHDV 208 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D +++++ + L L + Sbjct: 209 SRMLRLNERITSVDTPLGGDSEKALLDILTDENESGPEDCTQNDDMKQSIVKWLFELNAK 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 269 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 313 >gi|315185771|gb|EFU19537.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 338 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 96/235 (40%), Positives = 150/235 (63%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K M+ ANLRLV+S+AKKY +RGL LDLI EGNIGL++A E+FD+ G +FSTY WW+ Sbjct: 103 KNRMITANLRLVVSIAKKYQHRGLSLLDLIDEGNIGLIEAVERFDYTKGCRFSTYGTWWI 162 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAI +S+AD+S IRIP+HM + I V ++ ++ ++ R+PT EE+++ +P V Sbjct: 163 RQAIVKSLADKSRVIRIPIHMLNTIKNVFMLSKELAQELGRDPTEEELSRYTGLPDRRVA 222 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +++++++E SL+ + +E+ + LGD + D P + LR+ L+ L+ RE Sbjct: 223 EIMQVSQETASLDITVDEENMTTLGDLVSDDEDQGPFEKVFHRYLRDVLLEALSDLSERE 282 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 V+ +RFG+ TLEE GK +TRER+RQI+ KA+ KL+ + R + Sbjct: 283 RNVISLRFGLNGEGPLTLEETGKLLGITRERVRQIQEKALAKLREMGFIRDFRHY 337 >gi|269140216|ref|YP_003296917.1| RNA polymerase sigma factor [Edwardsiella tarda EIB202] gi|228204742|gb|ACP74149.1| RNA polymerase sigma factor [Edwardsiella tarda] gi|267985877|gb|ACY85706.1| RNA polymerase sigma factor [Edwardsiella tarda EIB202] gi|304560047|gb|ADM42711.1| RNA polymerase sigma factor RpoS [Edwardsiella tarda FL6-60] Length = 328 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 89 SRKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 148 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV V Sbjct: 149 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLEKPVHDV 208 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D +++++ + L L + Sbjct: 209 SRMLRLNERITSVDTPLGGDSEKALLDILTDENESGPEDCTQNDDMKQSIVKWLFELNAK 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 269 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 313 >gi|239942002|ref|ZP_04693939.1| RNA polymerase principal sigma factor hrdD [Streptomyces roseosporus NRRL 15998] gi|239988467|ref|ZP_04709131.1| RNA polymerase principal sigma factor hrdD [Streptomyces roseosporus NRRL 11379] Length = 308 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 107/239 (44%), Positives = 152/239 (63%), Gaps = 5/239 (2%) Query: 435 RKGECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ E EA +A E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD Sbjct: 58 KREELEALVADGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFD 117 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P Sbjct: 118 YAKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEH 177 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EIA +L E V VL ++P+SL + D+ + GD +ED +AVSP S + Sbjct: 178 AEIAAELDSNAERVGNVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVMTLLR 237 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++ L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 238 SEELEDLIGKLDNRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 296 >gi|291445451|ref|ZP_06584841.1| sigma factor [Streptomyces roseosporus NRRL 15998] gi|291348398|gb|EFE75302.1| sigma factor [Streptomyces roseosporus NRRL 15998] Length = 333 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 107/239 (44%), Positives = 152/239 (63%), Gaps = 5/239 (2%) Query: 435 RKGECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ E EA +A E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD Sbjct: 83 KREELEALVADGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFD 142 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P Sbjct: 143 YAKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEH 202 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EIA +L E V VL ++P+SL + D+ + GD +ED +AVSP S + Sbjct: 203 AEIAAELDSNAERVGNVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVMTLLR 262 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++ L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 263 SEELEDLIGKLDNRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 321 >gi|29346721|ref|NP_810224.1| RNA polymerase sigma factor rpoD (sigma-A) [Bacteroides thetaiotaomicron VPI-5482] gi|153808302|ref|ZP_01960970.1| hypothetical protein BACCAC_02591 [Bacteroides caccae ATCC 43185] gi|160882661|ref|ZP_02063664.1| hypothetical protein BACOVA_00615 [Bacteroides ovatus ATCC 8483] gi|160891864|ref|ZP_02072867.1| hypothetical protein BACUNI_04321 [Bacteroides uniformis ATCC 8492] gi|167762326|ref|ZP_02434453.1| hypothetical protein BACSTE_00679 [Bacteroides stercoris ATCC 43183] gi|218130148|ref|ZP_03458952.1| hypothetical protein BACEGG_01736 [Bacteroides eggerthii DSM 20697] gi|237712837|ref|ZP_04543318.1| conserved hypothetical protein [Bacteroides sp. D1] gi|237718434|ref|ZP_04548915.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_2_4] gi|255693898|ref|ZP_05417573.1| RNA polymerase sigma-70 factor [Bacteroides finegoldii DSM 17565] gi|260173882|ref|ZP_05760294.1| RNA polymerase sigma factor rpoD (sigma-A) [Bacteroides sp. D2] gi|262408807|ref|ZP_06085352.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_22] gi|270296469|ref|ZP_06202669.1| conserved hypothetical protein [Bacteroides sp. D20] gi|293371428|ref|ZP_06617859.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CMC 3f] gi|294648199|ref|ZP_06725739.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CC 2a] gi|294810777|ref|ZP_06769425.1| putative RNA polymerase sigma factor RpoD [Bacteroides xylanisolvens SD CC 1b] gi|298484065|ref|ZP_07002233.1| RNA polymerase sigma-70 factor [Bacteroides sp. D22] gi|299149080|ref|ZP_07042142.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_23] gi|315922146|ref|ZP_07918386.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D2] gi|317476641|ref|ZP_07935886.1| sigma-70 family RNA polymerase sigma factor [Bacteroides eggerthii 1_2_48FAA] gi|317480344|ref|ZP_07939445.1| sigma-70 family RNA polymerase sigma factor [Bacteroides sp. 4_1_36] gi|329955895|ref|ZP_08296698.1| putative RNA polymerase sigma factor RpoD [Bacteroides clarus YIT 12056] gi|29338618|gb|AAO76418.1| RNA polymerase sigma factor rpoD (Sigma-A) [Bacteroides thetaiotaomicron VPI-5482] gi|149129205|gb|EDM20421.1| hypothetical protein BACCAC_02591 [Bacteroides caccae ATCC 43185] gi|156111976|gb|EDO13721.1| hypothetical protein BACOVA_00615 [Bacteroides ovatus ATCC 8483] gi|156858342|gb|EDO51773.1| hypothetical protein BACUNI_04321 [Bacteroides uniformis ATCC 8492] gi|167699969|gb|EDS16548.1| hypothetical protein BACSTE_00679 [Bacteroides stercoris ATCC 43183] gi|217987652|gb|EEC53980.1| hypothetical protein BACEGG_01736 [Bacteroides eggerthii DSM 20697] gi|229447165|gb|EEO52956.1| conserved hypothetical protein [Bacteroides sp. D1] gi|229452367|gb|EEO58158.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_2_4] gi|260620263|gb|EEX43134.1| RNA polymerase sigma-70 factor [Bacteroides finegoldii DSM 17565] gi|262353018|gb|EEZ02113.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_22] gi|270273873|gb|EFA19735.1| conserved hypothetical protein [Bacteroides sp. D20] gi|292633625|gb|EFF52183.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CMC 3f] gi|292636474|gb|EFF54952.1| putative RNA polymerase sigma factor RpoD [Bacteroides ovatus SD CC 2a] gi|294442110|gb|EFG10929.1| putative RNA polymerase sigma factor RpoD [Bacteroides xylanisolvens SD CC 1b] gi|298269746|gb|EFI11339.1| RNA polymerase sigma-70 factor [Bacteroides sp. D22] gi|298513841|gb|EFI37728.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_23] gi|313696021|gb|EFS32856.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D2] gi|316903519|gb|EFV25372.1| sigma-70 family RNA polymerase sigma factor [Bacteroides sp. 4_1_36] gi|316907237|gb|EFV28946.1| sigma-70 family RNA polymerase sigma factor [Bacteroides eggerthii 1_2_48FAA] gi|328525275|gb|EGF52325.1| putative RNA polymerase sigma factor RpoD [Bacteroides clarus YIT 12056] Length = 286 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLAREIDRALSTLTDREKEIIQMFFGIGQQ-EMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|120434745|ref|YP_860432.1| RNA polymerase sigma-70 factor [Gramella forsetii KT0803] gi|117576895|emb|CAL65364.1| RNA polymerase sigma-70 factor [Gramella forsetii KT0803] Length = 287 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAKRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ EEIAK+L M + V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQSHERPPSAEEIAKELDMTINDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P + +LR R L +LTPR Sbjct: 170 KESMKNSGRHVSMDAPLVEGEDSNLYDVLRSGESPNPDKELLHESLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|166078602|gb|ABY81278.1| alternative sigma factor S [Listonella anguillarum] Length = 332 Score = 207 bits (528), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 101/226 (44%), Positives = 154/226 (68%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 ARKRMIESNLRLVVKISRRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L P E V Sbjct: 150 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAFQLDKP-EDV 208 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S ++RE+ L L P+ Sbjct: 209 SKMLRLNERISSVDTPIGGDGDKALLDIIPDTNNSDPEISTQDDDIRESLLNWLDELNPK 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ VL RFG+ TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 269 QKEVLARRFGLLGYEPSTLEEVGREINLTRERVRQIQVEGLRRLRE 314 >gi|332708973|ref|ZP_08428943.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332352162|gb|EGJ31732.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 373 Score = 207 bits (527), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 105/239 (43%), Positives = 171/239 (71%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +AAEKFD GYKFSTYA W Sbjct: 134 VAKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYW 193 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P E+A+ L + + Sbjct: 194 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRELKQKLQRNPNELELAQALEISLSH 253 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LT 621 +R++L++ + +SL +G + + L D +ED + P D ++ +R+ VL+ LT Sbjct: 254 LRQLLELRRRSLSLNHRVGKGEDTELMDLLEDNDLRLPEDKMNESMMRQEIWEVLSDVLT 313 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI++KA+RKL+ P +++LR +L Sbjct: 314 EREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSKAMRKLRRPQVARRLRDWL 372 >gi|182438069|ref|YP_001825788.1| RNA polymerase principal sigma factor hrdD [Streptomyces griseus subsp. griseus NBRC 13350] gi|326778714|ref|ZP_08237979.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] gi|178466585|dbj|BAG21105.1| RNA polymerase principal sigma factor hrdD [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659047|gb|EGE43893.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces cf. griseus XylebKG-1] Length = 333 Score = 207 bits (527), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 107/236 (45%), Positives = 151/236 (63%), Gaps = 5/236 (2%) Query: 438 ECEASIAKKE-----MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 E EA +A+ E + +NLRLV++VA++Y GL LDLIQEGN GL++A EKFD+ Sbjct: 86 ELEALVAEGERAKDIFIRSNLRLVVAVARRYPRAGLPLLDLIQEGNAGLVRAVEKFDYAK 145 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G+KFSTYA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EI Sbjct: 146 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEHAEI 205 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A +L E V VL ++P+SL + D+ + GD +ED +AVSP S + E Sbjct: 206 AAELDSNAERVGNVLDWARDPVSLNMSVDDDGDTQFGDLLEDTSAVSPEQSVMTLLRSEE 265 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK Sbjct: 266 LEDLIGKLDNRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELK 321 >gi|322420057|ref|YP_004199280.1| RpoD subfamily RNA polymerase sigma-70 factor [Geobacter sp. M18] gi|320126444|gb|ADW14004.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M18] Length = 330 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 100/225 (44%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ +NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 89 ARDRMIVSNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 148 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K++R R + K+ REPT +E+A L + V V Sbjct: 149 IRQSIERALVNQSRTIRLPVHVSDDINKMLRVTRELVQKMNREPTIKEVADTLEVNVTYV 208 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ + L D IED + +SP N E ++ +L+ Sbjct: 209 RRLMVLLKKTYSIERPMGENNDYFLIDTIEDTSTISPAVLLEDLNKYELVSKWFETLSDA 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL+ Sbjct: 269 EKKILTLRFGLEDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLR 313 >gi|295132793|ref|YP_003583469.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] gi|294980808|gb|ADF51273.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] Length = 287 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAKRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ EEIAK+L M + V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKTFAFLEQSHERPPSAEEIAKELDMTINDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P + +LR R L +LTPR Sbjct: 170 KESMKNSGRHVSMDAPLVEGEDSNLYDVLRSGESPNPDKDLLHESLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|116071891|ref|ZP_01469159.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116065514|gb|EAU71272.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 355 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 99/239 (41%), Positives = 160/239 (66%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EKFD G++FSTYA WW Sbjct: 115 AKDHMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWW 174 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+IA QS TIR+PVH+ +K++++ R + +++ R + ++A++L + + V Sbjct: 175 IRQGMTRAIATQSRTIRLPVHVTEKLNRIKRVQQEIASNEGRIASIADLARELGISEDTV 234 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L+ +SL++ +G + + LGD IED A +P ++ L +L LT R Sbjct: 235 RQTLERVPRSVSLDSRVGKDQDTQLGDLIEDGKA-TPEETLTHDELHNDLEGLLDELTTR 293 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E VLR RFG+ +T TL ++G++ ++RER+RQIE +A+ KL+ P + K+R ++ G Sbjct: 294 EAAVLRRRFGLEDDTPQTLAQIGEELKLSRERVRQIETRALLKLRQPQKRSKIRDYIQG 352 >gi|153311|gb|AAA26765.1| principal sigma-like factor [Streptomyces aureofaciens] gi|450079|prf||1920369C RNA polymerase:SUBUNIT=sigma Length = 325 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 105/234 (44%), Positives = 149/234 (63%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E AK+ + +NLRLV++V ++Y GL LDLIQEGN GL++A EKFD+ G+KFST Sbjct: 84 AEGERAKEVFIRSNLRLVVAVVRRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGFKFST 143 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITRSIADQS TIR+PVH+ +++ ++ R R + + R+P EIA +L Sbjct: 144 YATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNRENGRDPEHAEIAAELDS 203 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + V VL ++P+SL + DE + GD +ED +A+SP S + E +L Sbjct: 204 TEKRVGDVLDWARDPVSLNMSVDDEGDTQFGDLLEDTSAISPEQSVLSLLRSEELEDLLG 263 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L R +++MR+GI + TL EVGKQ +TRERIRQIE A+ +LK +R Sbjct: 264 KLDQRTASIIKMRYGIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELKRMAR 317 >gi|284009102|emb|CBA76093.1| RNA polymerase sigma factor RpoS [Arsenophonus nasoniae] Length = 329 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 97/224 (43%), Positives = 156/224 (69%), Gaps = 2/224 (0%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++ Sbjct: 91 QRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWWIR 150 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ EEIA++L PV+ V + Sbjct: 151 QTIERAIMNQTRTIRLPIHIVKELNVYLRIARELAQKLDHEPSAEEIAERLDKPVDDVSR 210 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPRE 624 +L++ + S++TPIG + L D + D N P + IQA N++E+ + L L ++ Sbjct: 211 MLRLNERISSVDTPIGGDSDKALLDVLSDDNDSGP-EGTIQANNMKESIVKWLFELNAKQ 269 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 VL RFG+ TLEEVG++ +TRER+RQI+ + +R+LK Sbjct: 270 REVLARRFGLLGYESETLEEVGREIGLTRERVRQIQVEGLRRLK 313 >gi|291286384|ref|YP_003503200.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] gi|290883544|gb|ADD67244.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Denitrovibrio acetiphilus DSM 12809] Length = 322 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 97/234 (41%), Positives = 154/234 (65%), Gaps = 1/234 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ M++ NLRLV+S+AKKY NRG+ +DL++EGNIGL+KA EKFD+ G+KFSTYA WW Sbjct: 83 SKETMIKCNLRLVVSIAKKYINRGMNLVDLVEEGNIGLLKAVEKFDYTKGFKFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R+I +Q +RIPVHM + I KV++T + K+ REPT E++ MP+ + Sbjct: 143 IRQAIERAIINQCRMVRIPVHMSENISKVMKTQNELQQKLGREPTIHELSTACKMPLSTL 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +KV K+ SL+ P+G +++S L +FI +D+ + P + +E + L L+ Sbjct: 203 KKVFDAIKQDTSLDMPVGGDESSTLHEFIADDEKYLDPYLKIENTSKKEIIFKWLTFLSD 262 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E+ ++ R+G+ N TLE +G +TRER+RQIE + + K+++ +KK+ Sbjct: 263 NEKTIIIRRYGLTGNDPETLESIGNDLGITRERVRQIEKRVLSKMRNLLATKKI 316 >gi|116074180|ref|ZP_01471442.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116069485|gb|EAU75237.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 364 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 117/320 (36%), Positives = 188/320 (58%), Gaps = 15/320 (4%) Query: 365 IKRDVFLERHQGRELDP--HWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGI 422 I+R + LE+ Q RE + HW + + EW + + + E + + Sbjct: 55 IQRLLELEQLQQREANHVCHWPT------KKEWAEAAGLTQEQLTTVLRE--GYGIWSDH 106 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S E + + +R+G A+ M++ANLRLV++VAKKY RGL+ LDL+QEG +GL Sbjct: 107 SALESKELQKRLREGRR----ARDRMIQANLRLVVTVAKKYQQRGLELLDLVQEGTLGLE 162 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 +A EKFD G++FSTYA WW++Q ITR+IA QS TIR+PVH+ +K++++ + + ++ Sbjct: 163 RAVEKFDPTRGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKVQQEIATN 222 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 R + ++++ L + E VR L +SLET +G + + LGD +ED +A +P Sbjct: 223 EGRIASISDLSRALGISEETVRLTLMRVPRSVSLETRVGKDQDTQLGDLLEDCHA-TPEQ 281 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + + +L +L LT RE V+R RFG+ +T TL E+G+ ++RER+RQIE + Sbjct: 282 TLTKNSLHSDLEELLGELTAREAEVIRRRFGLEDDTPLTLAEIGETMGLSRERVRQIETR 341 Query: 663 AIRKLKHPSRSKKLRSFLDG 682 A+ KL+ P R K+R ++ G Sbjct: 342 ALLKLRQPQRRSKVRDYILG 361 >gi|15828925|ref|NP_326285.1| RNA polymerase sigma factor [Mycoplasma pulmonis UAB CTIP] gi|14089868|emb|CAC13627.1| DNA-DIRECTED RNA POLYMERASE SIGMA FACTOR (SIGMA-A) [Mycoplasma pulmonis] Length = 461 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 110/270 (40%), Positives = 175/270 (64%), Gaps = 9/270 (3%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T ++ +E + + ++KG + IAK +++ NLRLVI+ AKKY NRGL F+DLI EGN Sbjct: 190 TLLTAAEEKQLAIDMKKGGLKGKIAKDKLINRNLRLVINNAKKYKNRGLSFIDLISEGNA 249 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 G++KA +KFD G+KFSTYA WW++Q+ITR++ADQ+ TIRIPVHM + I+K+++ R + Sbjct: 250 GIIKAVQKFDESKGFKFSTYATWWIRQSITRAVADQARTIRIPVHMVETINKIIKIEREL 309 Query: 540 SNKIKREPTPEEIAKKLAMPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ PT E+IA++ + VR + K+ +PISL+ +G E+ S DF++D++ Sbjct: 310 QQELGVNPTDEQIAERYGNDYDAKKVRYIRKMNIDPISLDKTVGKENDSFFSDFVKDESV 369 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRM-RFGIGMNTD------HTLEEVGKQFC 650 +SP+D A + +L E +L EERVL M R+GIG + + HT +++ + Sbjct: 370 ISPIDHAAKEDLNEHLLELLNEQLTEEERVLIMKRYGIGEDENGVPYQVHTFDQLATEKN 429 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++E+IRQ E K +R+LK + K L+ +L Sbjct: 430 TSKEKIRQWENKILRRLKATKKRKILKEYL 459 >gi|33866957|ref|NP_898516.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639558|emb|CAE08942.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 467 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 105/257 (40%), Positives = 162/257 (63%), Gaps = 5/257 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + + +R G AK M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A Sbjct: 213 EARELKTALRNGR----RAKDHMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAV 268 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD G++FSTYA WW++Q +TR+IA QS TIR+PVH+ +K++++ R + ++ R Sbjct: 269 EKFDPTRGFRFSTYAYWWIRQGMTRAIATQSRTIRLPVHVTEKLNRIKRAQQEIATNEGR 328 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 + ++A+ L + + VR+ L +SL+T +G + + LGD IED A +P + Sbjct: 329 IASIADLARALKLSEDTVRQTLARVPRSVSLDTRVGRDQDTQLGDLIEDGKA-TPEQTLT 387 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L +L LT RE VLR RFG+ +T TL ++G+ ++RER+RQIE +A+ Sbjct: 388 HDELHNDLEHLLDELTSREAAVLRRRFGLEDDTPQTLAQIGEALKLSRERVRQIETRALL 447 Query: 666 KLKHPSRSKKLRSFLDG 682 KL+ P R K+R ++ G Sbjct: 448 KLRQPQRRSKVRDYIQG 464 Score = 37.4 bits (85), Expect = 8.8, Method: Compositional matrix adjust. Identities = 22/86 (25%), Positives = 46/86 (53%), Gaps = 7/86 (8%) Query: 75 INVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKR-------KDSADRSTDDPVRMYLRE 127 +N D + ++ ++D SN S L ++ +D RST D +R+YL++ Sbjct: 60 VNRADPEGIQRFCRTDDGCGEPCRQSNCSTPLPRQPRRTGETRDRRSRSTTDLLRLYLQD 119 Query: 128 MGSIELLSREGEIAIAKRIEAGRAMM 153 +G ++LL+ E E+ +A+ ++ A++ Sbjct: 120 IGRVDLLTNEEEVTLARLVQRREALL 145 >gi|295087657|emb|CBK69180.1| RNA polymerase sigma factor, sigma-70 family [Bacteroides xylanisolvens XB1A] Length = 286 Score = 207 bits (527), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELAVELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLAREIDRALSTLTDREKEIIQMFFGIGQQ-EMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|294155544|ref|YP_003559928.1| DNA-directed RNA polymerase, sigma-70 factor [Mycoplasma crocodyli MP145] gi|291599870|gb|ADE19366.1| DNA-directed RNA polymerase, sigma-70 factor [Mycoplasma crocodyli MP145] Length = 490 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 111/266 (41%), Positives = 174/266 (65%), Gaps = 11/266 (4%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + ++ KG A+ +++ NLRLVI+ AKKY NRGL F+DLI EGN G++KA Sbjct: 223 EERRLAKLMEKGGFRGKRARDKLIMRNLRLVINNAKKYKNRGLTFIDLISEGNAGILKAV 282 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +K++ G+KFSTYA WW++QAITR++ADQ+ TIR+PVHM + I+K+ + R + ++ Sbjct: 283 QKYNVEKGFKFSTYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQQELGH 342 Query: 546 EPTPEEIAKKLAMPV--EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EPT +IA + E VR + KI +PISL+ IG E+ S DF++D + ++P+D Sbjct: 343 EPTDAQIANRFGNEYTEEKVRYIRKINIDPISLDKQIGKENDSSFSDFVKDDSVMTPVDF 402 Query: 604 AIQANLRETTTRVLASLTPREER-VLRMRFGIGMNTD------HTLEEVGKQ-FCVTRER 655 A Q L E ++ R+ER ++ RFG+G++++ H+L+E+ K+ V++ER Sbjct: 403 ASQEQLSELLLELINKSLERDERELICKRFGVGVDSEGNKYRVHSLDELAKERGGVSKER 462 Query: 656 IRQIEAKAIRKLKHPSRS-KKLRSFL 680 +RQIE K +RKLK+ S++ + LR F+ Sbjct: 463 VRQIENKILRKLKNSSKNGRHLRDFI 488 >gi|53714034|ref|YP_100026.1| RNA polymerase sigma factor RpoD [Bacteroides fragilis YCH46] gi|60682231|ref|YP_212375.1| putative sigma factor A [Bacteroides fragilis NCTC 9343] gi|253564677|ref|ZP_04842133.1| RpoD [Bacteroides sp. 3_2_5] gi|255010339|ref|ZP_05282465.1| putative sigma factor A [Bacteroides fragilis 3_1_12] gi|265766346|ref|ZP_06094387.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_16] gi|313148138|ref|ZP_07810331.1| RNA polymerase sigma factor rpoD [Bacteroides fragilis 3_1_12] gi|52216899|dbj|BAD49492.1| RNA polymerase sigma factor RpoD [Bacteroides fragilis YCH46] gi|57471281|gb|AAW50926.1| RpoD [Bacteroides fragilis] gi|60493665|emb|CAH08454.1| putative sigma factor A [Bacteroides fragilis NCTC 9343] gi|251946142|gb|EES86519.1| RpoD [Bacteroides sp. 3_2_5] gi|263254014|gb|EEZ25479.1| RNA polymerase sigma factor RpoS [Bacteroides sp. 2_1_16] gi|301163709|emb|CBW23263.1| putative sigma factor A [Bacteroides fragilis 638R] gi|313136905|gb|EFR54265.1| RNA polymerase sigma factor rpoD [Bacteroides fragilis 3_1_12] Length = 286 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELAGELDIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLAREIDRALSTLTDREKEIIQMFFGIGQQ-EMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQSNRSKLLKSYL 285 >gi|159903877|ref|YP_001551221.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889053|gb|ABX09267.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 313 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 102/230 (44%), Positives = 158/230 (68%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDL+QEG++GL +A EKFD GYKFSTYA WW Sbjct: 78 AKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ E+A+ + + E + Sbjct: 138 IRQSMTRAIACQSRTIRLPVHLSERLATIRKISSDLAHKLGAMPSRAELAEAMEIDAEEL 197 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ GD+ S LGD I D + PLD Q +E R L L+ Sbjct: 198 DSILRQALTTSSLDAPVNGDDGRSFLGDLIADSSLEEPLDKVEQRIHQEQLGRWLTHLSE 257 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E+ VL++RFG+ N HTL E+G+ V+RER+RQ+E K++RKL++ +R Sbjct: 258 QEQHVLKLRFGLEGNERHTLAEIGRLLQVSRERVRQVELKSLRKLRNLTR 307 >gi|310766652|gb|ADP11602.1| RNA polymerase sigma factor RpoS [Erwinia sp. Ejp617] Length = 330 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+KL PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAQKLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 322 >gi|2624188|emb|CAA05499.1| rpoS gene [Kluyvera cryocrescens] Length = 345 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 105 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 165 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 224 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 225 SRMLRLNERITSVDTPLGGDSEKALLDILADENENGPEDTTQDDDMKQSIVKWLFELNAK 284 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 285 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 337 >gi|298209056|ref|YP_003717235.1| RNA polymerase sigma factor rpoD (Sigma-A) [Croceibacter atlanticus HTCC2559] gi|83848983|gb|EAP86852.1| RNA polymerase sigma factor rpoD (Sigma-A) [Croceibacter atlanticus HTCC2559] Length = 287 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 100/237 (42%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SV+K+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVSKQYQNQGLTLPDLINEGNLGLIKAAKRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R PTPEEIA++L M + V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQSNQRPPTPEEIAQELEMTISEV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ LK + +S++ P+ D + S+L D ++ + +P + +L+ R L +LTPR Sbjct: 170 KESLKNSGRHLSMDAPLVDGEDSNLYDVLKFGESPNPEKDLLVESLQTEIDRALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KA R+LKH SRSK L+++L Sbjct: 230 EADVIRLYFGLGQQQPLTLEEIGETFELTRERVRQIKEKATRRLKHTSRSKILKTYL 286 >gi|289808389|ref|ZP_06539018.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 148 Score = 207 bits (526), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 102/146 (69%), Positives = 120/146 (82%) Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 +R+M ++ REPTPEE+A+++ MP + +RKVLKI KEPIS+ETPIGD++ SHLGDFIED Sbjct: 2 SRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDT 61 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRER Sbjct: 62 TLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 121 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFLD 681 IRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 122 IRQIEAKALRKLRHPSRSEVLRSFLD 147 >gi|313674339|ref|YP_004052335.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Marivirga tractuosa DSM 4126] gi|312941037|gb|ADR20227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marivirga tractuosa DSM 4126] Length = 287 Score = 207 bits (526), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 161/238 (67%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+W Sbjct: 49 LALEKLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRGFKFISYAVW 108 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q+I +++A+QS +R+P++ ++K+ +T + K +REP+P+E+A+ L + Sbjct: 109 WIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSTLEQKFEREPSPDELAEVLEVTSNE 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +KI+ +S++ P + + L D +E+ SP D + +LR R L++LT Sbjct: 169 VVDTMKISGRHVSMDAPFVQGEENSLLDVLENDGEESPDDELMNDSLRREVQRALSTLTQ 228 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRSK L+ +L Sbjct: 229 READVITLYFGLNGEHSMTLEEIGEKFNLTRERVRQIKEKAIRRLRHTSRSKALKPYL 286 >gi|56459854|ref|YP_155135.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina loihiensis L2TR] gi|56178864|gb|AAV81586.1| DNA-directed RNA polymerase sigma 38 subunit [Idiomarina loihiensis L2TR] Length = 322 Score = 207 bits (526), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 98/233 (42%), Positives = 156/233 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E+NLRLV+ +A++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 81 ARRRMIESNLRLVVKIARRYSNRGLPLLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EPT E+IAK L PV + Sbjct: 141 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELAHKLDHEPTAEDIAKSLNKPVGDI 200 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG ++ L D + D P NL+ T L SL + Sbjct: 201 TKMLRLNERIGSVDTPIGGDNDKALLDILTDDADTGPEGVLQDENLKGNITEWLQSLNQK 260 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ +A+RKL+ + + L Sbjct: 261 QREVLARRFGLMGYEPSTLEDVGREIGLTRERVRQIQVEALRKLRDSLKQQGL 313 >gi|282896368|ref|ZP_06304389.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9] gi|281198656|gb|EFA73536.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9] Length = 332 Score = 207 bits (526), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 99/230 (43%), Positives = 158/230 (68%), Gaps = 1/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + IAK++MVEANLRL++SVAKKY R + LDLIQEG+IG+ + EKFD GY+FST Sbjct: 92 AQGEIAKRKMVEANLRLLVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFST 151 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R +S + R P+ E+A++L + Sbjct: 152 YAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRDLSQTLGRSPSIAELAQELEI 211 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + VR L+ + P+SL+ +GD + LG+ +ED A SP D IQ++L R++ Sbjct: 212 TPKQVRDCLEKARLPLSLDLRLGDNYDTELGEMLEDPGA-SPEDYVIQSSLSSELERMMT 270 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT ++ V+++RFG+ TL +G+ ++RER+RQIE +A+ +L+ Sbjct: 271 HLTTQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREALTRLR 320 >gi|127512145|ref|YP_001093342.1| RpoD family RNA polymerase sigma factor [Shewanella loihica PV-4] gi|126637440|gb|ABO23083.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella loihica PV-4] Length = 324 Score = 207 bits (526), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 100/231 (43%), Positives = 159/231 (68%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 81 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 138 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA++L + Sbjct: 139 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAEQLDL 198 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 P V K+LK+ + S++TP+G ++ L D + D + V P D +Q ++ ++ R L Sbjct: 199 PSSDVSKMLKLNERITSVDTPLGGDNDKALLDVLADDDCVGP-DYKVQDDDMSKSVVRWL 257 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++L+ Sbjct: 258 DELNSKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLR 308 >gi|167469361|ref|ZP_02334065.1| RNA polymerase sigma factor RpoS [Yersinia pestis FV-1] Length = 277 Score = 206 bits (525), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 163/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 37 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 97 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 157 SRMLRLNERITSVDTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 216 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 217 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 269 >gi|120553862|ref|YP_958213.1| RpoD family RNA polymerase sigma factor [Marinobacter aquaeolei VT8] gi|120323711|gb|ABM18026.1| RNA polymerase, sigma 38 subunit, RpoS [Marinobacter aquaeolei VT8] Length = 332 Score = 206 bits (525), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 99/241 (41%), Positives = 158/241 (65%), Gaps = 3/241 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + RKGE +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 81 YFARLARKGE---ESGRKRMIESNLRLVVKIARRYVNRGLTLLDLIEEGNLGLIRAVEKF 137 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPT Sbjct: 138 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNLYLRAARELTQKLDHEPT 197 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA+ + PV+ V+++L + + S++TPIG L D + D+ A P D N Sbjct: 198 AEEIARMVDKPVDDVKRMLGLNERVASMDTPIGAGSDKSLMDTVADEGASDPADLLQDNN 257 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + L+ +++ VL RFG+ TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 258 MCSCLEKWIDQLSDKQQEVLSRRFGLRGYPISTLEEVGQEIGLTRERVRQIQVEALRRLR 317 Query: 669 H 669 Sbjct: 318 E 318 >gi|67922139|ref|ZP_00515654.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67856039|gb|EAM51283.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 318 Score = 206 bits (525), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 104/241 (43%), Positives = 164/241 (68%), Gaps = 5/241 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + S+V GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EK Sbjct: 71 KEFCSVVEAGEA----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEK 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R +S + R Sbjct: 127 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAA 186 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E+A++L + + VR L+ +++P+SL+ +GD + LGD +ED+ SP D A + Sbjct: 187 TISELAEELDLTPKQVRDYLERSRQPLSLDLRVGDNQDTELGDLLEDEGQ-SPEDFATHS 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ +++ LT ++++V+ +RFG+ TL ++G + ++RER+RQIE +A+ KL Sbjct: 246 SLQFDLEKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIEREALSKL 305 Query: 668 K 668 + Sbjct: 306 R 306 Score = 40.4 bits (93), Expect = 0.91, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 24/33 (72%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +S DPVR YL+E+G + LLS E EI AKR++ Sbjct: 5 KSNPDPVRAYLKEIGRVPLLSHEEEILYAKRVQ 37 >gi|254432880|ref|ZP_05046583.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Cyanobium sp. PCC 7001] gi|197627333|gb|EDY39892.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Cyanobium sp. PCC 7001] Length = 331 Score = 206 bits (525), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 103/230 (44%), Positives = 157/230 (68%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 96 SKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P+ EIA+ + MP++ + Sbjct: 156 IRQSMTRAIACQSRTIRLPVHLSERLSAIRKVSLDLAHKLGAMPSRHEIAEAMDMPLDEL 215 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ GDE S LGD I D + PLD + E + L+ Sbjct: 216 DGLLRQALTTSSLDAPVNGDEGRSFLGDLIADSSEEEPLDRVERGLNHEQLDHWMNHLSE 275 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +E VL++RFG+ HTL E+G+Q V+RER+RQ+E KA+RKL++ +R Sbjct: 276 QERHVLQLRFGLEGRDRHTLAEIGRQLDVSRERVRQVELKALRKLRNLTR 325 >gi|242238323|ref|YP_002986504.1| RNA polymerase sigma factor RpoS [Dickeya dadantii Ech703] gi|242130380|gb|ACS84682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya dadantii Ech703] Length = 330 Score = 206 bits (525), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLDRPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSDKALLDILADEKDNGPEDTTQNNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|292487251|ref|YP_003530123.1| RNA polymerase sigma factor rpoS [Erwinia amylovora CFBP1430] gi|292900377|ref|YP_003539746.1| RNA polymerase sigma subunit RpoS (sigma-38) [Erwinia amylovora ATCC 49946] gi|3183703|emb|CAA10959.1| RpoS [Erwinia amylovora] gi|291200225|emb|CBJ47353.1| RNA polymerase sigma subunit RpoS (sigma-38) [Erwinia amylovora ATCC 49946] gi|291552670|emb|CBA19715.1| RNA polymerase sigma factor rpoS [Erwinia amylovora CFBP1430] Length = 330 Score = 206 bits (525), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+KL PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEKLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 322 >gi|311747140|ref|ZP_07720925.1| RNA polymerase sigma-70 factor [Algoriphagus sp. PR1] gi|126578848|gb|EAZ83012.1| RNA polymerase sigma-70 factor [Algoriphagus sp. PR1] Length = 287 Score = 206 bits (525), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 99/247 (40%), Positives = 166/247 (67%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QLALEKLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ +T + + +REP+PEE+A Sbjct: 100 FKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSELEQRFEREPSPEELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L + V +KI+ +S++ P + + L D +E+ P D + +LR+ Sbjct: 160 EVLEVTANEVVDTMKISGRHVSMDAPFVQGEENSLLDVLENDGDEKPDDGLMNDSLRKEV 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L++LT RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRS Sbjct: 220 QRALSTLTQREADVITLYFGLNGEHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHTSRS 279 Query: 674 KKLRSFL 680 K L+ +L Sbjct: 280 KTLKPYL 286 >gi|126659335|ref|ZP_01730471.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110] gi|126619417|gb|EAZ90150.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110] Length = 318 Score = 206 bits (525), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 104/241 (43%), Positives = 164/241 (68%), Gaps = 5/241 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + + S++ GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EK Sbjct: 71 KELQSIIEIGEA----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEK 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R +S + R Sbjct: 127 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAA 186 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E+A++L + + VR+ L+ ++P+SL+ +GD + LGD +ED + SP D A + Sbjct: 187 TVVELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLED-DGQSPEDFATHS 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ R++ LT +++ V+ +RFG+ TL ++G + ++RER+RQIE +A+ KL Sbjct: 246 SLQFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKL 305 Query: 668 K 668 + Sbjct: 306 R 306 Score = 39.7 bits (91), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 24/33 (72%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +S DPVR YL+E+G + LL+ E EI AKR++ Sbjct: 5 KSNPDPVRAYLKEIGRVPLLTHEEEILYAKRVQ 37 >gi|312171353|emb|CBX79612.1| RNA polymerase sigma factor rpoS [Erwinia amylovora ATCC BAA-2158] Length = 330 Score = 206 bits (525), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+KL PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEKLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|297614550|gb|ADI48581.1| putative DNA-directed RNA polymerase sigma 38 subunit [uncultured bacterium fss6] Length = 322 Score = 206 bits (525), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 101/256 (39%), Positives = 166/256 (64%), Gaps = 4/256 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E H + RKG+ +A + M+E+NLRLV+ +A++YTNRGL LDL++EGN+GL Sbjct: 61 LSAEEEVHFSRLARKGDAKA---RARMIESNLRLVVKIARRYTNRGLALLDLVEEGNLGL 117 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++ Sbjct: 118 IRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNSYLRAARELAH 177 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP 600 + EPT E+IA+KL + V V ++L++ + S++TP+G D L D + D N P Sbjct: 178 TLDHEPTAEDIAEKLDVSVADVSRMLRLNERVTSVDTPMGGSDNDKTLVDMLTDDNDYGP 237 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + ++R+ L +L ++ VL RFG+ TLE+VG++ +TRER+RQI+ Sbjct: 238 EGDMQEEDVRDHIMTWLENLNEKQREVLARRFGLLGYEPATLEDVGREIGLTRERVRQIQ 297 Query: 661 AKAIRKLKHPSRSKKL 676 +A+R+L+ R + L Sbjct: 298 VEALRRLRDMLRQQGL 313 >gi|45128589|gb|AAS55058.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 206 bits (524), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 121/277 (43%), Positives = 167/277 (60%), Gaps = 11/277 (3%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N + S K V E ++ + L + D LV +L Sbjct: 218 EKFNQLRSTYQNLQLAINEYGYD--SPKATVANEMMLDVFKEFRLTPKQXDHLVNELRTA 275 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A D P E + Sbjct: 276 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGXESSDAWLDEILASDXPYAEK---IKRN 332 Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 + I + ++K I ET +++ + I + GE +A AKKEMVEANLRLVIS+AKK Sbjct: 333 EEEIRRSIAKLKMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKK 392 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 YTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIP Sbjct: 393 YTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 452 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 VHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 453 VHMIETINKLNRISRQMLQEMGREPLPEELAERMQMP 489 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 53/131 (40%), Positives = 80/131 (61%), Gaps = 3/131 (2%) Query: 40 QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSA 99 ++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D ++ Sbjct: 10 EQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALNDDTNITDED 69 Query: 100 SNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASL 157 + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G + +S+ Sbjct: 70 AAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEGINQVQSSV 128 Query: 158 CESPLTFQALI 168 E P T ++ Sbjct: 129 AEYPGTIPYIL 139 >gi|188534815|ref|YP_001908612.1| RNA polymerase sigma factor RpoS [Erwinia tasmaniensis Et1/99] gi|188029857|emb|CAO97741.1| RNA polymerase sigma factor RpoS [Erwinia tasmaniensis Et1/99] Length = 330 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+KL PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEKLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 322 >gi|305666839|ref|YP_003863126.1| RNA polymerase sigma factor rpoD (Sigma-A) [Maribacter sp. HTCC2170] gi|88709063|gb|EAR01297.1| RNA polymerase sigma factor rpoD (Sigma-A) [Maribacter sp. HTCC2170] Length = 287 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/247 (41%), Positives = 164/247 (66%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R G+ +A +++ ANLR V+SVAK+Y N+GL+ DLI EGN+GL+KAA++FD G Sbjct: 43 IRAGD---QVALEKLTTANLRFVVSVAKQYQNQGLKLPDLINEGNLGLVKAAKRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + +R P+ EEIA Sbjct: 100 FKFISYAVWWIRQSILQALAEQSRVVRLPLNKIGSINKIKKTFSYLEQAHERPPSAEEIA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+L M V V++ LK T +S++ P+ + S+L D + + P +Q +L Sbjct: 160 KELEMTVTEVKQSLKNTGRHVSMDAPLRQGEDSNLYDVLRSGESPRPDKILLQQSLNTEI 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L +L+PRE V+++ +GIG TL E+G+ F +TRER+RQI KAIRKL+H SRS Sbjct: 220 NRALETLSPREADVVKLYYGIGDQQSMTLAEIGQTFDLTRERVRQIREKAIRKLRHNSRS 279 Query: 674 KKLRSFL 680 K L+++L Sbjct: 280 KLLKTYL 286 >gi|157961021|ref|YP_001501055.1| RpoD family RNA polymerase sigma factor [Shewanella pealeana ATCC 700345] gi|157846021|gb|ABV86520.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella pealeana ATCC 700345] Length = 322 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 101/231 (43%), Positives = 157/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA KL + Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIADKLDL 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 P V ++LK+ + S++TP+G E L D + D + V P D +Q ++ ++ + L Sbjct: 197 PSADVSRMLKLNERITSVDTPLGGESDKALLDVLADDDNVGP-DYKVQDEDMSKSVVKWL 255 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 256 DELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 306 >gi|189461487|ref|ZP_03010272.1| hypothetical protein BACCOP_02146 [Bacteroides coprocola DSM 17136] gi|198275894|ref|ZP_03208425.1| hypothetical protein BACPLE_02077 [Bacteroides plebeius DSM 17135] gi|189431821|gb|EDV00806.1| hypothetical protein BACCOP_02146 [Bacteroides coprocola DSM 17136] gi|198271523|gb|EDY95793.1| hypothetical protein BACPLE_02077 [Bacteroides plebeius DSM 17135] Length = 286 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 110/271 (40%), Positives = 177/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ IA +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RIALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGI + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLSREIDRALSTLTEREKDIIQMFFGIN-TQEMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ SRSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQNSRSKLLKSYL 285 >gi|325280261|ref|YP_004252803.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] gi|324312070|gb|ADY32623.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] Length = 286 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 107/269 (39%), Positives = 176/269 (65%), Gaps = 6/269 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGKEDLITVEEEVELAQRIRKGDQKAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + R + +R P+PEE+A L +P E V L+++ IS++ P + ED S L Sbjct: 139 NKAFSRFEQENERRPSPEELADSLDLPAEKVADTLRVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + D + ++ + I +L R L++LT RE ++++ FGI + TLEE+G++F + Sbjct: 199 VNDDSPIAD-RTLINESLSTEVERALSTLTERERDIIKLFFGINTQ-EMTLEEIGEKFGL 256 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIR+L+H SRSK L+++L Sbjct: 257 TRERVRQIKEKAIRRLRHSSRSKLLKTYL 285 >gi|170731361|ref|YP_001763308.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] gi|169814603|gb|ACA89186.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] Length = 857 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/232 (44%), Positives = 152/232 (65%), Gaps = 6/232 (2%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ M ANL+LV +AKKY G DL QEGNIGL+KA E+FDW G+KFSTYA W Sbjct: 514 LARERMAVANLKLVFHLAKKYRYSGEPLDDLAQEGNIGLLKAVERFDWRRGFKFSTYATW 573 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R +AD+ T+R+PVH+ +K ++ R + + ++ R P EIA +L M V+ Sbjct: 574 WIRQQIGRHLADKCRTVRVPVHVHEKAQRLSRETQALESETGRAPELHEIAARLNMAVQK 633 Query: 563 VRKVLKITKEPISL-ETPIGDEDTSHL-GDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 V ++ ++ EP+ + E PI + + DF+ + P+D ++ L ET ++L++L Sbjct: 634 VAELQRLAPEPLPIHELPIDELIAVEVRSDFV----SPDPMDIVSKSELLETIDKLLSTL 689 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 P+EE+ LR+RFGIG+ TLEE+G Q+ VTRER+RQIE A+R LKHP R Sbjct: 690 KPKEEQTLRLRFGIGVEEALTLEEIGCQYGVTRERVRQIEVAALRNLKHPRR 741 >gi|271501815|ref|YP_003334841.1| RpoD subfamily RNA polymerase sigma-70 subunit [Dickeya dadantii Ech586] gi|270345370|gb|ACZ78135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya dadantii Ech586] Length = 330 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|253700182|ref|YP_003021371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251775032|gb|ACT17613.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 333 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ +NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 88 ARDRMIVSNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K++R R + K+ REPT +E+A L + + V Sbjct: 148 IRQSIERALVNQSRTIRLPVHVSDDINKMLRVTRELVQKMNREPTIKEVADTLEVNITYV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ + L D IED + +SP N E ++ +L+ Sbjct: 208 RRLMVLLKKTYSIERPMGENNDYFLIDTIEDTSTISPAVLLEDLNKYELVSKWFETLSDA 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL+ Sbjct: 268 EKKILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLR 312 >gi|254424042|ref|ZP_05037760.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] gi|196191531|gb|EDX86495.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Synechococcus sp. PCC 7335] Length = 319 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 102/232 (43%), Positives = 155/232 (66%), Gaps = 1/232 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ +NLRLV+S+AKKY L +DLIQEG++GL + EKFD GY+FSTYA WW Sbjct: 83 AKDKMMRSNLRLVVSIAKKYRGSKLDMMDLIQEGSLGLCRGVEKFDPLKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IAD TIR+P+H+ +K+ K+ + R +S ++ R T E+A+K+++P E V Sbjct: 143 IRQAITRAIADTGRTIRLPIHINEKLSKIRKAQREVSLELGRPATVSEVAEKVSLPAEKV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + ++ P+SL IG E + LG +E ++ SP + A Q L+ ++LA LT R Sbjct: 203 RELQRQSRLPLSLNMRIGSEQNTELGALLES-DSQSPEEYATQNLLKRDIGQLLARLTER 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 ++ V+ MRFG+ TL ++G ++RER+RQIE KA+R L+H R K Sbjct: 262 QKDVISMRFGLDDGKKKTLAQIGHDLDISRERVRQIERKALRTLRHTGRGLK 313 >gi|317968274|ref|ZP_07969664.1| putative type II alternative RNA polymerase sigma factor [Synechococcus sp. CB0205] Length = 382 Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 100/259 (38%), Positives = 169/259 (65%), Gaps = 8/259 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +SI+E + + R+ A+ M++ANLRLV++VAKKY RG++ LDL+QEG +GL Sbjct: 121 LSIAELKQALHQGRR-------ARDRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGL 173 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +A EK+D G++FSTYA WW++Q ITR+IA QS TIR+PVH+ +K++++ + R++++ Sbjct: 174 ERAVEKYDPTRGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRQIAS 233 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R + ++AK+L + E +R L +SL+T +G + + LGD +ED +A +P Sbjct: 234 EHGRLASVADLAKELGLSEEVIRLTLMRVPRSVSLDTRVGRDQDTELGDLLEDGHA-TPE 292 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + L + +L L+ RE V+R+RFG+ +T TL ++G+ ++RER+RQIE Sbjct: 293 QALTKTQLHDDLEALLEELSGREAEVIRLRFGLENDTPQTLSQIGEDLHLSRERVRQIET 352 Query: 662 KAIRKLKHPSRSKKLRSFL 680 +A+ KL+ P R ++ +L Sbjct: 353 RALLKLRQPQRRCRVHDYL 371 >gi|238921111|ref|YP_002934626.1| RNA polymerase sigma factor RpoS [Edwardsiella ictaluri 93-146] gi|238870680|gb|ACR70391.1| RNA polymerase sigma factor RpoS, putative [Edwardsiella ictaluri 93-146] Length = 328 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 89 SRKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 148 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA++L PV V Sbjct: 149 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAEEIAERLEKPVHDV 208 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D +++++ L L + Sbjct: 209 SRMLRLNERITSVDTPLGGDSEKALLDILTDENESGPEDCTQNDDMKQSIVNWLFELNAK 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 269 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 313 >gi|119492598|ref|ZP_01623816.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] gi|119453067|gb|EAW34237.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106] Length = 333 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 156/237 (65%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+S+AKKY R ++FLDLIQEG +GL + EKFD GYKFSTYA WW Sbjct: 98 AKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTYAYWW 157 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAITR+IA TIR+P+H+ +K++K+ R R + K R PTP EIA+ L + + Sbjct: 158 VRQAITRAIAQNGRTIRLPIHITEKLNKIKRVQRDLVQKYGRNPTPTEIAEALELEPSQI 217 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ L ++ PISL+ +GD + L + +ED+ A S + LR+ ++ LTP+ Sbjct: 218 REYLLASRHPISLDLRVGDNQDTELQELLEDETA-SADNYVTHELLRQDLKSLIDELTPQ 276 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + V+ +R+G+ + +L +VG + ++RER+RQ+E +A+ L+ R ++R +L Sbjct: 277 QREVILLRYGLEDGKELSLSKVGARMSISRERVRQLENQALNHLRR--RKSQVREYL 331 >gi|146299193|ref|YP_001193784.1| RpoD family RNA polymerase sigma factor [Flavobacterium johnsoniae UW101] gi|57471283|gb|AAW50927.1| RpoD [Flavobacterium johnsoniae] gi|146153611|gb|ABQ04465.1| RNA polymerase, sigma 70 subunit, RpoD family [Flavobacterium johnsoniae UW101] Length = 287 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 162/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIAK+L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYALLEQSNERPPSAEEIAKELDMTVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P I +LR R L +LTPR Sbjct: 170 KESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPNPDRELIHESLRTEIERSLETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|307153454|ref|YP_003888838.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306983682|gb|ADN15563.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 372 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 106/239 (44%), Positives = 172/239 (71%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 134 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 193 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++ R PT +E+A+ L + E + Sbjct: 194 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPTEQELAQALEIDCEHL 253 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED+ P + +A +R+ VL LT Sbjct: 254 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDEELQLPEEKMNEAMMRQDIAAVLTDVLTE 313 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L+ Sbjct: 314 REKDVIALRYGLITSQPYTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWLN 372 >gi|152971625|ref|YP_001336734.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206580660|ref|YP_002236889.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae 342] gi|262041489|ref|ZP_06014687.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288933843|ref|YP_003437902.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Klebsiella variicola At-22] gi|330008320|ref|ZP_08306195.1| RNA polymerase sigma factor RpoS [Klebsiella sp. MS 92-3] gi|150956474|gb|ABR78504.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206569718|gb|ACI11494.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae 342] gi|259041148|gb|EEW42221.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288888572|gb|ADC56890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Klebsiella variicola At-22] gi|328535178|gb|EGF61679.1| RNA polymerase sigma factor RpoS [Klebsiella sp. MS 92-3] Length = 330 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|307132339|ref|YP_003884355.1| RNA polymerase sigma-S (sigma 38) factor [Dickeya dadantii 3937] gi|306529868|gb|ADM99798.1| RNA polymerase, sigma S (sigma 38) factor [Dickeya dadantii 3937] Length = 330 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|126667564|ref|ZP_01738534.1| nonessential primary sigma factor [Marinobacter sp. ELB17] gi|126627990|gb|EAZ98617.1| nonessential primary sigma factor [Marinobacter sp. ELB17] Length = 333 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + RKGE +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 82 YFARLARKGE---ESGRKRMIESNLRLVVKIARRYVNRGLTLLDLIEEGNLGLIRAVEKF 138 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R I +Q+ TIR+P+H+ +++ +R AR ++ ++ EPT Sbjct: 139 DPERGFRFSTYATWWIRQTIERGIMNQTRTIRLPIHVVKELNLYLRAARELTQQLDHEPT 198 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA+K+ PV+ V+++L + + S++TPIG L D + D+ A P D N Sbjct: 199 AEEIARKVDKPVKDVKRMLGLNERVASMDTPIGAGGEKSLLDTVADEGASDPADVLQDNN 258 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + L+ +++ VL RFG+ TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 259 ISVCLQQWIDQLSEKQQEVLARRFGLRGYPVSTLEEVGQEIGLTRERVRQIQVEALRRLR 318 >gi|157369077|ref|YP_001477066.1| RNA polymerase sigma factor RpoS [Serratia proteamaculans 568] gi|157320841|gb|ABV39938.1| RNA polymerase, sigma 70 subunit, RpoD family [Serratia proteamaculans 568] Length = 332 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 316 >gi|209524631|ref|ZP_03273179.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] gi|209495089|gb|EDZ95396.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima CS-328] Length = 331 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/247 (40%), Positives = 166/247 (67%), Gaps = 8/247 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+++ +HI+ + +AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ Sbjct: 81 LSVAQLQHILH-------QGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 133 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R+++ Sbjct: 134 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQ 193 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R T E+A +L + + +R+ L+ ++ P+SL+ +GD + L D +ED + SP Sbjct: 194 QLGRAATMNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLED-TSNSPE 252 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A+ ++LR ++ LT ++ +VL +RFG+ TL ++G + ++RER+RQIE Sbjct: 253 QFALNSSLRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIER 312 Query: 662 KAIRKLK 668 +A+ KL+ Sbjct: 313 EALTKLR 319 >gi|149917806|ref|ZP_01906301.1| sigma 70 (RpoD) [Plesiocystis pacifica SIR-1] gi|149821326|gb|EDM80728.1| sigma 70 (RpoD) [Plesiocystis pacifica SIR-1] Length = 431 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 98/243 (40%), Positives = 159/243 (65%), Gaps = 1/243 (0%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 + V+ VR+ + AK + V+ANLRLV+S+A+++ + + DLIQEGNIGLMKA + Sbjct: 180 YAEYVANVRRSSRKLRSAKNKFVKANLRLVVSIARRFNHGRMPLQDLIQEGNIGLMKAVD 239 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD+ G++FSTY WW++ AI+R+IAD+ +R+PVHM D HKV + R + K+ RE Sbjct: 240 RFDYRKGFRFSTYGSWWIRHAISRAIADKGRQVRLPVHMIDAYHKVNKARRELEAKLGRE 299 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 PT EE+A+ + + + ++ + PISL+ P+ D D +GDF+ED+NA P + Sbjct: 300 PTREELAQHTGIALAKIERMGTMLVDNPISLDKPVSDADGRKMGDFLEDENAEDPGEGLE 359 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L E R+++ L P E ++R RFG+ + + TL+E+G Q+ ++RERIRQ++ +A+ Sbjct: 360 ADALNEQVKRLVSKLRPIEADIIRKRFGLIDDEELTLKEIGGQYSLSRERIRQLQEQALG 419 Query: 666 KLK 668 K++ Sbjct: 420 KIR 422 >gi|251788478|ref|YP_003003199.1| RNA polymerase sigma factor RpoS [Dickeya zeae Ech1591] gi|247537099|gb|ACT05720.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dickeya zeae Ech1591] Length = 330 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|270264030|ref|ZP_06192298.1| RNA polymerase sigma factor RpoS [Serratia odorifera 4Rx13] gi|270042223|gb|EFA15319.1| RNA polymerase sigma factor RpoS [Serratia odorifera 4Rx13] Length = 332 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 212 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 316 >gi|23428544|gb|AAL11451.1| RNA polymerase sigma-38 subunit [Serratia plymuthica] Length = 331 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 211 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 315 >gi|284051429|ref|ZP_06381639.1| RNA polymerase sigma factor SigD [Arthrospira platensis str. Paraca] Length = 319 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/248 (39%), Positives = 165/248 (66%), Gaps = 8/248 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 +S+++ +HI+ + +AK++MVEANLRLV+SVAKKY R + LDLIQEG IG Sbjct: 68 NLSVAQLQHILH-------QGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIG 120 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 + + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R+++ Sbjct: 121 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLA 180 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ R T E+A +L + + +R+ L+ ++ P+SL+ +GD + L D +ED SP Sbjct: 181 QQLGRAATMNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDTTN-SP 239 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A+ ++LR ++ LT ++ +VL +RFG+ TL ++G + ++RER+RQIE Sbjct: 240 EQFALNSSLRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIE 299 Query: 661 AKAIRKLK 668 +A+ KL+ Sbjct: 300 REALTKLR 307 >gi|256819198|ref|YP_003140477.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Capnocytophaga ochracea DSM 7271] gi|256580781|gb|ACU91916.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Capnocytophaga ochracea DSM 7271] Length = 287 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 161/237 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIA++L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQANERVPSAEEIARELDMSVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K IS++ P+ + + S+L D I + +P S I +LR R L +LTPR Sbjct: 170 KESMKNAGRHISMDAPLVEGEDSNLYDVIRSNESPNPDKSLILDSLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLSDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|300718097|ref|YP_003742900.1| RNA polymerase sigma factor [Erwinia billingiae Eb661] gi|299063933|emb|CAX61053.1| RNA polymerase sigma factor [Erwinia billingiae Eb661] Length = 330 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 162/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA++L PVE V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELTHKLDHEPSAEEIAEQLDKPVEDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 322 >gi|304413872|ref|ZP_07395289.1| RNA polymerase sigma S (sigma 38) factor [Candidatus Regiella insecticola LSR1] gi|304283592|gb|EFL91987.1| RNA polymerase sigma S (sigma 38) factor [Candidatus Regiella insecticola LSR1] Length = 332 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 95/246 (38%), Positives = 163/246 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ C +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 79 VYFARRALCGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDP 138 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ E Sbjct: 139 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAE 198 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S+++P+G + L D + D + P D+ +++ Sbjct: 199 EIAEQLDRPVDDVSRMLRLNERITSVDSPLGGDSEKALLDILSDDSENGPEDTTQNDDMK 258 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + + L L ++ VL RFG+ TLE VGK+ +TRER+RQI+ + +R+L+ Sbjct: 259 HSIVKWLFELNAKQREVLARRFGLLGYEAATLENVGKEIGLTRERVRQIQVEGLRRLREI 318 Query: 671 SRSKKL 676 +++ L Sbjct: 319 LQTQGL 324 >gi|284036901|ref|YP_003386831.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirosoma linguale DSM 74] gi|283816194|gb|ADB38032.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirosoma linguale DSM 74] Length = 287 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 100/247 (40%), Positives = 164/247 (66%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ ++ + + +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QLSLERLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ +T + K +REP+PEE+A Sbjct: 100 FKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSDLEQKFEREPSPEELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + V LKI+ +S++ P + + L D +E+ P I +LR+ Sbjct: 160 AVLEISAAEVVDTLKISGRHVSMDAPFVQGEENSLLDVLENDGEDKPDSGLINDSLRKEV 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L++LT RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRS Sbjct: 220 QRALSTLTQREADVITLYFGLNGEHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHTSRS 279 Query: 674 KKLRSFL 680 K L+++L Sbjct: 280 KALKTYL 286 >gi|254413477|ref|ZP_05027247.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196179584|gb|EDX74578.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 331 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 104/249 (41%), Positives = 165/249 (66%), Gaps = 7/249 (2%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S +R G+ AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKFD Sbjct: 87 SCIRAGQT----AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 142 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R++S + R T E Sbjct: 143 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQTLGRAATISE 202 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A +L + + VR+ L+ ++P+SL+ +GD + LG+ +ED + SP D A + ++ Sbjct: 203 LATELDLTPKQVREYLEKARQPLSLDLRVGDNQDTELGELLED-SGPSPEDFATYSAMQV 261 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +++A LT ++ VL +RFG+ TL ++G Q ++RER+RQIE +A+ KL+ Sbjct: 262 DLEKLMADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIEREALSKLRK-- 319 Query: 672 RSKKLRSFL 680 R +R ++ Sbjct: 320 RQADMREYI 328 >gi|441116|gb|AAA61628.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium] gi|1090521|prf||2019251A RNA polymerase sigma factor Length = 330 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002] Length = 317 Score = 206 bits (523), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/237 (43%), Positives = 158/237 (66%), Gaps = 4/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ + EKFD GY+FSTYA WW Sbjct: 83 AKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+QS TIR+P+H+ +K++K+ + R+++ R + E+A +L + + V Sbjct: 143 IRQAITRAIAEQSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPELADELGLTTKQV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ +++P+SL+ +GD + + L + +D P D A A L+ R+L LT + Sbjct: 203 RDYLEKSRQPLSLDLRVGDNNDTELIELEDDGEL--PDDYATHAALKRDLARMLNDLTAQ 260 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++ VL +RFG+ T HTL ++G+ ++RER+RQIE ++ KL+ R KL +L Sbjct: 261 QQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVRQIEHGSLAKLRKQKR--KLGEYL 315 >gi|146312853|ref|YP_001177927.1| RNA polymerase sigma factor RpoS [Enterobacter sp. 638] gi|145319729|gb|ABP61876.1| RNA polymerase, sigma 38 subunit, RpoS [Enterobacter sp. 638] Length = 330 Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|157374437|ref|YP_001473037.1| RpoD family RNA polymerase sigma factor [Shewanella sediminis HAW-EB3] gi|157316811|gb|ABV35909.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sediminis HAW-EB3] Length = 323 Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/239 (41%), Positives = 161/239 (67%), Gaps = 2/239 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 70 VYFSRKALKGCGKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 129 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT E Sbjct: 130 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAE 189 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 EIA+KL +P V ++LK+ + S++TP+G ++ L D + D ++V P D +Q ++ Sbjct: 190 EIAEKLDLPSADVSRMLKLNERITSVDTPLGGDNDKALLDVLADDDSVGP-DYKVQDEDM 248 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 249 SKSVVKWLDELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 307 >gi|6010728|gb|AAF01230.1|AF184099_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|325297456|ref|YP_004257373.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides salanitronis DSM 18170] gi|324317009|gb|ADY34900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacteroides salanitronis DSM 18170] Length = 286 Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 177/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RAALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+Q+ +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQARIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELDIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGIG + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLSREIDRALSTLTDREKEIIQMFFGIG-TQEMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ SRSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQNSRSKLLKSYL 285 >gi|308187918|ref|YP_003932049.1| RNA polymerase sigma factor rpoD [Pantoea vagans C9-1] gi|308058428|gb|ADO10600.1| RNA polymerase sigma factor rpoD [Pantoea vagans C9-1] Length = 330 Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 162/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 322 >gi|197119058|ref|YP_002139485.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter bemidjiensis Bem] gi|197088418|gb|ACH39689.1| RNA polymerase sigma-38 factor, stationary phase [Geobacter bemidjiensis Bem] Length = 333 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ +NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 88 ARDRMIVSNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K++R R + K+ REP+ +E+A L + V V Sbjct: 148 IRQSIERALVNQSRTIRLPVHVSDDINKMLRVTRELVQKMNREPSIKEVADTLEVNVTYV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ + L D IED + +SP N E ++ +L+ Sbjct: 208 RRLMVLLKKTYSIERPMGENNDYFLIDTIEDTSTISPAVLLEDLNKYELVSKWFETLSDA 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++L +RFG+ TL+ +G+ F VTRERIRQIEAK++ KL+ Sbjct: 268 EKKILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLR 312 >gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis NIES-39] Length = 331 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 99/247 (40%), Positives = 165/247 (66%), Gaps = 8/247 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+++ +HI+ + +AK++MVEANLRLV+SVAKKY R + LDLIQEG IG+ Sbjct: 81 LSVAQLQHILH-------QGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 133 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + EKFD GY+FSTYA WW++QAITR+IA++ TIR+P+H+ +K++K+ + R+++ Sbjct: 134 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQ 193 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ R T E+A +L + + +R+ L+ ++ P+SL+ +GD + L D +ED SP Sbjct: 194 QLGRAATMNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDTTN-SPE 252 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A+ ++LR ++ LT ++ +VL +RFG+ TL ++G + ++RER+RQIE Sbjct: 253 QFALNSSLRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIER 312 Query: 662 KAIRKLK 668 +A+ KL+ Sbjct: 313 EALTKLR 319 >gi|119944449|ref|YP_942129.1| RNA polymerase sigma-38 factor RpoS [Psychromonas ingrahamii 37] gi|119863053|gb|ABM02530.1| RNA polymerase sigma-38 factor RpoS [Psychromonas ingrahamii 37] Length = 322 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 154/226 (68%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +++K M+E+NLRLV+ ++++Y NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 81 VSRKRMIESNLRLVVKISRRYNNRGLSLLDLVEEGNLGLIRAVEKFDPEKGFRFSTYATW 140 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ K++ +RTAR +++ + EPT EEIA+ L + + Sbjct: 141 WIRQTIERAIMNQTRTIRLPIHIVKKLNVYLRTARELTHTLTHEPTAEEIAEVLGVSAKE 200 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V K+LK+ + S++ PIG+ L D I D+ SP + +A+++ + L L P Sbjct: 201 VSKILKLNERISSVDIPIGNNSDKELLDIIPDRKEASPENELQEADMKLRIVKWLEDLNP 260 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A++ L+ Sbjct: 261 KQREVLARRFGLLGYEAATLENVGKEIGLTRERVRQIQVEALKYLR 306 >gi|311278284|ref|YP_003940515.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Enterobacter cloacae SCF1] gi|308747479|gb|ADO47231.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Enterobacter cloacae SCF1] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|205353865|ref|YP_002227666.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205273646|emb|CAR38635.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326628975|gb|EGE35318.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|16330349|ref|NP_441077.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] gi|1652838|dbj|BAA17757.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803] Length = 369 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/238 (45%), Positives = 166/238 (69%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 132 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPDKGYKFSTYAYWW 191 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++KR P E+A L + + Sbjct: 192 IRQAITRTIANDARTIRLPIHVVEKLNKIKKAQRSLKQELKRNPNEGELAAALDITPAQL 251 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED+ P D ++ LR VLA LT Sbjct: 252 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQQLQLPEDLMNESMLRREIVEVLAEVLTE 311 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+ +R+GI + +TLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 312 REMEVICLRYGIASHQSYTLEEVGNMFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 369 >gi|82545186|ref|YP_409133.1| RNA polymerase sigma factor RpoS [Shigella boydii Sb227] gi|81246597|gb|ABB67305.1| RNA polymerase sigma S factor [Shigella boydii Sb227] gi|332092174|gb|EGI97252.1| RNA polymerase sigma factor RpoS [Shigella boydii 3594-74] Length = 331 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 211 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 271 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 323 >gi|109900163|ref|YP_663418.1| RNA polymerase, sigma 28 subunit [Pseudoalteromonas atlantica T6c] gi|109702444|gb|ABG42364.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudoalteromonas atlantica T6c] Length = 327 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+ +NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 SRQRMIVSNLRLVVKIARRYNNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RT+R ++ K+ EPT EEIA+ + PV V Sbjct: 145 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTSRELAQKLDHEPTAEEIAEAVQKPVADV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG E+ + L D I D N P + N++ + L L P+ Sbjct: 205 TKMLRLNERITSVDTPIGSENDNVLLDIIADDNGHDPEEDLQDKNVKLSIVGWLEDLNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG + +TRER+RQI+ +A+R+LK Sbjct: 265 QREVLARRFGLLGYEPSTLEDVGVEIGLTRERVRQIQVEALRRLK 309 >gi|327405377|ref|YP_004346215.1| RpoD subfamily RNA polymerase sigma-70 subunit [Fluviicola taffensis DSM 16823] gi|327320885|gb|AEA45377.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fluviicola taffensis DSM 16823] Length = 288 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 104/253 (41%), Positives = 173/253 (68%), Gaps = 5/253 (1%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + RK + A +++ ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA+KFD Sbjct: 37 VELARKIKQGDQRALEKLTRANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQKFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+Q+ +R+P++ ++K+ + R+ + +R P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQARIVRLPLNQVGSLNKINKAFSRLEQEFERPPSAE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSP-LDSAIQA- 607 E+A+ L +P + +++ L ++ +S++ P+ ED L D + NA SP D A+ A Sbjct: 157 ELAEALEVPEDKIKESLNVSGRHVSMDAPLSSSEDGGTLMDVM--ANADSPKADHALMAE 214 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L++ R L++LT +E ++R+ FGIGMN TLEE+G +F +TRER+RQI+ KAIR+L Sbjct: 215 SLQKEIERSLSTLTDKEREIIRLFFGIGMNHGLTLEEIGAKFNLTRERVRQIKEKAIRRL 274 Query: 668 KHPSRSKKLRSFL 680 +H SR+K L+++L Sbjct: 275 RHTSRNKLLKAYL 287 >gi|329296050|ref|ZP_08253386.1| RNA polymerase sigma factor RpoS [Plautia stali symbiont] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 162/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|16761696|ref|NP_457313.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16766230|ref|NP_461845.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|56414872|ref|YP_151947.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|62181426|ref|YP_217843.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|157148284|ref|YP_001455603.1| RNA polymerase sigma factor RpoS [Citrobacter koseri ATCC BAA-895] gi|167550225|ref|ZP_02343982.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|168230998|ref|ZP_02656056.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168235962|ref|ZP_02661020.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168242664|ref|ZP_02667596.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168261948|ref|ZP_02683921.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168463936|ref|ZP_02697853.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168820376|ref|ZP_02832376.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194442500|ref|YP_002042165.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194451079|ref|YP_002046882.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194470798|ref|ZP_03076782.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194738113|ref|YP_002115873.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197263839|ref|ZP_03163913.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197363800|ref|YP_002143437.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198243199|ref|YP_002216890.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200388856|ref|ZP_03215468.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928102|ref|ZP_03219302.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|207858184|ref|YP_002244835.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213052392|ref|ZP_03345270.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213648321|ref|ZP_03378374.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|224584701|ref|YP_002638499.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|237729723|ref|ZP_04560204.1| RNA polymerase sigma factor RpoS [Citrobacter sp. 30_2] gi|238909692|ref|ZP_04653529.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|283835495|ref|ZP_06355236.1| RNA polymerase sigma factor RpoS [Citrobacter youngae ATCC 29220] gi|61236740|sp|P0A2E5|RPOS_SALTY RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|61236751|sp|P0A2E6|RPOS_SALTI RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|61236761|sp|P0A2E7|RPOS_SALDU RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|1073666|pir||S49471 transcription initiation factor sigma kaltF - Salmonella choleraesuis gi|6010738|gb|AAF01235.1|AF184104_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|558645|emb|CAA57640.1| katF (rpoS) [Salmonella enterica] gi|602087|emb|CAA54798.1| KatF [Salmonella enterica subsp. enterica serovar Typhimurium] gi|16421473|gb|AAL21804.1| sigma S (sigma 38) factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503997|emb|CAD06030.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhi] gi|56129129|gb|AAV78635.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|62129059|gb|AAX66762.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactor during stationary phase [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|157085489|gb|ABV15167.1| hypothetical protein CKO_04101 [Citrobacter koseri ATCC BAA-895] gi|194401163|gb|ACF61385.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194409383|gb|ACF69602.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194457162|gb|EDX46001.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194713615|gb|ACF92836.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195633598|gb|EDX52012.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197095277|emb|CAR60830.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197242094|gb|EDY24714.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197290706|gb|EDY30060.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197937715|gb|ACH75048.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199605954|gb|EDZ04499.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322424|gb|EDZ07621.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205324779|gb|EDZ12618.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205334505|gb|EDZ21269.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205338030|gb|EDZ24794.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205342988|gb|EDZ29752.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205349304|gb|EDZ35935.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206709987|emb|CAR34342.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224469228|gb|ACN47058.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|226908329|gb|EEH94247.1| RNA polymerase sigma factor RpoS [Citrobacter sp. 30_2] gi|261248060|emb|CBG25894.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995054|gb|ACY89939.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|291068697|gb|EFE06806.1| RNA polymerase sigma factor RpoS [Citrobacter youngae ATCC 29220] gi|301159483|emb|CBW19002.1| RNA polymerase sigma subunit RpoS (sigma-38) [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312913942|dbj|BAJ37916.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320087327|emb|CBY97092.1| RNA polymerase sigma factor rpoS [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321225598|gb|EFX50652.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614255|gb|EFY11186.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621681|gb|EFY18534.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624542|gb|EFY21375.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322628873|gb|EFY25656.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633400|gb|EFY30142.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636024|gb|EFY32732.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322639617|gb|EFY36303.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322646916|gb|EFY43419.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322652217|gb|EFY48576.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322654704|gb|EFY51023.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322658925|gb|EFY55178.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322664508|gb|EFY60702.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668243|gb|EFY64400.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322673777|gb|EFY69878.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677838|gb|EFY73901.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681332|gb|EFY77364.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322683734|gb|EFY79744.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|322715910|gb|EFZ07481.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323131276|gb|ADX18706.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323193878|gb|EFZ79081.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323200347|gb|EFZ85429.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202369|gb|EFZ87413.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323205603|gb|EFZ90568.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323210115|gb|EFZ95018.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323216417|gb|EGA01144.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323220766|gb|EGA05207.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323226390|gb|EGA10598.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323230730|gb|EGA14848.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323234919|gb|EGA19005.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323238958|gb|EGA23008.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323241658|gb|EGA25689.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323248195|gb|EGA32131.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323251221|gb|EGA35094.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323257395|gb|EGA41091.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323263241|gb|EGA46779.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323264257|gb|EGA47763.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323271083|gb|EGA54511.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326624653|gb|EGE30998.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332989795|gb|AEF08778.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|320662323|gb|EFX29720.1| RNA polymerase sigma factor RpoS [Escherichia coli O55:H7 str. USDA 5905] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|150005266|ref|YP_001300010.1| RNA polymerase sigma factor rpoD [Bacteroides vulgatus ATCC 8482] gi|212694793|ref|ZP_03302921.1| hypothetical protein BACDOR_04327 [Bacteroides dorei DSM 17855] gi|237710938|ref|ZP_04541419.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 9_1_42FAA] gi|237727237|ref|ZP_04557718.1| RNA polymerase sigma factor rpoD [Bacteroides sp. D4] gi|254883735|ref|ZP_05256445.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 4_3_47FAA] gi|265750524|ref|ZP_06086587.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_33FAA] gi|294777100|ref|ZP_06742557.1| putative RNA polymerase sigma factor RpoD [Bacteroides vulgatus PC510] gi|319643459|ref|ZP_07998082.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_40A] gi|149933690|gb|ABR40388.1| RNA polymerase sigma factor rpoD [Bacteroides vulgatus ATCC 8482] gi|212662647|gb|EEB23221.1| hypothetical protein BACDOR_04327 [Bacteroides dorei DSM 17855] gi|229434093|gb|EEO44170.1| RNA polymerase sigma factor rpoD [Bacteroides dorei 5_1_36/D4] gi|229454782|gb|EEO60503.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 9_1_42FAA] gi|254836528|gb|EET16837.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 4_3_47FAA] gi|263237420|gb|EEZ22870.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_33FAA] gi|294448969|gb|EFG17512.1| putative RNA polymerase sigma factor RpoD [Bacteroides vulgatus PC510] gi|317384864|gb|EFV65820.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 3_1_40A] Length = 286 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 109/271 (40%), Positives = 177/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ S + +L R L++LT RE+ +++M FGI + TLEE+G +F Sbjct: 199 VNDD---SPMADRSLVNESLAREIDRALSTLTEREKDIIQMFFGIN-TQEMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ SRSK L+S+L Sbjct: 255 GLTRERVRQIKEKAIRRLRQNSRSKLLKSYL 285 >gi|307718699|ref|YP_003874231.1| RNA polymerase sigma factor RpoD [Spirochaeta thermophila DSM 6192] gi|306532424|gb|ADN01958.1| RNA polymerase sigma factor RpoD [Spirochaeta thermophila DSM 6192] Length = 338 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 94/224 (41%), Positives = 145/224 (64%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K M+ ANLRLV+S+AKKY +RGL LDLI EGNIGL++A E+FD+ G +FSTY WW+ Sbjct: 103 KNRMITANLRLVVSIAKKYQHRGLSLLDLIDEGNIGLIEAVERFDYTKGCRFSTYGTWWI 162 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAI +S+AD+S IRIP+HM + I V ++ ++ ++ R+PT EE+++ +P V Sbjct: 163 RQAIVKSLADKSRVIRIPIHMLNTIKNVFMLSKELAQELGRDPTEEELSRYTGLPDRRVA 222 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +++++++E SL+ + +E+ + LGD + D P + L + L L+ RE Sbjct: 223 EIMQVSQETASLDITVDEENMTTLGDLVSDDEDQGPFEKVFHRYLHDVLLEALGDLSERE 282 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ +RFG+ TLEE GK +TRER+RQI+ KA+ KL+ Sbjct: 283 RNVISLRFGLNGEGPLTLEETGKLLGITRERVRQIQEKALAKLR 326 >gi|253689710|ref|YP_003018900.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251756288|gb|ACT14364.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|317049278|ref|YP_004116926.1| RpoD subfamily RNA polymerase sigma-70 factor [Pantoea sp. At-9b] gi|316950895|gb|ADU70370.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pantoea sp. At-9b] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 162/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|16130648|ref|NP_417221.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. MG1655] gi|170082316|ref|YP_001731636.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. DH10B] gi|238901878|ref|YP_002927674.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli BW2952] gi|1710676|sp|P13445|RPOS_ECOLI RecName: Full=RNA polymerase sigma factor rpoS; AltName: Full=Sigma-38 gi|882634|gb|AAA69251.1| RNA polymerase sigma subunit RpoS (sigma-38) [Escherichia coli str. K-12 substr. MG1655] gi|1789098|gb|AAC75783.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. MG1655] gi|23306700|gb|AAN15267.1| RNA polymerase sigma factor S [Escherichia coli] gi|23306712|gb|AAN15273.1| RNA polymerase sigma factor S [Escherichia coli] gi|169890151|gb|ACB03858.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. DH10B] gi|238863502|gb|ACR65500.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli BW2952] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|50122451|ref|YP_051618.1| RNA polymerase sigma factor RpoS [Pectobacterium atrosepticum SCRI1043] gi|227114060|ref|ZP_03827716.1| RNA polymerase sigma factor RpoS [Pectobacterium carotovorum subsp. brasiliensis PBR1692] gi|227327750|ref|ZP_03831774.1| RNA polymerase sigma factor RpoS [Pectobacterium carotovorum subsp. carotovorum WPP14] gi|49612977|emb|CAG76428.1| RNA polymerase sigma factor [Pectobacterium atrosepticum SCRI1043] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|73671310|gb|AAZ80066.1| RpoS variant [Escherichia coli LW1655F+] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|216659|dbj|BAA02747.1| RNA polymerase sigma subunit, sigma-38 [Escherichia coli] gi|23306698|gb|AAN15268.1| RNA polymerase sigma factor S variant [Escherichia coli] gi|260448208|gb|ACX38630.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli DH1] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|325287834|ref|YP_004263624.1| RpoD subfamily RNA polymerase sigma 70 subunit [Cellulophaga lytica DSM 7489] gi|324323288|gb|ADY30753.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga lytica DSM 7489] Length = 287 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 105/259 (40%), Positives = 172/259 (66%), Gaps = 3/259 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ +E + +R G+ EA++ K + ANLR V+SVAK+Y N+GL+ DLI EGN+GL Sbjct: 31 ITANEEVELAQKIRAGD-EAALEK--LTNANLRFVVSVAKQYQNQGLKLPDLINEGNVGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKIKKAFSYLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +R P+ EEIAK+L + V V++ +K + +S++ P + + S+L D I+ + +P Sbjct: 148 THERPPSAEEIAKELELSVSEVKQSMKNSGRHVSMDAPFKEGEDSNLYDVIKYGESPNPD 207 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + +L R L +L+PRE V+++ +GIG TLEE+G+ F +TRER+RQI Sbjct: 208 EKLMHQSLNTEINRALETLSPREADVVKLYYGIGDKHSMTLEEIGQIFDLTRERVRQIRE 267 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KAIRKLKH SRSK L+++L Sbjct: 268 KAIRKLKHNSRSKILKTYL 286 >gi|23306702|gb|AAN15269.1| RNA polymerase sigma factor S variant [Escherichia coli] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|89092114|ref|ZP_01165069.1| RNA polymerase sigma factor RpoS [Oceanospirillum sp. MED92] gi|89083849|gb|EAR63066.1| RNA polymerase sigma factor RpoS [Oceanospirillum sp. MED92] Length = 339 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 99/225 (44%), Positives = 151/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 99 ARKRMIESNLRLVVKIARRYINRGLTLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 158 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PEEIA+ + PVE V Sbjct: 159 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELAQKLDHEPSPEEIAELVDKPVENV 218 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L + + S++TP+G + L D I D + P +N+ R L +L + Sbjct: 219 ERMLGLNERVSSVDTPMGKDSDKSLLDTIPDTVSSDPATLLQNSNISGNLDRWLDALPEK 278 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 VL RFG+ TLEEVGK+ +TRER+RQI+ +A+RKL+ Sbjct: 279 HAEVLSRRFGLRGYEMSTLEEVGKEIGLTRERVRQIQVEALRKLR 323 >gi|15832849|ref|NP_311622.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. Sakai] gi|74313307|ref|YP_311726.1| RNA polymerase sigma factor RpoS [Shigella sonnei Ss046] gi|110642882|ref|YP_670612.1| RNA polymerase sigma factor RpoS [Escherichia coli 536] gi|110806628|ref|YP_690148.1| RNA polymerase sigma factor RpoS [Shigella flexneri 5 str. 8401] gi|157157336|ref|YP_001464064.1| RNA polymerase sigma factor RpoS [Escherichia coli E24377A] gi|157162189|ref|YP_001459507.1| RNA polymerase sigma factor RpoS [Escherichia coli HS] gi|168749933|ref|ZP_02774955.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4113] gi|168755487|ref|ZP_02780494.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4401] gi|168778725|ref|ZP_02803732.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4076] gi|168787997|ref|ZP_02813004.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC869] gi|170019013|ref|YP_001723967.1| RNA polymerase sigma factor RpoS [Escherichia coli ATCC 8739] gi|170684160|ref|YP_001744890.1| RNA polymerase sigma factor RpoS [Escherichia coli SMS-3-5] gi|191166775|ref|ZP_03028601.1| RNA polymerase sigma factor RpoS [Escherichia coli B7A] gi|191171134|ref|ZP_03032684.1| RNA polymerase sigma factor RpoS [Escherichia coli F11] gi|193065048|ref|ZP_03046123.1| RNA polymerase sigma factor RpoS [Escherichia coli E22] gi|193069671|ref|ZP_03050623.1| RNA polymerase sigma factor RpoS [Escherichia coli E110019] gi|194431745|ref|ZP_03064036.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1012] gi|194438995|ref|ZP_03071079.1| RNA polymerase sigma factor RpoS [Escherichia coli 101-1] gi|208812039|ref|ZP_03253368.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4045] gi|209395891|ref|YP_002272204.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4115] gi|209920184|ref|YP_002294268.1| RNA polymerase sigma factor RpoS [Escherichia coli SE11] gi|217326648|ref|ZP_03442731.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14588] gi|218559734|ref|YP_002392647.1| RNA polymerase sigma factor RpoS [Escherichia coli S88] gi|218696339|ref|YP_002404006.1| RNA polymerase sigma factor RpoS [Escherichia coli 55989] gi|218706235|ref|YP_002413754.1| RNA polymerase sigma factor RpoS [Escherichia coli UMN026] gi|253772403|ref|YP_003035234.1| RNA polymerase sigma factor RpoS [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254162672|ref|YP_003045780.1| RNA polymerase sigma factor RpoS [Escherichia coli B str. REL606] gi|256019474|ref|ZP_05433339.1| RNA polymerase sigma factor RpoS [Shigella sp. D9] gi|256024751|ref|ZP_05438616.1| RNA polymerase sigma factor RpoS [Escherichia sp. 4_1_40B] gi|260845388|ref|YP_003223166.1| RNA polymerase, sigma S factor [Escherichia coli O103:H2 str. 12009] gi|260869420|ref|YP_003235822.1| RNA polymerase, sigma S factor [Escherichia coli O111:H- str. 11128] gi|261226035|ref|ZP_05940316.1| RNA polymerase sigma factor [Escherichia coli O157:H7 str. FRIK2000] gi|261256708|ref|ZP_05949241.1| RNA polymerase, sigma S factor [Escherichia coli O157:H7 str. FRIK966] gi|291284068|ref|YP_003500886.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|293406233|ref|ZP_06650159.1| RNA polymerase sigma factor RpoS [Escherichia coli FVEC1412] gi|293412096|ref|ZP_06654819.1| RNA polymerase sigma factor RpoS [Escherichia coli B354] gi|293415987|ref|ZP_06658627.1| RNA polymerase sigma factor RpoS [Escherichia coli B185] gi|293449062|ref|ZP_06663483.1| RNA polymerase sigma factor RpoS [Escherichia coli B088] gi|298381970|ref|ZP_06991567.1| RNA polymerase sigma factor rpoS [Escherichia coli FVEC1302] gi|300899982|ref|ZP_07118185.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 198-1] gi|301027336|ref|ZP_07190677.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 196-1] gi|306812377|ref|ZP_07446575.1| RNA polymerase sigma factor RpoS [Escherichia coli NC101] gi|307139429|ref|ZP_07498785.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|307312831|ref|ZP_07592461.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli W] gi|312973048|ref|ZP_07787221.1| RNA polymerase sigma factor RpoS [Escherichia coli 1827-70] gi|331658855|ref|ZP_08359797.1| RNA polymerase sigma factor RpoS [Escherichia coli TA206] gi|331664297|ref|ZP_08365203.1| RNA polymerase sigma factor RpoS [Escherichia coli TA143] gi|331669480|ref|ZP_08370326.1| RNA polymerase sigma factor RpoS [Escherichia coli TA271] gi|331684360|ref|ZP_08384952.1| RNA polymerase sigma factor RpoS [Escherichia coli H299] gi|10197692|gb|AAG14975.1|AF242208_8 alternative sigma factor [Escherichia coli] gi|10197707|gb|AAG14988.1|AF242210_7 alternative sigma factor [Escherichia coli] gi|10197712|gb|AAG14992.1|AF242211_4 alternative sigma factor [Escherichia coli] gi|15529697|gb|AAL01412.1|AF410776_1 RpoS [Escherichia coli] gi|15529700|gb|AAL01414.1|AF410777_1 RpoS [Escherichia coli] gi|4887559|emb|CAB43502.1| alternative sigma factor, sigma 38 [Escherichia coli] gi|13363066|dbj|BAB37018.1| sigma factor RpoS [Escherichia coli O157:H7 str. Sakai] gi|37924617|gb|AAP59881.1| sigma S [Shigella boydii] gi|73856784|gb|AAZ89491.1| RNA polymerase, sigma S (sigma38) factor [Shigella sonnei Ss046] gi|83272618|gb|ABC00794.1| RpoS [Escherichia coli] gi|83272620|gb|ABC00795.1| RpoS [Escherichia coli] gi|83272622|gb|ABC00796.1| RpoS [Escherichia coli] gi|83272626|gb|ABC00798.1| RpoS [Escherichia coli] gi|110344474|gb|ABG70711.1| RNA polymerase sigma factor RpoS [Escherichia coli 536] gi|110616176|gb|ABF04843.1| RNA polymerase sigma factor [Shigella flexneri 5 str. 8401] gi|134036992|gb|ABO47833.1| sigma 38 factor [Escherichia coli] gi|134037004|gb|ABO47841.1| sigma 38 factor [Escherichia coli] gi|134037007|gb|ABO47843.1| sigma 38 factor [Escherichia coli] gi|134037010|gb|ABO47845.1| sigma 38 factor [Escherichia coli] gi|134037013|gb|ABO47847.1| sigma 38 factor [Escherichia coli] gi|157067869|gb|ABV07124.1| RNA polymerase sigma factor RpoS [Escherichia coli HS] gi|157079366|gb|ABV19074.1| RNA polymerase sigma factor RpoS [Escherichia coli E24377A] gi|169753941|gb|ACA76640.1| RNA polymerase, sigma 70 subunit, RpoD family [Escherichia coli ATCC 8739] gi|170521878|gb|ACB20056.1| RNA polymerase sigma factor RpoS [Escherichia coli SMS-3-5] gi|188015788|gb|EDU53910.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4113] gi|189003307|gb|EDU72293.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4076] gi|189357252|gb|EDU75671.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4401] gi|189372241|gb|EDU90657.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC869] gi|190903146|gb|EDV62869.1| RNA polymerase sigma factor RpoS [Escherichia coli B7A] gi|190908434|gb|EDV68023.1| RNA polymerase sigma factor RpoS [Escherichia coli F11] gi|192927345|gb|EDV81964.1| RNA polymerase sigma factor RpoS [Escherichia coli E22] gi|192957034|gb|EDV87485.1| RNA polymerase sigma factor RpoS [Escherichia coli E110019] gi|194420101|gb|EDX36179.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1012] gi|194422116|gb|EDX38119.1| RNA polymerase sigma factor RpoS [Escherichia coli 101-1] gi|208733316|gb|EDZ82003.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4045] gi|209157291|gb|ACI34724.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4115] gi|209747660|gb|ACI72137.1| sigma factor RpoS [Escherichia coli] gi|209747662|gb|ACI72138.1| sigma factor RpoS [Escherichia coli] gi|209747664|gb|ACI72139.1| sigma factor RpoS [Escherichia coli] gi|209913443|dbj|BAG78517.1| RNA polymerase sigma factor S RpoS [Escherichia coli SE11] gi|217319015|gb|EEC27440.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14588] gi|218353071|emb|CAU98896.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli 55989] gi|218366503|emb|CAR04255.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli S88] gi|218433332|emb|CAR14232.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli UMN026] gi|222034438|emb|CAP77180.1| RNA polymerase sigma factor rpoS [Escherichia coli LF82] gi|242378296|emb|CAQ33073.1| RNA polymerase, sigma S (sigma 38) factor, subunit of RNA polymerase sigma 38 [Escherichia coli BL21(DE3)] gi|253323447|gb|ACT28049.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974573|gb|ACT40244.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253978740|gb|ACT44410.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|257760535|dbj|BAI32032.1| RNA polymerase, sigma S factor [Escherichia coli O103:H2 str. 12009] gi|257765776|dbj|BAI37271.1| RNA polymerase, sigma S factor [Escherichia coli O111:H- str. 11128] gi|281179747|dbj|BAI56077.1| RNA polymerase sigma factor S RpoS [Escherichia coli SE15] gi|290763941|gb|ADD57902.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|291322152|gb|EFE61581.1| RNA polymerase sigma factor RpoS [Escherichia coli B088] gi|291426239|gb|EFE99271.1| RNA polymerase sigma factor RpoS [Escherichia coli FVEC1412] gi|291432176|gb|EFF05158.1| RNA polymerase sigma factor RpoS [Escherichia coli B185] gi|291468867|gb|EFF11358.1| RNA polymerase sigma factor RpoS [Escherichia coli B354] gi|298277110|gb|EFI18626.1| RNA polymerase sigma factor rpoS [Escherichia coli FVEC1302] gi|299879329|gb|EFI87540.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 196-1] gi|300356491|gb|EFJ72361.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 198-1] gi|305854415|gb|EFM54853.1| RNA polymerase sigma factor RpoS [Escherichia coli NC101] gi|306907266|gb|EFN37772.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli W] gi|307554720|gb|ADN47495.1| sigma factor RpoS [Escherichia coli ABU 83972] gi|307625683|gb|ADN69987.1| RNA polymerase sigma factor RpoS [Escherichia coli UM146] gi|309703100|emb|CBJ02432.1| RNA polymerase sigma factor (sigma-38) [Escherichia coli ETEC H10407] gi|310332990|gb|EFQ00204.1| RNA polymerase sigma factor RpoS [Escherichia coli 1827-70] gi|312947273|gb|ADR28100.1| RNA polymerase sigma factor RpoS [Escherichia coli O83:H1 str. NRG 857C] gi|315062022|gb|ADT76349.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli W] gi|315615130|gb|EFU95767.1| RNA polymerase sigma factor RpoS [Escherichia coli 3431] gi|320186525|gb|EFW61253.1| RNA polymerase sigma factor RpoS [Shigella flexneri CDC 796-83] gi|320189070|gb|EFW63729.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC1212] gi|320194880|gb|EFW69509.1| RNA polymerase sigma factor RpoS [Escherichia coli WV_060327] gi|320202392|gb|EFW76962.1| RNA polymerase sigma factor RpoS [Escherichia coli EC4100B] gi|320651231|gb|EFX19666.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H- str. H 2687] gi|320656781|gb|EFX24669.1| RNA polymerase sigma factor RpoS [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320667375|gb|EFX34333.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. LSU-61] gi|323159951|gb|EFZ45921.1| RNA polymerase sigma factor RpoS [Escherichia coli E128010] gi|323167243|gb|EFZ52960.1| RNA polymerase sigma factor RpoS [Shigella sonnei 53G] gi|323172966|gb|EFZ58597.1| RNA polymerase sigma factor RpoS [Escherichia coli LT-68] gi|323180167|gb|EFZ65719.1| RNA polymerase sigma factor RpoS [Escherichia coli 1180] gi|323183273|gb|EFZ68670.1| RNA polymerase sigma factor RpoS [Escherichia coli 1357] gi|323188842|gb|EFZ74127.1| RNA polymerase sigma factor RpoS [Escherichia coli RN587/1] gi|323935702|gb|EGB32016.1| RNA polymerase sigma protein RpoS [Escherichia coli E1520] gi|323941428|gb|EGB37611.1| RNA polymerase sigma proteinRpoS [Escherichia coli E482] gi|323946373|gb|EGB42401.1| RNA polymerase sigma protein RpoS [Escherichia coli H120] gi|323951037|gb|EGB46913.1| RNA polymerase sigma proteinRpoS [Escherichia coli H252] gi|323957044|gb|EGB52769.1| RNA polymerase sigma proteinRpoS [Escherichia coli H263] gi|323960599|gb|EGB56225.1| RNA polymerase sigma proteinRpoS [Escherichia coli H489] gi|323966893|gb|EGB62322.1| RNA polymerase sigma proteinRpoS [Escherichia coli M863] gi|323971530|gb|EGB66763.1| RNA polymerase sigma proteinRpoS [Escherichia coli TA007] gi|323978651|gb|EGB73733.1| RNA polymerase sigma proteinRpoS [Escherichia coli TW10509] gi|324111374|gb|EGC05356.1| RNA polymerase sigma proteinRpoS [Escherichia fergusonii B253] gi|324119995|gb|EGC13873.1| RNA polymerase sigma proteinRpoS [Escherichia coli E1167] gi|325496210|gb|EGC94069.1| sigma factor RpoS [Escherichia fergusonii ECD227] gi|326339191|gb|EGD63006.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. 1044] gi|326342926|gb|EGD66694.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. 1125] gi|330908777|gb|EGH37291.1| RNA polymerase sigma factor RpoS [Escherichia coli AA86] gi|331053437|gb|EGI25466.1| RNA polymerase sigma factor RpoS [Escherichia coli TA206] gi|331058228|gb|EGI30209.1| RNA polymerase sigma factor RpoS [Escherichia coli TA143] gi|331063148|gb|EGI35061.1| RNA polymerase sigma factor RpoS [Escherichia coli TA271] gi|331077975|gb|EGI49181.1| RNA polymerase sigma factor RpoS [Escherichia coli H299] gi|332344623|gb|AEE57957.1| RNA polymerase sigma factor RpoS [Escherichia coli UMNK88] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|291618595|ref|YP_003521337.1| RpoS [Pantoea ananatis LMG 20103] gi|291153625|gb|ADD78209.1| RpoS [Pantoea ananatis LMG 20103] gi|327394975|dbj|BAK12397.1| RNA polymerase sigma factor RpoS [Pantoea ananatis AJ13355] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 322 >gi|260599105|ref|YP_003211676.1| RNA polymerase sigma factor RpoS [Cronobacter turicensis z3032] gi|260218282|emb|CBA33240.1| RNA polymerase sigma factor rpoS [Cronobacter turicensis z3032] Length = 351 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 111 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 171 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 230 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 231 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 290 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 291 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 343 >gi|15803258|ref|NP_289290.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 EDL933] gi|12517195|gb|AAG57848.1|AE005502_2 RNA polymerase, sigma S (sigma38) factor; synthesis of many growth phase related proteins [Escherichia coli O157:H7 str. EDL933] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|319955596|ref|YP_004166863.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319424256|gb|ADV51365.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 287 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 106/259 (40%), Positives = 170/259 (65%), Gaps = 3/259 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ +E + +R+G+ +A +++ ANLR V+SVAK+Y N+GL DLI EGN+GL Sbjct: 31 ITANEEVDLAQRIREGD---QLALEKLTTANLRFVVSVAKQYQNQGLTLPDLINEGNVGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++QAI +++A+QS +R+P++ I+K+ + + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRIVRLPLNKIGSINKIKKAFSYLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +R P+ EEIAK+L M V V++ LK T +S++ P+ + + S+L + I + +P Sbjct: 148 AHERPPSAEEIAKELEMTVSEVQQSLKNTGRHVSMDAPLKEGEDSNLYNVIGSGESPNPD 207 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 +Q +L R L +L+ RE V+++ +GIG TLEE+G+ F +TRER+RQI Sbjct: 208 KQLLQQSLNIEINRALETLSQREADVVKLYYGIGDQHSMTLEEIGQTFDLTRERVRQIRE 267 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KAIRKLKH SRSK L+++L Sbjct: 268 KAIRKLKHNSRSKILKTYL 286 >gi|91212108|ref|YP_542094.1| RNA polymerase sigma factor RpoS [Escherichia coli UTI89] gi|117624976|ref|YP_853964.1| RNA polymerase sigma factor RpoS [Escherichia coli APEC O1] gi|227888284|ref|ZP_04006089.1| RNA polymerase sigma factor RpoS [Escherichia coli 83972] gi|237706630|ref|ZP_04537111.1| sigma factor RpoS [Escherichia sp. 3_2_53FAA] gi|254037782|ref|ZP_04871840.1| sigma factor RpoS [Escherichia sp. 1_1_43] gi|300815849|ref|ZP_07096073.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 107-1] gi|300820522|ref|ZP_07100673.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 119-7] gi|300906754|ref|ZP_07124436.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 84-1] gi|300919222|ref|ZP_07135745.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 115-1] gi|300922264|ref|ZP_07138390.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 182-1] gi|300930600|ref|ZP_07145992.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 187-1] gi|300941124|ref|ZP_07155636.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 21-1] gi|300946980|ref|ZP_07161206.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 116-1] gi|300954984|ref|ZP_07167395.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 175-1] gi|300976231|ref|ZP_07173328.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 200-1] gi|300976795|ref|ZP_07173612.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 45-1] gi|301027157|ref|ZP_07190526.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 69-1] gi|301306156|ref|ZP_07212232.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 124-1] gi|301326219|ref|ZP_07219602.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 78-1] gi|301645276|ref|ZP_07245227.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 146-1] gi|309795208|ref|ZP_07689627.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 145-7] gi|331643427|ref|ZP_08344558.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|331648464|ref|ZP_08349552.1| RNA polymerase sigma factor RpoS [Escherichia coli M605] gi|331654219|ref|ZP_08355219.1| RNA polymerase sigma factor RpoS [Escherichia coli M718] gi|331674247|ref|ZP_08375007.1| RNA polymerase sigma factor RpoS [Escherichia coli TA280] gi|331678721|ref|ZP_08379395.1| RNA polymerase sigma factor RpoS [Escherichia coli H591] gi|332280596|ref|ZP_08393009.1| sigma factor RpoS [Shigella sp. D9] gi|11036547|gb|AAG27177.1|AF270497_2 RpoS [Escherichia coli] gi|91073682|gb|ABE08563.1| sigma factor RpoS [Escherichia coli UTI89] gi|115514100|gb|ABJ02175.1| sigma factor RpoS [Escherichia coli APEC O1] gi|120538764|emb|CAM07120.1| sigma factor S [Escherichia coli] gi|226839406|gb|EEH71427.1| sigma factor RpoS [Escherichia sp. 1_1_43] gi|226899670|gb|EEH85929.1| sigma factor RpoS [Escherichia sp. 3_2_53FAA] gi|227834553|gb|EEJ45019.1| RNA polymerase sigma factor RpoS [Escherichia coli 83972] gi|300308576|gb|EFJ63096.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 200-1] gi|300318076|gb|EFJ67860.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 175-1] gi|300395189|gb|EFJ78727.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 69-1] gi|300401448|gb|EFJ84986.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 84-1] gi|300409981|gb|EFJ93519.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 45-1] gi|300413667|gb|EFJ96977.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 115-1] gi|300421394|gb|EFK04705.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 182-1] gi|300453367|gb|EFK16987.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 116-1] gi|300454167|gb|EFK17660.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 21-1] gi|300461542|gb|EFK25035.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 187-1] gi|300526786|gb|EFK47855.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 119-7] gi|300531778|gb|EFK52840.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 107-1] gi|300838588|gb|EFK66348.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 124-1] gi|300847064|gb|EFK74824.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 78-1] gi|301076441|gb|EFK91247.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 146-1] gi|308121179|gb|EFO58441.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 145-7] gi|315254525|gb|EFU34493.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 85-1] gi|315289257|gb|EFU48652.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 110-3] gi|315293697|gb|EFU53049.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 153-1] gi|315298766|gb|EFU58020.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 16-3] gi|323377395|gb|ADX49663.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Escherichia coli KO11] gi|324005707|gb|EGB74926.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 57-2] gi|324015519|gb|EGB84738.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 60-1] gi|324017012|gb|EGB86231.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 117-3] gi|331036898|gb|EGI09122.1| RNA polymerase sigma factor RpoS [Escherichia coli H736] gi|331042211|gb|EGI14353.1| RNA polymerase sigma factor RpoS [Escherichia coli M605] gi|331047601|gb|EGI19678.1| RNA polymerase sigma factor RpoS [Escherichia coli M718] gi|331068341|gb|EGI39736.1| RNA polymerase sigma factor RpoS [Escherichia coli TA280] gi|331073551|gb|EGI44872.1| RNA polymerase sigma factor RpoS [Escherichia coli H591] gi|332102948|gb|EGJ06294.1| sigma factor RpoS [Shigella sp. D9] Length = 342 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|320180825|gb|EFW55748.1| RNA polymerase sigma factor RpoS [Shigella boydii ATCC 9905] Length = 330 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|320173409|gb|EFW48608.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae CDC 74-1112] Length = 342 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|4100838|gb|AAD01001.1| RpoS [Escherichia coli] gi|4100840|gb|AAD01002.1| RpoS [Escherichia coli] gi|4100842|gb|AAD01003.1| RpoS [Escherichia coli] Length = 328 Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|113475621|ref|YP_721682.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] gi|110166669|gb|ABG51209.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101] Length = 410 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 105/262 (40%), Positives = 165/262 (62%), Gaps = 8/262 (3%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 TG+++ E I + E A+ +M+ NLRLV+S+AKKY NRG++ LDLIQEG + Sbjct: 154 TGLNVKELEQI-------QTEGIEARHQMISTNLRLVVSIAKKYQNRGVELLDLIQEGTL 206 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL +A EKFD GY+FSTYA WW++Q ITR+IA QS TIR+P+H+ +K++K+ + +++ Sbjct: 207 GLERAVEKFDPQRGYRFSTYAYWWIRQGITRAIATQSRTIRLPIHVSEKLNKIKKVQQKI 266 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 + EEIA++L + VR+VL +SLET +G + + LG+ +E K+A S Sbjct: 267 FQEKGYTAKVEEIARELKITAAQVREVLVKIPHSVSLETKVGRDRDTELGELLETKDA-S 325 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P + I+ +L + +L LT RE V+ MR+G+ +L E+ ++RER+RQI Sbjct: 326 PEEMLIRESLVQALKELLLDLTQRERYVITMRYGLEDGRACSLSEIASALKLSRERVRQI 385 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 E KA+ KL+ P +++ +L+ Sbjct: 386 EVKALHKLRQPKFRNQIQDYLE 407 >gi|261822742|ref|YP_003260848.1| RNA polymerase sigma factor RpoS [Pectobacterium wasabiae WPP163] gi|5912456|emb|CAB56153.1| RpoS protein [Pectobacterium carotovorum] gi|261606755|gb|ACX89241.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pectobacterium wasabiae WPP163] Length = 330 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 156/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|41861|emb|CAA78692.1| KatF [Escherichia coli] Length = 342 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|27735253|sp|P35540|RPOS_SHIFL RecName: Full=RNA polymerase sigma factor rpoS gi|332753598|gb|EGJ83977.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-671] gi|333000355|gb|EGK19938.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-218] gi|333015759|gb|EGK35097.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-304] Length = 330 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|269929031|ref|YP_003321352.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] gi|269788388|gb|ACZ40530.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter thermophilus DSM 20745] Length = 359 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 151/229 (65%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A+++++ NLRLV+S+AKKY GL +DLIQEGNIGLM A E++D LGY+FSTYA Sbjct: 121 AKAAREKLIRHNLRLVVSIAKKYRTSGLPLIDLIQEGNIGLMTAVERYDPELGYRFSTYA 180 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +W++QAI R++A+QS TIR+PVHM D I KV RT ++ R T +E+A+ L + V Sbjct: 181 TFWIRQAIGRAVANQSRTIRVPVHMHDLISKVRRTEAQLEQLHGRPATDQELAQALDLDV 240 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E + + SL+ PIG++ S +GD + D + +D A+ + +R+ R L SL Sbjct: 241 ERIEQARSAIPRTSSLDKPIGEDGESTIGDLLPDPASDEVVDQAVTSAIRDQIRRSLESL 300 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + RE VL +RFG+G TL E+ + + ++RER+RQIE +A+ KL++ Sbjct: 301 SERERGVLTLRFGLGGQQPQTLAEIAEYYGISRERVRQIEKEALAKLRN 349 >gi|290511076|ref|ZP_06550445.1| RNA polymerase sigma factor RpoS [Klebsiella sp. 1_1_55] gi|289776069|gb|EFD84068.1| RNA polymerase sigma factor RpoS [Klebsiella sp. 1_1_55] Length = 347 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 107 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 166 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 167 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 226 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 227 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 286 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 287 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 339 >gi|283786707|ref|YP_003366572.1| RNA polymerase sigma factor (sigma-38) [Citrobacter rodentium ICC168] gi|282950161|emb|CBG89797.1| RNA polymerase sigma factor (sigma-38) [Citrobacter rodentium ICC168] Length = 330 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|5804831|emb|CAB53534.1| RpoS protein [Escherichia coli O157:H7] gi|332087634|gb|EGI92761.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 155-74] Length = 298 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 58 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 118 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 177 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 178 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 237 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 238 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 290 >gi|1017750|gb|AAA79182.1| RpoS [Serratia entomophila] Length = 332 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV V Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVHDV 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 212 SRMLRLNERMPSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 271 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 272 QREVLARRFGLLGYEAATLEDVGREIVLTRERVRQIQVEGLRRLR 316 >gi|301049496|ref|ZP_07196454.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 185-1] gi|300298727|gb|EFJ55112.1| RNA polymerase sigma factor RpoS [Escherichia coli MS 185-1] Length = 342 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|289805538|ref|ZP_06536167.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 321 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|24114036|ref|NP_708546.1| RNA polymerase sigma factor RpoS [Shigella flexneri 2a str. 301] gi|24053158|gb|AAN44253.1| similar to sigmaD(70) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|281602111|gb|ADA75095.1| RNA polymerase sigma factor [Shigella flexneri 2002017] Length = 342 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|238896221|ref|YP_002920957.1| RNA polymerase sigma factor RpoS [Klebsiella pneumoniae NTUH-K2044] gi|238548539|dbj|BAH64890.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Length = 366 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 126 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 185 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 186 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 245 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 246 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 305 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 306 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 350 >gi|120598086|ref|YP_962660.1| RpoD family RNA polymerase sigma factor [Shewanella sp. W3-18-1] gi|146293843|ref|YP_001184267.1| RpoD family RNA polymerase sigma factor [Shewanella putrefaciens CN-32] gi|120558179|gb|ABM24106.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella sp. W3-18-1] gi|145565533|gb|ABP76468.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella putrefaciens CN-32] Length = 326 Score = 205 bits (521), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 98/231 (42%), Positives = 159/231 (68%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 83 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 140 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+KL + Sbjct: 141 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEEIAEKLQV 200 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 P V ++LK+ ++ S++TP+G ++ L D + D ++V P D +Q ++ + + L Sbjct: 201 PSADVSRMLKLNEKITSVDTPLGGDNDKALIDILADDDSVGP-DYKVQDEDISNSVVKWL 259 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 260 NELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|126663248|ref|ZP_01734246.1| RNA polymerase sigma-70 factor [Flavobacteria bacterium BAL38] gi|126624906|gb|EAZ95596.1| RNA polymerase sigma-70 factor [Flavobacteria bacterium BAL38] Length = 287 Score = 205 bits (521), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 162/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIAK+L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYALLEQSNERPPSAEEIAKELDMTVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P I +L+ R L +LTPR Sbjct: 170 KESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPNPDRELIHESLQTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+G TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLGDQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|213859421|ref|ZP_03385125.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 319 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|57864855|gb|AAW57030.1| putative group 2 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] Length = 368 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 171/238 (71%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 130 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 189 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A +L + + Sbjct: 190 IRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQL 249 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED++ P + + LR + VL+ LT Sbjct: 250 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLRYEVSAVLSDVLTQ 309 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 310 REKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 367 >gi|296104425|ref|YP_003614571.1| RNA polymerase nonessential primary-like sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295058884|gb|ADF63622.1| RNA polymerase nonessential primary-like sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295097322|emb|CBK86412.1| RNA polymerase sigma factor RpoS [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 330 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 322 >gi|259909441|ref|YP_002649797.1| RNA polymerase sigma factor [Erwinia pyrifoliae Ep1/96] gi|224965063|emb|CAX56595.1| RNA polymerase sigma factor [Erwinia pyrifoliae Ep1/96] Length = 277 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 158/225 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 37 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+KL PV+ V Sbjct: 97 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAQKLDKPVDDV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 157 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 216 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 217 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 261 >gi|332297439|ref|YP_004439361.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332180542|gb|AEE16230.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 287 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 98/235 (41%), Positives = 159/235 (67%), Gaps = 2/235 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ANLR V++VAKKY N GL +DLI EGNIGLM A E+FD GY F +YA+WW++Q+ Sbjct: 52 IVNANLRFVVNVAKKYQNHGLDLVDLISEGNIGLMTAIERFDVSKGYHFISYAVWWIRQS 111 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I ++I ++S IR+P++ +++ ++ + ++ E E+A L M V VR++L Sbjct: 112 ILKAICEKSRMIRLPLNRANELVQIEHARKLVAQDKTEEEEITEVADMLNMDVSHVREML 171 Query: 568 KITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 I+++ ISL+ I D+D++ +G+F+ED P D+ + A++++ VL +LT +E Sbjct: 172 NISRDMISLDASIRSSDQDSASIGEFLEDSRYEDPADTVLNASMQDDIDGVLGTLTDKEA 231 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 VLR RFG+ N +L+EVG +F +T+ERIRQIE KAI++L+HP+R+ +L +++ Sbjct: 232 DVLRYRFGLNGNKSMSLKEVGDKFNLTKERIRQIEKKAIKRLQHPARTVRLEAYV 286 >gi|82778108|ref|YP_404457.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae Sd197] gi|81242256|gb|ABB62966.1| RNA polymerase, sigma S factor [Shigella dysenteriae Sd197] Length = 330 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIDLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|67925121|ref|ZP_00518496.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67853040|gb|EAM48424.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 374 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 106/239 (44%), Positives = 172/239 (71%), Gaps = 1/239 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IAK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA W Sbjct: 135 IAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 194 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A +L + Sbjct: 195 WIRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVTPPQ 254 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LT 621 +R++L++ ++ +SL +G + + L D +ED++ P + + L+ + VL+ LT Sbjct: 255 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLQYEVSAVLSDVLT 314 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 315 QREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 373 >gi|161502017|ref|YP_001569129.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160863364|gb|ABX19987.1| hypothetical protein SARI_00033 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 330 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G+ FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFSFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|172035517|ref|YP_001802018.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC 51142] gi|171696971|gb|ACB49952.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC 51142] Length = 374 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 171/238 (71%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 136 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 195 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A +L + + Sbjct: 196 IRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQL 255 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED++ P + + LR + VL+ LT Sbjct: 256 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLRYEVSAVLSDVLTQ 315 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 316 REKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 373 >gi|170727680|ref|YP_001761706.1| RpoD family RNA polymerase sigma factor [Shewanella woodyi ATCC 51908] gi|169813027|gb|ACA87611.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella woodyi ATCC 51908] Length = 322 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 99/231 (42%), Positives = 159/231 (68%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C+ S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CDKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA+KL + Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAEKLDL 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 P V ++LK+ + S++TP+G ++ L D + D + V P D +Q ++ ++ + L Sbjct: 197 PSADVSRMLKLNERITSVDTPLGGDNDKALLDVLADDDNVGP-DYKVQDEDMSKSVVKWL 255 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 256 DELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 306 >gi|315224630|ref|ZP_07866455.1| DNA-directed RNA polymerase sigma subunit RpoD [Capnocytophaga ochracea F0287] gi|314945415|gb|EFS97439.1| DNA-directed RNA polymerase sigma subunit RpoD [Capnocytophaga ochracea F0287] Length = 287 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 161/237 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIA++L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAYLEQANERVPSAEEIARELDMSVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K IS++ P+ + + S+L D I + +P + I +LR R L +LTPR Sbjct: 170 KESMKNAGRHISMDAPLVEGEDSNLYDVIRSNESPNPDKALILDSLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLSDQHAMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|218701232|ref|YP_002408861.1| RNA polymerase sigma factor RpoS [Escherichia coli IAI39] gi|218371218|emb|CAR19049.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli IAI39] gi|327251469|gb|EGE63155.1| RNA polymerase sigma factor RpoS [Escherichia coli STEC_7v] Length = 330 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G+ FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFSFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|88801442|ref|ZP_01116970.1| putative sigma factor A [Polaribacter irgensii 23-P] gi|88782100|gb|EAR13277.1| putative sigma factor A [Polaribacter irgensii 23-P] Length = 287 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAKRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + + +R P+ EEIAKKL M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYAFLEQENERPPSAEEIAKKLDMTVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P + +LR R L +LTPR Sbjct: 170 KESMKNSGRHVSMDAPLIEGEDSNLYDVLNSGESPNPDRKLLHESLRIEIDRALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+++ FG+G + TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L ++L Sbjct: 230 EADVVKLYFGLGEHQPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILMTYL 286 >gi|4929285|gb|AAD33933.1|AF144608_2 RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus] Length = 321 Score = 204 bits (520), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 97/223 (43%), Positives = 152/223 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 ++ VL RFG+ TLEEVG++ +TRER+R++ I++ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRRLREILIKQ 308 >gi|300724640|ref|YP_003713965.1| sigma S (sigma 38) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|6643920|gb|AAF20816.1|AF198628_2 RpoS [Xenorhabdus nematophila] gi|297631182|emb|CBJ91877.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus nematophila ATCC 19061] Length = 331 Score = 204 bits (520), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARQRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA++L PVE + Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPTVEEIAERLDKPVEDI 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++++ + S++TPI + L D + D+N P + +++++ + L L + Sbjct: 211 SRMMRLNERITSVDTPISGDSDKALLDILSDENDSGPETTIQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QREVLARRFGLLGYEAETLEDVGREIGLTRERVRQIQVEGLRRLR 315 >gi|91216377|ref|ZP_01253344.1| RNA polymerase sigma factor rpoD (Sigma-A) [Psychroflexus torquis ATCC 700755] gi|91185515|gb|EAS71891.1| RNA polymerase sigma factor rpoD (Sigma-A) [Psychroflexus torquis ATCC 700755] Length = 287 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 99/250 (39%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K + +A +++ +ANLR V+SV+K+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQKIKAGDDLALEKLTKANLRFVVSVSKQYQNQGLTLPDLINEGNLGLIKAAKRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I ++A+QS +R+P++ I+K+ +T + + +R P+P+ Sbjct: 97 TRGFKFISYAVWWIRQSILSALAEQSRVVRLPLNKIGSINKINKTFAILEQRHQRPPSPD 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK+L M V V++ LK + +S++ P+ + + S+L D ++ + +P + + +L+ Sbjct: 157 EIAKELEMTVNDVKESLKNSGRHLSMDAPLIEGEDSNLYDVLKFGESPNPENDLLHESLQ 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LT RE V+R+ FG+G TLEE+G+ F +TRER+RQI+ K +R+LKH Sbjct: 217 TEIERALETLTTREADVIRLYFGLGNQQPMTLEEIGETFGLTRERVRQIKEKGVRRLKHT 276 Query: 671 SRSKKLRSFL 680 SRS L+++L Sbjct: 277 SRSTILKTYL 286 >gi|315137348|dbj|BAJ44507.1| RNA polymerase sigma factor RpoS [Escherichia coli DH1] Length = 330 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL +A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLTRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] Length = 318 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 169/268 (63%), Gaps = 11/268 (4%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 ++E G+++++ + + + AK + E+NLRLVIS+AK+Y RGL DL QE Sbjct: 57 AIEPGMTVTQIKKQIRRSLR-------AKAALTESNLRLVISIAKRYQGRGLNMQDLCQE 109 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G +GL +A EKFD G++FSTYA WW+KQ I R+IADQ+ TIR+PVH+ D++ V + Sbjct: 110 GTLGLTRACEKFDPERGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLSIVRKAE 169 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIE 593 R + N++ R+ T EE+A K+ M + + + + + IS+E + G E + + D + Sbjct: 170 RDLQNELGRDATKEEVAAKVGMKPDKIEFLKRASVGSISMEQELGTSGSERSFTIQDTLG 229 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 D + P+D A L++ R++ +L RE+ V+RMRFG+ TLEE+GK+F VTR Sbjct: 230 DPDQ-KPVDMAQYRMLQDDVGRLICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTR 288 Query: 654 ERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ERIRQIEA+A+ KL+ P R+ ++ + + Sbjct: 289 ERIRQIEARALHKLRQPYRNHTVKCYAN 316 >gi|260062909|ref|YP_003195989.1| putative sigma factor A [Robiginitalea biformata HTCC2501] gi|88784477|gb|EAR15647.1| putative sigma factor A [Robiginitalea biformata HTCC2501] Length = 287 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 102/259 (39%), Positives = 172/259 (66%), Gaps = 3/259 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ +E + +++G+ +A +++ +ANLR V+SVAK+Y N+GL+ DLI EGN+GL Sbjct: 31 ITANEEVELAQRIKQGD---QLALEKLTKANLRFVVSVAKQYQNQGLKLPDLINEGNVGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRVVRLPLNKIGSINKIKKTFSYLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +R P+ EEIAK+L M V V++ +K + +S++ P+ + + S+L D + + P Sbjct: 148 AHERPPSAEEIAKELDMTVSEVKQSIKNSGRHVSMDAPLREGEDSNLYDVLRSGESPKPD 207 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 S + +L R L +L+PRE V+++ +GIG TL E+G+ F +TRER+RQI Sbjct: 208 KSLMLQSLNTEINRALETLSPREADVVKLYYGIGDQQSMTLAEIGQTFDLTRERVRQIRE 267 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KAIRKL+H SRSK L+++L Sbjct: 268 KAIRKLRHHSRSKLLKAYL 286 >gi|320640384|gb|EFX09923.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. G5101] Length = 330 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+++ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHQLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|167993163|ref|ZP_02574258.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205328726|gb|EDZ15490.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] Length = 330 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRPLREILQTQGL 322 >gi|332308186|ref|YP_004436037.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175515|gb|AEE24769.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Glaciecola agarilytica 4H-3-7+YE-5] Length = 327 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+ +NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 85 SRQRMIVSNLRLVVKIARRYNNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RT+R ++ K+ EPT EEIA+ + PV V Sbjct: 145 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTSRELAQKLDHEPTAEEIAEAVQRPVADV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG ++ + L D I D N P + N++ + L L P+ Sbjct: 205 TKMLRLNERITSVDTPIGSDNDNVLLDIIADDNGHDPEEDLQDKNVKLSIVGWLEDLNPK 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG + +TRER+RQI+ +A+R+LK Sbjct: 265 QREVLARRFGLLGYEPSTLEDVGVEIGLTRERVRQIQVEALRRLK 309 >gi|6010726|gb|AAF01229.1|AF184098_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A +KFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVQKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|1519382|gb|AAC46141.1| RNA polymerase subunit sigma 38 [Pectobacterium carotovorum] Length = 330 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 155/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L + + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLALNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|149911458|ref|ZP_01900075.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactorduring stationary phase [Moritella sp. PE36] gi|149805489|gb|EDM65496.1| sigma S (sigma 38) factor of RNA polymerase, major sigmafactorduring stationary phase [Moritella sp. PE36] Length = 319 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 79 SRKRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++++ EPT E+IA KL PV V Sbjct: 139 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELAHELDHEPTAEDIADKLDKPVADV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D+ P +++ + R L L P+ Sbjct: 199 SKMLRLNERISSVDTPIGGDSEKALLDIISDEKGDGPESRTQNDDIKFSIIRWLEELNPK 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ +A+R+L+ Sbjct: 259 QREVLARRFGLLGYDASTLEDVGREIGLTRERVRQIQVEALRRLR 303 >gi|12483895|gb|AAG53883.1|AF275947_2 sigma factor RpoS [Escherichia coli] Length = 366 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|19910024|dbj|BAB87263.1| RNA polymerase sigma factor [Cyanophora paradoxa] Length = 431 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 118/259 (45%), Positives = 165/259 (63%), Gaps = 15/259 (5%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY-TNRG-LQFLDLIQEGNIGLMK 483 E RH MVR G ++A+ +V ANLR V++VAKKY RG + DLIQEGNIGL++ Sbjct: 176 ELRH---MVRVG----TLARDRLVRANLRWVVAVAKKYHKQRGTMSMQDLIQEGNIGLIR 228 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A EKFD +GY+F+TYA WW++QAITRSI + S IR+P H +KI+++ R +S + Sbjct: 229 AVEKFDPRMGYRFTTYATWWIRQAITRSIQNSSREIRLPAHRHEKINRIKRATVALSRSL 288 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDED--TSHLGDFIEDKNAVS 599 R+PT EIA+ + + +RK ++ +SL+ PI + D ++ +GDFI +N Sbjct: 289 GRQPTEAEIAEHVGLDPSRMRKFVESAAAVATVSLDVPINESDNQSATIGDFIRSENE-G 347 Query: 600 PLDSAIQANLRETTTRVLA-SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 P D A + +RE+ R LA +L+ RE VLRMRFG+ TL +VG+ VTRER+RQ Sbjct: 348 PADRAERELMRESVARTLAKALSEREYMVLRMRFGLDDGEPKTLNQVGETLGVTRERVRQ 407 Query: 659 IEAKAIRKLKHPSRSKKLR 677 IE KA+RKL+ P S LR Sbjct: 408 IEMKALRKLRRPGFSSALR 426 >gi|332999494|gb|EGK19079.1| RNA polymerase sigma factor RpoS [Shigella flexneri VA-6] Length = 359 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|254409611|ref|ZP_05023392.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] gi|196183608|gb|EDX78591.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Microcoleus chthonoplastes PCC 7420] Length = 374 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 103/241 (42%), Positives = 169/241 (70%), Gaps = 1/241 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 I+K++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG +GL +AAEKFD GYKFSTYA Sbjct: 133 GQISKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPAKGYKFSTYA 192 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P E+A+ L + Sbjct: 193 YWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKVQRELKQKLQRTPDETELAEALDISR 252 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS- 619 +R++L++ + +SL +G + + L D +ED + P ++ +R+ + VL+ Sbjct: 253 TNLRQLLQLRRRSLSLNHRVGKGEDTELVDLLEDNDLHLPEQQMSESMMRQEISDVLSDV 312 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE+ V+ +R+G+ +TLEEVG F ++RER+RQI++KA+RKL+ P +++L+ + Sbjct: 313 LTEREKDVISLRYGLATPESYTLEEVGSMFNLSRERVRQIQSKAMRKLRRPQVARRLQGW 372 Query: 680 L 680 L Sbjct: 373 L 373 >gi|41855|emb|CAA78689.1| KatF [Escherichia coli] Length = 377 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|6175918|gb|AAF05334.1|AF182102_2 RNA polymerase sigma subunit [Escherichia coli] gi|6175933|gb|AAF05344.1|AF182107_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 156/224 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|170765845|ref|ZP_02900656.1| RNA polymerase sigma factor RpoS [Escherichia albertii TW07627] gi|170124991|gb|EDS93922.1| RNA polymerase sigma factor RpoS [Escherichia albertii TW07627] Length = 434 Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 194 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 253 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 254 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 313 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 314 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 373 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 374 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 426 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 41/75 (54%), Positives = 61/75 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCT 518 ++Q I R+I +Q+ T Sbjct: 150 IRQTIERAIMNQTRT 164 >gi|2961260|emb|CAA73683.1| rpoS [Enterobacter cloacae] Length = 346 Score = 204 bits (519), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 106 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 166 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 225 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 226 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 285 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 286 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 330 >gi|297184127|gb|ADI20246.1| hypothetical protein [uncultured Sphingobacterium sp. EB080_L08E11] Length = 287 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 99/250 (39%), Positives = 169/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + ++ + IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD Sbjct: 37 VELAQRIKAGDQIALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + + +R P+ Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKAYAYLEQEHERPPSAA 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EI+K L M V++ ++ + +S++ P+ + + S+L D + ++ P + + +LR Sbjct: 157 EISKHLEMSESDVKESMRNSGRHVSMDAPLVEGEDSNLYDVLNSSDSPHPDEDLMMDSLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R LA+LTPRE V+R+ FG+G TLEE+G++F +TRER+RQI+ KAIR++KH Sbjct: 217 TEIERSLATLTPREGDVIRLYFGLGGQHPMTLEEIGEKFDLTRERVRQIKEKAIRRMKHT 276 Query: 671 SRSKKLRSFL 680 SRSK L+++L Sbjct: 277 SRSKILKTYL 286 Score = 39.3 bits (90), Expect = 2.1, Method: Compositional matrix adjust. Identities = 20/57 (35%), Positives = 36/57 (63%), Gaps = 1/57 (1%) Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 YL+E+G +EL++ E E+ +A+RI+AG + + L ++ L F + + + N G TL Sbjct: 21 YLQEIGKVELITAEEEVELAQRIKAGDQIALEKLTKANLRF-VVSVAKQYQNQGLTL 76 >gi|10197699|gb|AAG14981.1|AF242209_6 alternative sigma factor [Escherichia coli] Length = 360 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|149370109|ref|ZP_01889960.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] gi|149356600|gb|EDM45156.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] Length = 287 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 98/237 (41%), Positives = 158/237 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA +FD G+KF +YA+WW Sbjct: 50 ALEKLTNANLRFVVSVAKQYQNQGLTLPDLINEGNVGLIKAASRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++A+QS +R+P++ I+K+ + + +R P+PEEIAK+L M + V Sbjct: 110 IRQAILQALAEQSRIVRLPLNKIGSINKINKAFTHLEQAHQRPPSPEEIAKELDMTINDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + IS++ P+ + + +L D + + +P + + +LR R L +LTPR Sbjct: 170 KESIKNSGRSISMDAPLTEGEDYNLYDVLNTGESPNPDQALLLESLRTEIERALETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+++ FG+ TLEE+G F +TRER+RQI+ KA+R+LKH SRS L+++L Sbjct: 230 ESDVIKLYFGLSDQRPMTLEEIGSTFDLTRERVRQIKEKAVRRLKHTSRSTILKTYL 286 >gi|332765694|gb|EGJ95907.1| RNA polymerase sigma factor RpoS [Shigella flexneri 2930-71] Length = 330 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EG++GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGDLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLRETLQTQGL 322 >gi|322831414|ref|YP_004211441.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rahnella sp. Y9602] gi|321166615|gb|ADW72314.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rahnella sp. Y9602] Length = 328 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 88 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA++L PV V Sbjct: 148 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAEEIAEQLDKPVHDV 207 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 208 SRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAK 267 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 268 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 312 >gi|309702135|emb|CBJ01450.1| putative RNA polymerase sigma factor [Escherichia coli ETEC H10407] Length = 697 Score = 204 bits (518), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 113/255 (44%), Positives = 157/255 (61%), Gaps = 32/255 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K + ANLRLV+++AKK+ RGL DLIQEGN+GL+KA EKFD+ G+KFSTYA WW Sbjct: 444 AWKGFIHANLRLVVAIAKKHCGRGLDIEDLIQEGNLGLIKAVEKFDFRRGFKFSTYASWW 503 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I+R+IADQ+ IR+PVH + + + ++ ++ PT + + +P Sbjct: 504 IRQKISRAIADQAQLIRLPVHFYEHFRRWRSSRDQLLHRQGITPTLRRLQEMTDLP---E 560 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKN-----------------AVSPLDSAIQ 606 R++L++ K +E T +GDF ED +P+ S Sbjct: 561 RQLLQMAKY---------EEQTVLIGDFHEDAQDREAALSGDALLTRRDFTSAPVQS--- 608 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 LRE + VL +L PRE ++++MRFGIGM D TLEEVGKQF VTRERIRQIEAKA+RK Sbjct: 609 LELREHISSVLNTLLPRETQIIKMRFGIGMTQDFTLEEVGKQFDVTRERIRQIEAKALRK 668 Query: 667 LKHPSRSKKLRSFLD 681 L+H SR+ KL F++ Sbjct: 669 LRHHSRASKLGGFVE 683 >gi|332829288|gb|EGK01942.1| hypothetical protein HMPREF9455_00064 [Dysgonomonas gadei ATCC BAA-286] Length = 286 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 103/268 (38%), Positives = 178/268 (66%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQAIKKGD---RAALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R+P+ EE+A++L +PV+ + LK++ IS++ P + + + L D + Sbjct: 139 SKAFSKFEQENERKPSAEELAEQLDIPVDKIADSLKVSGRHISMDAPFVEGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + +A + I +L++ R L++LT RE +++M FGIG + TLEE+G +F +T Sbjct: 199 VNDDAPIADRTLINESLQQEIERALSTLTERESEIIKMFFGIGYQ-EMTLEEIGDKFQLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAI++L+ SRSK L+S+L Sbjct: 258 RERVRQIKEKAIKRLRQNSRSKLLKSYL 285 >gi|90407885|ref|ZP_01216060.1| putative RNA polymerase sigma-38 factor [Psychromonas sp. CNPT3] gi|90310976|gb|EAS39086.1| putative RNA polymerase sigma-38 factor [Psychromonas sp. CNPT3] Length = 313 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 96/226 (42%), Positives = 152/226 (67%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+K M+E+NLRLV+ ++++YTNRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 72 VARKRMIESNLRLVVKISRRYTNRGLSLLDLVEEGNLGLIRAVEKFDPEKGFRFSTYATW 131 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ K++ +RTAR +S+ + EPT E+IA L +P + Sbjct: 132 WIRQTIERAIMNQTRTIRLPIHIVKKLNVYLRTARELSHSLTHEPTAEDIALALDIPAKD 191 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V K+LK+ + S++ PIG+ L D I D+ + P + +++ L L P Sbjct: 192 VSKILKLNERISSVDIPIGNNSDKELLDIIPDRKEIIPENELENEDMKLRIVEWLEDLNP 251 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A++ L+ Sbjct: 252 KQREVLARRFGLLGYEAATLENVGKEIGLTRERVRQIQVEALKCLR 297 >gi|6175921|gb|AAF05336.1|AF182103_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 156/224 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|224024118|ref|ZP_03642484.1| hypothetical protein BACCOPRO_00840 [Bacteroides coprophilus DSM 18228] gi|224017340|gb|EEF75352.1| hypothetical protein BACCOPRO_00840 [Bacteroides coprophilus DSM 18228] Length = 317 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 107/269 (39%), Positives = 177/269 (65%), Gaps = 6/269 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 53 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 109 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 110 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 169 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 170 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 229 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + D + ++ S + +L R L++LT RE+ +++M FGI + TLEE+G +F + Sbjct: 230 VNDDSPMAD-RSLVNESLSREIDRALSTLTEREKDIIQMFFGIN-TQEMTLEEIGDKFGL 287 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIR+L+ SRSK L+S+L Sbjct: 288 TRERVRQIKEKAIRRLRQNSRSKLLKSYL 316 >gi|149378178|ref|ZP_01895895.1| nonessential primary sigma factor [Marinobacter algicola DG893] gi|149357540|gb|EDM46045.1| nonessential primary sigma factor [Marinobacter algicola DG893] Length = 333 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 98/240 (40%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + RKGE +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 82 YFARLARKGE---ESGRKRMIESNLRLVVKIARRYVNRGLTLLDLIEEGNLGLIRAVEKF 138 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 139 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNLYLRAARELTQKLDHEPS 198 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA+ + PV V+++L + + S++TPIG L D + D+ A P D N Sbjct: 199 AEEIARMVDKPVADVKRMLGLNERVASMDTPIGTGGEKSLLDTVADEGASDPADLLQDNN 258 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + L+ +++ VL RFG+ TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 259 MCSCVEKWIDQLSDKQQEVLSRRFGLRGYPISTLEEVGQEIGLTRERVRQIQVEALRRLR 318 >gi|33867026|ref|NP_898585.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639627|emb|CAE09011.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 328 Score = 204 bits (518), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 103/245 (42%), Positives = 159/245 (64%), Gaps = 8/245 (3%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A Sbjct: 82 SRHRHKIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERA 134 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ Sbjct: 135 VDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFG 194 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS 603 R+P E+A + + + ++ + SL+ G+ED S LG+ I D N P++ Sbjct: 195 RQPNRLELASAMGIEPRELEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEG 254 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +E L+ L RE+++LR+RFG+G TL E+G+Q V+RER+RQ+EAKA Sbjct: 255 MDRSIQKEHLGGWLSQLNEREQKILRLRFGLGGEEPLTLAEIGRQINVSRERVRQLEAKA 314 Query: 664 IRKLK 668 I KL+ Sbjct: 315 ILKLR 319 >gi|326324968|dbj|BAJ84180.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Oranienburg] Length = 330 Score = 203 bits (517), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL L+LI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLNLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|311694174|gb|ADP97047.1| RNA polymerase, sigma 70 subunit, RpoD family [marine bacterium HP15] Length = 331 Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 98/241 (40%), Positives = 157/241 (65%), Gaps = 3/241 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + RKGE +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 80 YFARLARKGE---ESGRKRMIESNLRLVVKIARRYVNRGLTLLDLIEEGNLGLIRAVEKF 136 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 137 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNLYLRAARELTQKLDHEPS 196 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA+ + PV V+++L + + S++TPIG L D + D+ A P D N Sbjct: 197 AEEIARMVDKPVADVKRMLGLNERVASMDTPIGAGGEKSLLDTVADEGASDPADLLQDNN 256 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + L+ +++ VL RFG+ TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 257 MCSCLEKWIDQLSDKQQEVLSRRFGLRGYPVSTLEEVGQEIGLTRERVRQIQVEALRRLR 316 Query: 669 H 669 Sbjct: 317 E 317 >gi|89109528|ref|AP_003308.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K-12 substr. W3110] gi|218547743|ref|YP_002381534.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia fergusonii ATCC 35469] gi|85675562|dbj|BAE76818.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli str. K12 substr. W3110] gi|218355284|emb|CAQ87891.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia fergusonii ATCC 35469] gi|320645931|gb|EFX14912.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H- str. 493-89] Length = 291 Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 51 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 111 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 170 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 171 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 230 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 231 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 283 >gi|254444043|ref|ZP_05057519.1| RNA polymerase sigma factor, sigma-70 family [Verrucomicrobiae bacterium DG1235] gi|198258351|gb|EDY82659.1| RNA polymerase sigma factor, sigma-70 family [Verrucomicrobiae bacterium DG1235] Length = 377 Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 107/267 (40%), Positives = 170/267 (63%), Gaps = 2/267 (0%) Query: 410 RNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 RN I++ E G I + V++ R+ + A+ M+++NLRLV+ +A Y + GL Sbjct: 78 RNSIRTYLQEIGRIDLLTPAQEVTLARRIQAGEKEARDLMIKSNLRLVVKIAHDYKDFGL 137 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI EGNIGL+KA E+FD G K STYA WW+KQ+I R++A+QS TIR+PVH+ DK Sbjct: 138 PVLDLISEGNIGLVKAVERFDPDKGGKLSTYAAWWIKQSIKRALANQSKTIRLPVHLVDK 197 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSH 587 I ++ + A ++ ++ REPT +E+A+ L MPV V + ++ P SL P+G D +++ Sbjct: 198 ISRMRKMALMLTEELGREPTDQELAEMLEMPVNKVSHLKSVSVRPTSLNAPVGEDGNSTE 257 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 G+ + D NA +P ++ + +LR ++ L RE ++R+RFG+ ++ TLEEVG+ Sbjct: 258 FGEIVGDDNAPTPYENLHEKSLRGDLHEMIDGLEDREAEIIRLRFGLNGDSPLTLEEVGQ 317 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSK 674 F +TRER+RQ++ A+ K++ SK Sbjct: 318 VFDITRERVRQLQNIALSKMRKIMASK 344 Score = 37.7 bits (86), Expect = 6.4, Method: Compositional matrix adjust. Identities = 16/42 (38%), Positives = 30/42 (71%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++K+ A+ + +R YL+E+G I+LL+ E+ +A+RI+AG Sbjct: 68 QKKEKAELPDRNSIRTYLQEIGRIDLLTPAQEVTLARRIQAG 109 >gi|170737511|ref|YP_001778771.1| RpoD family RNA polymerase sigma factor [Burkholderia cenocepacia MC0-3] gi|169819699|gb|ACA94281.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia cenocepacia MC0-3] Length = 627 Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 154/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ ++NLRLV+SVAK+Y +RGL F DLIQEGNIGLMKA +++D G+KFSTYA WW Sbjct: 390 ARTKLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWW 449 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + ++ ++ +PV+ V Sbjct: 450 IRQAITHALADLGRTIRVPTHTVDTLNKLSRLARLHRQRTGDVADARALSTQMRLPVDKV 509 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I +EPIS + P+ + L D D +A +P ++A LR ++ SL R Sbjct: 510 RELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQLRAVVAELIDSLPVR 569 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +LR+R+GI ++ +++L E+G+Q ++ ER+RQ+E A+ +++ + LRS L Sbjct: 570 EAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERIRQFRHAPALRSLL 626 Score = 69.3 bits (168), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 50/154 (32%), Positives = 76/154 (49%), Gaps = 17/154 (11%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I L RGYVT+ E+ LP D ++ +ML +GI D+ + G+ + Sbjct: 33 LIALGIDRGYVTLGEIADALPDDATDGADVDAAASMLRELGI------DVREHAGAHTTW 86 Query: 94 DL----------ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L AS ++S L A R T+DP+R+YLREM + LL R+ EIA+A Sbjct: 87 TLDRHFAQVTEVASPLDDASTPLAADDLLAGR-TNDPIRLYLREMSATPLLERDEEIALA 145 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 R+E+GRA + +L P A+ D++ G Sbjct: 146 LRLESGRAACIDALSRDPAALAAVAAIADDIRAG 179 >gi|332298226|ref|YP_004440148.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181329|gb|AEE17017.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 332 Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 152/226 (67%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + K +M++ANLRLV+S+AK+Y +RGL LDLI EGNIGL++A ++F+ +FSTY +W Sbjct: 95 VLKNKMIQANLRLVVSIAKRYQHRGLGLLDLIDEGNIGLIEAVDRFEPARNCRFSTYGIW 154 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAI +S+AD+ IR+PVHM + I+K A+ ++ + REPT E+A+ L + E Sbjct: 155 WIRQAIIKSLADKGRVIRVPVHMLNTINKCFFMAKLLTQEYGREPTTAELARFLCVTNEK 214 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +++++E SLET + D++++ LGD + D+N +P++ A L +T VL L+ Sbjct: 215 VEDYIRLSQEMSSLETNVDDDNSTRLGDLLTDENGEAPIERVFAAALTDTVNLVLNQLSE 274 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++R+R+G+ TL E G +TRER+RQI+ K ++KL+ Sbjct: 275 REMSIIRLRYGLDGKAPRTLTETGNVLGITRERVRQIQEKTLKKLR 320 >gi|333001093|gb|EGK20663.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-272] gi|333015402|gb|EGK34741.1| RNA polymerase sigma factor RpoS [Shigella flexneri K-227] Length = 330 Score = 203 bits (517), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RT R +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTVRELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|330828425|ref|YP_004391377.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328803561|gb|AEB48760.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 327 Score = 203 bits (517), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 97/233 (41%), Positives = 157/233 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKIARRYNNRGLVLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+++ EPT E+IA L V+ V Sbjct: 146 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELSHRLDHEPTAEDIAFALDRSVDDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+ ++ S++TPIG + L D + D+ + P + + ++R + L L P+ Sbjct: 206 NRMLKLNEKITSVDTPIGGDRDKALLDVLSDERGMGPELESQEDDMRSSIVHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG + +TRER+RQI+ + +R+L+ S+ L Sbjct: 266 QREVLARRFGLLGYEPATLEDVGAEIGLTRERVRQIQVEGLRRLREILLSQGL 318 >gi|23306706|gb|AAN15274.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] gi|23306708|gb|AAN15270.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] gi|23306710|gb|AAN15272.1| N-terminal truncated RNA polymerase sigma factor S [Escherichia coli] Length = 277 Score = 203 bits (517), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 37 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 97 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 157 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 216 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 217 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 269 >gi|108804071|ref|YP_644008.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765314|gb|ABG04196.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 294 Score = 203 bits (516), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 110/240 (45%), Positives = 156/240 (65%), Gaps = 9/240 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++E NLRLV+SVAKKY GL F DLIQEGNIGLMKA EKFD G++FSTYA WW Sbjct: 56 ARQKLIEKNLRLVVSVAKKYRGYGLPFEDLIQEGNIGLMKAVEKFDPERGFRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ R++AD+ TIR+PVHM +KI KV RT +S +++REPT EEIA++L VE V Sbjct: 116 IRQAVQRAVADKGRTIRVPVHMTEKIRKVSRTFNELSLELEREPTDEEIARRLEWDVEDV 175 Query: 564 RKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQ----ANLRETTTRVLA 618 R + + SL+ P+ E++ S LGDFIED+ D+ ++ + L+E R Sbjct: 176 RLTISAMPDATSLDQPVSSEESASELGDFIEDERTSDTPDTVLKELESSQLKEAIER--- 232 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L R VL R+G+ TL E+G + ++RER+RQ++ +A R LK + LR+ Sbjct: 233 -LPERARYVLVRRYGLDDREPATLAELGDELKISRERVRQLQREAERILKSGEHGRVLRN 291 >gi|212634213|ref|YP_002310738.1| RNA polymerase sigma-38 factor [Shewanella piezotolerans WP3] gi|212555697|gb|ACJ28151.1| RNA polymerase sigma-38 factor [Shewanella piezotolerans WP3] Length = 322 Score = 203 bits (516), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 100/231 (43%), Positives = 157/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 79 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA+KL + Sbjct: 137 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAEKLDL 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 V ++LK+ + S++TP+G E L D + D + V P D +Q ++ ++ + L Sbjct: 197 SSSDVSRMLKLNERITSVDTPLGGESDKALLDVLADDDNVGP-DYKVQDEDMSKSVVKWL 255 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 256 DELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 306 >gi|332885662|gb|EGK05908.1| hypothetical protein HMPREF9456_02172 [Dysgonomonas mossii DSM 22836] Length = 286 Score = 203 bits (516), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 103/268 (38%), Positives = 177/268 (66%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + ++KG+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQAIKKGD---RAALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R+P+ EE+A++L +PV+ + LK++ IS++ P + + + L D + Sbjct: 139 SKAFSKFEQENERKPSAEELAEQLDIPVDKIADSLKVSGRHISMDAPFVEGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + +A I +L++ R L++LT RE +++M FGIG + TLEE+G +F +T Sbjct: 199 VNDDAPIADRKLINESLQQEIERALSTLTERESEIIKMFFGIGYQ-EMTLEEIGDKFQLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAI++L+ SRSK L+S+L Sbjct: 258 RERVRQIKEKAIKRLRQNSRSKLLKSYL 285 >gi|284929771|ref|YP_003422293.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma factor, cyanobacterial RpoD-like family [cyanobacterium UCYN-A] gi|284810215|gb|ADB95912.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma factor, cyanobacterial RpoD-like family [cyanobacterium UCYN-A] Length = 318 Score = 203 bits (516), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 104/241 (43%), Positives = 162/241 (67%), Gaps = 5/241 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + S + GE AK++MVEANLRLV+SVAKKY R L LDLIQEG IG+ + EK Sbjct: 71 RELHSAIASGEA----AKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEK 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD GY+FSTYA WW++QAITR+IA++S TIR+P+H+ +K++K+ + R +S R+ Sbjct: 127 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQARGRDA 186 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E+A++L + + VR+ L+ ++P+SL+ +GD + LGD +ED + SP D A + Sbjct: 187 TIAELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLED-DGPSPEDFATHS 245 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L+ ++ LT +++ V+ +RFG+ TL ++G + ++RER+RQIE +A+ KL Sbjct: 246 SLQFDLEILMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIEREALSKL 305 Query: 668 K 668 + Sbjct: 306 R 306 Score = 39.7 bits (91), Expect = 1.8, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 24/33 (72%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +S DPVR YLRE+G + LL+ E EI AKR++ Sbjct: 5 KSNLDPVRSYLREIGRVPLLTHEEEILYAKRVQ 37 >gi|26665390|dbj|BAC44906.1| principal sigma factor [Scytonema sp. IAM M-262] Length = 188 Score = 203 bits (516), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 101/188 (53%), Positives = 137/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE ++ +P D + LRE +VL SL+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DSETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|195938492|ref|ZP_03083874.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4024] Length = 279 Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 161/233 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 39 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 99 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 158 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 159 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 218 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 219 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 271 >gi|126659670|ref|ZP_01730799.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126619015|gb|EAZ89755.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 369 Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 169/238 (71%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 131 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 190 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + K++R P +E+A +L + + Sbjct: 191 IRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQL 250 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED+ P + + LR + VL+ LT Sbjct: 251 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQELQLPEELMNEGMLRYEVSAVLSDVLTQ 310 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ HTLEEVG F ++RER+RQI++KA+RKL+ P +++L+ +L Sbjct: 311 REKDVISLRYGLCTAQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRRPQVARRLKGWL 368 >gi|332711345|ref|ZP_08431277.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] gi|332349894|gb|EGJ29502.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family [Lyngbya majuscula 3L] Length = 319 Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 98/225 (43%), Positives = 154/225 (68%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++MVEANLRLV++VAKKY R L+ LDLIQEG IGL + EKFD GY+FSTYA WW Sbjct: 83 AKRKMVEANLRLVVAVAKKYIKRNLELLDLIQEGTIGLQRGVEKFDPTKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA++ TIR+P+H+ +K++K+ + R++S K+ R T E+A +L + + + Sbjct: 143 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRTATISELAIELNLTPDQL 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ + ++P+SLE +GD + L + +ED P D Q+ ++ + + LTP+ Sbjct: 203 REYFEQARQPLSLELRVGDNKDTELVELLED-TGPGPEDFVNQSLMQLDLEKFMDDLTPQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +VLR+R+G+ TL ++G+ ++RER+RQIE +AI KL+ Sbjct: 262 QRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIEREAIAKLR 306 >gi|206564209|ref|YP_002234972.1| putative RNA polymerase sigma-subunit [Burkholderia cenocepacia J2315] gi|198040249|emb|CAR56232.1| putative RNA polymerase sigma-subunit [Burkholderia cenocepacia J2315] Length = 628 Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 154/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ ++NLRLV+SVAK+Y +RGL F DLIQEGNIGLMKA +++D G+KFSTYA WW Sbjct: 391 ARTKLFQSNLRLVVSVAKRYADRGLPFADLIQEGNIGLMKAVDRYDHRRGFKFSTYATWW 450 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + ++ ++ +PV+ V Sbjct: 451 IRQAITHALADLGRTIRVPAHTVDSLNKLSRLARIHRQRTGDVADARALSPQMRLPVDKV 510 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I +EPIS + P+ + L D D +A +P ++A LR ++ SL R Sbjct: 511 RELMSIVREPISADLPVSPDHDLTLCDVTIDADAPTPEEAASAGQLRAAVAELIDSLPVR 570 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +LR+R+GI ++ +++L E+G+Q ++ ER+RQ+E A+ +++ + LRS L Sbjct: 571 EAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERIRQFRHAPALRSLL 627 Score = 58.2 bits (139), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 47/138 (34%), Positives = 70/138 (50%), Gaps = 17/138 (12%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I L RGYVT E+ LP D ++ +ML +GI D+ + G+ + Sbjct: 34 LIALGIDRGYVTHGEIADALPDDAADGADVDAAASMLRELGI------DVREHAGAHTAW 87 Query: 94 DL----------ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L AS +++S L A R T+DP+R+YLREM + LL R+ EIA+A Sbjct: 88 TLDRHFAQVTEVASPLADASTPLAADDLLAGR-TNDPIRLYLREMSATPLLERDEEIALA 146 Query: 144 KRIEAGRAMMMASLCESP 161 R+E+GRA + +L P Sbjct: 147 LRLESGRAACIDALSRDP 164 >gi|254249954|ref|ZP_04943274.1| DNA-directed RNA polymerase, sigma subunit [Burkholderia cenocepacia PC184] gi|124876455|gb|EAY66445.1| DNA-directed RNA polymerase, sigma subunit [Burkholderia cenocepacia PC184] Length = 662 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 154/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ ++NLRLV+SVAK+Y +RGL F DLIQEGNIGLMKA +++D G+KFSTYA WW Sbjct: 425 ARTKLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWW 484 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + ++ ++ +PV+ V Sbjct: 485 IRQAITHALADLGRTIRVPAHTVDTLNKLSRLARLHRQRTGDVADARALSTQMRLPVDKV 544 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I +EPIS + P+ + L D D +A +P ++A LR ++ SL R Sbjct: 545 RELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQLRAAVAELIDSLPVR 604 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +LR+R+GI ++ +++L E+G+Q ++ ER+RQ+E A+ +++ + LRS L Sbjct: 605 EAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERIRQFRHAPALRSLL 661 Score = 68.2 bits (165), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 50/154 (32%), Positives = 76/154 (49%), Gaps = 17/154 (11%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I L RGYVT E+ LP D ++ +ML +GI D+ + G+ + Sbjct: 68 LIALGIDRGYVTHGEIADALPDDATDGADVDTAASMLRELGI------DVREHTGAHTAW 121 Query: 94 DL----------ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L AS +++S L A R T+DP+R+YLREM + LL R+ EIA+A Sbjct: 122 TLDRHFAQVTEVASPLADASTPLAADDLLAGR-TNDPIRLYLREMSATPLLERDEEIALA 180 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 R+E+GRA + +L P A+ D++ G Sbjct: 181 LRLESGRAACIDALSRDPAALAAVAAIADDIRAG 214 >gi|296268951|ref|YP_003651583.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM 43833] gi|296091738|gb|ADG87690.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora bispora DSM 43833] Length = 311 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 149/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK E ++ANLRLV++VA+KY RG+ +DL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 80 AKDEFIKANLRLVVAVARKYAGRGMPLIDLVQEGNVGLVRAVEKFDYRRGYKFSTYATWW 139 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ RSI +Q +R+P H +++ +++R R + + + EP+ EE+A L MP+E V Sbjct: 140 IRQAVGRSIHEQGRPVRLPTHAGEQMTRLMRVRRDILAEQEMEPSDEELADVLDMPIERV 199 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + +P+SL+ +G+ED + LGD I D P AI +E R L L R Sbjct: 200 RELRRWASDPVSLQLGVGEEDETELGDMIADDAWADPEQQAIDTLDKERLERWLTDLDGR 259 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LR R+G+ +HTL EVG+++ + R+R R++E A+R L+ Sbjct: 260 LSEMLRWRYGLVDGKEHTLTEVGERYGIGRDRARRMERDALRHLR 304 >gi|6175927|gb|AAF05340.1|AF182105_2 RNA polymerase sigma subunit [Escherichia coli] Length = 313 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 92/224 (41%), Positives = 155/224 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL +A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLNRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRL 313 >gi|330836598|ref|YP_004411239.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta coccoides DSM 17374] gi|329748501|gb|AEC01857.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta coccoides DSM 17374] Length = 293 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 158/237 (66%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +VE+NLR V+++AKKY N+GL DLI EGNIGLM A EKFD GY F +YA+WW Sbjct: 56 ARNRLVESNLRFVVNIAKKYQNQGLPLGDLINEGNIGLMNAIEKFDVDKGYHFISYAVWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI ++I+++S T+R+P++ +++ ++ + + + N+ EPT EEI + + V Sbjct: 116 IRQAILKAISEKSRTVRLPLNRANELMQIQKAQKSLMNESGAEPTMEEIGRLTQLDPSHV 175 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ I+KE +SL+ P+ D S +GDFI+D A SP D I + L+E +VLA+L+ Sbjct: 176 ADLIAISKEMVSLDAPVFTDSGNSSVGDFIQD-GADSPDDVIIDSALKEDINKVLATLSE 234 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 +E +L RFG+ +L+E+G+ + +T+ERIRQIE KAI +L+ PSR K L + Sbjct: 235 KEMEILEFRFGLNGQHPMSLKEIGELYNLTKERIRQIEKKAIERLQQPSRIKMLVGY 291 >gi|23978298|dbj|BAC21128.1| principal sigma factor [Anabaena variabilis] gi|23978312|dbj|BAC21131.1| principal sigma factor [Nostoc linckia] gi|23978323|dbj|BAC21134.1| principal sigma factor [Anabaena variabilis] gi|23978327|dbj|BAC21135.1| principal sigma factor [Anabaenopsis circularis] gi|23978343|dbj|BAC21140.1| principal sigma factor [Chlorogloeopsis sp. PCC 6718] gi|23978354|dbj|BAC21143.1| principal sigma factor [Fischerella muscicola] gi|23978367|dbj|BAC21148.1| principal sigma factor [Chroococcidiopsis sp. PCC 7431] gi|26665388|dbj|BAC44905.1| principal sigma factor [Tolypothrix sp. IAM M-259] gi|26665392|dbj|BAC44907.1| principal sigma factor [Fischerella sp. IAM M-263] gi|26665394|dbj|BAC44908.1| principal sigma factor [Hapalosiphon sp. IAM M-264] gi|26665396|dbj|BAC44909.1| principal sigms factor [Hapalosiphon delicatulus IAM M-266] gi|26665398|dbj|BAC44910.1| principal sigma factor [Nostoc entophytum IAM M-267] Length = 188 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 101/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE +VL SL+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|23978307|dbj|BAC21130.1| principal sigma factor [Calothrix brevissima] Length = 188 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 101/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+ VH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLSVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE +VL SL+PRE VLR+R+G+G TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLGDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|91792562|ref|YP_562213.1| RNA polymerase sigma factor RpoS [Shewanella denitrificans OS217] gi|91714564|gb|ABE54490.1| RNA polymerase sigma factor RpoS [Shewanella denitrificans OS217] Length = 327 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 102/239 (42%), Positives = 159/239 (66%), Gaps = 4/239 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 84 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 141 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR+++ K+ EPT EEIA KL + Sbjct: 142 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARQLAQKLDHEPTAEEIAAKLDV 201 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 V ++LK+ ++ S++TP+G ++ L D I D ++V P D +Q +L + L Sbjct: 202 STSDVSRMLKLNEKITSVDTPLGGDNEKALLDVIADDDSVGP-DYQVQDEDLSNSIVGWL 260 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L ++ VL RFG+ TLE VG + +TRER+RQI+ +A+++LK S+ L Sbjct: 261 NELNTKQREVLARRFGLLGYEPSTLENVGAEIGLTRERVRQIQVEALKRLKDLLSSQGL 319 >gi|18073320|emb|CAC81021.1| mutant RpoS sigma factor [Escherichia coli] Length = 302 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 93/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN GL++A EKFD G++FSTYA WW Sbjct: 62 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNQGLIRAVEKFDPERGFRFSTYATWW 121 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 122 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 181 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 182 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 241 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 242 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 294 >gi|290476558|ref|YP_003469463.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus bovienii SS-2004] gi|289175896|emb|CBJ82699.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Xenorhabdus bovienii SS-2004] Length = 331 Score = 202 bits (515), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 157/225 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 91 ARQRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ EEIA+KL P++ V Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSVEEIAEKLDRPIDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++++ + S++TPI + L D + D+N P + +++++ + L L + Sbjct: 211 SRMMRLNERITSVDTPISGDSDKALLDILSDENDSGPETTIQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 271 QREVLARRFGLLGYEAETLEDVGREIGLTRERVRQIQVEGLRRLR 315 >gi|208821597|ref|ZP_03261917.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4042] gi|218690868|ref|YP_002399080.1| RNA polymerase sigma factor RpoS [Escherichia coli ED1a] gi|260856852|ref|YP_003230743.1| RNA polymerase, sigma S factor [Escherichia coli O26:H11 str. 11368] gi|208741720|gb|EDZ89402.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4042] gi|218428432|emb|CAR09358.2| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli ED1a] gi|257755501|dbj|BAI27003.1| RNA polymerase, sigma S factor [Escherichia coli O26:H11 str. 11368] gi|284922677|emb|CBG35765.1| RNA polymerase sigma factor (sigma-38) [Escherichia coli 042] Length = 330 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EE A++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEESAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|193222342|emb|CAL62001.1| Putative RNA polymerase sigma-70 factor [Herminiimonas arsenicoxydans] Length = 808 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 101/241 (41%), Positives = 161/241 (66%), Gaps = 5/241 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +M ANL+LV S A KY+ G++FLDLIQEGNIGL++A EKFD+ G+KFSTYA+WW Sbjct: 436 ARSQMAIANLKLVHSTATKYSWSGMEFLDLIQEGNIGLLRAIEKFDYRRGFKFSTYAIWW 495 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ IR+PVH+ + I++V R ++ + + + +EI+ L+MP+ V Sbjct: 496 IRQAITRAIADQTRLIRVPVHLVESINQVERHKNQVEHILGKSLKAQEISDALSMPLRKV 555 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS----AIQANLRETTTRVLAS 619 + L ++++ I E + + ++N + P + AI+ +L + R+L+ Sbjct: 556 EQCLAANVSILNIDDLIERETENQDEALVLEENLIDPSATPEQLAIKTSLSKVLNRILSD 615 Query: 620 LTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L +E +LR+RFG+ N + HTLEEVG+ +TRER+RQIEAKA+ ++++P+R K + Sbjct: 616 LPEKEAHILRLRFGLYKNVEPHTLEEVGQLLGITRERVRQIEAKALTRIRYPNRRKDIAI 675 Query: 679 F 679 F Sbjct: 676 F 676 >gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis] Length = 495 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 157/235 (66%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ NLRLVISVAK Y NRGL DLIQ G++GLM++AEKFD+ G+KFSTYA WW++Q Sbjct: 260 KIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQ 319 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +IT+++ +QS TIR+PVH+ + + ++ R + + KR+PT EE+A+ + + +R V Sbjct: 320 SITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHV 379 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + ++ P SL+ +G + + + D N+ S + ++ RVL +LT RE++ Sbjct: 380 TRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQ 439 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 V+R+R+G+ +L EVG+ F ++RER+RQIE KA+RKL+ R++ L+ +LD Sbjct: 440 VVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQHLKHYLD 494 >gi|114320976|ref|YP_742659.1| RNA polymerase, sigma 28 subunit [Alkalilimnicola ehrlichii MLHE-1] gi|114227370|gb|ABI57169.1| RNA polymerase, sigma 38 subunit, RpoS [Alkalilimnicola ehrlichii MLHE-1] Length = 342 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 156/238 (65%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ + + A+ M+E+NLRLV+ +A++Y NRGL FLDLI+EGN+GL++A EKFD Sbjct: 90 VYFSRRAQRGDAAARARMIESNLRLVVKIARRYMNRGLAFLDLIEEGNLGLIRAVEKFDP 149 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +I++ +R AR+++ ++ EP+ E Sbjct: 150 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVIKEINQYLRAARKLTQELDHEPSVE 209 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + VE VR++ + + S++ PIG + L D I D+N V P+ + ++ Sbjct: 210 EIADHMGRDVEDVRRMRGLNEGTTSVDVPIGRDADRVLLDAIPDENNVDPVSALQDGDVF 269 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L LT ++ V+ RFG+ + TLE+VG + VTRER+RQI+ A+R+L+ Sbjct: 270 GNLEAWLGELTEKQRAVVERRFGLNGHDRATLEQVGNEIGVTRERVRQIQIDALRRLR 327 >gi|86143196|ref|ZP_01061598.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] gi|85830101|gb|EAQ48561.1| putative sigma factor A [Leeuwenhoekiella blandensis MED217] Length = 288 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 100/260 (38%), Positives = 171/260 (65%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ E + +R+G+ +A + + +ANLR V+SVAK+Y N+GL+ DLI EGN+GL Sbjct: 31 ITADEEVELAQRIREGD---QVALERLTKANLRFVVSVAKQYQNQGLKLPDLINEGNVGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I ++I++ S T+R+P++ I K+ + + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQSILQAISEHSRTVRLPLNKIGTISKINKAFSYLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSHLGDFIEDKNAVSP 600 ++R P+ EEIAK+L M V V+ +K + +S++ P + E+ S+L D ++ + +P Sbjct: 148 SLERPPSAEEIAKELDMTVAKVKLAMKNSGRNLSMDAPFKEGENDSNLYDVLKSGESPNP 207 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +Q +L R L +L+PRE V+++ +G+G HTL+E+G+ F ++RER+RQI Sbjct: 208 DADLMQESLGTEIERALETLSPRESDVIKLNYGLGGEQPHTLQEIGEMFDLSRERVRQIR 267 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K IR+L+H SRSK L+++L Sbjct: 268 EKGIRRLRHTSRSKVLKTYL 287 >gi|108804647|ref|YP_644584.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765890|gb|ABG04772.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 304 Score = 202 bits (514), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 116/260 (44%), Positives = 161/260 (61%), Gaps = 17/260 (6%) Query: 433 MVRKGECEAS--------IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 + R GE E S A+++++E NLRLV+SVAKKY GL F DLIQEGNIGLMKA Sbjct: 48 LTRDGEIELSRRAKKGDRKARQKLIEKNLRLVVSVAKKYRGYGLPFEDLIQEGNIGLMKA 107 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 EKFD G++FSTYA WW++QA+ R++AD+ TIR+PVHM +KI KV RT +S +++ Sbjct: 108 VEKFDPERGFRFSTYATWWIRQAVQRAVADKGRTIRVPVHMTEKIRKVSRTFNELSLELE 167 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDS 603 REPT EEIA++L VE VR + + SL+ P+ E++ S LGDFIED+ D+ Sbjct: 168 REPTDEEIARRLEWDVEDVRLTISAMPDATSLDQPVSSEESASELGDFIEDERTSDTPDT 227 Query: 604 AIQ----ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ + L+E R L R VL R+G+ TL E+G + ++RER+RQ+ Sbjct: 228 VLKELESSQLKEAIER----LPERARYVLVRRYGLDDREPATLAELGDELKISRERVRQL 283 Query: 660 EAKAIRKLKHPSRSKKLRSF 679 + +A R LK R RS Sbjct: 284 QREAERLLKAGIRRTSPRSI 303 >gi|107025596|ref|YP_623107.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia AU 1054] gi|116693222|ref|YP_838755.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia HI2424] gi|105894970|gb|ABF78134.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia AU 1054] gi|116651222|gb|ABK11862.1| RNA polymerase, sigma 28 subunit [Burkholderia cenocepacia HI2424] Length = 628 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 154/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ ++NLRLV+SVAK+Y +RGL F DLIQEGNIGLMKA +++D G+KFSTYA WW Sbjct: 391 ARTKLFQSNLRLVVSVAKRYADRGLPFSDLIQEGNIGLMKAVDRYDHRRGFKFSTYATWW 450 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT ++AD TIR+P H D ++K+ R AR + ++ ++ +PV+ V Sbjct: 451 IRQAITHALADLGRTIRVPAHTVDTLNKLSRLARLHRQRTGDVADARALSTQMRLPVDKV 510 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I +EPIS + P+ + L D D +A +P ++A LR ++ SL R Sbjct: 511 RELMSIVREPISADLPVSPDHDLTLCDVTIDPDAPTPEEAASAGQLRAAVAELIDSLPVR 570 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +LR+R+GI ++ +++L E+G+Q ++ ER+RQ+E A+ +++ + LRS L Sbjct: 571 EAWILRLRYGIDVDNEYSLREIGRQLNLSAERVRQLEVSALERIRQFRHAPALRSLL 627 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 49/154 (31%), Positives = 74/154 (48%), Gaps = 17/154 (11%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSL 93 +I L RGYVT E+ LP D + +ML +GI D+ + G+ + Sbjct: 34 LIALGIDRGYVTHGEIADALPDDATDGADADAAASMLRELGI------DVREHTGAHTAW 87 Query: 94 DL----------ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 L AS +++S L D T+DP+R+YLREM + LL R+ EIA+A Sbjct: 88 TLDRHFAQVTEVASPLADASTPLPA-DDLLAGHTNDPIRLYLREMSATPLLERDEEIALA 146 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 R+E+GRA + +L P A+ D++ G Sbjct: 147 LRLESGRAACIDALSRDPAALAAVAALADDIRAG 180 >gi|23978319|dbj|BAC21133.1| principal sigma factor [Microcystis wesenbergii] Length = 188 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 101/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S +++R+PT EEIA K+ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|150007022|ref|YP_001301765.1| RNA polymerase sigma factor rpoD [Parabacteroides distasonis ATCC 8503] gi|154495210|ref|ZP_02034215.1| hypothetical protein PARMER_04266 [Parabacteroides merdae ATCC 43184] gi|218256952|ref|ZP_03474423.1| hypothetical protein PRABACTJOHN_00076 [Parabacteroides johnsonii DSM 18315] gi|255015941|ref|ZP_05288067.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_7] gi|256841904|ref|ZP_05547409.1| RNA polymerase sigma factor RpoS [Parabacteroides sp. D13] gi|262384222|ref|ZP_06077357.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_33B] gi|298377447|ref|ZP_06987400.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_19] gi|301308863|ref|ZP_07214815.1| RNA polymerase sigma-70 factor [Bacteroides sp. 20_3] gi|149935446|gb|ABR42143.1| RNA polymerase sigma factor rpoD [Parabacteroides distasonis ATCC 8503] gi|154085357|gb|EDN84402.1| hypothetical protein PARMER_04266 [Parabacteroides merdae ATCC 43184] gi|218225859|gb|EEC98509.1| hypothetical protein PRABACTJOHN_00076 [Parabacteroides johnsonii DSM 18315] gi|256736220|gb|EEU49549.1| RNA polymerase sigma factor RpoS [Parabacteroides sp. D13] gi|262293925|gb|EEY81858.1| RNA polymerase sigma factor rpoD [Bacteroides sp. 2_1_33B] gi|298265861|gb|EFI07521.1| RNA polymerase sigma-70 factor [Bacteroides sp. 3_1_19] gi|300833387|gb|EFK64005.1| RNA polymerase sigma-70 factor [Bacteroides sp. 20_3] Length = 286 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 176/268 (65%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +++G+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQAIKRGDRRAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + + + L D + Sbjct: 139 SKAFSKFEQENERRPSPEELADELDIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + +A S + +L + R LA+LT RE +++M FGIG + TLEE+G +F +T Sbjct: 199 VNDDAPIADRSLMNESLAKEIDRALATLTERECEIIKMFFGIGCQ-EMTLEEIGDKFGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ +RSK L+S+L Sbjct: 258 RERVRQIKEKAIRRLRQGTRSKLLKSYL 285 >gi|50955189|ref|YP_062477.1| ECF subfamily RNA polymerase sigma-70 factor [Leifsonia xyli subsp. xyli str. CTCB07] gi|50951671|gb|AAT89372.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli str. CTCB07] Length = 308 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 104/235 (44%), Positives = 152/235 (64%), Gaps = 2/235 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +EANLRLV+S+AK+Y RGL +DLIQEGN+GL++A EKFD+ G KFSTYA WW Sbjct: 75 AFERFIEANLRLVVSIAKRYAGRGLAVMDLIQEGNLGLVRAVEKFDYRTGNKFSTYATWW 134 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R IAD + IRIPVH +KI K+ R R + ++ R PT EEIA ++ V Sbjct: 135 IRQSILRGIADTARVIRIPVHTVEKIDKLDRIRRDLGGELGRTPTLEEIADAASLTPAEV 194 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA-IQANLRETTTRVLASLTP 622 K+ E +SL P+G+ + + LGD IED +A P + ++ R+ R L L Sbjct: 195 HKLQMSDSETVSLAVPVGENEGAELGDLIEDGDAPGPSERVEVEFRHRDLEER-LRELPL 253 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 R+ +V+RMRFG+ TL+EVG + +TRER+RQ+E +++++L+ P + LR Sbjct: 254 RDAKVVRMRFGLDGRKPMTLDEVGAVYGITRERVRQLETRSLKRLRSPELLEYLR 308 Score = 38.5 bits (88), Expect = 4.1, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 24/33 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T+DPVR YL +G LL+ E E+++AKRIE G Sbjct: 12 TNDPVRDYLNSIGRTWLLTAEDEVSLAKRIEVG 44 >gi|124024683|ref|YP_001018990.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123964969|gb|ABM79725.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 344 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 101/242 (41%), Positives = 158/242 (65%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 101 RHKIRMGKR-------ARDRMMSANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 153 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P Sbjct: 154 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQP 213 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + + ++ + SL+ G+ED S LG+ I D N P++ + Sbjct: 214 NRLELAHAMGIQPQDLEDLIAQSAPCASLDAHARGEEDRSTLGELIPDPNGAEPMEGLDR 273 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++LR+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 274 SIQKEHLGGWLSQLNEREQKILRLRFGLDGEEPLTLAEIGRQISVSRERVRQLEAKAILK 333 Query: 667 LK 668 L+ Sbjct: 334 LR 335 >gi|83272624|gb|ABC00797.1| RpoS [Escherichia coli] Length = 330 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I + + TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNPTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|167623164|ref|YP_001673458.1| RpoD family RNA polymerase sigma factor [Shewanella halifaxensis HAW-EB4] gi|167353186|gb|ABZ75799.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella halifaxensis HAW-EB4] Length = 321 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 99/231 (42%), Positives = 157/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 78 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 135 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA++L + Sbjct: 136 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAEQLDL 195 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 V ++LK+ + S++TP+G E L D + D + V P D +Q ++ ++ + L Sbjct: 196 SSSDVSRMLKLNERITSVDTPLGGESDKALLDVLADDDNVGP-DYKVQDEDISKSVVKWL 254 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 255 DELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 305 >gi|291278687|ref|YP_003495522.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290753389|dbj|BAI79766.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 298 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 107/286 (37%), Positives = 178/286 (62%), Gaps = 10/286 (3%) Query: 402 EVDSILKIRNEIKSISVET-GISISEFRHIVSMVRKGECEASI--------AKKEMVEAN 452 E+++I +I N++ + +E+ I ++E ++ ++ E E S AK M+ N Sbjct: 8 ELENIEEITNDVPTDDLESITIYLNEIIKYPTLSKEEEIELSKRIEQGDEEAKNLMINCN 67 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 L+LV+S+AKKY NRGLQ +DLI EGNIGL+KA EKFD+ G+KFSTYA WW++QAI R++ Sbjct: 68 LKLVVSIAKKYNNRGLQLIDLINEGNIGLIKAVEKFDYRKGFKFSTYATWWIRQAIERAL 127 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ +RIPVHM + I+KV + ++ K+KREPT E++ + M + ++K + ++ Sbjct: 128 VNQTKMVRIPVHMNENINKVKKATEKLRRKLKREPTLFELSTECNMSLLTIQKTIDAMQQ 187 Query: 573 PISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 IS++ I ++D S L D + D ++ P +Q RE + L E+ ++ R Sbjct: 188 NISIDGTINEDDNSTLHDILPDPESKADPFKKIVQEKNRELIMNWIECLNENEKELIIKR 247 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 FG+ TL+++GK+ VTRER+RQIE + + KL++ ++K ++ Sbjct: 248 FGLDGKEPETLDKIGKRLGVTRERVRQIEKRILTKLRNHLKTKNIK 293 >gi|254794681|ref|YP_003079518.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. TW14359] gi|254594081|gb|ACT73442.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O157:H7 str. TW14359] Length = 330 Score = 202 bits (514), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWPFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|269101863|ref|ZP_06154560.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268161761|gb|EEZ40257.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 333 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 95/227 (41%), Positives = 157/227 (69%), Gaps = 2/227 (0%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA W Sbjct: 89 VARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATW 148 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA +L PV+ Sbjct: 149 WIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIAIQLEKPVDD 208 Query: 563 VRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V ++L++ + S++ PI GD D + L D I D+ +P S +++ + L L Sbjct: 209 VNRMLRLNERVSSVDNPISGDADKALL-DIIPDEKGGTPEVSTQTDDIKSSIVDWLDELN 267 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 268 PKQREVLARRFGLLGYEASTLEDVGREIGLTRERVRQIQVEGLRRLR 314 >gi|255034849|ref|YP_003085470.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dyadobacter fermentans DSM 18053] gi|254947605|gb|ACT92305.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dyadobacter fermentans DSM 18053] Length = 287 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 96/238 (40%), Positives = 159/238 (66%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A + + +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+W Sbjct: 49 LALERLTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRGFKFISYAVW 108 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q+I +++A+QS +R+P++ ++K+ +T + + +REP+PEE+A+ L + Sbjct: 109 WIRQSILQALAEQSRIVRLPLNRVGSLNKISKTFSELEQRFEREPSPEELAEVLEISSSE 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +KI+ +S++ P + + L D +E+ P + +LR+ R L +LT Sbjct: 169 VVDTMKISGRHVSMDAPFVQGEENSLLDVLENDLEDKPDSGLVNESLRKEVQRALCTLTQ 228 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+ + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+H SRSK L+++L Sbjct: 229 READVIALYFGLNGEHAMTLEEIGEKFNLTRERVRQIKEKAIRRLRHVSRSKALKTYL 286 >gi|332087476|gb|EGI92604.1| RNA polymerase sigma factor RpoS [Shigella boydii 5216-82] Length = 330 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNSK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + V RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVPARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 322 >gi|150026087|ref|YP_001296913.1| RNA polymerase sigma-70 factor RpoD [Flavobacterium psychrophilum JIP02/86] gi|149772628|emb|CAL44111.1| RNA polymerase sigma-70 factor RpoD [Flavobacterium psychrophilum JIP02/86] Length = 287 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 161/237 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLTLPDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + +R P+ EEIAK+L M V V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKMYALLEQSNERPPSAEEIAKELDMTVNDV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + +P I +LR R L +LTPR Sbjct: 170 KESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPNPDRELIIESLRTEIERSLETLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E V+R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L+++L Sbjct: 230 EADVVRLYFGLADQHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYL 286 >gi|240047243|ref|YP_002960631.1| RNA polymerase sigma factor [Mycoplasma conjunctivae HRC/581] gi|239984815|emb|CAT04802.1| RNA polymerase sigma factor [Mycoplasma conjunctivae] Length = 533 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 109/256 (42%), Positives = 159/256 (62%), Gaps = 20/256 (7%) Query: 433 MVRKGECEASIAKK---EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + RK E + +K +++ NLRLVI+ AK+Y NRGL F+DLI EGN+G+MKA K+D Sbjct: 274 LARKMEIPGRVGRKARDTLIKRNLRLVINNAKRYKNRGLNFIDLISEGNLGIMKAISKYD 333 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G+KFSTYA WW++Q+ITR++ADQ+ IRIPVHM + I+K+ + R + K P+ Sbjct: 334 RTKGFKFSTYATWWIRQSITRAVADQARLIRIPVHMVETINKINKIERELQQKNGVTPSA 393 Query: 550 EEIAKKLA--MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EEIA + E VR + KI +PISL+ IG E+ S DFI+D++ +SP D A Q Sbjct: 394 EEIADVMGADFTPEKVRYIRKINIDPISLDKAIGKEEDSSFSDFIKDESVISPSDYAEQ- 452 Query: 608 NLRETTTRVLA-----SLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERI 656 E ++VL +L E+ + R+GIG + + H+ +E+ VT+ERI Sbjct: 453 ---EEKSKVLIEMIKNNLEEEEQEFIMRRYGIGNDKNGRQYRAHSYDELAADRGVTKERI 509 Query: 657 RQIEAKAIRKLKHPSR 672 RQIE+K ++KL+ P R Sbjct: 510 RQIESKILKKLRAPQR 525 >gi|78214165|ref|YP_382944.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78198624|gb|ABB36389.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 328 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 102/245 (41%), Positives = 159/245 (64%), Gaps = 8/245 (3%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A Sbjct: 82 SRHRHKIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERA 134 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ Sbjct: 135 VDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFG 194 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS 603 R+P E+A + + + ++ + SL+ G+ED S LG+ I D N P++ Sbjct: 195 RQPNRLELASAMGIEPRELEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEG 254 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +E L+ L RE+++L++RFG+G TL E+G+Q V+RER+RQ+EAKA Sbjct: 255 MDRSIQKEHLGGWLSQLNEREQKILKLRFGLGGEEPLTLAEIGRQINVSRERVRQLEAKA 314 Query: 664 IRKLK 668 I KL+ Sbjct: 315 ILKLR 319 >gi|6010736|gb|AAF01234.1|AF184103_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 330 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +T ER+RQI+ + +R+L+ +++ L Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTCERVRQIQVEGLRRLREILQTQGL 322 >gi|213418760|ref|ZP_03351826.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 162 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 96/155 (61%), Positives = 125/155 (80%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 +++ I ETG++I + + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQF Sbjct: 8 QKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQF 67 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+ Sbjct: 68 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 127 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 K+ R +R+M ++ REPTPEE+A+++ MP + +RK Sbjct: 128 KLNRISRQMLQEMGREPTPEELAERMLMPEDKIRK 162 >gi|312129690|ref|YP_003997030.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Leadbetterella byssophila DSM 17132] gi|311906236|gb|ADQ16677.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leadbetterella byssophila DSM 17132] Length = 287 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 155/233 (66%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+ Sbjct: 54 LTKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAQRFDETRGFKFISYAVWWIRQS 113 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I +++A+QS +R+P++ ++K+ +T + + +REP+PEE+A+ L + V + Sbjct: 114 ILQALAEQSRIVRLPLNRVGSLNKISKTFSELEQRFEREPSPEELAEVLEISANEVVDTM 173 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI+ +S++ P + + L D +E+ + P + +LR R L++LT RE V Sbjct: 174 KISGRHVSVDAPFVQGEENSLLDVLENDTEIRPDQELMNDSLRREVLRALSTLTQREAEV 233 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + FG+ TLEE+G++F +TRER+RQI+ KAIR+L+ SRSK L+++L Sbjct: 234 IMFYFGLNGEQAMTLEEIGEKFNLTRERVRQIKEKAIRRLRQTSRSKALKAYL 286 >gi|294141938|ref|YP_003557916.1| RNA polymerase sigma-38 factor [Shewanella violacea DSS12] gi|293328407|dbj|BAJ03138.1| RNA polymerase sigma-38 factor [Shewanella violacea DSS12] Length = 328 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 99/239 (41%), Positives = 159/239 (66%), Gaps = 2/239 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 75 VYFSRKSLKGCGKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 134 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT E Sbjct: 135 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAE 194 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 EIA KL +P V ++LK+ + S++TP+G ++ L D + ++V P D +Q ++ Sbjct: 195 EIAAKLDLPSSDVSRMLKLNERITSVDTPLGGDNDKALLDVLAADDSVGP-DYKVQDEDM 253 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L L ++ VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 254 SKSVVKWLDELNTKQREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 312 >gi|268315720|ref|YP_003289439.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodothermus marinus DSM 4252] gi|262333254|gb|ACY47051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodothermus marinus DSM 4252] Length = 279 Score = 202 bits (513), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 98/244 (40%), Positives = 166/244 (68%), Gaps = 3/244 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA ++ ANLR V+SVAKKY +GL DLI EGN GL+KAA++FD G Sbjct: 35 IKQGDEEAL---HKLTRANLRFVVSVAKKYQGQGLSLADLINEGNYGLIKAAQRFDETRG 91 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++QAI +++A+QS +R+P++ I K+ + + R++ + +R P+ EE+A Sbjct: 92 FKFISYAVWWIRQAILQALAEQSRVVRLPLNRIGTISKIRKVSARLAQEHERAPSAEELA 151 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L + VE +R+ L+ T +S++ P D+D + L D + ++ SP + ++ +L+ Sbjct: 152 EELNIDVEKIREALQHTGRALSMDAPFTDDDDNSLLDVLPNEEDTSPDEGLMEESLKIDI 211 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L++L PRE ++R+ FGIG TLEE+G++F +TRER+RQI+ KA+RKL+ R Sbjct: 212 ERALSTLHPREAEIIRLYFGIGREHPLTLEEIGQRFGLTRERVRQIKEKALRKLRQKHRR 271 Query: 674 KKLR 677 ++L+ Sbjct: 272 EELQ 275 >gi|81299483|ref|YP_399691.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942] gi|123557285|sp|Q31QG5|RPOD3_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD3 gi|81168364|gb|ABB56704.1| group2 RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942] Length = 320 Score = 201 bits (512), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 101/249 (40%), Positives = 161/249 (64%), Gaps = 8/249 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+SI E R + GE AK++M+EANLRLV+SVAKKY R + LDLIQEG IG Sbjct: 69 GLSIEELRQQQHL---GEQ----AKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIG 121 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 + + EKFD GY+FSTYA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S Sbjct: 122 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLS 181 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ R T E+A L + VR L+ + P+SL+ +GD + LGD +E + +P Sbjct: 182 QQLGRTATLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLE-TDCTTP 240 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + +QA++R R+L LT ++ +V+ +R+G+ TL +G + ++RER+RQ+E Sbjct: 241 EEFTLQASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLE 300 Query: 661 AKAIRKLKH 669 +A+ L+ Sbjct: 301 REALHTLRQ 309 >gi|271963319|ref|YP_003337515.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] gi|270506494|gb|ACZ84772.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM 43021] Length = 312 Score = 201 bits (512), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 151/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK E ++ANLRLV++VA+KY+ RG+ +DL+QEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 82 AKDEFIQANLRLVVAVARKYSGRGMPLIDLVQEGNLGLVRAVEKFDYRRGYKFSTYATWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++ R+I +Q+ +R+P H +++ +++R R M + +EPT ++A L +P+E V Sbjct: 142 IRQSVGRAIHEQARPVRLPTHAGEQMTRLMRVRRDMLAEFDQEPTDADLAAVLELPIERV 201 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++ + +P+SL+ +GDED + LGD I D+ P A+ RE + L L + Sbjct: 202 RELRRWASDPVSLQLGVGDEDETELGDMIADETWADPEQQAMDILERERLEQWLTGLEGQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LR R+G+ +HTL EVG+++ + R+R R+IE A+ +L+ Sbjct: 262 TREMLRWRYGLMDGREHTLTEVGERYGIGRDRARRIERDALARLR 306 >gi|23978331|dbj|BAC21136.1| principal sigma factor [Synechococcus leopoliensis] Length = 188 Score = 201 bits (512), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 100/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE VL++L+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQLFNVT 188 >gi|23978358|dbj|BAC21144.1| principal sigma factor [Nodularia sp. PCC 73104] Length = 188 Score = 201 bits (512), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 100/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GY+FSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYRFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE +VL SL+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|312964996|ref|ZP_07779236.1| RNA polymerase sigma factor RpoS [Escherichia coli 2362-75] gi|312290552|gb|EFR18432.1| RNA polymerase sigma factor RpoS [Escherichia coli 2362-75] Length = 237 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 93/229 (40%), Positives = 158/229 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 181 LARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 229 >gi|312134852|ref|YP_004002190.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Caldicellulosiruptor owensensis OL] gi|311774903|gb|ADQ04390.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Caldicellulosiruptor owensensis OL] Length = 273 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 152/226 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++ AN RLV ++AK+Y GL + DL+QEG IGLM A K+D+ GY+F+TYA WW Sbjct: 37 AKEKLFRANKRLVANIAKRYRGFGLDYEDLMQEGFIGLMNAVNKYDYRQGYRFATYATWW 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAIT++I + IR+P+H+ +++ K+ + R++ + REPT EIAK++ + V Sbjct: 97 IRQAITKAIYNTGRNIRVPIHLHEQMFKIRKVYRKLLQENNREPTIREIAKEMNWSTKKV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +K+L + E +SL+TPIG++ + +GDF+ D A S ++ + L E T+ L+ + Sbjct: 157 QKMLDLFNEIVSLDTPIGEDGLATIGDFMIDDKAFSYFENVEKQLLVEQLTKYFDKLSEK 216 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E+RV+ +R+G+ TLEEVG +TRERIRQIE KA+RK+++ Sbjct: 217 EKRVIVLRYGLADGKGRTLEEVGNALNLTRERIRQIEIKALRKIRY 262 >gi|260436326|ref|ZP_05790296.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] gi|260414200|gb|EEX07496.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] Length = 308 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 102/245 (41%), Positives = 159/245 (64%), Gaps = 8/245 (3%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A Sbjct: 62 SRHRHKIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERA 114 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ Sbjct: 115 VDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFG 174 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS 603 R+P E+A + + + ++ + SL+ G+ED S LG+ I D N P++ Sbjct: 175 RQPNRLELASAMGIEPRELEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEG 234 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ +E L+ L RE+++L++RFG+G TL E+G+Q V+RER+RQ+EAKA Sbjct: 235 MDRSIQKEHLGGWLSQLNEREQKILKLRFGLGGEEPLTLAEIGRQINVSRERVRQLEAKA 294 Query: 664 IRKLK 668 I KL+ Sbjct: 295 ILKLR 299 >gi|78185860|ref|YP_378294.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78170154|gb|ABB27251.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] Length = 328 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 99/226 (43%), Positives = 152/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 94 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P E+A + + + Sbjct: 154 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQPNRLELASAMGIEPREL 213 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ ++ +E L+ L Sbjct: 214 EDLITQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEGMDRSIQKEHLGGWLSQLNE 273 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++LR+RFG+G TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 274 REQKILRLRFGLGGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 319 >gi|325857152|ref|ZP_08172442.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola CRIS 18C-A] gi|325483215|gb|EGC86193.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola CRIS 18C-A] Length = 327 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 171/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +RKG+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 62 LQEIGHEEMISIEEEVELAQRIRKGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 118 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 119 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 178 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ EIA+ +P E + +K++ +S++ P D+D S L D I Sbjct: 179 NKILNQFEQENERRPSIGEIAQSTDIPEEKIADAIKVSSRHVSVDAPFYDDDQSSLLDVI 238 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + N S ++ +LRE RVL L RE++V+ FGI + TLEE+G ++ +T Sbjct: 239 PNDNVPSTDRGLVEESLREEIGRVLQVLEDREKKVVEAYFGINQR-EMTLEEIGSKYNLT 297 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ + SK L+++L Sbjct: 298 RERVRQIKEKAIRRLRQQTNSKVLKAYL 325 >gi|87123382|ref|ZP_01079233.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86169102|gb|EAQ70358.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 293 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 102/242 (42%), Positives = 158/242 (65%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 50 RHQIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 102 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P Sbjct: 103 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQP 162 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + + ++ + SL+ G+ED S LG+ I D N P++ + Sbjct: 163 NRLELAHAMGIEPKDLEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGAEPMEGMDR 222 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E LA L RE+++LR+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 223 SIQKEHLGGWLAQLNDREQKILRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILK 282 Query: 667 LK 668 L+ Sbjct: 283 LR 284 >gi|327313374|ref|YP_004328811.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola F0289] gi|326944913|gb|AEA20798.1| putative RNA polymerase sigma factor RpoD [Prevotella denticola F0289] Length = 327 Score = 201 bits (512), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 171/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +RKG+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 62 LQEIGHEEMISIEEEVELAQRIRKGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 118 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 119 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 178 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ EIA+ +P E + +K++ +S++ P D+D S L D I Sbjct: 179 NKILNQFEQENERRPSIGEIAQSTDIPEEKIADAIKVSSRHVSVDAPFYDDDQSSLLDVI 238 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + N S ++ +LRE RVL L RE++V+ FGI + TLEE+G ++ +T Sbjct: 239 PNDNVPSTDRGLVEESLREEIGRVLQVLEDREKKVVEAYFGINQR-EMTLEEIGSKYNLT 297 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ + SK L+++L Sbjct: 298 RERVRQIKEKAIRRLRQQTNSKVLKAYL 325 >gi|332880149|ref|ZP_08447831.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332681908|gb|EGJ54823.1| putative RNA polymerase sigma factor RpoD [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 286 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 105/271 (38%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ + + +L R L++L+ RE+ +++M FGI + + TLEE+G +F Sbjct: 199 VNDD---SPMADRTLVNESLSREIDRALSTLSEREKEIIQMFFGIN-HQEMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ ++SK L+S+L Sbjct: 255 NLTRERVRQIKEKAIRRLRQNTKSKLLKSYL 285 >gi|119774181|ref|YP_926921.1| RNA polymerase sigma-38 factor [Shewanella amazonensis SB2B] gi|119766681|gb|ABL99251.1| RNA polymerase sigma-38 factor [Shewanella amazonensis SB2B] Length = 327 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 97/231 (41%), Positives = 157/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 84 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 141 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA KL + Sbjct: 142 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAAKLNL 201 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 P V ++LK+ ++ S++ P+G ++ L D + D ++V P D +Q ++ + L Sbjct: 202 PSVEVSRMLKLNEKITSVDVPLGGDNDKALLDVLPDDDSVGP-DYKVQDEDISNSVVNWL 260 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 261 NELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 311 >gi|41853|emb|CAA34435.1| katF [Escherichia coli K-12] Length = 362 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAVEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 334 >gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis] Length = 592 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 97/235 (41%), Positives = 157/235 (66%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ NLRLVISVAK Y NRGL DLIQ G++GLM++AEKFD+ G+KFSTYA WW++Q Sbjct: 357 KIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQ 416 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +IT+++ +QS TIR+PVH+ + + ++ R + + KR+PT EE+A+ + + +R V Sbjct: 417 SITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHV 476 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + ++ P SL+ +G + + + D N+ S + ++ RVL +LT RE++ Sbjct: 477 TRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQ 536 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 V+R+R+G+ +L EVG+ F ++RER+RQIE KA+RKL+ R++ L+ +LD Sbjct: 537 VVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQHLKHYLD 591 >gi|116071837|ref|ZP_01469105.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|116065460|gb|EAU71218.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 284 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 99/226 (43%), Positives = 152/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 50 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P E+A + + + Sbjct: 110 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQPNRLELASAMGIEPREL 169 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ ++ +E L+ L Sbjct: 170 EDLITQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEGMDRSIQKEHLGGWLSQLNE 229 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++LR+RFG+G TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 230 REQKILRLRFGLGGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 275 >gi|56750866|ref|YP_171567.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 6301] gi|56685825|dbj|BAD79047.1| group2 RNA polymerase sigma factor RpoD3 [Synechococcus elongatus PCC 6301] Length = 326 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 101/249 (40%), Positives = 161/249 (64%), Gaps = 8/249 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+SI E R + GE AK++M+EANLRLV+SVAKKY R + LDLIQEG IG Sbjct: 75 GLSIEELRQQQHL---GEQ----AKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIG 127 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 + + EKFD GY+FSTYA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S Sbjct: 128 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLS 187 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ R T E+A L + VR L+ + P+SL+ +GD + LGD +E + +P Sbjct: 188 QQLGRTATLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLE-TDCTTP 246 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + +QA++R R+L LT ++ +V+ +R+G+ TL +G + ++RER+RQ+E Sbjct: 247 EEFTLQASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLE 306 Query: 661 AKAIRKLKH 669 +A+ L+ Sbjct: 307 REALHTLRQ 315 >gi|256376033|ref|YP_003099693.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] gi|255920336|gb|ACU35847.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema mirum DSM 43827] Length = 320 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 100/236 (42%), Positives = 160/236 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+ ANLRLV+SVAKK++ RGL LD++QEGN+GL++A EKFD+ GYKFSTYA+WW Sbjct: 83 AKDHMIRANLRLVVSVAKKHSFRGLPLLDVVQEGNLGLIRAVEKFDYSKGYKFSTYAIWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R +A+Q+ T+R+PVH+ +++ K+ + R++ ++ REPT EE+A + V Sbjct: 143 IRQAIERGLAEQTRTVRLPVHVVEELSKIKKAERKLRAELDREPTVEELAGATGLRAPRV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + ISLETP+GDE ++ + D IED +A S D+ QA ++ +L R Sbjct: 203 AELRDAGRATISLETPVGDEGSASVADLIEDADAASAYDAVEQAAFSSELRALVETLPAR 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 + ++ R+G+ HTL+EV ++ +TRERIRQ+E +++R L+ P ++ L ++ Sbjct: 263 QALIVSRRYGLTDGRVHTLQEVAEELGLTRERIRQLEKESLRFLRDPQHNRGLLAW 318 >gi|14970557|emb|CAC44359.1| RpoS protein [Erwinia chrysanthemi] Length = 332 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 92/227 (40%), Positives = 156/227 (68%), Gaps = 2/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAERLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ ++++ + L L + Sbjct: 210 NRMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEDTTQDNDMKQNIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK--AIRKLK 668 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVQVEGLRRLR 316 >gi|330995823|ref|ZP_08319720.1| putative RNA polymerase sigma factor RpoD [Paraprevotella xylaniphila YIT 11841] gi|329574553|gb|EGG56118.1| putative RNA polymerase sigma factor RpoD [Paraprevotella xylaniphila YIT 11841] Length = 286 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 105/271 (38%), Positives = 178/271 (65%), Gaps = 10/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +RKG+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRKGD---RVALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP-IGDEDTSHLGDF 591 + + + +R P+PEE+A +L +PV+ + LK++ IS++ P + ED S L Sbjct: 139 SKAFSKFEQENERRPSPEELADELEIPVDKISDTLKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 592 IEDKNAVSPLD--SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D SP+ + + +L R L++L+ RE+ +++M FGI + + TLEE+G +F Sbjct: 199 VNDD---SPMADRTLVNESLAREIDRALSTLSEREKEIIQMFFGIN-HQEMTLEEIGDKF 254 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KAIR+L+ ++SK L+S+L Sbjct: 255 NLTRERVRQIKEKAIRRLRQNTKSKLLKSYL 285 >gi|325269188|ref|ZP_08135807.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|324988417|gb|EGC20381.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] Length = 287 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 107/268 (39%), Positives = 170/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +RKG+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEEMISIEEEVELAQRIRKGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + R + +R P+ +EIA+ +P + + +K +S++ P D++ S L D I Sbjct: 139 NKILNRFEQENERRPSIDEIAQSTDLPEDKIADAMKANSRHVSVDAPFYDDEQSSLLDVI 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + NA S ++ +LRE RVL L RE+ V+ FGI + TLEE+G ++ +T Sbjct: 199 PNDNAPSTDRGLVEESLREEIGRVLQILEDREKMVVEAYFGINQR-EMTLEEIGSKYNLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ + SK L+++L Sbjct: 258 RERVRQIKEKAIRRLRQQTNSKVLKAYL 285 >gi|313206169|ref|YP_004045346.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Riemerella anatipestifer DSM 15868] gi|312445485|gb|ADQ81840.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Riemerella anatipestifer DSM 15868] gi|315023147|gb|EFT36160.1| RNA polymerase sigma factor RpoD [Riemerella anatipestifer RA-YM] gi|325336386|gb|ADZ12660.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Riemerella anatipestifer RA-GD] Length = 288 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 98/250 (39%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K +A +++++ANLR V+SV+K+Y N+GL DLI EGN+GLMKAA+++D Sbjct: 37 VELAQKIRAGDKVALEKLIKANLRFVVSVSKQYQNQGLSLPDLINEGNLGLMKAAKRYDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + + +R P+PE Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKAYAHLEQENERPPSPE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+ L M E +++ +K + +S++ P+ + + S+L D + + SP + +L+ Sbjct: 157 ELAEVLDMSEEDIKESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPSPDKELMLESLQ 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE ++R+ FG+ TLEE+G+ F +TRER+RQI+ KAI++LKH Sbjct: 217 IEIERALQTLTPREADLVRLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLKHN 276 Query: 671 SRSKKLRSFL 680 SRSK L+S+L Sbjct: 277 SRSKILKSYL 286 >gi|254786794|ref|YP_003074223.1| RNA polymerase sigma factor RpoS [Teredinibacter turnerae T7901] gi|237685659|gb|ACR12923.1| RNA polymerase sigma factor RpoS [Teredinibacter turnerae T7901] Length = 337 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 152/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 96 ARKRMIESNLRLVVKISRRYVNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EP+ EEIA+ L PVE V Sbjct: 156 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPSAEEIAELLEKPVEDV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L + + S++ PIG + D + D+ P++ ++L + L L+ + Sbjct: 216 ERMLALNERVTSMDAPIGPASEKTVVDTVPDQQVSDPVELLEDSDLSTSLNSWLDELSEK 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 276 QREVVARRFGLRGHETSTLEEVGREIGLTRERVRQIQVEALRRLR 320 >gi|75812337|ref|YP_319956.1| sigma-28 [Anabaena variabilis ATCC 29413] gi|75705093|gb|ABA24767.1| Sigma-28 [Anabaena variabilis ATCC 29413] Length = 316 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 100/237 (42%), Positives = 155/237 (65%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ ANLRLV+S+AKKY R L+FLDL+QEG IGL + EKFD GYK STYA WW Sbjct: 81 AKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKFDPNRGYKLSTYAYWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V QAITR+IA++S T+R+P+H+ +K++++ + R + R P+ EIA+KL + + Sbjct: 141 VTQAITRAIAEKSRTVRLPIHVNEKLNQIKKVQREFFQTLGRRPSVAEIAQKLELEPSQI 200 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ LK+ ISL+ +GD + L + + + VSP ++ LR+ + +LASL P Sbjct: 201 REYLKVASGTISLDLKVGDNQETELSELLASE-GVSPNENTTHEMLRQDLSDLLASLKPM 259 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK--HPSRSKKLRS 678 + VL +RFG+ N + +L ++ ++ ++RER+RQI+ KA+ L+ PS + L S Sbjct: 260 QREVLILRFGLLDNQEQSLAQISEKLNLSRERVRQIQQKAMTALRRQQPSIGQYLTS 316 >gi|23978363|dbj|BAC21146.1| principal sigma factor [Pleurocapsa sp. PCC 7327] Length = 188 Score = 201 bits (511), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 100/188 (53%), Positives = 136/188 (72%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S +++R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|163749990|ref|ZP_02157234.1| RNA polymerase sigma-38 factor [Shewanella benthica KT99] gi|161330264|gb|EDQ01245.1| RNA polymerase sigma-38 factor [Shewanella benthica KT99] Length = 323 Score = 201 bits (511), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 94/225 (41%), Positives = 152/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 SRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EPT EEIA KL +P V Sbjct: 143 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAAKLDLPCSDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+ + S++TP+G ++ L D + + V P ++ ++ + L L + Sbjct: 203 SRMLKLNERITSVDTPLGGDNDKALLDVLAADDNVGPDYKVQNEDMSKSVVKWLDELNTK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE VGK+ +TRER+RQI+ +A+++LK Sbjct: 263 QREVLARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLK 307 >gi|170077819|ref|YP_001734457.1| sigma-70 factor [Synechococcus sp. PCC 7002] gi|169885488|gb|ACA99201.1| sigma-70 factor [Synechococcus sp. PCC 7002] Length = 328 Score = 201 bits (511), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 99/237 (41%), Positives = 164/237 (69%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++AKKY R L+FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNLEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ +T R+++ + R T EIA+ L + + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRQLAQDLGRAATIAEIAEALELEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ ++++ PISL+ +GD + L D +ED + SP ++ L++ ++A LTP+ Sbjct: 212 REYFRVSRHPISLDVRVGDNQDTELMDLLED-SGESPDNNVTYELLKQDLRDLIADLTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++ V+ +RFG+ + +L ++GK+ ++RER+RQ+E +A+ L+ R ++R +L Sbjct: 271 QQEVIILRFGLNDGKELSLAKIGKRMNLSRERVRQLERQALNHLRR--RRSQIREYL 325 >gi|192358973|ref|YP_001982681.1| RNA polymerase sigma factor RpoS [Cellvibrio japonicus Ueda107] gi|190685138|gb|ACE82816.1| RNA polymerase sigma factor RpoS [Cellvibrio japonicus Ueda107] Length = 335 Score = 201 bits (511), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 99/238 (41%), Positives = 149/238 (62%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 82 VFFARKALKGDEAARKRMIESNLRLVVKISRRYVNRGLALLDLIEEGNLGLIRAVEKFDP 141 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EPTPE Sbjct: 142 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPTPE 201 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V +L + + S++ PIG + D I D + P ++L Sbjct: 202 EIANLLEKPVADVEHMLSLNERVTSIDAPIGASSDRTVADTIADTHVSDPAALLQDSDLT 261 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L LT ++ VL RFG+ TLEEVG + +TRER+RQI+ +A+++L+ Sbjct: 262 ASLDHWLEELTEKQREVLARRFGLRGYEVSTLEEVGHEIGLTRERVRQIQVEALKRLR 319 >gi|213029652|ref|ZP_03344099.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 322 Score = 201 bits (511), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 91/224 (40%), Positives = 155/224 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R + Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRAV 313 >gi|117617733|ref|YP_855373.1| RNA polymerase sigma factor RpoS [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559140|gb|ABK36088.1| RNA polymerase sigma factor RpoS [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 327 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 153/225 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKIARRYNNRGLVLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+++ EPT E+IA L V+ V Sbjct: 146 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELSHRLDHEPTAEDIAFALDRSVDDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+ ++ S++TPIG + L D + D+ + P + ++R + L L P+ Sbjct: 206 NRMLKLNEKITSVDTPIGGDRDKALLDVLSDERGMGPELESQDDDMRASIVHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG + +TRER+RQI+ + +R+L+ Sbjct: 266 QREVLARRFGLLGYEPATLEDVGAEIGLTRERVRQIQVEGLRRLR 310 >gi|33241312|ref|NP_876254.1| DNA-directed RNA polymerase sigma subunit [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238842|gb|AAQ00907.1| DNA-directed RNA polymerase sigma subunit [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 339 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 102/242 (42%), Positives = 160/242 (66%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 96 RHQIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 148 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S+ + R+P Sbjct: 149 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHNLGRQP 208 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A +L M + + ++ + SL++ G+ED S LG+ I D N P++ + Sbjct: 209 NRVELANELGMEPKDLEDLMAQSAPCASLDSHARGEEDRSTLGELIPDPNYDEPMECMDR 268 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +E + L+ L RE++++R+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 269 NMQKEHLSGWLSQLNEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILK 328 Query: 667 LK 668 L+ Sbjct: 329 LR 330 >gi|304312494|ref|YP_003812092.1| RNA sigma factor RpoS [gamma proteobacterium HdN1] gi|301798227|emb|CBL46449.1| RNA sigma factor RpoS [gamma proteobacterium HdN1] Length = 342 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 94/225 (41%), Positives = 152/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 ARKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPTPEEI+ L P+E V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPTPEEISALLDKPLEDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L + + S+++P+G + L D I D P + A+L+ + L L + Sbjct: 222 KRMLGLNERISSVDSPVGFDSDKSLLDTIADTKNTDPAELLQDADLKNSIDYWLDQLPGK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 282 QREVIARRFGLRGFEMSTLEEVGREIGLTRERVRQIQVEALKRLR 326 Score = 37.7 bits (86), Expect = 7.3, Method: Compositional matrix adjust. Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 3/88 (3%) Query: 94 DLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMM 153 D AS S++ F +R++ T D ++YL E+G LL+ E E+ A+R G A Sbjct: 45 DFASDESDAETF--RRQEGGITKTLDATQIYLNEIGFSPLLTPEEEVYYARRALRGNADA 102 Query: 154 MASLCESPLTFQALIIWRDELNDGTTLL 181 + ES L + I R +N G +LL Sbjct: 103 RKRMIESNLRL-VVKIARRYVNRGLSLL 129 >gi|309786170|ref|ZP_07680798.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1617] gi|308925915|gb|EFP71394.1| RNA polymerase sigma factor RpoS [Shigella dysenteriae 1617] Length = 237 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 93/229 (40%), Positives = 158/229 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 181 LARRFGLLGYEAATLEDVGREIDLTRERVRQIQVEGLRRLREILQTQGL 229 >gi|281357254|ref|ZP_06243743.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] gi|281316285|gb|EFB00310.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] Length = 428 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 105/239 (43%), Positives = 155/239 (64%), Gaps = 5/239 (2%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++M+EANLRLVIS+A+KY NRGL F DLIQEGN+GL++A EKFD+ LG KFSTYA WW+ Sbjct: 187 RQKMIEANLRLVISIAQKYRNRGLPFNDLIQEGNLGLLRALEKFDFRLGNKFSTYASWWI 246 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 K I+RSIA+QS IRIP HM I+ + +R REP +E+A L MPV + Sbjct: 247 KHNISRSIAEQSRVIRIPAHMVHAINSMTWAEQRFIQSHGREPEIDELAAVLEMPVARIS 306 Query: 565 KVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + K++ + ISL+ P+ ED + L D I D + +P+ + L + +L +L R Sbjct: 307 AIRKMSCQTISLQAPVSSSEDGAMLEDLIADDSTANPVRDFARKILYDKLYEMLRTLPER 366 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +++++ +RFG+ L ++ ++F +TRERIRQ+EAK I L+ P++ K +LDG Sbjct: 367 DQQIIILRFGLFGQPCLPLVDISRRFNLTRERIRQLEAKIIENLRSPAKLK----YLDG 421 >gi|17233195|ref|NP_490285.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] gi|17135717|dbj|BAB78263.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] Length = 316 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 102/237 (43%), Positives = 155/237 (65%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ ANLRLV+S+AKKY R L+FLDL+QEG IGL + EKFD GYK STYA WW Sbjct: 81 AKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKFDPNRGYKLSTYAYWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V QAITR+IA++S T+R+P+H+ +K++++ + R + R T EIA+KL + + Sbjct: 141 VTQAITRAIAEKSRTVRLPIHVNEKLNQIKKVQREFFQTLGRRATVAEIAQKLELEPSQI 200 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ LK+ ISL+ IGD + L + + + VSP ++ LR+ + +LASL P Sbjct: 201 REYLKVASGTISLDLKIGDNKETELSELLASE-GVSPDENITHEMLRQDLSDLLASLKPM 259 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK--HPSRSKKLRS 678 + VL +RFG+ N + +L ++G++ ++RER+RQI+ KA+ L+ PS + L S Sbjct: 260 QREVLILRFGLLDNQEQSLAQIGEKLNLSRERVRQIQQKAMTALRRQQPSIGQYLTS 316 >gi|260591639|ref|ZP_05857097.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] gi|260536439|gb|EEX19056.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] Length = 287 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 108/268 (40%), Positives = 169/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +RKG+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEEMISIEEEVELAQQIRKGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLSD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 79 LINEGNFGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ +EIA+ +P E + + KI IS++ P D+D S L D I Sbjct: 139 NKVLNKFEQENERRPSIDEIAQDTDIPEEKIIEAFKINTHHISVDAPFHDDDESSLLDVI 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + S S ++ +LR RVL L RE++V+ FGI + TLEE+G ++ +T Sbjct: 199 PNDAIPSTDKSLVEESLRAEIGRVLDILEDREKKVIEAYFGINQR-EMTLEEIGSKYGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ + SK L+++L Sbjct: 258 RERVRQIKEKAIRRLRQQTNSKILKAYL 285 >gi|254255220|ref|ZP_04948536.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124900957|gb|EAY71707.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 241 Score = 201 bits (510), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 96/237 (40%), Positives = 147/237 (62%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA E++D+ G++FSTYA WW Sbjct: 4 ARIALFDANLRLVVSIAKRYRDRGLPFADLIQEGNIGLLKAIERYDYRRGFRFSTYATWW 63 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++T ++AD TIR+P H D ++K+ R AR + TP ++A + PV+ V Sbjct: 64 IRQSVTHALADLGRTIRVPTHTVDALNKLARLAREHRQRAGSAATPAQLAAHIGEPVDKV 123 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R +L I KEP+S + P+ + D D SP D+A LR T + L R Sbjct: 124 RDLLAIVKEPVSADLPVSPDGDLTFIDVAPDTATPSPEDAADATQLRRTIAAAIERLPQR 183 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL++R+G+ + +L ++G+Q ++ ER+RQIEA A+ +L+ LR F+ Sbjct: 184 EAMVLKLRYGLHADEGCSLRDIGRQLNLSAERVRQIEASALARLRASDALAVLRPFI 240 >gi|45128597|gb|AAS55059.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 201 bits (510), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 121/278 (43%), Positives = 165/278 (59%), Gaps = 13/278 (4%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N + S K V E ++ + L ++ LV +L Sbjct: 218 EKFNQLRSTYQNLQLAINEYGYD--SPKATVANEMMLDVFKEFRLTPKQLXHLVXELRTA 275 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A P E E Sbjct: 276 MDRVRTQERLIMKSVVEYGKMPKKSFIALFTGXESSDAWLXEILASXXPYAEKIKRXEEE 335 Query: 403 VD-SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 + SI K+ I ET +++ + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 336 IRRSIAKL----XMIEEETSLNVQNIKDISRRMSIGEAKAXRAKKEMVEANLRLVISIAK 391 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 392 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 451 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 PVHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 452 PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMP 489 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 2 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 61 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 62 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 120 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 121 INQVQSSVAEYPGTIPYIL 139 >gi|298208827|ref|YP_003717006.1| putative sigma factor A [Croceibacter atlanticus HTCC2559] gi|83848754|gb|EAP86623.1| putative sigma factor A [Croceibacter atlanticus HTCC2559] Length = 288 Score = 201 bits (510), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 103/273 (37%), Positives = 177/273 (64%), Gaps = 4/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 + N ++ +S I+ E + +R+G+ IA +++ +ANLR V+SVAK+Y N+GL Sbjct: 18 LNNYLQDVSKLDLITAEEEVELAQRIREGD---QIALEKLTKANLRFVVSVAKQYQNQGL 74 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 + DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+ S +R+P++ Sbjct: 75 RLPDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQALAEHSRVVRLPLNKIGV 134 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSH 587 I+K+ +T + +R P+ EIAK+L MPV V+ +K + +S++ P + E+ S+ Sbjct: 135 INKINKTFSYLEQAYERPPSAAEIAKELDMPVSKVKTAMKNSGRSLSMDAPFQEGENDSN 194 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D ++ + SP ++ +Q +L R L +LT RE V+R+ +G+G TL+E+G+ Sbjct: 195 LYDVLKSGESPSPDNNLMQDSLSVEIERALDTLTEREADVIRLNYGLGGQQPLTLQEIGE 254 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F ++RER+RQI K IR+L+H S+SK L+ +L Sbjct: 255 TFDLSRERVRQIREKGIRRLRHESKSKILKKYL 287 >gi|1396060|dbj|BAA13043.1| part of principal sigma factor homolog [Synechocystis sp.] Length = 186 Score = 201 bits (510), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 100/187 (53%), Positives = 136/187 (72%), Gaps = 1/187 (0%) Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH+ Sbjct: 1 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 60 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 + I ++ +T + +S +++R+PT EEIA+K+ M +E +R + K + PISLETPIG E+ Sbjct: 61 YETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKLRFIAKSAQLPISLETPIGKEED 120 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLEE+ Sbjct: 121 SRLGDFIE-ADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEI 179 Query: 646 GKQFCVT 652 G+ F VT Sbjct: 180 GQIFNVT 186 >gi|152985831|ref|YP_001346901.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PA7] gi|150960989|gb|ABR83014.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PA7] Length = 344 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 93 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 149 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+ Sbjct: 150 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPS 209 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 210 PEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 269 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ + L+ LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 270 LSESIDQWLSELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 329 >gi|33864510|ref|NP_896070.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33641290|emb|CAE22420.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 344 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 100/242 (41%), Positives = 158/242 (65%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 101 RHKIRMGKR-------ARDRMMSANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 153 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P Sbjct: 154 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQP 213 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + + ++ + SL+ G+ED S LG+ I D + P++ + Sbjct: 214 NRLELAHAMGIQPQDLEDLIAQSAPCASLDAHARGEEDRSTLGELIPDPDGAEPMEGLDR 273 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++LR+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 274 SIQKEHLGGWLSQLNEREQKILRLRFGLDGEEPLTLAEIGRQISVSRERVRQLEAKAILK 333 Query: 667 LK 668 L+ Sbjct: 334 LR 335 >gi|23978347|dbj|BAC21141.1| principal sigma factor [Oscillatoria sp. PCC 7112] Length = 188 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 100/188 (53%), Positives = 135/188 (71%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|332666643|ref|YP_004449431.1| RpoD subfamily RNA polymerase sigma-70 subunit [Haliscomenobacter hydrossis DSM 1100] gi|332335457|gb|AEE52558.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliscomenobacter hydrossis DSM 1100] Length = 289 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 96/241 (39%), Positives = 163/241 (67%), Gaps = 3/241 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALEKLTKANLRFVVSVAKQYQNQGLSLSDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ ++K+ + + + +REP+PEE+A+ L +P E V Sbjct: 110 IRQSILQALAEQSRIVRLPLNKVGSLNKINKAFSELEQEFEREPSPEELAEMLEIPTEEV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLT 621 L + +S++ P + + + L D +E+ N D+ + N LR R L++LT Sbjct: 170 ETTLGVAARHVSMDAPFVEGEDNSLLDVLEN-NTTPSTDAGLDYNESLRREIERSLSTLT 228 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 R+ V+++ FGIG+ +LE++G++F +TRER+RQI+ KAI KL+ +RSK L+++L Sbjct: 229 DRQCDVIKLYFGIGVEHPMSLEDIGEKFGLTRERVRQIKDKAINKLRSANRSKLLKNYLG 288 Query: 682 G 682 G Sbjct: 289 G 289 >gi|300871837|ref|YP_003786710.1| RNA polymerase sigma factor RpoD [Brachyspira pilosicoli 95/1000] gi|300689538|gb|ADK32209.1| RNA polymerase sigma factor, RpoD [Brachyspira pilosicoli 95/1000] Length = 314 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 95/234 (40%), Positives = 159/234 (67%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V++NLRLVIS+AK+Y N G+ F+D+I EGNIGL++A ++F++ G+KFSTY +WW+KQ Sbjct: 79 KLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYRKGFKFSTYGVWWIKQ 138 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I + I+ + IR P+H+ I K ++ ++ ++ ++ REP+ +EIAK++ + + + + Sbjct: 139 SIVKEISSKRHIIRFPMHIARLIKKSIQISKNLTQQLGREPSIDEIAKEMKIDRKTLSSI 198 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + T+E S+++ + D + + FIEDKN SP A +LR+T T L +L +E Sbjct: 199 IVFTQETASVDSFFKNSDNNDMTSFIEDKNFPSPHQDAFMESLRDTLTEALKALDEKERT 258 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+ RFG+ TLE+ GK+ +TRER+RQI+ KA++KL + SK+L+SFL Sbjct: 259 VIIERFGLYGKEPKTLEDTGKELNITRERVRQIQIKALKKLSGLNLSKELKSFL 312 >gi|323345452|ref|ZP_08085675.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093566|gb|EFZ36144.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 295 Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 173/268 (64%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +RKG+ +A +++ +ANLR V+SVAK+Y N+GL D Sbjct: 31 LQEIGHEELISVEEEVELAQRIRKGDRKAL---EKLTKANLRFVVSVAKQYQNQGLSLPD 87 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 88 LINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 147 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R + + +R P+ EEIA ++ +P E + +KI + IS++ P + + + L D + Sbjct: 148 NRALNKFEQENERHPSIEEIADRIDLPEEKIIDAMKINGKHISVDAPFAEGEDNSLLDIM 207 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + + + + +LR+ +RVL L RE ++ FGI D TLEE+G +F +T Sbjct: 208 PNTESPTADERLVSESLRDEISRVLLLLNERERMIIEAFFGIN-QQDMTLEEIGDKFGLT 266 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L++ ++S L+SFL Sbjct: 267 RERVRQIKEKAIRRLRNNTKSSLLKSFL 294 >gi|262197687|ref|YP_003268896.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262081034|gb|ACY17003.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 465 Score = 200 bits (508), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 95/275 (34%), Positives = 179/275 (65%), Gaps = 5/275 (1%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 ++ + +++++++S T ++FR+ V VR E A A+ E V+ANLRLV+S+A+++ Sbjct: 192 AMARRKSQVRNVSFST--RRADFRNYVDQVRAAEHAARNARNEFVKANLRLVVSIARRFN 249 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 + + DLIQEGN+GL+KA E++D+ G++FSTYA WW++ AI R++AD+ +R+PVH Sbjct: 250 HGRMSLADLIQEGNLGLIKAVERYDYRRGFRFSTYASWWIRHAIGRALADKGREVRLPVH 309 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDE 583 M D H++++ +++N + R+PT EE+++ + VE + K+ + + +SL+ P+ DE Sbjct: 310 MLDAHHRLLKAQHQLTNTLGRQPTSEELSEAANLSVEKIEKMRTHLLDQALSLDRPMNDE 369 Query: 584 DTSHLGDFIEDKNA--VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D + + ++D + S L+ Q + + + L +L P E +LR RFG+ + + T Sbjct: 370 DGRSVAEVLQDPHGEEHSALNVLAQRTMSDEVRKTLQTLRPIEADILRRRFGLDNDEELT 429 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+++G+Q+ ++RERIRQ++ +A+ K++ R K + Sbjct: 430 LKQIGEQYNLSRERIRQLQEQALTKMRVALRRKAM 464 >gi|320538977|ref|ZP_08038652.1| RNA polymerase, sigma S (sigma 38) factor [Serratia symbiotica str. Tucson] gi|320030910|gb|EFW12914.1| RNA polymerase, sigma S (sigma 38) factor [Serratia symbiotica str. Tucson] Length = 332 Score = 200 bits (508), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 91/234 (38%), Positives = 159/234 (67%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 ++++ M+E+NLRLV+ +A +Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA W Sbjct: 91 LSRRRMIESNLRLVVKIALRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATW 150 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+++ EP+ EEIA++L PV Sbjct: 151 WIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHRLDHEPSAEEIAEQLDKPVGD 210 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V +L++ + S++TP+G + L D + D+ P + +++++ + L L Sbjct: 211 VSHMLRLNERITSVDTPLGGDSEKALLDILADEKDNGPEGTTQDDDMKQSIVKWLFELNA 270 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++ VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 271 KQREVLARRFGLLGYESATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 324 >gi|23978316|dbj|BAC21132.1| principal sigma factor [Anabaena cylindrica] Length = 188 Score = 200 bits (508), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 100/188 (53%), Positives = 135/188 (71%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEK D GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKLDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE +VL SL+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|299472559|emb|CBN79861.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus siliculosus] Length = 694 Score = 200 bits (508), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 108/246 (43%), Positives = 157/246 (63%), Gaps = 7/246 (2%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AS AK M+ ANLRLV+SVAK+Y + L F DLIQEG GL+KAAEKFD G+KFSTYA Sbjct: 120 ASKAKMAMLAANLRLVVSVAKRYRFQKLSFQDLIQEGTFGLVKAAEKFDPERGFKFSTYA 179 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQ+I R IADQS IR+PVH+ D +++V + M++K + PT +E+A+ L + Sbjct: 180 TWWIKQSIMRGIADQSRIIRLPVHVHDFLNRVRKATLEMTDKNGKLPTDDELAEHLEVSA 239 Query: 561 EGVRKVLKITKEPISLETP--IGDEDTSHLGDFIEDKNAVS-----PLDSAIQANLRETT 613 ++ + +S+E P I + ++ G +E VS P A +++ Sbjct: 240 VRIQYYRDAAQATLSMEAPRNIASKTSTSPGKKVEMGQGVSGPEKTPDKQAQSDVMKQKV 299 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 T +L +L+ RE+ V++ RFG+G TLEEVG+ F +TRER+RQIEA+A+ KL+ P R+ Sbjct: 300 TELLMTLSIREQEVVKARFGLGGALPRTLEEVGRDFRLTRERVRQIEARALHKLRQPYRN 359 Query: 674 KKLRSF 679 ++R F Sbjct: 360 YRVRDF 365 >gi|296127362|ref|YP_003634614.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] gi|296019178|gb|ADG72415.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Brachyspira murdochii DSM 12563] Length = 309 Score = 200 bits (508), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 97/234 (41%), Positives = 158/234 (67%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V++NLRLVIS+AK+Y N G+ F+D+I EGNIGL++A ++F++ G+KFSTY +WW+KQ Sbjct: 74 KLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYKKGFKFSTYGVWWIKQ 133 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I + I+ + IR P+H+ I K ++T++ ++ K+ REPT +EIAK++ + + + + Sbjct: 134 SIVKEISSKRHIIRFPMHIARLIKKSIQTSKVLTQKLGREPTTDEIAKEMKIDRKTLSYI 193 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + T++ S+++ + D + + IEDKN SP A +LR+T T L L +E Sbjct: 194 MIFTQDTASVDSFFKNSDNNDMTSIIEDKNFPSPHQKAFMDSLRDTLTEALKCLDEKERT 253 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+ RFG+ TLE+ GK+ +TRER+RQI+ KAI+KL + SK+L+SFL Sbjct: 254 VIISRFGLYGKEAKTLEDTGKELNITRERVRQIQIKAIKKLAGLNLSKELKSFL 307 >gi|313109026|ref|ZP_07794999.1| sigma factor RpoS [Pseudomonas aeruginosa 39016] gi|310881501|gb|EFQ40095.1| sigma factor RpoS [Pseudomonas aeruginosa 39016] Length = 344 Score = 200 bits (508), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 93 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 149 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+ Sbjct: 150 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPS 209 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 210 PEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 269 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ + L LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 270 LSESIDQWLTELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 329 >gi|153001641|ref|YP_001367322.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS185] gi|160876377|ref|YP_001555693.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS195] gi|217972427|ref|YP_002357178.1| RNA polymerase sigma 70 subunit RpoD subfamily [Shewanella baltica OS223] gi|151366259|gb|ABS09259.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS185] gi|160861899|gb|ABX50433.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS195] gi|217497562|gb|ACK45755.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS223] gi|315268567|gb|ADT95420.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS678] Length = 326 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 97/239 (40%), Positives = 159/239 (66%), Gaps = 2/239 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK + ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 73 VYFSRKALKGCAKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 132 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E Sbjct: 133 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAE 192 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 EIA+KL + V ++LK+ ++ S++TP+G ++ L D + D + V P D +Q ++ Sbjct: 193 EIAEKLQVSSADVSRMLKLNEKITSVDTPLGGDNDKALLDILADDDNVGP-DYKVQDEDI 251 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 252 SNSVVKWLNELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|83644704|ref|YP_433139.1| nonessential primary sigma factor [Hahella chejuensis KCTC 2396] gi|83632747|gb|ABC28714.1| nonessential primary sigma factor [Hahella chejuensis KCTC 2396] Length = 332 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 94/240 (39%), Positives = 160/240 (66%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H M R+G+ + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 81 HFARMARRGDEKG---RKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 137 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R +R ++ K+ EP+ Sbjct: 138 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRASRELTQKLDHEPS 197 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA L PV+ V+++L + + S+++PIG L D + D+ + P + ++ Sbjct: 198 AEEIADLLEKPVKDVKRMLGLNERITSVDSPIGGNAEKSLLDTVADEASNDPAELLQDSD 257 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ R L L+ +++ V+ RFG+ TLEEVG++ +TRER+RQI+ +A+++++ Sbjct: 258 LKGCLDRWLDQLSDKQQEVIARRFGLRGYPMSTLEEVGQEIGLTRERVRQIQVEALKRMR 317 >gi|29143180|ref|NP_806522.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|695759|emb|CAA57298.1| sigma S [Salmonella enterica subsp. enterica serovar Typhi] gi|3820469|emb|CAA76807.1| RNA polymerase sigma subunit [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|29138813|gb|AAO70382.1| RNA polymerase sigma subunit RpoS [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] Length = 384 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 91/222 (40%), Positives = 154/222 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLR 311 >gi|15598818|ref|NP_252312.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PAO1] gi|116051619|ref|YP_789542.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa UCBPP-PA14] gi|218890153|ref|YP_002439017.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa LESB58] gi|254242320|ref|ZP_04935642.1| sigma factor RpoS [Pseudomonas aeruginosa 2192] gi|1173167|sp|P45684|RPOS_PSEAE RecName: Full=RNA polymerase sigma factor rpoS gi|9949780|gb|AAG07010.1|AE004782_8 sigma factor RpoS [Pseudomonas aeruginosa PAO1] gi|440378|dbj|BAA05131.1| RNA polymerase principal sigma factor [Pseudomonas aeruginosa] gi|52632371|gb|AAU85546.1| RNA polymerase sigma factor [Pseudomonas sp. M18] gi|115586840|gb|ABJ12855.1| sigma factor RpoS [Pseudomonas aeruginosa UCBPP-PA14] gi|126195698|gb|EAZ59761.1| sigma factor RpoS [Pseudomonas aeruginosa 2192] gi|218770376|emb|CAW26141.1| sigma factor RpoS [Pseudomonas aeruginosa LESB58] Length = 334 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 83 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 139 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+ Sbjct: 140 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPS 199 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 200 PEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 259 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ + L LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 260 LSESIDQWLTELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 319 >gi|237809473|ref|YP_002893913.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tolumonas auensis DSM 9187] gi|237501734|gb|ACQ94327.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tolumonas auensis DSM 9187] Length = 324 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 149/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARNRMIESNLRLVVKIARRYNNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+I +Q+ TIR+P+H+ +++ +RTAR ++ ++ EPT E+IA L PVE V Sbjct: 143 IRQTVERAIMNQTRTIRLPIHVVKELNVYLRTARELAQRLDHEPTAEDIASLLDKPVEEV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+ + S++TPI + L D + D P D +++ + L L P+ Sbjct: 203 SRMLKLNERICSVDTPIAGDGDKSLIDILTDDRINCPEDQTQDDDMQHSIVIWLEQLNPK 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLEEVG++ +TRER+RQI+ + +R++K Sbjct: 263 QREVLARRFGLLGYEPATLEEVGEEIGLTRERVRQIQVEGLRRMK 307 >gi|296387874|ref|ZP_06877349.1| RNA polymerase sigma factor RpoS [Pseudomonas aeruginosa PAb1] Length = 334 Score = 199 bits (507), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 83 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 139 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+ Sbjct: 140 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPS 199 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 200 PEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 259 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ + L LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 260 LSESIDQWLTELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 319 >gi|193216316|ref|YP_001997515.1| RpoD family RNA polymerase, sigma 70 subunit [Chloroherpeton thalassium ATCC 35110] gi|193089793|gb|ACF15068.1| RNA polymerase, sigma 70 subunit, RpoD family [Chloroherpeton thalassium ATCC 35110] Length = 299 Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/241 (40%), Positives = 161/241 (66%), Gaps = 1/241 (0%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA A +++++ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +Y Sbjct: 58 EARRALEKLIKANLRFVVSVAKQYQNQGLSLGDLINEGNLGLIKAAKRFDETRGFKFISY 117 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P+ EE+A L M Sbjct: 118 AVWWIRQSILQALAEQSRIVRLPLNRVGTLNKIGKAFSQLEQEYERDPSTEELAHLLDMN 177 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + LKI IS++ P D + L D +++ ++ P +Q +LR R L++ Sbjct: 178 SSEITDTLKIAGRHISVDAPFAQGDDNRLLDVLQN-DSQRPDHGLLQESLRLEVERSLSA 236 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+PRE V+R FGIGM TLEE+G++F +TRER+RQI+ KAIR+L+H S L+ + Sbjct: 237 LSPREADVIRSYFGIGMENPLTLEEIGERFKLTRERVRQIKEKAIRRLRHSPYSNVLKEY 296 Query: 680 L 680 + Sbjct: 297 I 297 >gi|113954631|ref|YP_732094.1| RNA polymerase sigma factor [Synechococcus sp. CC9311] gi|113881982|gb|ABI46940.1| RNA polymerase sigma factor [Synechococcus sp. CC9311] Length = 340 Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 100/242 (41%), Positives = 158/242 (65%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 97 RHRIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 149 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ + R +S++ R+P Sbjct: 150 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRKITRELSHRFGRQP 209 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + +++ + SL+ G+ED S LG+ I D N P++ + Sbjct: 210 NRLELAHAMGIEPRDLEELIAQSAPCASLDAHARGEEDRSTLGELIPDPNGDEPMEGMDR 269 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++LR+RFG+G TL E+G+Q V+RER+RQ+E+KAI K Sbjct: 270 SIQKEHLGGWLSQLNEREQKILRLRFGLGGEEPLTLAEIGRQINVSRERVRQLESKAILK 329 Query: 667 LK 668 L+ Sbjct: 330 LR 331 >gi|307155201|ref|YP_003890585.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306985429|gb|ADN17310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 295 Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 101/229 (44%), Positives = 153/229 (66%), Gaps = 6/229 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ ANLRLV+S+AKKY RGL FLDLIQEG+IGL++ EKFD GYKFSTYA WW Sbjct: 60 AKRKMINANLRLVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFSTYAYWW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP---V 560 ++QA+TR+IADQS TIR+P H+ + ++K+ R R+++ ++ R PT +E+A L + + Sbjct: 120 IRQAMTRAIADQSRTIRLPSHLTESLNKLKRVTRQLTGELGRRPTEQELANALELSLHEL 179 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +R+ T+ SL + DE T L + + D N+ +P D Q LR +L SL Sbjct: 180 HAIRQADHRTRS-YSLNMKMEDEQT-ELEELLAD-NSETPNDFVAQIELRSMVDELLESL 236 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 PR++ ++ +R+G+ +LEEVG ++RER+RQ++ +A+R LK+ Sbjct: 237 PPRQQEIIALRYGLKNGRQMSLEEVGNYCNLSRERVRQLQNRAMRTLKY 285 >gi|326794473|ref|YP_004312293.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinomonas mediterranea MMB-1] gi|326545237|gb|ADZ90457.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Marinomonas mediterranea MMB-1] Length = 329 Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYLNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ ++ EP+PEEIA KL PVE V Sbjct: 146 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQQLDHEPSPEEIADKLDRPVEDV 205 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +K+L + + S+++P+ G E L + I D +P D + ++ + L +L Sbjct: 206 QKMLSLNERISSIDSPLGGSEGDKSLVEVIPDTQHSNPEDERQEGDVLNSIDGWLDALNE 265 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ RFG+ TLE+VG + +TRER+RQI+ +A+RKL+ Sbjct: 266 KQREVIARRFGLRGYEPSTLEDVGAEIGLTRERVRQIQVEALRKLR 311 >gi|299140647|ref|ZP_07033785.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|298577613|gb|EFI49481.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 287 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 101/268 (37%), Positives = 171/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +++G+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEDLISVEEEVELAQKIKRGDRRAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R ++ + ++ PT EEIA K+ +P + V +K +S++ P+ + + + L D + Sbjct: 139 KRVLNKLEQENEQFPTIEEIAAKVDIPEDKVADAIKSNGRHVSVDAPLAEGEENSLLDIL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + NA +Q +LR+ L SL RE ++ FGI ++ TLEE+G +F +T Sbjct: 199 PNNNAQMADSMLVQESLRDEVANALQSLNERERNIIEAFFGINQ-SEMTLEEIGDKFGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H +++K L+++L Sbjct: 258 RERVRQIKEKAIRRLRHNTKNKNLKAYL 285 >gi|253701007|ref|YP_003022196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] gi|251775857|gb|ACT18438.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp. M21] Length = 325 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 96/225 (42%), Positives = 150/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+ +NLRLV+ +AK+Y NRG+ LD+I+EGNIGL+KA E+F +FSTYA WW Sbjct: 83 ARKRMILSNLRLVVKIAKRYRNRGMPLLDIIEEGNIGLIKAVERFKLSKECRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +Q TIR+PVH+ D+I+++ R R + K+ REPT +E+A L + V+ + Sbjct: 143 IRQSIERALINQVRTIRLPVHVSDEINRMFRENRVLELKLNREPTAKEVADNLGITVQRL 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ L D I+D + V P + N E + +L L+ Sbjct: 203 RELMVVLKKTFSIEQPMGERGDFCLTDTIQDTSTVLPTELLENQNRYELISNLLEFLSET 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++L +RFG+ TL+ +G+ F VTRERIRQIE KA+ KL+ Sbjct: 263 ERKILTLRFGLEDKAPQTLDTIGQGFGVTRERIRQIEVKALEKLR 307 >gi|257457314|ref|ZP_05622485.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] gi|257445236|gb|EEV20308.1| RNA polymerase sigma factor RpoD [Treponema vincentii ATCC 35580] Length = 286 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 102/241 (42%), Positives = 159/241 (65%), Gaps = 5/241 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++E+NLR V++VAKKY N+ + +DLI EGNIGLM AA++FD GYKF +YA+WW Sbjct: 46 AKKILIESNLRFVVNVAKKYQNKNIPIMDLISEGNIGLMNAADRFDPDKGYKFISYAVWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPV 560 ++QAI ++I ++S IR+P++ +++ ++ + AR+++ K EP +E IA+ L + Sbjct: 106 IRQAILKAICEKSRMIRLPLNRANELVQIEK-ARKLTGKTGTEPEDKELTAIAQDLRIEP 164 Query: 561 EGVRKVLKITKEPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E VR ++ ++P+SL+ P D + GDFIED + P A+ +LRE +LAS Sbjct: 165 EMVRTIMNAARDPVSLDAPQFNDNSAASTGDFIEDTRYMQPESYALDIDLRENVDALLAS 224 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L+ RE +LR RFG+ +L+EVG +F +T+ERIRQIE KA+ +L+ +L SF Sbjct: 225 LSEREAEILRYRFGLNGYEQLSLKEVGTRFNLTKERIRQIEKKALERLQSVGHQHELESF 284 Query: 680 L 680 + Sbjct: 285 V 285 >gi|325673633|ref|ZP_08153324.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] gi|325555654|gb|EGD25325.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC 33707] Length = 448 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 110/238 (46%), Positives = 159/238 (66%), Gaps = 6/238 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+EANLRLV+S A+ Y RGL LDL+QEGN GL++A EKFD+ LG KFSTYA WW Sbjct: 213 ARTRMIEANLRLVVSTAQNYEGRGLDMLDLVQEGNTGLIRAVEKFDYRLGNKFSTYATWW 272 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 ++QAITR IAD+S TIR+PVH+ + + ++ T R+ +I+ R T E+A++ + +E Sbjct: 273 IRQAITRGIADKSRTIRLPVHVVEDLSRM--TTVRVEGEIELGRALTDAEVAQRADLTLE 330 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VR++ + +S+E +D + L IED A P ++ +A++RE VL +LT Sbjct: 331 KVRELDDCDRTVLSIEALTDSDDGAGLD--IEDDCAHDPYEALHRADVRERIDIVLETLT 388 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE V+++R G+ TLEE+GK + VTRERIRQIEAK ++ L+ PSR+ +LR F Sbjct: 389 EREAGVMKLRHGLVDGVPRTLEEIGKVYKVTRERIRQIEAKTLQLLREPSRADELRPF 446 >gi|219883041|ref|YP_002478205.1| RNA polymerase, sigma 32 subunit, RpoH [Arthrobacter chlorophenolicus A6] gi|219862047|gb|ACL42388.1| RNA polymerase, sigma 32 subunit, RpoH [Arthrobacter chlorophenolicus A6] Length = 951 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 107/238 (44%), Positives = 146/238 (61%), Gaps = 2/238 (0%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V NLRLV+S+AK++T RG+ FLDLIQEGN GL +A +KFD+ G+KFSTYA WW++Q Sbjct: 531 KLVSCNLRLVVSIAKRHTGRGMDFLDLIQEGNAGLYRAVQKFDYTKGFKFSTYATWWIRQ 590 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AITR IADQS TIR+PVH +++ V R R+ T EEIA+ V+ + V Sbjct: 591 AITRGIADQSRTIRLPVHFHEQVVSVFIAERNFLQSEGRDGTAEEIAEACGKTVDEINAV 650 Query: 567 LKITKEPISL--ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + P SL E P G LG+ + D + + D+A+ A L+ L L+ RE Sbjct: 651 RRHRTPPASLDWEVPNGKGGVELLGETLYDPDEPTAYDAAVLAQLQSAVHGALDRLSERE 710 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 VL RFG+ TL+++G + VTRERIRQIEAKA L+ P+ + +LR F DG Sbjct: 711 AGVLAYRFGLATGEQLTLDQIGTIYGVTRERIRQIEAKAFAALREPAAAAQLRDFFDG 768 >gi|157414303|ref|YP_001485169.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388878|gb|ABV51583.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 339 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/226 (43%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 105 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S+K R+PT E+A ++ + + + Sbjct: 165 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDL 224 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ + +E L+ L Sbjct: 225 EDLISQSAPCASLDAHARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNE 284 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 285 REQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|226226576|ref|YP_002760682.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089767|dbj|BAH38212.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 286 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 106/268 (39%), Positives = 163/268 (60%), Gaps = 3/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ IS IS E + +R+G+ EA ++V +NLR V+SVAKKY N+G+ D Sbjct: 21 LRDISAYPLISREEEAELARRIRQGDQEAL---DKLVRSNLRFVVSVAKKYQNQGVSLSD 77 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL++AA KFD G KF +YA+WW++QAI +++A+QS +R+P++ +H++ Sbjct: 78 LINEGNLGLIRAARKFDETKGIKFISYAVWWIRQAILQALAEQSRIVRVPLNRAGTLHRI 137 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + A + ++ RE T EIA + + E V K + I++ +SL+ P+ + + L D++ Sbjct: 138 GKRANALLQELGREATHAEIAHGMDITEEEVAKTMSISQVHLSLDAPLTPGEDNRLLDYL 197 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D +P D L E L L RE ++LR+ FGI TLEE+G Q +T Sbjct: 198 PDTVHPTPEDQTFDKALTEAIEESLGGLKEREAKILRLYFGIDGADPMTLEEIGSQLGIT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KA+ +L+H SRSK L SFL Sbjct: 258 RERVRQIKEKALSRLRHVSRSKSLESFL 285 >gi|78780175|ref|YP_398287.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|123969439|ref|YP_001010297.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|126697226|ref|YP_001092112.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|78713674|gb|ABB50851.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] gi|123199549|gb|ABM71190.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] gi|126544269|gb|ABO18511.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 339 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/226 (43%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 105 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S+K R+PT E+A ++ + + + Sbjct: 165 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDL 224 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ + +E L+ L Sbjct: 225 EDLISQSAPCASLDAHARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNE 284 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 285 REQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|254526617|ref|ZP_05138669.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538041|gb|EEE40494.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 339 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/226 (43%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 105 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S+K R+PT E+A ++ + + + Sbjct: 165 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDL 224 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ + +E L+ L Sbjct: 225 EDLISQSAPCASLDAHARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNE 284 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 285 REQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|187764347|gb|ACD36026.1| RNA polymerase sigma factor [Pseudomonas fluorescens] Length = 322 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 77 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 133 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+ Sbjct: 134 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPS 193 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 194 PEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 253 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ + L LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 254 LSESIDQWLTELTDKQREVVIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 313 >gi|168768834|ref|ZP_02793841.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4486] gi|189362139|gb|EDU80558.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4486] Length = 329 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 160/233 (68%), Gaps = 1/233 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFE-NAK 268 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 269 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 321 >gi|281425773|ref|ZP_06256686.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|281400034|gb|EFB30865.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] Length = 287 Score = 199 bits (506), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 101/268 (37%), Positives = 171/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +++G+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEDLISVEEEVELAQKIKRGDRRAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R ++ + ++ PT EEIA K+ +P + V +K +S++ P+ + + + L D + Sbjct: 139 KRVLNKLEQENEQFPTIEEIAAKVDIPEDKVADAIKSNGRHVSVDAPLAEGEENSLLDIL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + NA +Q +LR+ L SL RE ++ FGI ++ TLEE+G +F +T Sbjct: 199 PNNNAQMADSVLVQESLRDEVANALQSLNERERNIVEAFFGINQ-SEMTLEEIGDKFGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H +++K L+++L Sbjct: 258 RERVRQIKEKAIRRLRHNTKNKNLKAYL 285 >gi|148240837|ref|YP_001226224.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147849376|emb|CAK24927.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 339 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 101/242 (41%), Positives = 157/242 (64%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 96 RHRIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 148 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S++ R+P Sbjct: 149 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRITRELSHRFGRQP 208 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + +++ + SL+ G+ED S LG+ I D N P++ + Sbjct: 209 NRLELANAMGIEPRDLEELISQSAPCASLDAHARGEEDRSTLGELIPDPNGDEPMEGMDR 268 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++LR+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 269 SIQKEHLGGWLSQLNDREQKILRLRFGLDGAEPLTLAEIGRQINVSRERVRQLEAKAILK 328 Query: 667 LK 668 L+ Sbjct: 329 LR 330 >gi|145300341|ref|YP_001143182.1| RNA polymerase, sigma factor RpoS [Aeromonas salmonicida subsp. salmonicida A449] gi|142853113|gb|ABO91434.1| RNA polymerase, sigma factor RpoS [Aeromonas salmonicida subsp. salmonicida A449] Length = 327 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 95/225 (42%), Positives = 152/225 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ +A +Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKIACRYNNRGLVLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+++ EPT E+IA L V+ V Sbjct: 146 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELSHRLDHEPTAEDIAFALDRSVDDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++LK+ ++ S++TPIG + L D + D+ + P + ++R + L L P+ Sbjct: 206 NRMLKLNEKITSVDTPIGGDRDKALLDVLSDERGMGPELESQDDDMRASIVHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE+VG + +TRER+RQI+ + +R+L+ Sbjct: 266 QREVLARRFGLLGYEPATLEDVGSEIGLTRERVRQIQVEGLRRLR 310 >gi|318040855|ref|ZP_07972811.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 321 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 100/226 (44%), Positives = 149/226 (65%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 87 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S++ R+P E+A + M E + Sbjct: 147 IRQGMTRAIDNSARTIRLPIHVSEKLSKMRRITRELSHRFGRQPNRLELAHAMGMQPEEL 206 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ GD+D S LG+ I D N+ +DS + +E L+ L Sbjct: 207 EDLISQSAPCASLDAHARGDDDRSTLGELIADPNSNESMDSMDRNLQKEHLGTWLSQLNE 266 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE R++ +RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 267 RERRIIELRFGLEGQEPLTLAEIGRQINVSRERVRQLEAKAILKLR 312 >gi|115394497|gb|ABI97158.1| RNA polymerase sigma factor [Fusobacterium necrophorum] Length = 185 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 98/182 (53%), Positives = 133/182 (73%) Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAITR+IADQ TIRIPVHM + I+K+ + AR + ++ TPE +A++L Sbjct: 1 TYAPWWIRQAITRAIADQGRTIRIPVHMIETINKIKKEARIYLQETGKDATPEILAERLG 60 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 M VE V+ + ++ ++PISLETP+G E+ S LGDF+ED+ ++P + ++ LRE VL Sbjct: 61 MEVEKVKSIQEMNQDPISLETPVGSEEDSELGDFVEDQKMLTPYELTNRSLLREQLDSVL 120 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SL+ REE+VLR R+G+ + TLEEVGK F VTRERIRQIE KA+RKL+HPSR KKL Sbjct: 121 GSLSSREEKVLRYRYGLDDGSPKTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLE 180 Query: 678 SF 679 F Sbjct: 181 DF 182 >gi|23978302|dbj|BAC21129.1| principal sigma factor [Oscillatoria agardhii] Length = 188 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 99/188 (52%), Positives = 135/188 (71%), Gaps = 1/188 (0%) Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRGL F DLIQEG++GL++AAEKF+ GYKFSTYA WW++QAITR+IADQS TIR+PVH Sbjct: 2 NRGLSFQDLIQEGSLGLIRAAEKFEHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVH 61 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + I ++ +T + +S ++ R+PT EEIA ++ M +E +R + K + PISLETPIG E+ Sbjct: 62 LYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE 121 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 S LGDFIE + +P D + LRE VL +L+PRE VLR+R+G+ TLEE Sbjct: 122 DSRLGDFIES-DGETPEDQVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEE 180 Query: 645 VGKQFCVT 652 +G+ F VT Sbjct: 181 IGQIFNVT 188 >gi|254430889|ref|ZP_05044592.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197625342|gb|EDY37901.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 327 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 166/271 (61%), Gaps = 8/271 (2%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 E+ + + G+ ++ R + R+ AK+ M++ANLRLV++VAKKY RGL Sbjct: 60 GELTAWAGRCGVPPADLRQALHRGRR-------AKERMLQANLRLVVAVAKKYQRRGLDL 112 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLIQEG +GL +A E++D G++FSTYA WW++Q ITR++A QS TIR+PVH+ + ++ Sbjct: 113 LDLIQEGTLGLERAVERYDPRRGFRFSTYAYWWIRQGITRALASQSRTIRLPVHVTETLN 172 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 ++ ++ + R+PT E+A+ + + +R L P+SLE +G + L D Sbjct: 173 RIRTCQGELTREHGRQPTLAELARAVGLDEARLRSTLAHIPRPVSLEGRVGANADTPLVD 232 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +ED +A +P + + L +L L+ RE V+R RFG+ +T TL E+G+Q Sbjct: 233 LLEDDHA-TPEQTLTRQQLHADLEALLDELSAREATVIRQRFGLDDDTPRTLAEIGEQLQ 291 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++RER+RQIE++A+ KL+ P ++R +LD Sbjct: 292 LSRERVRQIESRALLKLRQPQNRCRVRDYLD 322 Score = 37.7 bits (86), Expect = 7.1, Method: Compositional matrix adjust. Identities = 14/32 (43%), Positives = 26/32 (81%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 ++ DP+R+YLRE+G ++LL +E EI +A+ ++ Sbjct: 17 ASSDPIRLYLREIGRVDLLRQEEEILLARLVQ 48 >gi|221212018|ref|ZP_03584996.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans CGD1] gi|221168103|gb|EEE00572.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans CGD1] Length = 625 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 97/237 (40%), Positives = 151/237 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA +++D G++FSTYA WW Sbjct: 388 AKMALFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWW 447 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+IT ++AD TIR+P H D I+K+ R AR + TP+E+A ++ PV+ V Sbjct: 448 IRQSITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAGAAATPDELAAQMGEPVDKV 507 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ I KEP+S++ PI + D + D + SP D+A A R + L PR Sbjct: 508 RELMAIVKEPVSVDLPIAPDGDMTFVDVVPDASTPSPEDAADAAQRRAAIAAAIDRLPPR 567 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++R+R+G+ +L ++G++ ++ ER+RQIEA A+ +L+ LR F+ Sbjct: 568 EALIVRLRYGLHAGEGCSLRDIGRRLNLSAERVRQIEASALARLRASDALAVLRPFV 624 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/168 (33%), Positives = 82/168 (48%), Gaps = 18/168 (10%) Query: 19 DDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV 78 DD+L + + +I L RG+VT ++ LP D+ ++ A+L+ +GI V Sbjct: 27 DDALAS--ASAPFAGLIALGLSRGFVTRGDVIDALPDDDAHDAGIDAATAVLAELGIAVS 84 Query: 79 DGDDLE-----DEEGSEDSLDLASSASNSSV----FLQKRKDSADRSTDDPVRMYLREMG 129 D E D L A++ N + L R T DPVR+YLREMG Sbjct: 85 DAAHAETDWSLDRYFRPPPLSRAAAERNGAFAAFDLLAPR-------TTDPVRLYLREMG 137 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 ++ LL+ + EIA A+RIE GRA +A LC P AL R E+ +G Sbjct: 138 TVPLLTHDEEIAYAQRIERGRAASVAVLCGDPDALDALASIRREIAEG 185 >gi|72383143|ref|YP_292498.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] gi|72002993|gb|AAZ58795.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL2A] Length = 340 Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 97/226 (42%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 106 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P E+A + + + + Sbjct: 166 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQPNRLELANAMGIEPQDL 225 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N+ P++ ++ +E L+ L Sbjct: 226 EDLVSQSAPCASLDAHARGEEDRSTLGELIPDPNSDEPMEGMDRSIQKEHLGGWLSQLNE 285 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++R+RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 286 REQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 331 >gi|255535549|ref|YP_003095920.1| RNA polymerase sigma factor RpoD [Flavobacteriaceae bacterium 3519-10] gi|255341745|gb|ACU07858.1| RNA polymerase sigma factor RpoD [Flavobacteriaceae bacterium 3519-10] Length = 294 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 96/250 (38%), Positives = 168/250 (67%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + +K +A +++++ANLR V+SV+K+Y N+GL DLI EGN+GLMKAA+++D Sbjct: 43 VDLAQKIRAGDRVALEKLIKANLRFVVSVSKQYQNQGLSLPDLINEGNLGLMKAAKRYDE 102 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + + +R P+PE Sbjct: 103 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKAYAHLEQENERPPSPE 162 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+ L M + +++ +K + +S++ P+ + + S+L D + + SP + +L+ Sbjct: 163 ELAEVLDMSEDDIKESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPSPDKELMLESLQ 222 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R L +LTPRE ++R+ FG+ TLEE+G+ F +TRER+RQI+ KAI++LKH Sbjct: 223 IEIERALQTLTPREADLVRLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLKHN 282 Query: 671 SRSKKLRSFL 680 +RSK L+S+L Sbjct: 283 TRSKILKSYL 292 >gi|124026883|ref|YP_001015998.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123961951|gb|ABM76734.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 340 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 97/226 (42%), Positives = 153/226 (67%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 106 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P E+A + + + + Sbjct: 166 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQPNRLELANAMGIEPQDL 225 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N+ P++ ++ +E L+ L Sbjct: 226 EDLVSQSAPCASLDAHARGEEDRSTLGELIPDPNSDEPMEGMDRSIQKEHLGGWLSQLNE 285 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++R+RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 286 REQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 331 >gi|168000881|ref|XP_001753144.1| predicted protein [Physcomitrella patens subsp. patens] gi|162695843|gb|EDQ82185.1| predicted protein [Physcomitrella patens subsp. patens] Length = 581 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 108/268 (40%), Positives = 166/268 (61%), Gaps = 13/268 (4%) Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 S++V ++ E R +++G+C AK ++V +NLRLV+S+ K Y RG+ DLI Sbjct: 321 SLAVGMNQTLFELR-----IKEGQC----AKDKLVNSNLRLVVSIVKNYQGRGMTLPDLI 371 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 Q G++GL++ AEKFD +G+KFSTYA WW++QA+TRSI DQS IR+PVH+ + I ++ + Sbjct: 372 QRGSLGLIRGAEKFDPEMGFKFSTYATWWIRQAVTRSITDQSRIIRLPVHIYEVISRINK 431 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 + ++ R+ EE+A + + VE + +LK + P S++ IG + L + + D Sbjct: 432 SRMMIAEDQGRQARDEEVATAVGISVEKLDFILKSARLPASMDQLIGRDKDLPLWEMVAD 491 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 K S D L++ VL +L+P E VLR+RFG+ TL+++G F VTRE Sbjct: 492 KGFNSADDFLTNEVLKQDIDGVLQTLSPTEREVLRLRFGLDDAQSMTLKDIGIFFKVTRE 551 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 RIRQIE +A+RKL+HP+R R+ L G Sbjct: 552 RIRQIEVRALRKLRHPTR----RNILQG 575 >gi|391964|gb|AAA03294.1| RNA polymerase sigma factor [Shigella flexneri] Length = 362 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 90/233 (38%), Positives = 159/233 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 102 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RT R +S+K+ EP+ EIA++L PV+ V Sbjct: 162 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTVRELSHKLDYEPSAVEIAEQLDKPVDDV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 222 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 281 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + V+ RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 282 QREVIARRFGLLGYEAATLEDVGREIGLTRERVRQIQVQGLRRLREILQTQGL 334 >gi|33322905|gb|AAQ07189.1|AF496497_1 RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. lactis] Length = 167 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 98/167 (58%), Positives = 127/167 (76%) Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIRIPVHM + I+K++R R++ + R+P PEEIA ++ +PV+ VR+VLK+ +EP+ Sbjct: 1 QARTIRIPVHMVETINKLIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPV 60 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 SLETPIG+ED SHLGDFIEDK+A SP A L++ VL +LT REE VLR+RFG+ Sbjct: 61 SLETPIGEEDDSHLGDFIEDKDATSPEQHAASEMLKDQLAEVLDTLTDREENVLRLRFGL 120 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRS +LR FL+ Sbjct: 121 DDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFLE 167 >gi|87300555|ref|ZP_01083397.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 5701] gi|87284426|gb|EAQ76378.1| Putative type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 5701] Length = 398 Score = 198 bits (504), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 97/239 (40%), Positives = 154/239 (64%), Gaps = 1/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M++ANLRLV++VAKKY RG++ LDL+QEG +GL +A EK+D G++FSTYA WW Sbjct: 158 ARDRMIQANLRLVVAVAKKYQKRGVELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWW 217 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+IA QS TIR+PVH+ +K++++ + R+ ++ R + E+A+ L E V Sbjct: 218 IRQGVTRAIATQSRTIRLPVHVTEKLNRIKKAQRQFASDHGRTASLAELAEALQWSEEAV 277 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L ISLE +G + + LGD +E + +P S + L +L L+ R Sbjct: 278 RLTLLRVPRSISLEAKVGRDQDTPLGDLLE-ATSDTPEQSLTRQQLHSDLDALLDELSER 336 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 E V+R+RFG+ +T TL ++G+ ++RER+RQIE +A+ KL+ P+R ++ +L G Sbjct: 337 EAEVIRLRFGLADDTPRTLAQIGEGMQLSRERVRQIETRALHKLRQPARRCRVHDYLAG 395 >gi|91070519|gb|ABE11426.1| type II alternative RNA polymerase sigma factor, sigma-70 family [uncultured Prochlorococcus marinus clone HOT0M-3E5] Length = 231 Score = 198 bits (504), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 98/222 (44%), Positives = 151/222 (68%), Gaps = 1/222 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW++Q Sbjct: 1 MMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQG 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 +TR+I + + TIR+P+H+ +K+ K+ R +R +S+K R+PT E+A ++ + + + ++ Sbjct: 61 MTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLI 120 Query: 568 KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + SL+ G+ED S LG+ I D N P++ + +E L+ L RE++ Sbjct: 121 SQSAPCASLDAHARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQK 180 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++R+RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 181 IMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 222 >gi|209695924|ref|YP_002263854.1| RNA polymerase sigma subunit RpoS (sigma-38) [Aliivibrio salmonicida LFI1238] gi|208009877|emb|CAQ80190.1| RNA polymerase sigma subunit RpoS (sigma-38) [Aliivibrio salmonicida LFI1238] Length = 321 Score = 198 bits (504), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 152/226 (67%), Gaps = 2/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ +A++Y +RGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 78 ARSRMIESNLRLVVKIARRYNHRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EPTPEEIA+KL PV V Sbjct: 138 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPTPEEIAEKLDKPVSDV 197 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 ++L++ + S+++ + + L D I D P +S Q N + E+ L L P Sbjct: 198 SRMLRLNERVASVDSMVAGDSDKALLDIIPDTKHADP-ESETQTNDINESLVGWLGQLNP 256 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ V+ RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 257 KQKEVVARRFGLLGYEASTLEQVGREIGLTRERVRQIQVEGLRRLR 302 >gi|297518365|ref|ZP_06936751.1| RNA polymerase sigma factor RpoS [Escherichia coli OP50] Length = 327 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 92/233 (39%), Positives = 159/233 (68%), Gaps = 3/233 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSDH---EPSAEEIAEQLDKPVDDV 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 207 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 266 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 267 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 319 >gi|218438398|ref|YP_002376727.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218171126|gb|ACK69859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 295 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 99/227 (43%), Positives = 152/227 (66%), Gaps = 4/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ ANLRLV+S+AKKY RGL FLDLIQEG+IGL++ EKFD GYKFSTYA WW Sbjct: 60 AKRKMISANLRLVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFSTYAYWW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IADQS TIR+P H+ + ++K+ R R+++ ++ R PT EEIA +L + + + Sbjct: 120 IRQAMTRAIADQSRTIRLPSHLTESLNKLKRITRQLTGELGRRPTEEEIATELEISMNEL 179 Query: 564 RKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 R + + SL + DE T L + + D +A +P + Q L ++L +L Sbjct: 180 RTIRQADHRTRSYSLNMKMDDEQT-ELAELLADDSA-NPNEFVAQIELSSMVEQLLETLP 237 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PR++ ++ +R+G+ +LEEVG ++RER+RQ++ +A+R LK Sbjct: 238 PRQQEIIALRYGLKNGKQMSLEEVGHHCNLSRERVRQLQNRAMRTLK 284 >gi|195939453|ref|ZP_03084835.1| RNA polymerase sigma factor RpoS [Escherichia coli O157:H7 str. EC4024] Length = 305 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 90/216 (41%), Positives = 150/216 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + VL RFG+ TLE+VG++ +TRER+RQI Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQI 305 >gi|24374942|ref|NP_718985.1| RNA polymerase sigma-38 factor [Shewanella oneidensis MR-1] gi|24349657|gb|AAN56429.1|AE015779_6 RNA polymerase sigma-38 factor [Shewanella oneidensis MR-1] Length = 326 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 96/231 (41%), Positives = 156/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 83 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 140 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+KL + Sbjct: 141 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEEIAEKLQV 200 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 V ++LK+ ++ S++ P+G ++ L D + D + V P D +Q ++ + + L Sbjct: 201 SSVDVSRMLKLNEKITSVDVPLGGDNDKALLDVLADDDNVGP-DYKVQDEDISNSVVKWL 259 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 260 NELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|159904372|ref|YP_001551716.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889548|gb|ABX09762.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 338 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 100/242 (41%), Positives = 157/242 (64%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 95 RHQIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 147 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P Sbjct: 148 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQP 207 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + + ++ + SL++ G+ED S LG+ I D N P+ + Sbjct: 208 NRVELANAMGIEPQDLEDLVAQSAPCASLDSHARGEEDRSTLGELIPDPNYDEPMAGMDR 267 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +E L+ L RE++++R+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 268 KMQKEHLGGWLSQLNEREQKIMRLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILK 327 Query: 667 LK 668 L+ Sbjct: 328 LR 329 >gi|219130701|ref|XP_002185497.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217403028|gb|EEC42984.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 329 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 100/250 (40%), Positives = 160/250 (64%), Gaps = 14/250 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + E+N+RLV+S+AK+Y +RGL F DL QEG +GL +A EKFD G++FSTYA WW Sbjct: 77 AKAALTESNIRLVVSIAKRYQHRGLSFQDLAQEGILGLTRACEKFDPERGFRFSTYASWW 136 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I R+IADQ TIR+PVH+ D+I+ + + R + ++ R+ EEI +K + E + Sbjct: 137 IKQSIMRAIADQGRTIRLPVHIHDQINALRKVERELKAELGRDARLEEITEKSTLTAEKI 196 Query: 564 RKVLKITKEPISLETPI-------------GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + +++++ +S+E + G + LGD + D A P + A L+ Sbjct: 197 EFLNRVSQQDVSMEQELRTSKSKGSSAGLGGPDGGLTLGDVMGDPEA-QPAEEASYQMLK 255 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + +R++ +L RE+ V+RMRFG+ TLEE+G++F VTRERIRQIE++A+ KL+ P Sbjct: 256 DDISRLICTLNSREQAVIRMRFGLDDGKAKTLEEIGRRFSVTRERIRQIESRALHKLRQP 315 Query: 671 SRSKKLRSFL 680 R+ ++ ++ Sbjct: 316 YRNHAVKCYV 325 >gi|91070600|gb|ABE11500.1| type II alternative RNA polymerase sigma factor, sigma-70 family [uncultured Prochlorococcus marinus clone HOT0M-8F9] Length = 340 Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 97/222 (43%), Positives = 151/222 (68%), Gaps = 1/222 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW++Q Sbjct: 110 MMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWWIRQG 169 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 +TR+I + + TIR+P+H+ +K+ K+ R +R +S+K R+PT E+A ++ + + + ++ Sbjct: 170 MTRAIDNSARTIRLPIHISEKLSKMRRVSRELSHKFGRQPTRLEMATEMGIDQKDLEDLI 229 Query: 568 KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + SL+ G+ED S LG+ I D N P++ + +E L+ L RE++ Sbjct: 230 SQSAPCASLDAHARGEEDRSTLGELIPDPNCEEPMEGMDRTIQKEHLGTWLSQLNEREQK 289 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 290 IMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 331 >gi|307546200|ref|YP_003898679.1| RNA polymerase sigma factor RpoS [Halomonas elongata DSM 2581] gi|307218224|emb|CBV43494.1| RNA polymerase sigma factor RpoS [Halomonas elongata DSM 2581] Length = 330 Score = 197 bits (502), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + R+G+ + + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 79 HYGRLARQGDPQG---RSRMIESNLRLVVKIARRYLNRGLTLLDLIEEGNLGLIRAVEKF 135 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R++ +Q+ TIR+P+H+ +++ +R AR ++ K+ E T Sbjct: 136 DPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHVVKELNIYLRAARELTQKLDHEAT 195 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA L PV V++++ + + S++ P+G E L + + D N + P + + + Sbjct: 196 AEEIADHLDKPVASVKRMMGLNERVSSVDYPVGSESDKPLIETLTDDNDLGPESTLVDGD 255 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ LA LT ++ V+ RFG+ + TLE+VG++ +TRER+RQI+ +A++KL+ Sbjct: 256 VKQHVDDWLAELTDKQREVVVRRFGLRGHEASTLEQVGEEIGLTRERVRQIQVEALKKLR 315 >gi|300777898|ref|ZP_07087756.1| DNA-directed RNA polymerase sigma subunit RpoD [Chryseobacterium gleum ATCC 35910] gi|57471279|gb|AAW50925.1| RpoD [Chryseobacterium indologenes] gi|300503408|gb|EFK34548.1| DNA-directed RNA polymerase sigma subunit RpoD [Chryseobacterium gleum ATCC 35910] Length = 288 Score = 197 bits (502), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 95/237 (40%), Positives = 163/237 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++++ANLR V+SV+K+Y N+GL DLI EGN+GLMKAA+++D G+KF +YA+WW Sbjct: 50 ALEKLIKANLRFVVSVSKQYQNQGLSLPDLINEGNLGLMKAAKRYDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ I+K+ + + + +R P+PEE+A+ L M E + Sbjct: 110 IRQSILQALAEQSRIVRLPLNKIGSINKINKAYAHLEQENERPPSPEELAEVLDMSEEDI 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ +K + +S++ P+ + + S+L D + + SP + +L+ R L +LTPR Sbjct: 170 KESMKNSGRHLSMDAPLVEGEDSNLYDVLRSGESPSPDKDLMLESLQIEIERALNTLTPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++R+ FG+ TLEE+G+ F +TRER+RQI+ KAI++LKH +RSK L+S+L Sbjct: 230 EADLVRLYFGLNGKHPMTLEEIGETFDLTRERVRQIKEKAIKRLKHNTRSKILKSYL 286 >gi|46201746|ref|ZP_00054445.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 756 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 115/268 (42%), Positives = 161/268 (60%), Gaps = 22/268 (8%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 +VET S E R + G A A++ ANL+LV+ AKK+ GL + D IQE Sbjct: 503 AVETDPSGGEARR---RMEAGLETARRARERFALANLKLVVWGAKKFG--GLTWPDRIQE 557 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GN+GL+KA E+FD G KFSTYA WW+KQA+TR++AD+ TIRIPVH ++ + K+ R Sbjct: 558 GNLGLLKAVERFDHRRGAKFSTYATWWIKQAVTRAVADKGRTIRIPVHAQEAMRKLRRAQ 617 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---- 592 + RE PEE+ + +P+ VR+ L + +EP SL+ +E H + Sbjct: 618 NEVFALTGREALPEEVGELTEIPLARVRRFLAVAEEPASLDV---EEVGLHAAEMASREP 674 Query: 593 --EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 E++ AV+ + + ++ L L PRE V+R+RFGIG ++TLEE+G+QF Sbjct: 675 DPEERLAVAEIKAMVRGQLE--------LLPPREATVIRLRFGIGCEREYTLEEIGQQFG 726 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRS 678 VTRERIRQIEAKA+RKL HP R K L+ Sbjct: 727 VTRERIRQIEAKALRKLSHPGRIKALQG 754 >gi|113969467|ref|YP_733260.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-4] gi|114046700|ref|YP_737250.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-7] gi|117919573|ref|YP_868765.1| RNA polymerase, sigma 38 subunit, RpoS [Shewanella sp. ANA-3] gi|113884151|gb|ABI38203.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-4] gi|113888142|gb|ABI42193.1| RNA polymerase, sigma 28 subunit [Shewanella sp. MR-7] gi|117611905|gb|ABK47359.1| RNA polymerase, sigma 38 subunit, RpoS [Shewanella sp. ANA-3] Length = 326 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 96/231 (41%), Positives = 156/231 (67%), Gaps = 4/231 (1%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 83 CEKS--RNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 140 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT EEIA+KL + Sbjct: 141 YATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEEIAEKLQV 200 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 V ++LK+ ++ S++ P+G ++ L D + D + V P D +Q ++ + + L Sbjct: 201 SSVDVSRMLKLNEKITSVDIPLGGDNDKALLDVLADDDNVGP-DYKVQDEDISNSVVKWL 259 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 260 NELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|330721381|gb|EGG99448.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC2047] Length = 321 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 150/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 81 GRKRMIESNLRLVVKISRRYVNRGLTLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ EEIA+ L PVE V Sbjct: 141 IRQTIERALMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSAEEIAEMLDRPVENV 200 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++LK+ + S++ P+G + + + I +N P + NL T L L+ + Sbjct: 201 KRMLKLNERVTSIDAPMGGDSERSMAENITGENVDDPSELLQNDNLHGNLTHWLGELSEK 260 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 261 QREVIARRFGLLGYEMSTLEQVGSEIGLTRERVRQIQVEALKRLR 305 >gi|319790059|ref|YP_004151692.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] gi|317114561|gb|ADU97051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermovibrio ammonificans HB-1] Length = 318 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 104/269 (38%), Positives = 171/269 (63%), Gaps = 3/269 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KSIS +S E + + G+ EA K++VE+NLR V+SVAKKY GL D Sbjct: 53 LKSISKIPLLSREEEIELAKRAKAGDKEAL---KKLVESNLRFVVSVAKKYLGCGLPLHD 109 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EG +GL++AA +FD G KF +YA+WW++Q+I +++A Q+ ++IPV ++K+ Sbjct: 110 LIAEGILGLIEAARRFDPDKGVKFISYAVWWIRQSIMQALAQQTGAVKIPVKQAVLVNKI 169 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R+ + K+ REPT EE+A + M + V ++L I + P+SL+TPIGDE+ + DF+ Sbjct: 170 TRSYGELLKKLGREPTIEELADYVGMEPKEVERLLSICQVPLSLDTPIGDEEDTTFKDFL 229 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + + +Q L+++ +L LTP+E++++ MRFG+ N TL E+G++ ++ Sbjct: 230 KGEGTAEVEEKVVQEELKQSIQEMLEQLTPQEKKIIIMRFGLDGNEPKTLREIGEKLGIS 289 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RER+RQ+E +A +K+K + KKL FL+ Sbjct: 290 RERVRQLETRAKKKMKEYALRKKLNVFLN 318 >gi|146281946|ref|YP_001172099.1| RNA polymerase sigma factor RpoS [Pseudomonas stutzeri A1501] gi|145570151|gb|ABP79257.1| sigma factor RpoS [Pseudomonas stutzeri A1501] Length = 332 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 157/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKF Sbjct: 81 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLVEEGNLGLIRAVEKF 137 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 138 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 197 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + + Sbjct: 198 PEEIANLLEKPVGEVKRMLGLNERVTSVDVSLGPDTDKTLLDTLTDDRPTDPCELLLDDD 257 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L + + L+ L+ ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 258 LSASIDQWLSDLSEKQREVVIRRFGLRGHEASTLEEVGQEIGLTRERVRQIQVEALRRLR 317 >gi|227536516|ref|ZP_03966565.1| RNA polymerase sigma-70 factor [Sphingobacterium spiritivorum ATCC 33300] gi|300773589|ref|ZP_07083458.1| DNA-directed RNA polymerase sigma subunit RpoD [Sphingobacterium spiritivorum ATCC 33861] gi|227243593|gb|EEI93608.1| RNA polymerase sigma-70 factor [Sphingobacterium spiritivorum ATCC 33300] gi|300759760|gb|EFK56587.1| DNA-directed RNA polymerase sigma subunit RpoD [Sphingobacterium spiritivorum ATCC 33861] Length = 286 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 101/249 (40%), Positives = 168/249 (67%), Gaps = 8/249 (3%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +++ + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QVALEKLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + ++ + +REP+PEE+A Sbjct: 100 FKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLSKISKAFSKLEQEYEREPSPEELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 L V+ V L + +S++ P G+E+T L D +E+ + + S I +L E Sbjct: 160 DILETTVDKVSDTLSNSGRHVSMDAPFVQGEENT--LLDVLENHDPDTD-SSLIDESLSE 216 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 R LA+LT RE ++ + FG+G N +LEE+G++F +TRER+RQI+ KA+++L+H S Sbjct: 217 EIKRSLATLTEREREIIVLFFGLGSNHQLSLEEIGEKFNLTRERVRQIKDKALQRLRHTS 276 Query: 672 RSKKLRSFL 680 RSK L+S+L Sbjct: 277 RSKILKSYL 285 >gi|212550562|ref|YP_002308879.1| RNA polymerase primary sigma factor [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] gi|212548800|dbj|BAG83468.1| putative RNA polymerase primary sigma factor [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] Length = 286 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 95/250 (38%), Positives = 160/250 (64%), Gaps = 1/250 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ A ++V ANLR V+SVAK+Y N+GL DLI EGN+GL+KAAEKFD Sbjct: 37 IELARRSRLGDRSALDKLVRANLRFVVSVAKQYQNQGLSLPDLINEGNLGLIKAAEKFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ + + K +R+P+ E Sbjct: 97 TRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGSLNKISKALSKFEQKHERKPSSE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A++L +P + V + L+I+ IS++ P D + + L D + + + + I +L Sbjct: 157 ELAQELELPEDKVSETLRISNRHISIDAPFADGEENSLLDVLTNDDTPAAYHGLIHESLS 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + L L RE+ +++M FGIG + LEE+G F +TRER+RQI+ KAI+KLK Sbjct: 217 QEINNALLILNDREKEIIKMSFGIGQ-QEMNLEEIGDAFNLTRERVRQIKEKAIKKLKQN 275 Query: 671 SRSKKLRSFL 680 +R+ L+++L Sbjct: 276 NRNNGLKNYL 285 >gi|88809396|ref|ZP_01124904.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786615|gb|EAR17774.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 339 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 100/242 (41%), Positives = 157/242 (64%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 96 RHRIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 148 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S++ R+P Sbjct: 149 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRITRELSHRFGRQP 208 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E++ + + + +++ + SL+ G+ED S LG+ I D N P++ + Sbjct: 209 NRLELSNAMGIAPRDLEELIAQSAPCASLDAHARGEEDRSTLGELIPDPNGDEPMEGMDR 268 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++LR+RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 269 SIQKEHLGGWLSQLNEREQKILRLRFGLDGAEPLTLAEIGRQINVSRERVRQLEAKAILK 328 Query: 667 LK 668 L+ Sbjct: 329 LR 330 >gi|158334481|ref|YP_001515653.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158304722|gb|ABW26339.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 157/238 (65%), Gaps = 1/238 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 VS ++K A ++MVE+NLRLV+S+AKKY L+FLDLIQEG IGL + EKFD Sbjct: 70 VSQLQKELKLGQTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKFDP 129 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW++QA+TR+IA+Q TIR+P+H+ +K++K+ + R++S K+ R+PT Sbjct: 130 TKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLNKLRKVKRQLSLKLHRDPTVA 189 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A ++ + + V L + ISL+ +GD+ + L + +ED +A SP D A + L+ Sbjct: 190 ELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHA-SPEDYATASYLQ 248 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L L P++ V+ +R+G+ TL +VG++ V+RE +R++E +A + L+ Sbjct: 249 SDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFQLLR 306 >gi|123967121|ref|YP_001012202.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201487|gb|ABM73095.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 339 Score = 197 bits (501), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 101/245 (41%), Positives = 158/245 (64%), Gaps = 8/245 (3%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S RH++ + ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A Sbjct: 93 SRNRHLIKVGKR-------ARDRMMSANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERA 145 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S K Sbjct: 146 VDKFDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSQKSG 205 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS 603 R+PT E+A + + + + ++ + SL+ G+ED S LG+ I D N P++ Sbjct: 206 RQPTRLEMATAMGIDQKDLEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEG 265 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + +E L L RE++++++RFG+ TL E+G+Q V+RER+RQ+EAKA Sbjct: 266 MDRTIQKEHLGTWLTQLNEREQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKA 325 Query: 664 IRKLK 668 I KL+ Sbjct: 326 ILKLR 330 >gi|89890814|ref|ZP_01202323.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) rpoD [Flavobacteria bacterium BBFL7] gi|89516959|gb|EAS19617.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A) rpoD [Flavobacteria bacterium BBFL7] Length = 287 Score = 197 bits (501), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 100/259 (38%), Positives = 168/259 (64%), Gaps = 3/259 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ E + +++KG+ A +++ ANLR V+SVAK+Y N+GL+ DLI EGN GL Sbjct: 31 ITAEEEVELAQLIKKGDQRAL---EKLTTANLRFVVSVAKQYQNQGLKLPDLINEGNAGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ + + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNKIGSINKINKAFSHLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +R P+PEE+AK+L M V V++ LK +S++ P+ + +TS+L D + + +P Sbjct: 148 LHERPPSPEELAKELDMTVSDVKQSLKNAGRHVSMDAPLKEGETSNLYDVVRSGESPNPD 207 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + +L TR L +L+ +E V+ + FGIG +LEE+G+ F +TRER+RQI+ Sbjct: 208 RELMHESLTLEITRALETLSQKEADVISLYFGIGNQQPMSLEEIGETFDLTRERVRQIKE 267 Query: 662 KAIRKLKHPSRSKKLRSFL 680 K I++L+ SRSK L+S+L Sbjct: 268 KGIKRLRQNSRSKILKSYL 286 >gi|87301519|ref|ZP_01084359.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87283736|gb|EAQ75690.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 322 Score = 197 bits (501), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 97/226 (42%), Positives = 151/226 (66%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 88 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 147 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S++ R+P E++ + M ++ + Sbjct: 148 IRQGMTRAIDNSARTIRLPIHVSEKLSKMRRITRELSHRFGRQPNRLELSHAMGMDIKDL 207 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D + P+D ++ +E L+ L Sbjct: 208 EDLISQSAPCASLDAHARGEEDRSTLGELIADPASTEPMDHMDRSIQKEHLGTWLSQLNE 267 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +LR+RFG+ TL E+G++ V+RER+RQ+EAKAI KL+ Sbjct: 268 REQEILRLRFGLEGKEPLTLAEIGRKINVSRERVRQLEAKAIMKLR 313 >gi|304410159|ref|ZP_07391778.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS183] gi|307302130|ref|ZP_07581888.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica BA175] gi|304351568|gb|EFM15967.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica OS183] gi|306914168|gb|EFN44589.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Shewanella baltica BA175] Length = 326 Score = 197 bits (501), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 96/239 (40%), Positives = 158/239 (66%), Gaps = 2/239 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK + ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 73 VYFSRKALKGCAKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 132 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E Sbjct: 133 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAE 192 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 EIA+KL + V ++LK+ ++ S++ P+G ++ L D + D + V P D +Q ++ Sbjct: 193 EIAEKLQVSSADVSRMLKLNEKITSVDMPLGGDNDKALLDILADDDNVGP-DYKVQDEDI 251 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 252 SNSVVKWLNELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|108803849|ref|YP_643786.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765092|gb|ABG03974.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 289 Score = 197 bits (501), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 103/227 (45%), Positives = 150/227 (66%), Gaps = 3/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++E NLRLV+SVAKKY GL F DLIQEGNIGLMKA EKFD G++FSTYA WW Sbjct: 51 ARQKLIEKNLRLVVSVAKKYRGYGLPFEDLIQEGNIGLMKAVEKFDPERGFRFSTYATWW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ R++AD+ TIR+PVHM +KI K+ RT +S +++REPT EE+A+ L E V Sbjct: 111 IRQAVQRAVADKGRTIRVPVHMTEKIRKMARTYNELSAQLEREPTDEEVAEALGWTPEEV 170 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLT 621 R+V + SL P+ DED+S +G+F+ED+ A S A+ ++ R + L Sbjct: 171 REVKGAMPDATSLNQPLSSDEDSSEIGEFVEDERA-SDTAGAVARDIENAALRKAIERLP 229 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R VL R+G+ TL E+ ++ V+RER+RQ++ +A R ++ Sbjct: 230 ERNRHVLVRRYGLDDREPATLAELSEELGVSRERVRQLQREAERMIQ 276 >gi|327404710|ref|YP_004345548.1| RpoD subfamily RNA polymerase sigma-70 subunit [Fluviicola taffensis DSM 16823] gi|327320218|gb|AEA44710.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fluviicola taffensis DSM 16823] Length = 289 Score = 197 bits (501), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 100/239 (41%), Positives = 160/239 (66%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + +ANLR V+SV+K+Y N+GL DLI EGN+GL+KAAE+FD G+KF +YA+WW Sbjct: 50 ALERLTKANLRFVVSVSKQYQNQGLSLPDLINEGNLGLIKAAERFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+Q+ +R+P++ I+K+ R + +R P+ +E+A+ L VE V Sbjct: 110 IRQSILQALAEQARIVRLPLNKIGTINKINRAYSELEQVYERPPSADELAEFLECSVEDV 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 R+ L T +S++ P+ GDE +S + D + + SP + + +LR+ R L+SL+ Sbjct: 170 RQSLANTARHLSMDAPLVDGDESSSSMYDVLPNDALPSPENELNKESLRKEIERSLSSLS 229 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+R+ +G+ TLEE+G F +TRER+RQI+ KAIR+LKH SRS+ L+S+L Sbjct: 230 GREGDVVRLYYGLNGKHALTLEEIGDLFDLTRERVRQIKEKAIRRLKHTSRSRMLKSYL 288 >gi|325954752|ref|YP_004238412.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Weeksella virosa DSM 16922] gi|323437370|gb|ADX67834.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Weeksella virosa DSM 16922] Length = 288 Score = 197 bits (501), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 163/238 (68%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+W Sbjct: 49 VALEKLTKANLRFVVSVAKQYQNQGLSLPDLINEGNLGLIKAAQRFDETRGFKFISYAVW 108 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q+I +++A+QS +R+P++ I+K+ + + + +R P+ EEI++ L M Sbjct: 109 WIRQSILQALAEQSRIVRLPLNKIGSINKINKAYALLEQEHERAPSAEEISEVLDMSEGD 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V++ LK + +S++ P+ + + S+L D + + SP ++ + +LR R L +LTP Sbjct: 169 VKESLKNSGRHVSMDAPLVEGEDSNLYDVLNIGESPSPDNTLMIESLRVEIERALQTLTP 228 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE ++R+ FG+ TLEE+G+ F +TRER+RQI+ KAIR+LKH SRSK L++++ Sbjct: 229 READLIRLYFGLNGAHPMTLEEIGETFDLTRERVRQIKEKAIRRLKHTSRSKILKTYI 286 >gi|189348175|ref|YP_001941371.1| RNA polymerase sigma 28 subunit [Burkholderia multivorans ATCC 17616] gi|189338313|dbj|BAG47381.1| RNA polymerase sigma 28 subunit [Burkholderia multivorans ATCC 17616] Length = 612 Score = 197 bits (500), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 97/237 (40%), Positives = 148/237 (62%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA +++D G++FSTYA WW Sbjct: 375 AKTALFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWW 434 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+IT ++AD TIR+P H D I+K+ R AR + TP E+A ++ PV+ V Sbjct: 435 IRQSITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAGATATPAELAAQMGEPVDKV 494 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + PI + D + D + SP D+A A R + L PR Sbjct: 495 RDLMAIVKEPVSADLPIAPDGDMTFVDVVPDASTPSPEDAADAAQRRAAIAAAIDRLPPR 554 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++R+R+G+ +L ++G++ ++ ER+RQIEA A+ +L+ LR F+ Sbjct: 555 EALIVRLRYGLHAGEGCSLRDIGRRLNLSAERVRQIEASALARLRASGTLAVLRPFV 611 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 57/154 (37%), Positives = 81/154 (52%), Gaps = 12/154 (7%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 + +I L RG+VT +L LP D+ ++ A+L+ +GI V DD E G Sbjct: 24 FAGLIALGLSRGFVTRGDLIDALPDDDAHDAGIDAATAVLAELGIAV--SDDAHAETGW- 80 Query: 91 DSLD-------LASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 SLD L+ +A+ + R+TD PVR+YLREMG++ LL+ + EIA A Sbjct: 81 -SLDRYFRPAPLSRAAAERNGAFAAFDLLVPRTTD-PVRLYLREMGTVPLLTHDEEIAYA 138 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +RIE GRA +A LC P AL R E+ +G Sbjct: 139 QRIERGRAASVAVLCGDPDALDALASIRREIAEG 172 >gi|317968319|ref|ZP_07969709.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0205] Length = 260 Score = 197 bits (500), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 98/226 (43%), Positives = 150/226 (66%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 26 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S++ R+P E+A + M E + Sbjct: 86 IRQGMTRAIDNSARTIRLPIHVSEKLSKMRRITRELSHRFGRQPNRLELAHAMGMQPEEL 145 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +++ + SL+ GD+D S LG+ I D N+ +DS + +E L+ L Sbjct: 146 EELITQSAPCASLDAHARGDDDRSTLGELIADPNSNESMDSMDRNLQKEHLGTWLSQLNE 205 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +++ +RFG+ TL E+G+Q V+RER+RQ+E+KAI KL+ Sbjct: 206 RERKIIELRFGLAGQEPLTLAEIGRQINVSRERVRQLESKAILKLR 251 >gi|161522996|ref|YP_001585925.1| RpoD family RNA polymerase sigma factor [Burkholderia multivorans ATCC 17616] gi|160346549|gb|ABX19633.1| RNA polymerase, sigma 70 subunit, RpoD family [Burkholderia multivorans ATCC 17616] Length = 625 Score = 197 bits (500), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 97/237 (40%), Positives = 148/237 (62%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + +ANLRLV+S+AK+Y +RGL F DLIQEGNIGL+KA +++D G++FSTYA WW Sbjct: 388 AKTALFDANLRLVVSIAKRYPDRGLPFADLIQEGNIGLLKAIDRYDHRRGFRFSTYATWW 447 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+IT ++AD TIR+P H D I+K+ R AR + TP E+A ++ PV+ V Sbjct: 448 IRQSITHALADLGRTIRVPTHTVDAINKLARLAREHRQRAGATATPAELAAQMGEPVDKV 507 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R ++ I KEP+S + PI + D + D + SP D+A A R + L PR Sbjct: 508 RDLMAIVKEPVSADLPIAPDGDMTFVDVVPDASTPSPEDAADAAQRRAAIAAAIDRLPPR 567 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++R+R+G+ +L ++G++ ++ ER+RQIEA A+ +L+ LR F+ Sbjct: 568 EALIVRLRYGLHAGEGCSLRDIGRRLNLSAERVRQIEASALARLRASGTLAVLRPFV 624 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/154 (37%), Positives = 81/154 (52%), Gaps = 12/154 (7%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 + +I L RG+VT +L LP D+ ++ A+L+ +GI V DD E G Sbjct: 37 FAGLIALGLSRGFVTRGDLIDALPDDDAHDAGIDAATAVLAELGIAV--SDDAHAETGW- 93 Query: 91 DSLD-------LASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 SLD L+ +A+ + R+TD PVR+YLREMG++ LL+ + EIA A Sbjct: 94 -SLDRYFRPAPLSRAAAERNGAFAAFDLLVPRTTD-PVRLYLREMGTVPLLTHDEEIAYA 151 Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDG 177 +RIE GRA +A LC P AL R E+ +G Sbjct: 152 QRIERGRAASVAVLCGDPDALDALASIRREIAEG 185 >gi|1519640|gb|AAB07553.1| SigC [Chloroflexus aurantiacus J-10-fl] Length = 312 Score = 197 bits (500), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 91/245 (37%), Positives = 152/245 (62%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 + A + +++ +NLRLV+S+A++Y L LDLIQEG++GLM A +KFD G KF Sbjct: 66 AQVNAGTGRAQLINSNLRLVVSIARRYQGHALSLLDLIQEGSVGLMGAVDKFDASRGLKF 125 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA +W++Q+I R+IAD S T+R+PVH+ +++ ++ R + +S ++ REPT EE+A Sbjct: 126 STYATYWIRQSIGRAIADHSRTVRLPVHLGERLSRLSRLRQELSQQLDREPTLEELAAGC 185 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 R + P SL+ P ++ L + + D +P D ++ L+ Sbjct: 186 RPERRAGRTAEQAGLAPTSLDEPHTEDGGGALAEILTDPLQPTPFDEVSESMLQADVQHA 245 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L L+PRE +LR+R+G+ HTLE++G++ +TRER+RQ+E +A+RKL+ PS +L Sbjct: 246 LQQLSPRERSILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEHEALRKLRDPSLHPQL 305 Query: 677 RSFLD 681 + +++ Sbjct: 306 QGYVN 310 >gi|209883307|ref|YP_002287164.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] gi|209871503|gb|ACI91299.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5] Length = 387 Score = 197 bits (500), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 113/246 (45%), Positives = 158/246 (64%), Gaps = 8/246 (3%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTN-RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A AK VE+NL V +A + N + L DL QEG +GL+KA E FD LG++F TY Sbjct: 143 AEKAKARFVESNLLYVRKLANRKRNLKHLTADDLFQEGLMGLLKATELFDPELGFRFKTY 202 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q ++R++ D TIR+PVH + K+ R +++ ++ REPT E+A +L + Sbjct: 203 ATWWIQQYMSRALDDGDRTIRLPVHRHEYFRKIKRKTAKLTFELGREPTLNELATELGLE 262 Query: 560 VEGVRKVL---KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 E + K+L +T E + + PIG EDT+ L + D++ S LD LR RV Sbjct: 263 RERLAKLLWRLHVT-ECVEADAPIG-EDTTVLS-YKADESP-SILDLVALQQLRTMVARV 318 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA+L PREER++RMRFG+ + + TLE +G F VTRERIRQIEAKA+RKLKHPSRS+ L Sbjct: 319 LATLVPREERIIRMRFGLDGSGEQTLEAIGNVFGVTRERIRQIEAKALRKLKHPSRSRAL 378 Query: 677 RSFLDG 682 R+FL+ Sbjct: 379 RTFLES 384 >gi|317502748|ref|ZP_07960858.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] gi|315666141|gb|EFV05698.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] Length = 287 Score = 197 bits (500), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 102/268 (38%), Positives = 170/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +++G+ A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEDLISVEEEVELAQKIKRGDRRAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R ++ + + PT EEIA K+ +P E V +K +S++ P + + + L D + Sbjct: 139 KRVLNKLEQENEHFPTIEEIAAKVDIPEEKVADAIKSNGRHVSVDAPFAEGEENSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + NA + +Q +LR+ + L SL RE ++ FGI + TLEE+G +F +T Sbjct: 199 PNSNAQMADNVLVQESLRDEISSALKSLNERERNIIEAFFGINQ-AEMTLEEIGDKFGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L++ S++K L+++L Sbjct: 258 RERVRQIKEKAIRRLRNNSKNKSLKAYL 285 >gi|327480191|gb|AEA83501.1| RNA polymerase sigma factor RpoS [Pseudomonas stutzeri DSM 4166] Length = 332 Score = 197 bits (500), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 156/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDL++EGN+GL++A EKF Sbjct: 81 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLVEEGNLGLIRAVEKF 137 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 138 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 197 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + + Sbjct: 198 PEEIANLLEKPVGEVKRMLGLNERVTSVDVSLGPDTDKTLLDTLTDDRPTDPCELLLDDD 257 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L + L+ L+ ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+R+L+ Sbjct: 258 LSNSIDLWLSDLSEKQREVVIRRFGLRGHEASTLEEVGQEIGLTRERVRQIQVEALRRLR 317 >gi|331006084|ref|ZP_08329420.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC1989] gi|330420121|gb|EGG94451.1| RNA polymerase sigma factor RpoS [gamma proteobacterium IMCC1989] Length = 342 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 87 VFFARKSLKGEEAARKRMIESNLRLVVKISRRYVNRGLALLDLIEEGNLGLIRAVEKFDP 146 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EP+ E Sbjct: 147 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPSAE 206 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V K+L + + S++ IG + L D I D++ P+ +++ Sbjct: 207 EIANLLDKPVADVEKMLGLNERVNSIDVNIGPQGDKTLSDTIPDQHVSDPVSLLQDSDMS 266 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L LT ++ VL RFG+ TLEEVG++ +TRER+RQI+ +A+++LK Sbjct: 267 ASIDGWLTELTEKQREVLCRRFGLRGYETSTLEEVGREIGLTRERVRQIQVEALKRLK 324 >gi|288926163|ref|ZP_06420090.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608876|ref|ZP_07883849.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337055|gb|EFC75414.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249403|gb|EFU29419.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 286 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 97/247 (39%), Positives = 163/247 (65%), Gaps = 4/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RKG+ A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAAEKFD G Sbjct: 43 IRKGDRHAL---EKLTKANLRFVVSVAKQYQNQGLSLPDLINEGNMGLIKAAEKFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ R + + +R P+ +EIA Sbjct: 100 FKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKINRMLNKFEQENERRPSIDEIA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + +P + + LK+ +S++ P D D + L D + + +A + + +LRE Sbjct: 160 DSVDLPEDKIEDALKVNTRHVSVDAPFVDGDDNSLIDILPNSDAPMADKALVMESLREEI 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +R L +L RE ++ FGI N + TLEE+G +F +TRER+RQI+ KAIR+L+H +++ Sbjct: 220 SRALRTLNERERNIIECFFGIN-NPEMTLEEIGDKFGLTRERVRQIKEKAIRRLRHNTKN 278 Query: 674 KKLRSFL 680 + L+++L Sbjct: 279 RVLKAYL 285 >gi|77919031|ref|YP_356846.1| DNA-directed RNA polymerase, sigma 70/sigma 32 subunit [Pelobacter carbinolicus DSM 2380] gi|77545114|gb|ABA88676.1| RNA polymerase, sigma 38 subunit, RpoS [Pelobacter carbinolicus DSM 2380] Length = 347 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 149/226 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ +AK+Y NRGL FLDLI+EGN+GL+KA E+F +FSTYA WW Sbjct: 101 ARDRMIESNLRLVVKIAKRYMNRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWW 160 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R++ +QS TIR+PVH+ D I+K ++ +R + ++ REP EEIA+ + + + Sbjct: 161 IRQSIERALVNQSRTIRLPVHVSDDINKFIKISRELVHQYNREPKVEEIAEYMGVEPAYI 220 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+++ + K+ S+E P+G+ L D IED A +P + +L+ Sbjct: 221 RRLMVLVKKTYSIEHPMGENRDYSLIDTIEDPKADNPSTFVDDIDKYAHVCNWFETLSEN 280 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E +L +RFG+ TL+ +G++F VTRERIRQIEAK+++KL++ Sbjct: 281 EREILMLRFGLDDQEPQTLDTIGRRFGVTRERIRQIEAKSLQKLRN 326 >gi|325294741|ref|YP_004281255.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065189|gb|ADY73196.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurobacterium thermolithotrophum DSM 11699] Length = 322 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 94/238 (39%), Positives = 159/238 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++VE+NLR V+SVAKKY GL DLI EG +GL++AA +FD G KF +YA+WW Sbjct: 85 ALKKLVESNLRFVVSVAKKYLGCGLPLHDLIAEGILGLIEAARRFDPDKGVKFISYAVWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A Q+ ++IPV ++K+ R+ + K+ REPT EE+A+ + M + + Sbjct: 145 IRQSIMQALAQQTGAVKIPVKQAVLVNKITRSYGELLKKLGREPTTEELAEYVGMEPKEI 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L + + P+SL+TPIGDE+ + DF++ + + +Q L+++ +L LTP+ Sbjct: 205 ERLLTVCQVPLSLDTPIGDEEDTTFKDFLKGEGTAEVEEKVVQEELKQSIQEMLEQLTPQ 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++++ MRFG+ N TL E+G++ ++RER+RQ+E +A +K+K + KKL FL+ Sbjct: 265 EKKIIIMRFGLDGNEPKTLREIGEKLGISRERVRQLETRAKKKMKEYALRKKLNVFLN 322 >gi|225621460|ref|YP_002722719.1| R polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] gi|225216281|gb|ACN85015.1| R polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1] Length = 309 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 94/234 (40%), Positives = 158/234 (67%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V++NLRLVIS+AK+Y N G+ F+D+I EGNIGL++A ++F++ G+KFSTY +WW+KQ Sbjct: 74 KLVKSNLRLVISIAKRYYNSGVPFIDIIDEGNIGLIEAVKRFEYKKGFKFSTYGVWWIKQ 133 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I + I+ + IR P+H+ I K ++T++ ++ K+ R+PT +EI+K++ + + + + Sbjct: 134 SIVKEISSKRHIIRFPMHIARLIKKSIQTSKTLTQKLGRDPTIDEISKEMKIDRKTLSYI 193 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + T++ S+++ + D + + IEDKN SP A +LR+T T L L +E Sbjct: 194 MIFTQDTASVDSFFRNSDNNDMTSIIEDKNFPSPHQKAFMDSLRDTLTEALKCLDEKERT 253 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+ R+G+ TLE+ GK+ +TRER+RQI+ KAI+KL + SK+L+SFL Sbjct: 254 VIISRYGLYGKEAKTLEDTGKELNITRERVRQIQIKAIKKLAGLNLSKELKSFL 307 >gi|42526449|ref|NP_971547.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] gi|41816642|gb|AAS11428.1| RNA polymerase sigma-70 factor family protein [Treponema denticola ATCC 35405] gi|325473389|gb|EGC76584.1| RNA polymerase sigma factor [Treponema denticola F0402] Length = 286 Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 108/286 (37%), Positives = 171/286 (59%), Gaps = 7/286 (2%) Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 KN E++S+ EI I + T E + KG+ +A K +V +NLR Sbjct: 6 KNNYDAEMNSLATYLKEINQIPLLTA---EEEIKYAKLAEKGDEDA---KNMLVNSNLRF 59 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V++VAKKY N+GL +DLI EGNIGLM AAE+FD GYKF +YA+WW+KQ+I ++I ++ Sbjct: 60 VVNVAKKYQNQGLPLMDLISEGNIGLMNAAERFDVSKGYKFISYAVWWIKQSILKAICEK 119 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 S IR+P++ +++ ++ + + + EIA L M V ++ +EPIS Sbjct: 120 SRMIRLPLNRANELVQIEKAKKEIDFSGNETKELNEIAGILNMDNSMVHTIMNAAREPIS 179 Query: 576 LETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 ++ P+ DE +S + DF++D+ P D A+ +LR+ +L +L RE ++R RFG+ Sbjct: 180 IDAPVFDEPGSSSVNDFLQDETHQMPEDYAMDMSLRDEVNELLKNLDDREAEIIRYRFGL 239 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G +L+EVG F +T+ERIRQIE KA+++LK P+ +KL ++ Sbjct: 240 GGYAPLSLKEVGLIFNLTKERIRQIEKKALQQLKKPAEKQKLAVYV 285 >gi|302345330|ref|YP_003813683.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|302149662|gb|ADK95924.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 284 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 168/268 (62%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +R G+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 19 LQEIGHEEMISIEEEVELAQKIRNGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 75 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 76 LINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 135 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ +EIA+ +P + + +K+ +S++ P D++ S L D I Sbjct: 136 NKILTQFEQENERRPSIDEIAQNTDIPEDKIVDAMKVNSRHVSVDAPFYDDEQSSLLDVI 195 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + N S ++ +LRE R L L RE+ V+ FGI + TLEE+G ++ +T Sbjct: 196 PNDNTPSTDKELVEESLREEIGRALQILEDREKVVIEAYFGINQR-EMTLEEIGSKYNLT 254 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ S SK L+++L Sbjct: 255 RERVRQIKEKAIRRLRQLSNSKVLKAYL 282 >gi|33862253|ref|NP_893814.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33634471|emb|CAE20156.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 339 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 98/226 (43%), Positives = 149/226 (65%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 105 ARDRMMSANLRLVVSVAKKYQNQGLDLLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S K R+PT E+A + + + + Sbjct: 165 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSQKSGRQPTRLEMATAMGIEQKDL 224 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + SL+ G+ED S LG+ I D N P++ + +E L L Sbjct: 225 EDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEEPMEGMDRTIQKEHLGTWLTQLNE 284 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 285 REQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330 >gi|87118598|ref|ZP_01074497.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Marinomonas sp. MED121] gi|86166232|gb|EAQ67498.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Marinomonas sp. MED121] Length = 330 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 150/226 (66%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 87 SRKRMIESNLRLVVKISRRYLNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ E+IA L PVE V Sbjct: 147 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSAEDIADMLDRPVEDV 206 Query: 564 RKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +K+L + + S+++P+G DT L + I D+ P D +++ L L Sbjct: 207 QKMLSLNERISSIDSPVGGMDTDKSLVEIIADEQHAGPEDERQFSDVVHNIDHWLNDLNE 266 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ RFG+ TLE+VG + +TRER+RQI+ +A+RKLK Sbjct: 267 KQREVIARRFGLRGYEPSTLEDVGAEIGLTRERVRQIQVEALRKLK 312 >gi|126215762|gb|ABN81001.1| putative RNA polymerase sigma-B factor [Rhodococcus opacus] Length = 194 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 87/193 (45%), Positives = 138/193 (71%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 + LDLIQEGN+GL++A EKFD+ G+KFSTYA WW++QAITR +ADQS TIR+PVH+ + Sbjct: 1 MPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVE 60 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 +++K+ R R + ++ RE T +E+A++ +P + +L +++P+SL+ P+G+++ + Sbjct: 61 QVNKLARIKRELHQQLGREATDDELAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAP 120 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGDFIED A S ++ I L VLA+L RE++V+R+R+G+ TL+++GK Sbjct: 121 LGDFIEDSEATSAENAVIAGLLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGK 180 Query: 648 QFCVTRERIRQIE 660 F ++RER+RQIE Sbjct: 181 LFGLSRERVRQIE 193 >gi|126175320|ref|YP_001051469.1| RpoD family RNA polymerase sigma factor [Shewanella baltica OS155] gi|125998525|gb|ABN62600.1| RNA polymerase, sigma 70 subunit, RpoD family [Shewanella baltica OS155] Length = 326 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 96/239 (40%), Positives = 158/239 (66%), Gaps = 2/239 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V RK + ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 73 VYFSRKALKGCAKSRNRMIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDP 132 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E Sbjct: 133 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAE 192 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 EIA+KL + V ++LK+ ++ S++TP+ ++ L D + D + V P D +Q ++ Sbjct: 193 EIAEKLQVSSADVSRMLKLNEKITSVDTPLWGDNDKALLDILADDDNVGP-DYKVQDEDI 251 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L L ++ VL RFG+ TLE+VG + +TRER+RQI+ +A+++L+ Sbjct: 252 SNSVVKWLNELNTKQREVLARRFGLLGYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 310 >gi|300727119|ref|ZP_07060538.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299775663|gb|EFI72254.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 295 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 100/268 (37%), Positives = 168/268 (62%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + ++KG+ A + + +ANLR V+SVAK+Y N+GL D Sbjct: 30 LQEIGHEDLISVDEEVELAQRIKKGDKRAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 86 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 87 LINEGNLGLIKAAKKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 146 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R + +R P+ +EIA + +P + + L + +S++ P + + + L D + Sbjct: 147 NRLVNSFEQENERRPSVDEIADNIDLPEDKIADALNVNTHHVSVDAPFQEGEDNSLLDVL 206 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + S + +LRE RVL +L RE V+ FGIG + TLEE+G ++ +T Sbjct: 207 PNTDIPSADSELVHESLREEIARVLETLNQRERNVVEAFFGIGQ-AEMTLEEIGDKYGLT 265 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+H +++K L+S+L Sbjct: 266 RERVRQIKEKAIRRLRHNTKNKYLKSYL 293 >gi|326332710|ref|ZP_08198972.1| RNA polymerase principal sigma factor SigB [Nocardioidaceae bacterium Broad-1] gi|325949491|gb|EGD41569.1| RNA polymerase principal sigma factor SigB [Nocardioidaceae bacterium Broad-1] Length = 315 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 148/229 (64%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A +E + ANLRLV+S+A+KY + LDLIQEGN GL++A EKFD+ GYKFSTY Sbjct: 78 EGHRATREFINANLRLVVSIARKYGRAQMPMLDLIQEGNTGLIRAVEKFDYTKGYKFSTY 137 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WWV+QAITR IA Q+ +R+PVH+ +++++V R + ++ R+P PEEIA +L M Sbjct: 138 ATWWVRQAITRGIAQQARVVRLPVHVVEELNQVGGARRTLERQLGRDPEPEEIAAELGMD 197 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 ++ V +L ++ +SL+TPI ++ + LGD + ++A SP I RE ++ Sbjct: 198 IDRVLDLLSWGRDHVSLDTPIDEDGDTSLGDLMAQESAPSPDMDVIDVESRERLNSLVGQ 257 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R ++R R+G+ H L ++G + ++ ER+RQ+E +A++KL+ Sbjct: 258 LDERSADIVRSRYGLTDGRQHKLADIGVKHGISAERVRQLEREALQKLR 306 >gi|94500747|ref|ZP_01307276.1| nonessential primary sigma factor [Oceanobacter sp. RED65] gi|94427069|gb|EAT12050.1| nonessential primary sigma factor [Oceanobacter sp. RED65] Length = 331 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 96/240 (40%), Positives = 154/240 (64%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + RKG+ + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 75 HFARLARKGDEKG---RKRMIESNLRLVVKIARRYVNRGLTLLDLIEEGNLGLIRAVEKF 131 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPT Sbjct: 132 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPT 191 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA L PV+ V+++L + + S++TP+G + D I D+ P + Sbjct: 192 AEEIADLLEKPVDDVKRMLGLNERVTSVDTPLGYNSDKAILDTIADEAVSDPCQVLQDDD 251 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L LT ++ V+ RFG+ TLEEVG + +TRER+RQI+ +A+++L+ Sbjct: 252 ISSSLDGWLDELTEKQREVIARRFGLRGYEISTLEEVGFEIGLTRERVRQIQVEALKRLR 311 >gi|220906009|ref|YP_002481320.1| RNA polymerase sigma-70 subunit RpoD subfamily [Cyanothece sp. PCC 7425] gi|219862620|gb|ACL42959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7425] Length = 372 Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 96/241 (39%), Positives = 163/241 (67%), Gaps = 1/241 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +AK +M+ +NLRLV+S+AK+Y NRG+ FLDL+QEG +GL +A EKFD G+KFSTYA Sbjct: 131 GQVAKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRATEKFDPEKGFKFSTYA 190 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++Q ITR+IA+ S TIR+P+H+ +K++K+ + R + +++R PT +E+A L + + Sbjct: 191 YWWIRQGITRAIANDSRTIRLPIHIVEKLNKLKKLQRHLKKELQRNPTEQELADALEITL 250 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E ++ + + ++ +SL +G E+ + L D +E + SP + +R+ +++L + Sbjct: 251 EQLQMLQRARQQALSLNRRVGREEDTELLDLLEADSTQSPEKQMGEVMMRQEISQLLDLV 310 Query: 621 TPREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++ER V+ +R+G+ +TLEEV F ++RER+RQI+ KAI KL+ + + LR++ Sbjct: 311 LTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQIQNKAIGKLRRSAIAHHLRNW 370 Query: 680 L 680 L Sbjct: 371 L 371 >gi|198282770|ref|YP_002219091.1| RpoD family RNA polymerase sigma-70 subunit [Acidithiobacillus ferrooxidans ATCC 53993] gi|218666687|ref|YP_002424966.1| RNA polymerase sigma-38 factor [Acidithiobacillus ferrooxidans ATCC 23270] gi|198247291|gb|ACH82884.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus ferrooxidans ATCC 53993] gi|218518900|gb|ACK79486.1| RNA polymerase sigma-38 factor [Acidithiobacillus ferrooxidans ATCC 23270] Length = 317 Score = 196 bits (497), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 98/237 (41%), Positives = 148/237 (62%), Gaps = 3/237 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 MV+ G+ A+ M+E+NLRLV+ VA+ Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 70 MVQTGD---QAARCTMIESNLRLVVKVARHYLNRGLPLLDLIEEGNLGLIRAVEKFDPER 126 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q I R++ +Q+ TIR+P+H+ ++ V+R R ++ ++R+PTPEE+ Sbjct: 127 GFRFSTYATWWIRQNIERALMNQTRTIRLPIHVMKELSAVLRATRCLAQTLQRDPTPEEV 186 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+ L V+ VR L++ SL+ P G L D + D NA NL Sbjct: 187 AEALDRSVDAVRDCLEMDGRVTSLDMPYGKGSDRSLADLVADTNAPGVEQRLENQNLSRQ 246 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +A++T + VL RFG+ TLEEVG + +TRER+RQI+ +A+ L+H Sbjct: 247 VHQWIATMTEKHRLVLLWRFGLDGTDGATLEEVGSRLGITRERVRQIQVEALLVLRH 303 >gi|288803307|ref|ZP_06408740.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|288334127|gb|EFC72569.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] Length = 287 Score = 196 bits (497), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 104/268 (38%), Positives = 168/268 (62%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + +R G+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEEMISIEEEVELAQKIRNGDRKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS IR+P++ ++K+ Sbjct: 79 LINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIIRLPLNQVSSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ +EIA+ +P + + +K+ +S++ P D++ S L D I Sbjct: 139 NKILTQFEQENERRPSIDEIAQNTDIPEDKIVDAMKVNSRHVSVDAPFYDDEQSSLLDVI 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + N S ++ +LRE R L L RE+ V+ FGI + TLEE+G ++ +T Sbjct: 199 PNDNTPSTDKELVEESLREEIGRALQILEDREKVVIEAYFGINQR-EMTLEEIGSKYNLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ S SK L+++L Sbjct: 258 RERVRQIKEKAIRRLRQLSNSKVLKAYL 285 >gi|114562238|ref|YP_749751.1| RNA polymerase, sigma 28 subunit [Shewanella frigidimarina NCIMB 400] gi|114333531|gb|ABI70913.1| RNA polymerase, sigma 28 subunit [Shewanella frigidimarina NCIMB 400] Length = 323 Score = 196 bits (497), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 95/230 (41%), Positives = 152/230 (66%), Gaps = 2/230 (0%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CE S + M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FST Sbjct: 80 CEKS--RNRMIESNLRLVVKISRRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFST 137 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR+++ K+ EPT EEIA+KL + Sbjct: 138 YATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARQLAQKLDHEPTAEEIAEKLDV 197 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++LK+ + S+++P+ ++ L D I D ++V P +L + L Sbjct: 198 STGDVSRMLKLNERITSVDSPLSGDNEKALLDVIADDDSVGPDYRVQNEDLSNSIVGWLN 257 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL RFG+ TLE VG + +TRER+RQI+ +A+++LK Sbjct: 258 ELNTKQREVLARRFGLLGYEPSTLENVGAEIGLTRERVRQIQVEALKRLK 307 >gi|92114749|ref|YP_574677.1| sigma 28 (flagella/sporulation) [Chromohalobacter salexigens DSM 3043] gi|91797839|gb|ABE59978.1| RNA polymerase, sigma 38 subunit, RpoS [Chromohalobacter salexigens DSM 3043] Length = 325 Score = 196 bits (497), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 158/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 74 HYGRLAQKGD---PAGRQRMIESNLRLVVKIARRYLNRGLSLLDLIEEGNLGLIRAVEKF 130 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R++ +Q+ TIR+P+H+ +++ +R AR ++ ++ E T Sbjct: 131 DPERGFRFSTYATWWIRQTIERALMNQTRTIRLPIHVVKELNIYLRAARELTQRLDHEAT 190 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA+ L PV V+K+L + + S++ P+G E L D + D+N P + + Sbjct: 191 AEEIAEFLDKPVGTVKKMLGLNERVSSVDYPMGGESDKPLIDTLADENEAGPESLLVGND 250 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ LA LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A++KL+ Sbjct: 251 VKQHVDDWLAELTDKQMEVVVRRFGLRGHEAATLEEVGEEIGLTRERVRQIQVEALKKLR 310 >gi|326319203|ref|YP_004236875.1| RpoD subfamily RNA polymerase sigma-70 subunit [Acidovorax avenae subsp. avenae ATCC 19860] gi|323376039|gb|ADX48308.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidovorax avenae subsp. avenae ATCC 19860] Length = 878 Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 106/247 (42%), Positives = 158/247 (63%), Gaps = 13/247 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA+ M ANL+L A+KY G DL QEGN+GL+KA ++++W G++FSTYA W Sbjct: 520 IARDRMTAANLKLAFFHARKYLYSGETLDDLAQEGNVGLLKAVDRYNWRRGFRFSTYATW 579 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 WV+Q I+R +AD++ TIR+PVH+ +K + R A+R R P+ +E+A+++ MP Sbjct: 580 WVRQQISRYVADKARTIRMPVHIYEKAQRAERIAQRFEMLADRAPSLDELAERMEMPRHK 639 Query: 563 VRKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAV---SPLDSAIQANLRETTTRVLA 618 + +L+I EP + E+P+ DE S ++ ++A P D+ +R R ++ Sbjct: 640 LAALLRIAPEPSRIDESPV-DELIS-----LDARDAYWLPDPADAVETHQVRAALDRYIS 693 Query: 619 SLTPR---EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 SL+ R EE VLR+R+GIG++ TL+EVG++F VTRERIRQIEAKAIRKLKH +RS+ Sbjct: 694 SLSTRDRKEEHVLRLRYGIGVHEALTLDEVGQRFGVTRERIRQIEAKAIRKLKHHARSEP 753 Query: 676 LRSFLDG 682 + G Sbjct: 754 FARLVLG 760 >gi|121998209|ref|YP_001002996.1| RpoD family RNA polymerase sigma factor [Halorhodospira halophila SL1] gi|121589614|gb|ABM62194.1| RNA polymerase, sigma 38 subunit, RpoS [Halorhodospira halophila SL1] Length = 336 Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 153/238 (64%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ R+ + + A+ M+E+NLRLV+ +A++Y NRGL FLDLI+EGN+GL++A EKFD Sbjct: 84 VALARRVQQGDAAARARMIESNLRLVVKIARRYMNRGLAFLDLIEEGNLGLIRAVEKFDP 143 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R I +Q+ TIR+P+H+ +I++ +RT RR++ + EPT + Sbjct: 144 ERGFRFSTYATWWIRQTIERGIMNQTRTIRLPIHVIKEINQYLRTQRRLTQTLDHEPTVD 203 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + E VR++ + + S++ PIG + L D I D+ P + ++ Sbjct: 204 EIADAMGRSPEDVRRMRGLNEGTTSVDVPIGKDSDRVLLDAIPDETQGMPENVLEDDDVV 263 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L LT ++ VL RFG+ + +TLE+VG Q VTRER+RQI+ A+R+L+ Sbjct: 264 RHLQDWLGFLTDKQRAVLERRFGLNGHERYTLEQVGTQVGVTRERVRQIQIDALRRLR 321 Score = 41.2 bits (95), Expect = 0.67, Method: Compositional matrix adjust. Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 1/67 (1%) Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDEL 174 R+ D ++YL E+G LL+ E E+A+A+R++ G A A + ES L + I R + Sbjct: 59 RTALDATQLYLNEIGHASLLTAEEEVALARRVQQGDAAARARMIESNLRL-VVKIARRYM 117 Query: 175 NDGTTLL 181 N G L Sbjct: 118 NRGLAFL 124 >gi|238898782|ref|YP_002924464.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466542|gb|ACQ68316.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 335 Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 92/246 (37%), Positives = 162/246 (65%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 86 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 145 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 146 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 205 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 206 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 265 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++ + L L+ ++ VL RFG+ TLEEVG + +TRER+RQI+ + + +LK Sbjct: 266 KSVVKWLFELSTKQREVLARRFGLLGYEPATLEEVGCEIGLTRERVRQIQVEGLLRLKEM 325 Query: 671 SRSKKL 676 +++ L Sbjct: 326 LQTQGL 331 >gi|261856530|ref|YP_003263813.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothiobacillus neapolitanus c2] gi|261836999|gb|ACX96766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothiobacillus neapolitanus c2] Length = 343 Score = 195 bits (495), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 103/272 (37%), Positives = 161/272 (59%), Gaps = 3/272 (1%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 F A + +S+ +R ++ + E ++ E V R+ + A+++M+ NLRLV Sbjct: 59 TFSASDSESVDPVRLYLRDVETERLLTAEEE---VIYSRRAQSGDESARQKMIVCNLRLV 115 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 I +A++Y NRGL LDLI+EGNIGLM+A EKFD G++FSTYA WW++Q I R + +QS Sbjct: 116 IKIARRYMNRGLDLLDLIEEGNIGLMRAVEKFDPERGFRFSTYATWWIRQTIERGLMNQS 175 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 T+R+PVH+ ++H R AR+++ E T E+IA L PV V K++ + S Sbjct: 176 RTVRLPVHVVKEVHTFNRAARKIAQNQNAEVTAEQIADHLDRPVNEVLKIMAFNERQSSF 235 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ++P+ + L D I D+ + P + A + +++A L ++ VL R+G+ Sbjct: 236 DSPLKGDGEFSLLDLIPDQESNQPDELLQDAGVHGFLDQLIAQLESKQREVLVRRYGLRG 295 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 HTLEEVG VTRER+RQI+ +A+R+LK Sbjct: 296 YETHTLEEVGNHLGVTRERVRQIQLEAVRRLK 327 >gi|17158744|ref|NP_478255.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] gi|17134693|dbj|BAB77251.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120] Length = 323 Score = 195 bits (495), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 90/229 (39%), Positives = 153/229 (66%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + + AK++M+ ANLRLV+++AKKY R L+ +DLIQEG++GL + EKFD GYKFSTY Sbjct: 83 QGTQAKQKMMVANLRLVVAIAKKYQRRNLELMDLIQEGSLGLERGVEKFDPTRGYKFSTY 142 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW+ QA+TR+I+ QS TIR+P+H+ +K++K + R +S K+KR P+ +EIA+K+ + Sbjct: 143 AYWWISQAMTRAISQQSRTIRLPIHITEKLNKFKKVQRELSQKLKRSPSADEIAEKMKLN 202 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +R++L I+++P SL+ +GD + + L + + + SP Q +R+ L Sbjct: 203 PAQIRELLMISRQPASLDKQVGDNEDTELQELLTEVPETSPEIQVTQNLMRQDIYLSLRE 262 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP++++VL + +G+ N + TL +V + ++ R+R +E +A+ L+ Sbjct: 263 LTPQQQQVLILHYGLEDNYELTLTQVAQHLNISERRVRYLEKQALSYLR 311 >gi|254449272|ref|ZP_05062719.1| RNA polymerase sigma factor RpoS [gamma proteobacterium HTCC5015] gi|198261127|gb|EDY85425.1| RNA polymerase sigma factor RpoS [gamma proteobacterium HTCC5015] Length = 308 Score = 194 bits (494), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 102/275 (37%), Positives = 167/275 (60%), Gaps = 5/275 (1%) Query: 396 KNFVACEVDS--ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 ++F A E+ S + R +K I ++ + H +V++G+ A+++M+E+NL Sbjct: 22 EHFTAAELSSSQLDATRLYLKEIEFSPLLTAEQEIHYGRLVQEGD---EAARRKMIESNL 78 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R + Sbjct: 79 RLVVKISRRYMNRGLPLLDLIEEGNLGLIRAVEKFDPEKGFRFSTYATWWIRQTIERGLM 138 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 +Q+ TIR+P+H+ +++ +R AR M + REPTPEE+AK L PV+ V ++ + + Sbjct: 139 NQTRTIRLPIHVIKELNVYLRAARAMQQEFAREPTPEEVAKHLDKPVDDVCRMYGLNERV 198 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 S++ PIG E S L D I D + P + L L +++ V+ RFG Sbjct: 199 ASVDVPIGKEGDSLLLDLIADDSVPDPTALLQSEEVAAYVDHWLEELDAKQKAVVERRFG 258 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TLE +G + VTRER+RQI+ ++++KL+ Sbjct: 259 LHGQDYATLEVIGHELGVTRERVRQIQMESLKKLR 293 >gi|326800649|ref|YP_004318468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] gi|326551413|gb|ADZ79798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] Length = 286 Score = 194 bits (494), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 102/241 (42%), Positives = 160/241 (66%), Gaps = 9/241 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++IA+QS +R+P++ + K+ + R+ + +REP+PEE+A L V+ + Sbjct: 110 IRQSILQAIAEQSRIVRLPLNQVGSLSKISKAFSRLEQEYEREPSPEELADILETTVDKI 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIE--DKNAVSPLDSAIQANLRETTTRVLAS 619 L + +S++ P G+E+T L D +E D N S L I +L E R LA+ Sbjct: 170 SDTLSNSGRHVSMDAPFVQGEENT--LLDVLENHDPNTDSNL---IDESLSEEIKRSLAT 224 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 LT RE ++ + FG+G N +LEE+G+ F +TRER+RQI+ KA+++L+H SRSK L+S+ Sbjct: 225 LTEREREIIVLFFGLGSNHPLSLEEIGETFNLTRERVRQIKDKALQRLRHTSRSKILKSY 284 Query: 680 L 680 L Sbjct: 285 L 285 >gi|158336372|ref|YP_001517546.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158306613|gb|ABW28230.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 194 bits (494), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 93/225 (41%), Positives = 152/225 (67%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MVE+NLRLV+S+AKKY ++FLDLIQEG IGL + EKFD GY+FSTYA WW Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+Q TIR+P+H+ +K+ K+ + R++S K+ R+PT +E+A ++ + + + Sbjct: 143 IRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPTVQELAVEMDLAPKKI 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L + ISL+ IGD+ + L + +ED N SP A ++LR ++L L+P+ Sbjct: 203 EDYLNYARRSISLDIQIGDQQNTELWELLEDPNE-SPDTYATASSLRSDLAKLLQDLSPQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +R+G+ TL +VG++ V+RE +R++E +A + L+ Sbjct: 262 QREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFKILR 306 >gi|6463980|dbj|BAA86957.1| group 2 sigma factor RpoD3 [Synechococcus sp. PCC 7942] Length = 320 Score = 194 bits (494), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 99/249 (39%), Positives = 157/249 (63%), Gaps = 8/249 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 G+SI E R + GE AK++M+EANLRLV+SVAKKY R + LDLIQEG IG Sbjct: 69 GLSIEELRQQQHL---GEQ----AKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIG 121 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 + + EKFD GY+FSTYA WW++QAITR+IA+++ TIR+P+H+ +K++K+ + R++S Sbjct: 122 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLS 181 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++ P E+A L + VR L+ + P+SL+ +GD + LGD +E Sbjct: 182 QQLSTATLP-ELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLETDMQRRR 240 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + +QA++R R+L LT ++ +V+ +R+G+ TL +G + ++RER+RQ+E Sbjct: 241 KEFTLQASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLE 300 Query: 661 AKAIRKLKH 669 +A+ L+ Sbjct: 301 REALHTLRQ 309 >gi|197335185|ref|YP_002156867.1| RNA polymerase sigma factor RpoS [Vibrio fischeri MJ11] gi|197316675|gb|ACH66122.1| RNA polymerase sigma factor RpoS [Vibrio fischeri MJ11] Length = 321 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 148/225 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ +A++Y +RGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 78 ARARMIESNLRLVVKIARRYNHRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EPTPEEIA+KL PV V Sbjct: 138 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPTPEEIAEKLDKPVSDV 197 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S+++ + E L D + D P + ++ + L L P+ Sbjct: 198 SRMLRLNERVASVDSMVAGESDKALLDILPDTKNSDPESETQKDDINTSLVGWLGQLNPK 257 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ RFG+ TLE+VG + +TRER+RQI+ + +R+L+ Sbjct: 258 QKEVVARRFGLLGYEAATLEQVGVEIGLTRERVRQIQVEGLRRLR 302 >gi|226945910|ref|YP_002800983.1| RNA polymerase sigma factor RpoS [Azotobacter vinelandii DJ] gi|16226165|gb|AAL16091.1|AF421351_3 stationary phase sigma factor [Azotobacter vinelandii] gi|226720837|gb|ACO80008.1| RNA polymerase sigma factor [Azotobacter vinelandii DJ] Length = 334 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 161/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I ++ +E H + ++G+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 67 LNEIGFSPLLTPAEEVHFARLAQRGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 123 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 124 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 183 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+ EEIA L PV V+++L + + S++ +G + L D + Sbjct: 184 LRAARELTQKLDHEPSAEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDVL 243 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P D +L ++ + L LT ++ V+ RFG+ + TLEEVG++ +T Sbjct: 244 TDDRPSDPCDLLQDDDLSQSIDQWLFDLTEKQREVVVRRFGLRGHESCTLEEVGQEIGLT 303 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ +A+++L+ Sbjct: 304 RERVRQIQVEALKRLR 319 >gi|320536473|ref|ZP_08036507.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] gi|320146682|gb|EFW38264.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] Length = 282 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 95/238 (39%), Positives = 159/238 (66%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++++ANLR V++VAKKY N+GL +DLI EGNIGLM AA++FD GYKF +YA+WW Sbjct: 44 AKDKLIQANLRFVVNVAKKYQNQGLPLMDLISEGNIGLMNAADRFDVTKGYKFISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++I ++S IR+P++ ++ ++ +T + + + E +E+A LA+ + V Sbjct: 104 IRQSILKAICEKSRMIRLPLNRVGELIQIEKTRKEIRSTASEEEELKEVADILALDHDTV 163 Query: 564 RKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + ++ I +EP+SL+ P+ D+ + +GDFIED P + +L+E+ +V+ +L Sbjct: 164 KMIVNIGREPVSLDAPLFDDAANGKMGDFIEDAQYEQPEAYMLDVSLKESIDKVINTLPK 223 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +LR RFG+ +L++VGK F +T+ERIRQIE K++ +LK S KL +++ Sbjct: 224 REAEILRYRFGLNGYKQLSLKDVGKIFNLTKERIRQIEKKSLEQLKATSYKYKLDAYV 281 >gi|302876403|ref|YP_003845036.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|307687066|ref|ZP_07629512.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|302579260|gb|ADL53272.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] Length = 427 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 114/238 (47%), Positives = 145/238 (60%), Gaps = 6/238 (2%) Query: 448 MVEANLRLVISVA---KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +V AN +LV +A K+++ D+ Q G +GLMKAAEKFD G +FSTYA WWV Sbjct: 185 LVNANKKLVWEIALRYKQFSTVSFDNSDMYQAGVLGLMKAAEKFDISKGNQFSTYATWWV 244 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +Q+ITRSIAD S TIRIPVHMR+KI K V T + N+ R + EE+A L + E V Sbjct: 245 RQSITRSIADYSTTIRIPVHMREKIIKYVSTENKFWNENGRVASKEELANLLGISSEEVN 304 Query: 565 --KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-RETTTRVLASLT 621 +V + SL+ PIG ++ S LG+FI D SP SA + L RE LT Sbjct: 305 YLQVYQDVANLTSLDIPIGADEGSFLGEFIPDDKHRSPEKSAEEGELKRELKEICEGRLT 364 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 P+E R+L RFG HTLEE+G VTRERIRQIEAKAI KL++P ++LR F Sbjct: 365 PKETRILNFRFGFIDGRTHTLEEIGHVENVTRERIRQIEAKAISKLQNPKILERLRDF 422 >gi|313203522|ref|YP_004042179.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Paludibacter propionicigenes WB4] gi|312442838|gb|ADQ79194.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paludibacter propionicigenes WB4] Length = 287 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 103/269 (38%), Positives = 176/269 (65%), Gaps = 5/269 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I++ E + +R G+ IA +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLITVEEEVELAQRIRAGD---RIALEKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGSLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R+P+PEE+A L +PV+ + +K++ IS++ P + + + L D + Sbjct: 139 NKAFSKFEQENERKPSPEELADVLDIPVDKIADTMKVSGRHISVDAPFVEGEDNSLLDVM 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLA-SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + ++ + I +L + RVLA +L+ RE +++ FGIG+ + TLEE+G +F + Sbjct: 199 INDDSPNADRVLINESLSKEIERVLAFTLSDRERDIVKKFFGIGV-AEMTLEEIGDEFGL 257 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIRKL+ ++SK L+ FL Sbjct: 258 TRERVRQIKEKAIRKLRPNAKSKLLKGFL 286 >gi|302338230|ref|YP_003803436.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635415|gb|ADK80842.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 291 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 167/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++++NLR V++VAKKY N+GL DLI EGNIGLM A E++D GY F +YA+WW Sbjct: 52 AKEMLIKSNLRFVVNVAKKYQNQGLPLADLINEGNIGLMNAIERYDVDKGYHFISYAVWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI ++I++++ IR+P++ +++ ++ + + + + K EP EEIA+ + M E V Sbjct: 112 IRQAILKAISEKARMIRLPLNRANELVQIEKAKKGLQLEGKEEPEFEEIARVVGMDAEHV 171 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ I+++ +SLE+PI D S LGDFIED + SP ++ ++ +L+E +VL +L+ Sbjct: 172 ASLVNISRDLVSLESPIYTDRSQSELGDFIEDVDYKSPDETLMEQSLKEDIAKVLDTLSE 231 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +E ++R RFG+ +L+++G ++ +T+ERIRQIE KAI++L+HPSR + L S++ Sbjct: 232 KEADIIRHRFGLDGRAPLSLKDIGDRYNLTKERIRQIEKKAIKRLQHPSRRQYLESYI 289 >gi|59712674|ref|YP_205450.1| RNA polymerase, sigma-S (sigma-38) factor [Vibrio fischeri ES114] gi|59480775|gb|AAW86562.1| RNA polymerase, sigma-S (sigma-38) factor [Vibrio fischeri ES114] Length = 321 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 148/225 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ +A++Y +RGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 78 ARARMIESNLRLVVKIARRYNHRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S K+ EPTPEEIA+KL PV V Sbjct: 138 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSQKLDHEPTPEEIAEKLDKPVSDV 197 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S+++ + E L D + D P + ++ + L L P+ Sbjct: 198 SRMLRLNERVASVDSMVAGESDKALLDILPDTKNSDPESETQKDDINTSLVGWLGQLNPK 257 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ RFG+ TLE+VG + +TRER+RQI+ + +R+L+ Sbjct: 258 QKEVVARRFGLLGYEAATLEQVGIEIGLTRERVRQIQVEGLRRLR 302 >gi|6175930|gb|AAF05342.1|AF182106_2 truncated RNA polymerase sigma subunit [Escherichia coli] Length = 303 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 88/214 (41%), Positives = 148/214 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + VL RFG+ TLE+VG++ +TRER+R Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTRERVR 303 >gi|1769588|gb|AAB95226.1| sigma factor [Synechococcus sp. PCC 7002] Length = 328 Score = 194 bits (493), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 96/237 (40%), Positives = 162/237 (68%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+EANLRLV+++A+ R L+FLDLIQEG++GL + EKFD GYKFSTYA WW Sbjct: 92 AKRKMIEANLRLVVAIARNIKKRNLEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA Q TIR+P+H+ +K++K+ +T R+++ + R T EIA+ L + + Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRQLAQDLGRAATIAEIAEALELEPAQI 211 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ ++++ PISL+ +GD + L D +ED + SP ++ L++ ++A LTP+ Sbjct: 212 REYFRVSRHPISLDVRVGDNQDTELMDLLED-SGESPDNNVTYELLKQDLRDLIADLTPQ 270 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++ V+ +RFG+ + +L ++GK+ ++RER+RQ+E +A+ L+ R ++R +L Sbjct: 271 QQEVIILRFGLNDGKELSLAKIGKRMNLSRERVRQLERQALNHLRR--RRSQIREYL 325 >gi|45128577|gb|AAS55057.1| RpoD [Vibrio parahaemolyticus] Length = 492 Score = 194 bits (492), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 118/278 (42%), Positives = 162/278 (58%), Gaps = 13/278 (4%) Query: 289 EVYRELRSLQDN---AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDI 345 E + +LRS N A+N + S K V E ++ + L ++ V + Sbjct: 218 EKFNQLRSTYQNLQLAINEYGYD--SPKATVANEMMLDVFKEFRLTPKQLXHXVNEXRTA 275 Query: 346 SKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVS--YAKDFPEGEWKNFVACE 402 R+ E +++ YG + + F+ G E W+ A P E E Sbjct: 276 MDRVXTQERLIMKSVVEYGKMPKKSFIALFTGXESSDAWLXEILASXXPYAEKIKRXEEE 335 Query: 403 VD-SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 + SI K+ I ET +++ + I + GE +A AKKEMVEANLRLVIS+AK Sbjct: 336 IRRSIAKL----XMIEEETSLNVQNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAK 391 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYTNRG QFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRI Sbjct: 392 KYTNRGXQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 451 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 PVHM + I+K+ R +R+M ++ REP PEE+A+++ MP Sbjct: 452 PVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMP 489 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 2 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 61 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 62 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 120 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 121 INQVQSSVAEYPGTIPYIL 139 >gi|146308041|ref|YP_001188506.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina ymp] gi|145576242|gb|ABP85774.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudomonas mendocina ymp] Length = 335 Score = 194 bits (492), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 156/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 84 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 140 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 141 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 200 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 201 AEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 260 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 261 LSQSIDQWLSDLTDKQREVVVRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 320 >gi|325971114|ref|YP_004247305.1| RNA polymerase, sigma 70 family subunit [Spirochaeta sp. Buddy] gi|324026352|gb|ADY13111.1| putative RNA polymerase, sigma 70 family subunit [Spirochaeta sp. Buddy] Length = 293 Score = 194 bits (492), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 95/250 (38%), Positives = 168/250 (67%), Gaps = 3/250 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + ++ + A+K M+E+NLR V++VAKKY N+G+ +DLI EGNIGLM A EKFD Sbjct: 44 LAKRAQKGDEFARKRMIESNLRFVVNVAKKYQNQGMPLVDLINEGNIGLMTALEKFDPDK 103 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEE 551 GY F +YA+WW++Q+I ++I ++S +R+P++ +++ ++ + R + + +P+ EE Sbjct: 104 GYHFISYAVWWIRQSIMKAINEKSRAVRLPLNRTNELLQMHKAQRSLMKDLSTDDPSMEE 163 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 I + V +L I+++ ISL+ P+ D S++GDFIED++ +P S + A+L+ Sbjct: 164 IGTLTGFDPKHVSNLLSISRDLISLDAPVFTDGSASNIGDFIEDESQ-NPEQSLLDASLK 222 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E +LA+L+ +E ++ +RFG+ T +L+E+G+ + +T+ERIRQIE KA+ +L++P Sbjct: 223 EDVRSLLATLSDKERDIIELRFGLEGKTPMSLKEIGELYNLTKERIRQIEKKALERLRNP 282 Query: 671 SRSKKLRSFL 680 S+SK + S++ Sbjct: 283 SKSKMVESYI 292 >gi|107103136|ref|ZP_01367054.1| hypothetical protein PaerPA_01004205 [Pseudomonas aeruginosa PACS2] Length = 236 Score = 194 bits (492), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 91/221 (41%), Positives = 149/221 (67%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +R AR +++K+ EP+PEEIA L PV V+++L Sbjct: 61 IERAIMNQTRTIRLPIHVVKELNVYLRAARELTHKLDHEPSPEEIANLLEKPVAEVKRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + + S++ +G + L D + D P + +L E+ + L LT ++ V Sbjct: 121 GLNERVTSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLSESIDQWLTELTDKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 181 VIRRFGLRGHESSTLEEVGQEIGLTRERVRQIQVEALKRLR 221 >gi|108805426|ref|YP_645363.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108766669|gb|ABG05551.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 282 Score = 194 bits (492), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 97/251 (38%), Positives = 152/251 (60%), Gaps = 1/251 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + R+ A++ ++E+NLRLV+++AK+Y RG+ F DLIQEGN GL++A EKFD Sbjct: 28 VELSRRARAGDGAARRRLIESNLRLVVAIAKRYRGRGVPFEDLIQEGNAGLIRAVEKFDP 87 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 +G +FSTYA WW++QA+TR++ADQ +R+P H+ D ++++ R +S ++ REPT E Sbjct: 88 EMGNRFSTYATWWIRQAVTRAVADQGRAVRLPAHVVDSVYRLRRAESALSVELGREPTDE 147 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+A +L E R++ ++++ S+ +GD ED + LGD + D+ A Sbjct: 148 EVAGRLGTSPEEARRLREVSQPISSISARLGDEEDGAELGDLLPDEAASEEYARVEAGPW 207 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R + SL RE RVLR+R G+ TL EV + +++ER RQ+E KA+R L+ Sbjct: 208 RGVLREAVGSLPEREARVLRLRHGLDGERARTLREVSEILGISQERARQVELKALRTLRS 267 Query: 670 PSRSKKLRSFL 680 + LR L Sbjct: 268 GRYAGSLRRGL 278 >gi|166368031|ref|YP_001660304.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] gi|166090404|dbj|BAG05112.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa NIES-843] Length = 377 Score = 193 bits (491), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 106/238 (44%), Positives = 168/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++R P E+A+ L M E + Sbjct: 199 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQL 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED + P D + +R+ VL+ LT Sbjct: 259 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLTE 318 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI+ KA+RKL+ P +++L+ +L Sbjct: 319 REKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRRPQVARRLKGWL 376 >gi|1514627|emb|CAA62840.1| starvation sigma factor [Pseudomonas putida] Length = 335 Score = 193 bits (491), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 160/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H +V+KG+ +K M+++NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFAPLVQKGD---PAGRKRMMQSNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|251771333|gb|EES51914.1| RNA polymerase, sigma 70 subunit, RpoD family [Leptospirillum ferrodiazotrophum] Length = 307 Score = 193 bits (491), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 97/247 (39%), Positives = 154/247 (62%), Gaps = 4/247 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S SE + + G+ EA ++ M+ +NLRLV+ +AK+Y RGL F DLI+EGN+GL Sbjct: 43 LSASEEVDLARRIATGDAEA---RERMILSNLRLVVMIAKRYAGRGLPFPDLIEEGNLGL 99 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +++D G++FSTYA WW++Q+I R++ + IR+PVHMR+K+++ + +M + Sbjct: 100 MKAVDRYDPEKGFRFSTYASWWIRQSIERAVINLGHMIRLPVHMREKVNRYLAAVEQMVS 159 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 REP P E A+K + VE + + ISL+ P+G++D + L D + D A SPL Sbjct: 160 T-GREPDPSEAARKAGLTVEEFESLYPLIAATISLDAPVGEQDENTLKDVLGDPEADSPL 218 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + L+ L PRE +L +RFG+ TL+E+G++ +TRER+RQIEA Sbjct: 219 EVVSRREEGRELEAALSVLRPRERDILFLRFGLSGEDPKTLDEIGRRLGITRERVRQIEA 278 Query: 662 KAIRKLK 668 A+ K++ Sbjct: 279 VALSKMR 285 >gi|37519772|ref|NP_923149.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] gi|35210763|dbj|BAC88144.1| group 2 sigma 70-type sigma factor [Gloeobacter violaceus PCC 7421] Length = 356 Score = 193 bits (491), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 101/232 (43%), Positives = 159/232 (68%), Gaps = 1/232 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G + AK+++V+ANLRLV+S+AKKY NRG+ FLDLIQEG++GL++AAEKF+ G Sbjct: 107 IAQGGPKGEWAKRKLVQANLRLVVSIAKKYLNRGVPFLDLIQEGSMGLIRAAEKFEHERG 166 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 YKFSTYA WW++QAITR++A Q+ T+R+PVH+ +KI++V + R ++ ++ R P+ E+A Sbjct: 167 YKFSTYAYWWIRQAITRAVASQARTVRLPVHLVEKINRVKKVRRTLAQELGRTPSQGELA 226 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L + E + +L+ + +SL +G E+ + L IED P + ++R Sbjct: 227 EALELAEEDLEHILRAARRTVSLNITVGKEEDTELIHLIEDSQTDQPDVHIDRESMRVEV 286 Query: 614 TRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L LTPRE +L++RFG+ TL++VG+ F ++RERIRQI+AKA Sbjct: 287 SDLLDRHLTPRERDILQLRFGLRDGQQRTLDQVGRMFDLSRERIRQIQAKAF 338 >gi|158337702|ref|YP_001518878.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158307943|gb|ABW29560.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 318 Score = 193 bits (491), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 92/225 (40%), Positives = 151/225 (67%), Gaps = 1/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MVE+NLRLV+S+AKKY ++FLDLIQEG IGL + EKFD GY+FSTYA WW Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+TR+IA+Q TIR+P+H+ +K+ K+ + R++S K+ R+PT +E+A ++ + + + Sbjct: 143 IRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPTVQELAVEMDLAPKKI 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L + ISL+ IGD+ + L + +ED N SP ++LR ++L L+P+ Sbjct: 203 EDYLNYARRSISLDIQIGDQQNTELWELLEDPNE-SPDTYVTASSLRSDLAKLLQDLSPQ 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ +R+G+ TL +VG++ V+RE +R++E +A + L+ Sbjct: 262 QREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFKILR 306 >gi|116074244|ref|ZP_01471506.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116069549|gb|EAU75301.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 341 Score = 193 bits (491), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 99/242 (40%), Positives = 156/242 (64%), Gaps = 8/242 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH + M ++ A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +K Sbjct: 98 RHKIRMGKR-------ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDK 150 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +GYKFSTYA WW++Q +TR+I + + TIR+P+H+ +K+ K+ R +R +S++ R+P Sbjct: 151 FDPAMGYKFSTYAYWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRISRELSHRFGRQP 210 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A + + + ++ + SL+ G+ED S LG+ I D N ++ + Sbjct: 211 NRLELAHAMGIEPRDLEDLISQSAPCASLDAHARGEEDRSTLGELIPDPNGEDSMEGMDR 270 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +E L+ L RE+++L++RFG+ TL E+G+Q V+RER+RQ+EAKAI K Sbjct: 271 SIQKEHLGGWLSQLNEREQKILKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILK 330 Query: 667 LK 668 L+ Sbjct: 331 LR 332 >gi|325103187|ref|YP_004272841.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pedobacter saltans DSM 12145] gi|324972035|gb|ADY51019.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pedobacter saltans DSM 12145] Length = 286 Score = 193 bits (491), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 162/240 (67%), Gaps = 7/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++IA+QS +R+P++ + K+ + ++ + +REP+PEE+A L V+ + Sbjct: 110 IRQSILQAIAEQSRIVRLPLNQVGSLSKISKAFSKLEQEYEREPSPEELADILETTVDKI 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSA-IQANLRETTTRVLASL 620 L + +S++ P G+E+T L D +E+ N + DS I +L E R L++L Sbjct: 170 SDTLSNSGRHVSMDAPFVQGEENT--LLDVLENDNPNT--DSMLIDESLSEEIKRSLSTL 225 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T RE ++ + FG+G N +LEE+G++F +TRER+RQI+ KA+++L+H SRSK L+S+L Sbjct: 226 TEREREIIVLFFGLGSNHPLSLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKILKSYL 285 >gi|88812406|ref|ZP_01127656.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] gi|88790413|gb|EAR21530.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231] Length = 356 Score = 193 bits (490), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ + A+K M+E+NLRLV+ +A++Y NRGL FLDLI+EGN+GL++A EKFD Sbjct: 104 VYYARRAQGGDESARKRMIESNLRLVVKIARRYMNRGLAFLDLIEEGNLGLIRAVEKFDP 163 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +I++ +R AR++ ++ EPT E Sbjct: 164 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVIKEINQYLRVARQLVQRLDHEPTLE 223 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + +E VR ++ + + S++ PIG + L D I D+ P + ++ Sbjct: 224 EIAIAMDRSIEDVRHMMGLNEGVTSVDIPIGRDADRVLLDAIPDEVNPDPFAALQDEDVV 283 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L LT ++ V+ RFG+ + TLEEVG + VTRER+RQI+ A++KL+ Sbjct: 284 SHLDAWLNELTEKQRAVVERRFGLHGHEKATLEEVGDEIGVTRERVRQIQIDALKKLR 341 >gi|260911780|ref|ZP_05918352.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] gi|260634106|gb|EEX52224.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] Length = 287 Score = 193 bits (490), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 99/268 (36%), Positives = 170/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +RKG+ +A +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEELISVEEEVELAQRIRKGDRKAL---EKLTKANLRFVVSVAKQYQNQGLSLQD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+PV+ ++K+ Sbjct: 79 LINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPVNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ EIA+K +P + + +K+T IS++ P D + + L D + Sbjct: 139 NKILNKFEQENERRPSINEIAEKTDLPEDKIEDAIKVTGRHISVDAPFVDGEDNSLLDLL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + + + ++ +LR L L RE V+ FGI + TLEE+G ++ +T Sbjct: 199 TNSDMPTVDNELVKESLRAEIAEALQFLNERERNVIEAFFGINQ-MEMTLEEIGDKYGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L++ +++K L+++L Sbjct: 258 RERVRQIKEKAIRRLRNNTKNKMLKTYL 285 >gi|26988355|ref|NP_743780.1| RNA polymerase sigma factor RpoS [Pseudomonas putida KT2440] gi|148549360|ref|YP_001269462.1| RNA polymerase sigma factor RpoS [Pseudomonas putida F1] gi|167032190|ref|YP_001667421.1| RNA polymerase sigma factor RpoS [Pseudomonas putida GB-1] gi|24983106|gb|AAN67244.1|AE016351_6 RNA polymerase sigma factor RpoS [Pseudomonas putida KT2440] gi|148513418|gb|ABQ80278.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida F1] gi|166858678|gb|ABY97085.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida GB-1] gi|313500209|gb|ADR61575.1| RpoS [Pseudomonas putida BIRD-1] Length = 335 Score = 193 bits (490), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|2289784|dbj|BAA21674.1| rpoS sigma factor [Pseudomonas tolaasii] Length = 336 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 85 HFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 141 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 142 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 201 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 202 PEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 261 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 262 LSQSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 321 >gi|170723213|ref|YP_001750901.1| RNA polymerase sigma factor RpoS [Pseudomonas putida W619] gi|169761216|gb|ACA74532.1| RNA polymerase, sigma 70 subunit, RpoD family [Pseudomonas putida W619] Length = 335 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|5305130|emb|CAB46191.1| RNA polymerase sigma factor [Pseudomonas putida] Length = 335 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|325280730|ref|YP_004253272.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] gi|324312539|gb|ADY33092.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Odoribacter splanchnicus DSM 20712] Length = 289 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 112/288 (38%), Positives = 176/288 (61%), Gaps = 9/288 (3%) Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 K E SI K EI I V +S E + +R G+ A++++V +NLR Sbjct: 8 KQITGRESYSIEKYLQEIGKIHV---LSPEEEADLAKKIRSGD---RAAREKLVLSNLRF 61 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+SVAK+Y N GL DLI EGN+GL+KAAE FD G+KF +YA+WW++Q+I ++IA+ Sbjct: 62 VVSVAKQYQNHGLTLGDLINEGNVGLIKAAECFDETKGFKFISYAVWWIRQSILQAIAEN 121 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + IR+P++ I+KV R + + +REPT EEIA+K+ M E V++ +KI +P+S Sbjct: 122 ARLIRLPLNKISTINKVNRCYTLLEQEFQREPTEEEIAEKMDMTPEEVKENMKIATKPVS 181 Query: 576 LETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 ++ P+ DE++ L D D + +P S Q +L+ R A+L+ RE +L M + Sbjct: 182 MDAPLTTDEESISLYDVYIAPDPSIQAPESSLNQDSLKTDIERSFAALSVREATILSMYY 241 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G+ + +LEE+G + +T ER+RQ++ KAIRKLK +K+L+++L Sbjct: 242 GLNGYSSMSLEEIGTKLGLTSERVRQVKTKAIRKLKEVKNNKRLKTYL 289 >gi|325277035|ref|ZP_08142696.1| RNA polymerase sigma factor RpoS [Pseudomonas sp. TJI-51] gi|324097832|gb|EGB96017.1| RNA polymerase sigma factor RpoS [Pseudomonas sp. TJI-51] Length = 335 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|104783164|ref|YP_609662.1| RNA polymerase sigma factor RpoS [Pseudomonas entomophila L48] gi|95112151|emb|CAK16878.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Pseudomonas entomophila L48] Length = 335 Score = 193 bits (490), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 159/256 (62%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIASLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|87310114|ref|ZP_01092246.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] gi|87287104|gb|EAQ79006.1| transcription initiation factor sigma 70 [Blastopirellula marina DSM 3645] Length = 516 Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 106/247 (42%), Positives = 152/247 (61%), Gaps = 7/247 (2%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G C A ++ + ANLRLV+S+AK + RGL +LDLIQEGN+GLM+A EKFD LGYK Sbjct: 266 EGLCRA---QRAITSANLRLVVSIAKSFRGRGLSYLDLIQEGNLGLMRAVEKFDPSLGYK 322 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+TYA WW++QA+ + +ADQ TIR+P M+D+I K+ +S + + EP E AK+ Sbjct: 323 FATYATWWIRQAVMKGLADQGRTIRLPARMQDRIQKINVAKAILSQEHRSEPPIELTAKQ 382 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V ++ + +SL+ D+D+ GD + +A SA + L + Sbjct: 383 AELTEREVVAADRLGRTIMSLDVSNNDDDS--FGDTLASGDAEQ--SSADEQRLPLAINQ 438 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L LT RE+ ++R RFG+ TLEEV + F VTRERIRQIE+ AIRKL+ P +K Sbjct: 439 LLQELTSREQEIVRRRFGMFDGRVQTLEEVSQAFSVTRERIRQIESAAIRKLRQPHLIRK 498 Query: 676 LRSFLDG 682 L FL+ Sbjct: 499 LDDFLEA 505 >gi|330504211|ref|YP_004381080.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina NK-01] gi|328918497|gb|AEB59328.1| RNA polymerase sigma factor RpoS [Pseudomonas mendocina NK-01] Length = 335 Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 156/240 (65%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 84 HFARLAQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 140 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 141 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 200 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 201 AEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 260 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 261 LSQSIDQWLSDLTDKQREVVVRRFGLRGHESCTLEEVGQEIGLTRERVRQIQVEALKRLR 320 >gi|312959424|ref|ZP_07773941.1| sigma-28 (flagella/sporulation) [Pseudomonas fluorescens WH6] gi|311286141|gb|EFQ64705.1| sigma-28 (flagella/sporulation) [Pseudomonas fluorescens WH6] Length = 335 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 84 HFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 140 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 141 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 200 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 201 PEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 260 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 261 LSQSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|157688389|gb|ABV64841.1| RpoS [Pseudomonas sp. 122] Length = 334 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 83 HFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 139 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 140 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 199 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 200 PEEIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 259 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 260 LSQSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 319 >gi|229588834|ref|YP_002870953.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens SBW25] gi|229360700|emb|CAY47558.1| RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] Length = 334 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKF Sbjct: 83 HFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKF 139 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ Sbjct: 140 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPS 199 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 PEEIA L PV V+++L + + S++ +G + L D + D P + + Sbjct: 200 PEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDD 259 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 260 LSQSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 319 >gi|157169065|ref|YP_258338.2| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf-5] gi|1000294|gb|AAB02846.1| RpoS [Pseudomonas fluorescens Pf-5] gi|157061761|gb|AAY90494.2| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf-5] Length = 335 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera] Length = 575 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 99/237 (41%), Positives = 152/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA WW Sbjct: 337 CKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 396 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+ +S++DQS TIR+P HM + ++V +++ ++ R P EE+A+ + ++ + Sbjct: 397 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 456 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL K P SL+ IG + I D +A + + I+ +RE +VL SL PR Sbjct: 457 NAVLLTPKAPRSLDQKIGINQNLKPSEVIADPDAETAEELLIKQFMREDLEKVLNSLNPR 516 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++V+R R+G+ TL+E+G+ V+RERIRQIE+ A RKLK+ R+K L+ +L Sbjct: 517 EKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKHLQQYL 573 >gi|6010724|gb|AAF01228.1|AF184097_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 326 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 91/233 (39%), Positives = 157/233 (67%), Gaps = 4/233 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TI H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTI----HIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 206 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + VL RFG+ TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 266 QREVLARRFGLLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 318 >gi|15419944|gb|AAK97216.1|AF300644_1 sigma factor RpoD [Lactobacillus acidophilus] Length = 162 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 96/162 (59%), Positives = 120/162 (74%) Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 RIPVHM + I+K++R R++ + REPTPEEI ++ MP VR +L+I +E +SLETP Sbjct: 1 RIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMNMPTNKVRDILRIAQERVSLETP 60 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IG+ED SHLGDFIEDK+A SP A L+E +VL +LT REE VLR+RFG+ Sbjct: 61 IGEEDDSHLGDFIEDKDATSPEQHASYEMLKEQLEQVLETLTDREENVLRLRFGLEYGRT 120 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVGK F VTRERIRQIEAKA+RKL+HPSRS +LR F+D Sbjct: 121 RTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSNQLRDFMD 162 >gi|77457359|ref|YP_346864.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens Pf0-1] gi|77381362|gb|ABA72875.1| RNA polymerase, sigma 38 subunit, RpoS [Pseudomonas fluorescens Pf0-1] Length = 335 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|186702713|gb|ACC91623.1| RNA polymerase sigma factor [Pseudomonas sp. CT07] Length = 336 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 84 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 143 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 144 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 203 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 204 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 263 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 264 QSIDQWLSELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 321 >gi|21219415|ref|NP_625194.1| RNA polymerase principal sigma factor HrdC [Streptomyces coelicolor A3(2)] gi|256789543|ref|ZP_05527974.1| RNA polymerase principal sigma factor HrdC [Streptomyces lividans TK24] gi|289773432|ref|ZP_06532810.1| RNA polymerase principal sigma factor hrdC [Streptomyces lividans TK24] gi|123520|sp|P18184|HRDC_STRCO RecName: Full=RNA polymerase principal sigma factor hrdC gi|48741|emb|CAA37173.1| unnamed protein product [Streptomyces coelicolor A3(2)] gi|6562877|emb|CAB62686.1| RNA polymerase principal sigma factor HrdC [Streptomyces coelicolor A3(2)] gi|289703631|gb|EFD71060.1| RNA polymerase principal sigma factor hrdC [Streptomyces lividans TK24] Length = 339 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 154/237 (64%), Gaps = 8/237 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK MV ANLRLV+S+AK++ +RGL LD+IQEGN+GL++A EKFD G+KFSTYA WW Sbjct: 102 AKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHTKGFKFSTYATWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R +A + T+R+PVH+ +++ K+ + R++ + REPT EE+A + + V+ V Sbjct: 162 IRQAIERGLATHARTVRLPVHVVEQLQKLAKVERKLRAGLDREPTTEEVAAESGIDVDKV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD----SAIQANLRETTTRVLAS 619 + ++ ++ +SL+TP+ + + +GD I D + + A+ A LRE + + Sbjct: 222 VWLRRVGRDAVSLDTPVDETGDTVVGDLIPDTEVLRAPEVAEFQALAAELRE----AVGT 277 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L PRE +L +R+G+ TL++V + +TRER+RQ+E +++ L+ P ++L Sbjct: 278 LAPRESLILSLRYGLHDGRPRTLQQVAQHVGLTRERVRQLEKESLAHLRAPENRERL 334 >gi|148243603|ref|YP_001228760.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851913|emb|CAK29407.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 323 Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 96/226 (42%), Positives = 150/226 (66%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA WW Sbjct: 89 ARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 148 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +TR+I + + TIR+P+H+ +K+ K+ R R ++++ R+P E+A + M + + Sbjct: 149 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRITRELTHRFGRQPNRLELAHAMGMEPDEL 208 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++L + SL+ G+ED S LG+ I D + ++S + +E + L Sbjct: 209 EELLSQSAPCASLDAHARGEEDRSTLGELIPDPSCNDSMESMDRRIQKEHLGTWITQLNE 268 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++L++RFG+ TL E+G+Q V+RER+RQ+EAKAI KL+ Sbjct: 269 REQKILKLRFGLEGAEPQTLAEIGRQINVSRERVRQLEAKAILKLR 314 >gi|237800176|ref|ZP_04588637.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. oryzae str. 1_6] gi|331023033|gb|EGI03090.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. oryzae str. 1_6] Length = 335 Score = 192 bits (488), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 90/225 (40%), Positives = 149/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 96 GRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 155 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPTPEEIA L PV V Sbjct: 156 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPTPEEIANLLEKPVGEV 215 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L + + S++ +G + L D + D P + +L ++ + L+ LT + Sbjct: 216 KRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLSQSIDQWLSELTEK 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 276 QREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|48727551|gb|AAT46075.1| RNA polymerase sigma factor [Pseudomonas chlororaphis] Length = 334 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 82 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 141 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 142 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 201 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 202 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 261 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 262 QSIDQWLSELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 319 >gi|225436223|ref|XP_002273602.1| PREDICTED: similar to SIGB (SIGMA FACTOR B); DNA binding / DNA-directed RNA polymerase/ transcription factor [Vitis vinifera] Length = 578 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 99/237 (41%), Positives = 152/237 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA WW Sbjct: 340 CKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 399 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+ +S++DQS TIR+P HM + ++V +++ ++ R P EE+A+ + ++ + Sbjct: 400 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 459 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL K P SL+ IG + I D +A + + I+ +RE +VL SL PR Sbjct: 460 NAVLLTPKAPRSLDQKIGINQNLKPSEVIADPDAETAEELLIKQFMREDLEKVLNSLNPR 519 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++V+R R+G+ TL+E+G+ V+RERIRQIE+ A RKLK+ R+K L+ +L Sbjct: 520 EKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKHLQQYL 576 >gi|33150232|gb|AAP97086.1| RNA polymerase sigma factor [Pseudomonas chlororaphis] gi|103488976|gb|ABF71881.1| RpoS [Pseudomonas chlororaphis] Length = 334 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 82 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 141 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 142 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 201 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 202 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 261 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 262 QSIDQWLSELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 319 >gi|71278347|ref|YP_267823.1| RNA polymerase sigma factor RpoS [Colwellia psychrerythraea 34H] gi|71144087|gb|AAZ24560.1| RNA polymerase sigma factor RpoS [Colwellia psychrerythraea 34H] Length = 296 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 145/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 56 SRKRMIESNLRLVVKIARRYNNRGLPLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R +R + K+ EPT E+IA+ L PV V Sbjct: 116 IRQTIERAIMNQTRTIRLPIHVVKELNIYLRASRELIQKLDHEPTAEDIAQHLDRPVADV 175 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TP E L D I D+ + P ++ L L + Sbjct: 176 NKMLRLNERIASVDTPFAGESDKALLDVIADEKSTGPESDLQSEDMSNNIIHWLNELNTK 235 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL RFG+ TLE VG++ +TRER+RQI+ +A+++L+ Sbjct: 236 QREVLARRFGLLGYEASTLENVGREIGLTRERVRQIQVEALKRLR 280 >gi|269126860|ref|YP_003300230.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora curvata DSM 43183] gi|268311818|gb|ACY98192.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora curvata DSM 43183] Length = 360 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 96/253 (37%), Positives = 156/253 (61%), Gaps = 9/253 (3%) Query: 418 VETGISISEFRHIVSM-VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 V G++ E +V+ VR AK+ VEANLRLV+S+A+KY L +DLIQE Sbjct: 59 VPPGVTRQELEELVAAGVR--------AKQRFVEANLRLVVSIARKYPTDALPLIDLIQE 110 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 GN+GLM+A EKFD+ G+KFSTYA WW++Q+I R ++ + TIR+PVH+ +++ ++ R Sbjct: 111 GNLGLMRAVEKFDYRRGFKFSTYATWWIRQSIGRGLSHTARTIRLPVHVEEELSRLRRAE 170 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R++ ++ REPT EE+A+ L V+ V ++L+ ++P SL+ + D + +GD +ED Sbjct: 171 RQLGRELGREPTREELAEALGAAVDHVDELLRWRRDPASLDAAVDDAGETPMGDLLEDPE 230 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 VSP + + R+L L RE +LR RFGI + ++G ++ ++ R+ Sbjct: 231 GVSPEAEVLALDDIAGLARLLDRLPERESAILRARFGIEDGQPLSYAQIGARYGLSHNRV 290 Query: 657 RQIEAKAIRKLKH 669 RQI +++R+L+ Sbjct: 291 RQITDRSLRRLRQ 303 >gi|239927194|ref|ZP_04684147.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] gi|291435537|ref|ZP_06574927.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] gi|291338432|gb|EFE65388.1| RNA polymerase principal sigma factor HrdC [Streptomyces ghanaensis ATCC 14672] Length = 339 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 96/256 (37%), Positives = 162/256 (63%), Gaps = 5/256 (1%) Query: 429 HIVSMVRKGECEASI-----AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 H ++ R E EA++ AK M+ ANLRLV+S+AK++ +RGL LD+IQEGN+GL++ Sbjct: 82 HHLTRERWRELEAAVHDGQAAKDRMIRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIR 141 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A EKFD G+KFSTYA WW++QAI R +A + T+R+PVH+ +++ K+ + RR+ + Sbjct: 142 AVEKFDHTKGFKFSTYATWWIRQAIERGVATHARTVRLPVHVVEQLQKLGKVERRLHLSL 201 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 REPT EE+A++ + + V + ++ ++ +SL+TP+ D + +GD I D + + Sbjct: 202 DREPTVEEVARESGLAEKKVVWLRRVGRQVVSLDTPVDDTGDTVVGDLIPDTEVLQAPEV 261 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A L E + +L PRE +L +R+G+ TL+EV +TRER+RQ+E ++ Sbjct: 262 AEFQALAEELRGAVDTLAPREALILSLRYGLHDGQTRTLQEVADHVGLTRERVRQLEKQS 321 Query: 664 IRKLKHPSRSKKLRSF 679 + +L+ + ++L ++ Sbjct: 322 LAQLREREQGERLLAW 337 >gi|163786482|ref|ZP_02180930.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] gi|159878342|gb|EDP72398.1| RNA polymerase sigma-70 factor [Flavobacteriales bacterium ALC-1] Length = 287 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 98/259 (37%), Positives = 164/259 (63%), Gaps = 3/259 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ E + +++KG+ +A ++ ANLR V+SVAK+Y N+GL+ DLI EGN GL Sbjct: 31 ITAEEEVELAQLIKKGD---QVALDKLTTANLRFVVSVAKQYQNQGLKLPDLINEGNAGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++QAI +++A+QS +R+P++ I+K+ + + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQAILQALAEQSRIVRLPLNKIGTINKINKAFSHLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +R P EEIA++L + V++ +K + +S++ P+ D +T L D + + P Sbjct: 148 LHQRPPNAEEIARELDISAREVKQSMKNSGRHLSMDAPLKDGETFSLYDVVSATESPRPD 207 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + ++ +L R L +LT +E V+R+ FGIG TLEE+G + +TRER+RQI Sbjct: 208 KNLMKESLNLEVERALETLTQKESDVIRLNFGIGDQPPMTLEEIGGIYDLTRERVRQIRE 267 Query: 662 KAIRKLKHPSRSKKLRSFL 680 K IR+L+H S+SK L+++L Sbjct: 268 KGIRRLRHASKSKILKTYL 286 >gi|254481825|ref|ZP_05095068.1| RNA polymerase sigma factor RpoS [marine gamma proteobacterium HTCC2148] gi|214037954|gb|EEB78618.1| RNA polymerase sigma factor RpoS [marine gamma proteobacterium HTCC2148] Length = 353 Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 89/225 (39%), Positives = 149/225 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 114 GRKRMIESNLRLVVKISRRYINRGLTLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 173 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPT EEIA L P V Sbjct: 174 IRQTIERGIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPTAEEIADMLDRPAADV 233 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L + + S++TP+G + + D I D + P ++++++ L L+ + Sbjct: 234 KRMLGLNERVTSMDTPVGPDSDKAVVDTIADTHESDPSQLLQDSDIKDSIGSWLDELSEK 293 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 294 QREVVARRFGLRGYESSTLEEVGREIGLTRERVRQIQVEALKRLR 338 >gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis thaliana] Length = 572 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 98/240 (40%), Positives = 152/240 (63%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 ++ K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA Sbjct: 329 GTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYA 388 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQA+ +S++DQS IR+P HM + ++V +++ ++ + P EEIA+ + + Sbjct: 389 HWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSM 448 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + + VL K P SL+ IG + I D AV+P D I+ +R+ +VL SL Sbjct: 449 KRLMAVLLSPKPPRSLDQKIGMNQNLKPSEVIADPEAVTPEDILIKEFMRQDLDKVLDSL 508 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE++V+R RFG+ TL+E+G+ V+RER+RQIE+ A RKLK+ R+ L+ +L Sbjct: 509 GTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYL 568 >gi|330807812|ref|YP_004352274.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327375920|gb|AEA67270.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 335 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|224824776|ref|ZP_03697883.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lutiella nitroferrum 2002] gi|224603269|gb|EEG09445.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Lutiella nitroferrum 2002] Length = 316 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 99/255 (38%), Positives = 159/255 (62%), Gaps = 3/255 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E + + +V +G+ EA +++M+E NLRLV+++AK+Y NRGL LDLI+EGNIGL Sbjct: 59 LSPQEEQSLARLVVQGDFEA---RQKMIEHNLRLVVNIAKRYINRGLALLDLIEEGNIGL 115 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 M A EKFD G++FSTYA WW++Q+I R+I +QS TIR+PVH+ +++ +R +R + + Sbjct: 116 MHALEKFDPERGFRFSTYATWWIRQSIERAIMNQSRTIRLPVHVIKELNVYLRASRHLES 175 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +I REP+ EEIA+ + PVE VR+V+ + + SL+ P+ + +G+ I D P Sbjct: 176 QIGREPSVEEIAQLVDKPVEDVRRVMNLNERMASLDAPLDIDPMLSIGESIPDDQHDEPE 235 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 L +A L ++ V+ R+G+ + TLEE+ +TRER+RQI+ Sbjct: 236 IQLHNTQLENFVHEWMAQLNDKQRMVIERRYGLNGHEICTLEELASTLSLTRERVRQIQI 295 Query: 662 KAIRKLKHPSRSKKL 676 + + +L+ R K + Sbjct: 296 EGLEQLRRILRRKGI 310 >gi|148469868|gb|ABQ65863.1| stationary sigma factor [Pseudomonas fluorescens] Length = 335 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 EHGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|148241197|ref|YP_001226354.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147849507|emb|CAK27001.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 324 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 98/247 (39%), Positives = 157/247 (63%), Gaps = 1/247 (0%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S F +++R+ AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ Sbjct: 70 SSFGISPAVLRRRLINGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRG 129 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 EKFD GYKFSTYA WW++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ Sbjct: 130 VEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELG 189 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 R PT E+A+ L +P V+ +L ++P+SLE +GD D + L + +++ +A P + Sbjct: 190 RTPTVGELAEFLELPEPEVKDLLSRARQPVSLEMKVGDSDDTELCELLQN-DAPMPHELV 248 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L+ +L L P + RVL+MR+GI + +L +G++ ++R+R+R +E + Sbjct: 249 DGDCLKGDMRSLLEQLPPLQGRVLKMRYGIDVEEPMSLTGIGRELGMSRDRVRNLERDGL 308 Query: 665 RKLKHPS 671 L+ S Sbjct: 309 AGLRRLS 315 >gi|218440090|ref|YP_002378419.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] gi|218172818|gb|ACK71551.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7424] Length = 295 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 94/257 (36%), Positives = 169/257 (65%), Gaps = 4/257 (1%) Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 + V+ + + E ++ + +K + IAK++M++ANLRLV+S+AK+Y RGL LDLI Sbjct: 31 ATKVQNMLPLLEKENLTAAEKKIVEQGQIAKRKMIQANLRLVVSIAKRYQRRGLSLLDLI 90 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEG++GL++A EKFD GYKFSTYA WWV+QAITR++A++S TIR+P+HM + ++++ + Sbjct: 91 QEGSLGLIRAVEKFDPSKGYKFSTYAYWWVRQAITRALAEKSRTIRLPIHMTENLNQLKK 150 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT--KEPISLETPIGDEDTSHLGDFI 592 + R ++ ++ R+P +E+A+++ +PVE +R++ + SL + D++ + LG+ + Sbjct: 151 SVRELTGELGRKPNEQEVAQRMEIPVEKLREIRHAVYRTDAKSLNITL-DDNQTELGEVL 209 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D+ ++ P++ Q L +L L PR+ ++ +RFG+ + +E+G+Q ++ Sbjct: 210 PDETSL-PIEFVSQWELVTKINDLLEDLPPRQREIITLRFGLQTGKRMSYKEIGRQCGIS 268 Query: 653 RERIRQIEAKAIRKLKH 669 ER RQ+ +A+R LK Sbjct: 269 HERARQLLNRAMRTLKQ 285 >gi|169883528|gb|ACA97859.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820] Length = 377 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 105/238 (44%), Positives = 168/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++R P E+A+ L + E + Sbjct: 199 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEITPEQL 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED + P D + +R+ VL+ LT Sbjct: 259 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLTE 318 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI+ KA+RKL+ P +++L+ +L Sbjct: 319 REKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRRPQVARRLKGWL 376 >gi|28868771|ref|NP_791390.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|301383956|ref|ZP_07232374.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato Max13] gi|302064158|ref|ZP_07255699.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato K40] gi|302134085|ref|ZP_07260075.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tomato NCPPB 1108] gi|3132688|gb|AAC16326.1| sigma factor [Pseudomonas syringae pv. tomato] gi|28852010|gb|AAO55085.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|331016398|gb|EGH96454.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 335 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|159029420|emb|CAO90796.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 377 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 105/238 (44%), Positives = 168/238 (70%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K+ + R + ++R P E+A+ L + E + Sbjct: 199 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEITPEQL 258 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED + P D + +R+ VL+ LT Sbjct: 259 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLTE 318 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI+ KA+RKL+ P +++L+ +L Sbjct: 319 REKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRRPQVARRLKGWL 376 >gi|213969149|ref|ZP_03397288.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato T1] gi|213926147|gb|EEB59703.1| RNA polymerase sigma-38 factor [Pseudomonas syringae pv. tomato T1] Length = 334 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 82 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 141 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 142 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 201 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 202 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 261 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 262 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 319 >gi|254430144|ref|ZP_05043847.1| RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197624597|gb|EDY37156.1| RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 318 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 98/229 (42%), Positives = 152/229 (66%), Gaps = 1/229 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A+ M+ ANLRLV+SVAKKY N+GL+ LDL+QEG IGL +A +KFD +GYKFSTYA Sbjct: 81 AQRARDRMMAANLRLVVSVAKKYQNQGLELLDLVQEGAIGLERAVDKFDPAMGYKFSTYA 140 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++Q +TR+I + + TIR+P+H+ +K+ K+ R R +S+++ R+P E++ + M Sbjct: 141 YWWIRQGMTRAIDNSARTIRLPIHISEKLSKMRRITRELSHRLGRQPNRLELSHAMDMRP 200 Query: 561 EGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E + +++ + SL+ GDED S LG+ I D + DS + +E L+ Sbjct: 201 EELEELMAQSAPCASLDAHARGDEDRSTLGELIADPASNEHFDSMDRHIQKEHLGAWLSQ 260 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE++++++RFG+ + TL E+G+ V+RER+RQ+EAKAI KL+ Sbjct: 261 LNEREQKIIKLRFGLEGSEPLTLAEIGRLINVSRERVRQLEAKAIMKLR 309 >gi|302187929|ref|ZP_07264602.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae 642] Length = 335 Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|289626003|ref|ZP_06458957.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289651481|ref|ZP_06482824.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. 2250] gi|330868573|gb|EGH03282.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 335 Score = 191 bits (486), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|289208462|ref|YP_003460528.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. K90mix] gi|288944093|gb|ADC71792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. K90mix] Length = 359 Score = 191 bits (486), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 96/256 (37%), Positives = 153/256 (59%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I ++ E R + R G+ ++ M+E NLRLV+ +A++Y NRGL LD Sbjct: 90 LRDIEYRPLLTPEEERKYARLARDGD---ESGRRRMIECNLRLVVKIARRYLNRGLPLLD 146 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GLM A EKFD G++FSTYA WW++Q I R++ +Q TIRIPVH+ ++ Sbjct: 147 LIEEGNLGLMHAVEKFDPERGFRFSTYATWWIRQTIERALMNQGRTIRIPVHVSKELRMH 206 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R AR ++ ++ R+PT EE+A++L PV ++K+ +++ S++ P G + L D + Sbjct: 207 ARIARNLTQELGRDPTEEELAQRLGKPVADIQKLRAMSEPSTSMDLPPGPDGERSLTDIL 266 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D NA P +++ L L ++ VL RFG+ TLE+VG + VT Sbjct: 267 ADVNAQEPSSLLEDQDIQHLVDEWLGELDYKQREVLVRRFGLHGFERSTLEQVGAEIGVT 326 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ A+++L+ Sbjct: 327 RERVRQIQMDALKRLR 342 >gi|330894625|gb|EGH27286.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. mori str. 301020] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|34540402|ref|NP_904881.1| RNA polymerase sigma-70 factor [Porphyromonas gingivalis W83] gi|34396715|gb|AAQ65780.1| RNA polymerase sigma-70 factor [Porphyromonas gingivalis W83] Length = 287 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 95/268 (35%), Positives = 173/268 (64%), Gaps = 3/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +++G+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLISVEEEVELAQAIKRGDRKAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGTLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 ++ ++ + +R P+ E+AK+L + + + +K++ IS++ P + + + L D + Sbjct: 139 IKAQQKFEQENERRPSSAELAKELDIAEDKIADTMKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +++ + S I +L R L++LT RE ++++ FGI + TLEE+G +F +T Sbjct: 199 VNEDTPNTDKSLINESLAVEIERALSTLTEREAEIVKLFFGIAGCQEMTLEEIGDKFGLT 258 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ ++ K L+ +L Sbjct: 259 RERVRQIKEKAIRRLRQSNKCKNLKGYL 286 >gi|66044622|ref|YP_234463.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae B728a] gi|289675304|ref|ZP_06496194.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. syringae FF5] gi|6644290|gb|AAF20993.1|AF208000_1 RpoS [Pseudomonas syringae pv. syringae] gi|24415296|gb|AAN59882.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata] gi|24415299|gb|AAN59884.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata] gi|63255329|gb|AAY36425.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Pseudomonas syringae pv. syringae B728a] gi|330896091|gb|EGH28312.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. japonica str. M301072PT] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|294673737|ref|YP_003574353.1| RNA polymerase sigma factor RpoD [Prevotella ruminicola 23] gi|294473567|gb|ADE82956.1| putative RNA polymerase sigma factor RpoD [Prevotella ruminicola 23] Length = 286 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 99/268 (36%), Positives = 170/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ IS ET IS E + ++KG+ +A + + +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEISKETMISAEEEVELAQRIKKGDTKAL---ERLTKANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAE+FD G+KF +YA+WW++Q+I ++I++QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLLKAAERFDETRGFKFISYAVWWIRQSILQAISEQSRIVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R R +R P+ +EIA+K+ +P E + + + I IS++ P + + + L D + Sbjct: 139 NREINRFEQLNERRPSVDEIAEKVDLPQEKIDEAMAINGHQISVDAPFVEGEDNSLLDVM 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + +A + ++ +L+ L++L RE V+ +GI + TLEE+G +F +T Sbjct: 199 ANSDAPLADNQLVEESLKSEIQNALSALNERERNVVEASYGINQ-PELTLEEIGTKFGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIRKL++ +K L+++L Sbjct: 258 RERVRQIKEKAIRKLRNSKANKFLKTYL 285 >gi|167949417|ref|ZP_02536491.1| RNA polymerase sigma factor RpoD [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 128 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 92/126 (73%), Positives = 106/126 (84%) Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + MP + VRKVLKI KEPIS+ETPIGD++ SHLGDFIED VSP+DSA LRE T Sbjct: 1 MEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSGVVSPVDSATSEGLREATQN 60 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS++ Sbjct: 61 MLSGLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSER 120 Query: 676 LRSFLD 681 +RSFLD Sbjct: 121 MRSFLD 126 >gi|257487049|ref|ZP_05641090.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tabaci ATCC 11528] gi|320323089|gb|EFW79178.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. B076] gi|320329639|gb|EFW85628.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. race 4] gi|330878042|gb|EGH12191.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. glycinea str. race 4] gi|330985141|gb|EGH83244.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. lachrymans str. M301315] gi|331009312|gb|EGH89368.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|330968927|gb|EGH68993.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aceris str. M302273PT] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|330959229|gb|EGH59489.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. maculicola str. ES4326] Length = 336 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 84 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 143 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 144 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 203 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 204 EIANLLERPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 263 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 264 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 321 >gi|330950646|gb|EGH50906.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae Cit 7] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLERPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|220934609|ref|YP_002513508.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. HL-EbGR7] gi|219995919|gb|ACL72521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thioalkalivibrio sp. HL-EbGR7] Length = 344 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 102/285 (35%), Positives = 170/285 (59%), Gaps = 14/285 (4%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 V A D P+GE +D+ R + I ++ E H + +KG+ Sbjct: 58 VYAAGDVPKGE--------LDAT---RLYLSEIEFSPLLTPEEEVHYARLAQKGD---EA 103 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++M+E NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 104 GRRKMIECNLRLVVKIARRYMNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 163 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR+++ ++ EPT EE+A+ L PV V Sbjct: 164 IRQTIERALMNQTRTIRLPIHVIKELNVYLRTARKLAQELDHEPTAEEVARHLDRPVGDV 223 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++L +++ S++ PIG + L D I D+ P ++ + L L + Sbjct: 224 KRILALSERVTSVDLPIGKDGERALLDVIPDEQTPEPSILIQDEDVVQFVDEWLQELDEK 283 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLE+VG + VTRER+RQI+ A+++L+ Sbjct: 284 QREVIVRRFGLHGYERSTLEQVGAELGVTRERVRQIQMDALKRLR 328 >gi|116668483|gb|ABK15514.1| sigma factor [Pseudomonas alkylphenolia] Length = 335 Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIASLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTDKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|312888769|ref|ZP_07748333.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311298769|gb|EFQ75874.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 286 Score = 191 bits (485), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 95/239 (39%), Positives = 160/239 (66%), Gaps = 5/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++IA+QS +R+P++ + K+ + ++ + +REP+PEE+A L V+ + Sbjct: 110 IRQSILQAIAEQSRIVRLPLNQVGSLSKISKAFSKLEQEYEREPSPEELADILETTVDKI 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + +S++ P G+E+T L D +++ + I +L E R L++LT Sbjct: 170 SDTLSNSGRHVSMDAPFVQGEENT--LLDVLDNHEPNTDFH-LINESLAEEIKRSLSTLT 226 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE ++ + FG+G N+ +LEE+G++F +TRER+RQI+ KA+++L+H SRSK L+S+L Sbjct: 227 EREREIVVLFFGLGSNSPFSLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKILKSYL 285 >gi|238786819|ref|ZP_04630620.1| RNA polymerase sigma factor rpoS [Yersinia frederiksenii ATCC 33641] gi|238725187|gb|EEQ16826.1| RNA polymerase sigma factor rpoS [Yersinia frederiksenii ATCC 33641] Length = 306 Score = 191 bits (485), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 87/220 (39%), Positives = 149/220 (67%) Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ Sbjct: 79 VYFARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQT 138 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S+ Sbjct: 139 RTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSV 198 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 +TP+G + L D + D+N P D+ +++++ + L L ++ VL RFG+ Sbjct: 199 DTPLGGDSEKALLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG 258 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 TLE+VG++ +TRER+RQI+ + +R+L+ + + L Sbjct: 259 YEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQGQGL 298 >gi|304383342|ref|ZP_07365808.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] gi|304335510|gb|EFM01774.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] Length = 287 Score = 191 bits (485), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 96/247 (38%), Positives = 161/247 (65%), Gaps = 4/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAAEKFD G Sbjct: 43 IRRGDRQAL---EKLTKANLRFVVSVAKQYQNQGLSLPDLINEGNLGLIKAAEKFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++IA+QS +R+P++ ++++ + R + +R P+ EEIA Sbjct: 100 FKFISYAVWWIRQSILQAIAEQSRIVRLPLNQIGSVNRINKMLNRFEQENERRPSMEEIA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+ + E V VLK+ +S++ P + D + L D + + ++ ++ +LRE Sbjct: 160 DKVNLSQEKVADVLKVNSRQVSVDAPFTEGDETSLLDVLCNNDSPMADRELVRESLREEI 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R L L RE ++ FGI + TLEE+G +F +TRER+RQI+ KAIR+L+ ++S Sbjct: 220 NRTLQVLNERERNIVEAFFGINQG-EKTLEEIGNKFGLTRERVRQIKEKAIRRLRQNTKS 278 Query: 674 KKLRSFL 680 + L+++L Sbjct: 279 RLLKAYL 285 >gi|329848685|ref|ZP_08263713.1| RNA polymerase sigma factor rpoD [Asticcacaulis biprosthecum C19] gi|328843748|gb|EGF93317.1| RNA polymerase sigma factor rpoD [Asticcacaulis biprosthecum C19] Length = 699 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 98/177 (55%), Positives = 127/177 (71%), Gaps = 6/177 (3%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E E S D + D +D + KK IK A+ RGYVT++ELN LP +E +SEQ+EDT+AML+ M Sbjct: 9 ESEASSDGPLLDLTDSAVKKFIKAAKARGYVTMDELNKVLPSEEFTSEQIEDTLAMLTEM 68 Query: 74 GINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 G+NV+ E EE + ++ ++A + S+ + + DR TDDPVRMYLREMGS+EL Sbjct: 69 GVNVI-----ESEEEAGETTEVAVREESGSLVETAKTSAYDR-TDDPVRMYLREMGSVEL 122 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 LSREGEIAIAKRIEAGR M+ LCES LTF+A+++WR+EL G LLREIIDLE Sbjct: 123 LSREGEIAIAKRIEAGRDTMIRGLCESALTFEAIMVWREELGSGRILLREIIDLEGT 179 >gi|330872696|gb|EGH06845.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 335 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 90/238 (37%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q + R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTVERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|313672395|ref|YP_004050506.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Calditerrivibrio nitroreducens DSM 19672] gi|312939151|gb|ADR18343.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calditerrivibrio nitroreducens DSM 19672] Length = 337 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 85/233 (36%), Positives = 147/233 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+ NLRLV+S+AKKY N+G+ DLI EGNIGL++A EKFD+ G+KFSTYA WW Sbjct: 99 AKETMINCNLRLVVSIAKKYANKGVPLEDLISEGNIGLIRAVEKFDYRKGFKFSTYATWW 158 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R+I + +R+PVH+ + I K+++ + + R PT E++ + + + Sbjct: 159 IRQAIERAIIANTKIVRVPVHVLEYIKKILKAKSELQETLGRNPTYTELSTYTGITLSNI 218 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K ++ + +S++ PI +++ ++ + I D P D A + N+++ ++ + L Sbjct: 219 YKAVEAMRHDVSIDAPISEDEQENMHNLIPDNIHTDPFDHAFELNIQKLVSKWMGYLNET 278 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E+ ++ +R+G+ TL+EVGK+ +TRERIRQIE + + KL+ +K++ Sbjct: 279 EKLIITLRYGLDGKRSRTLDEVGKELNLTRERIRQIEKRVLNKLRSFFHNKRI 331 >gi|172037252|ref|YP_001803753.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] gi|171698706|gb|ACB51687.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC 51142] Length = 297 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 96/230 (41%), Positives = 155/230 (67%), Gaps = 3/230 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +M++ANLRLV+S+AKKY N GL LDLIQEG++GL++ EKFD GYKFSTYA WW Sbjct: 61 ARDKMIQANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKFDPSRGYKFSTYAYWW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA+QS TIR+P+H+ + ++K ++ R ++ K+ R+PT +EIA+ + + V+ + Sbjct: 121 IRQGITRAIAEQSRTIRLPIHINENLNKYRKSIRELTLKLGRKPTQQEIAENMDISVDKL 180 Query: 564 RKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 R + + + SL I DE+ + LG + D+++VSP D Q R+L +L+ Sbjct: 181 RFLQQAAFKTKSRSLNIVI-DENHTELGQLLPDEDSVSPSDFVKQQEKISQINRMLENLS 239 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 PR++ V+ +RFG+ + + +G+Q ++ ER RQI ++A+R L+ S Sbjct: 240 PRQKEVIILRFGLRDGKQLSYKAIGEQCGISHERARQIYSRALRILRKQS 289 >gi|88802114|ref|ZP_01117642.1| RNA polymerase sigma-70 factor [Polaribacter irgensii 23-P] gi|88782772|gb|EAR13949.1| RNA polymerase sigma-70 factor [Polaribacter irgensii 23-P] Length = 287 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 91/233 (39%), Positives = 158/233 (67%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ANLR V+SVAK+Y +GL+ DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+ Sbjct: 54 LVSANLRFVVSVAKQYQGQGLKLSDLINEGNLGLVKAAKRFDETRGFKFISYAVWWIRQS 113 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I +++A+QS +R+P++ I+K+ + R+ +R PT +EIAK+L M V + L Sbjct: 114 IMQALAEQSRIVRLPLNKIGSINKIKKIYARLEQNEQRMPTHKEIAKQLDMTEAEVEQSL 173 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 K + +S++ P + + S+L + ++ ++ P + +L+ R L +LT +E +V Sbjct: 174 KNSGRHVSMDAPFKEGEDSNLYNVLQSGDSPRPDSQLMAQSLKIEIERALGTLTYKEAKV 233 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++M +GIG +LEE+G++F +TRER+RQ++ KAIR+L+ S+++ LR++L Sbjct: 234 IKMYYGIGNEAMASLEEIGEKFDLTRERVRQVKQKAIRRLQSGSKTQMLRTYL 286 >gi|298488362|ref|ZP_07006394.1| RNA polymerase sigma factor RpoS [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|298157184|gb|EFH98272.1| RNA polymerase sigma factor RpoS [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] Length = 335 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 151/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 HSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|297580668|ref|ZP_06942594.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoS [Vibrio cholerae RC385] gi|297535084|gb|EFH73919.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoS [Vibrio cholerae RC385] Length = 236 Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 90/209 (43%), Positives = 143/209 (68%) Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 +++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R++ +Q+ TI Sbjct: 8 SRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRTI 67 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 R+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V K+L++ + S++TP Sbjct: 68 RLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNERISSVDTP 127 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IG + L D + D + P S ++RE+ L L P+++ VL RFG+ Sbjct: 128 IGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPKQKEVLARRFGLLGYEP 187 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 188 STLEEVGREINLTRERVRQIQVEGLRRLR 216 >gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa] gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa] Length = 564 Score = 191 bits (484), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 101/247 (40%), Positives = 155/247 (62%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK A + K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ EKFD G Sbjct: 316 LRKRLNYAILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGVEKFDASKG 375 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW++QA+ RS++DQS TIR+P HM D ++V ++ ++ R P +E+A Sbjct: 376 FKFSTYAHWWIRQAVRRSLSDQSRTIRLPFHMVDATYRVKEARKQFYSENGRHPDDKEVA 435 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + ++ + VL K P SL+ +G L + D A + D ++ +++ Sbjct: 436 EATGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMKEFMKKDL 495 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 RVL SL+PRE +V+R RFG+ TL+E+G+ V+RERIRQIE A RKLK+ +R+ Sbjct: 496 ERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIELSAFRKLKNKNRT 555 Query: 674 KKLRSFL 680 K+LR +L Sbjct: 556 KQLRQYL 562 >gi|254514875|ref|ZP_05126936.1| RNA polymerase sigma factor RpoS [gamma proteobacterium NOR5-3] gi|219677118|gb|EED33483.1| RNA polymerase sigma factor RpoS [gamma proteobacterium NOR5-3] Length = 367 Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 92/258 (35%), Positives = 163/258 (63%), Gaps = 6/258 (2%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 NEI + + +S E +H +V+KG+ A+K M+E+NLRLV+++A++Y +RG+ Sbjct: 100 NEIGFVPL---LSADEEKHYARLVQKGD---EAARKRMIESNLRLVVNIARRYLHRGMSL 153 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLI+EGN+GLM+A EKFD G++FSTYA WW++Q I R I +Q+ TIR+P+H+ ++ Sbjct: 154 LDLIEEGNLGLMRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQARTIRLPIHVVKDLN 213 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 +R AR ++ ++ +PT +EIA + V +++ + + S++ P+G S + + Sbjct: 214 GCLRAARELTQQLDHDPTTQEIASRTHKTATEVSRLMGLNERVSSMDAPLGPNSDSSVAE 273 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 I D++ P + ++ ++ L L+ ++ V+ RFG+ TLEEVG++ Sbjct: 274 TIADEHGCDPSEQIQDDDVHDSVAHWLDELSEKQREVVVRRFGLLGYDSCTLEEVGQEIG 333 Query: 651 VTRERIRQIEAKAIRKLK 668 +TRER+RQI+ +A+++L+ Sbjct: 334 LTRERVRQIQVEALKRLR 351 >gi|221134005|ref|ZP_03560310.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Glaciecola sp. HTCC2999] Length = 326 Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 93/227 (40%), Positives = 152/227 (66%), Gaps = 3/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+ +NLRLV+ +A++Y +RGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 82 ARERMIVSNLRLVVKIARRYKDRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ T+R+P+H+ +++ +RTAR ++ ++ EPT EEIA KL + E V Sbjct: 142 IRQTIERAIMNQTRTVRLPIHVVKELNIYLRTARNLAQELDHEPTAEEIADKLDVSTEDV 201 Query: 564 RKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 K+L++ + S+++ + E D + L D + D N P + + +++ L L P Sbjct: 202 NKMLRLNERIKSVDSYLSHESDGNSLLDILPDSNHSGPEEKNQEDDIKNNIVMWLQELNP 261 Query: 623 REERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ VL RFG+ G D TLE VG + +TRER+RQI+ +A+R+LK Sbjct: 262 KQREVLSRRFGLMGFEPD-TLENVGAEIGLTRERVRQIQVEALRRLK 307 >gi|188994502|ref|YP_001928754.1| RNA polymerase sigma factor RpoD [Porphyromonas gingivalis ATCC 33277] gi|188594182|dbj|BAG33157.1| RNA polymerase sigma factor RpoD [Porphyromonas gingivalis ATCC 33277] Length = 287 Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 95/268 (35%), Positives = 172/268 (64%), Gaps = 3/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + +++G+ +A +++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREDLISVEEEVELAQAIKRGDRKAL---EKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGTLNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 ++ ++ + +R P+ E+AK+L + + + +K++ IS++ P + + + L D + Sbjct: 139 IKAQQKFEQENERRPSSAELAKELDIAEDKIADTMKVSGRHISVDAPFVEGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +++ + S I +L R L++LT RE ++++ FGI + TLEE+G +F +T Sbjct: 199 VNEDTPNTDKSLINESLAVEIERALSTLTEREAEIVKLFFGIAGCQEMTLEEIGDKFGLT 258 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L+ + K L+ +L Sbjct: 259 RERVRQIKEKAIRRLRQSNECKNLKGYL 286 >gi|149278388|ref|ZP_01884525.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|255532892|ref|YP_003093264.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|149230758|gb|EDM36140.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|255345876|gb|ACU05202.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 96/239 (40%), Positives = 159/239 (66%), Gaps = 5/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++IA+QS +R+P++ + K+ + ++ + +REP+PEE+A L V+ + Sbjct: 110 IRQSILQAIAEQSRIVRLPLNQVGSLSKISKAFSKLEQEYEREPSPEELADILETTVDKI 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + +S++ P G+E+T L D +E+ + S I +L E R L++LT Sbjct: 170 SDTLSNSGRHVSMDAPFVQGEENT--LLDVLENHEPNTD-SSLINESLSEEIKRSLSTLT 226 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE ++ + FG+ N +LEE+G++F +TRER+RQI+ KA+++L+H SRSK L+S+L Sbjct: 227 EREREIIVLFFGLSTNHPLSLEEIGEKFNLTRERVRQIKDKALQRLRHTSRSKILKSYL 285 >gi|71736784|ref|YP_275947.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. phaseolicola 1448A] gi|71557337|gb|AAZ36548.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. phaseolicola 1448A] Length = 335 Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 151/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGYESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|149370424|ref|ZP_01890113.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] gi|149355975|gb|EDM44532.1| RNA polymerase sigma-70 factor [unidentified eubacterium SCB49] Length = 288 Score = 190 bits (483), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 95/235 (40%), Positives = 154/235 (65%), Gaps = 1/235 (0%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++ ANLR VISVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW++Q Sbjct: 53 KLTRANLRFVISVAKQYQNQGLSLPDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQ 112 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I ++IA+QS +R+P++ I+KV + + + +R PT +EIA +L + V V+ Sbjct: 113 SILQAIAEQSRIVRLPLNKIGDINKVKKASIHLQQVYERVPTAQEIANELDITVSSVKSS 172 Query: 567 LKITKEPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +K + IS++ P + E+ ++L D I + +P + +Q +L+ R L +L+ RE Sbjct: 173 MKNSNRSISMDAPFQEGENDNNLYDVISSGESPNPDNGLMQESLKTEIDRALDTLSQREA 232 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+++ FG+ N TL+E+G F ++RER+RQI KAIR+L+H S+S L +L Sbjct: 233 DVVKLNFGLSGNPVMTLQEIGDTFDLSRERVRQIREKAIRRLRHESKSHILMKYL 287 >gi|221636011|ref|YP_002523887.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Thermomicrobium roseum DSM 5159] gi|221157983|gb|ACM07101.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Thermomicrobium roseum DSM 5159] Length = 334 Score = 190 bits (483), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 102/252 (40%), Positives = 155/252 (61%), Gaps = 7/252 (2%) Query: 418 VETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 +E G E R +VRKG+ A+++++ NLRLV+S+AK+Y + L +DLIQEG Sbjct: 80 IEAGEDTPELRE---LVRKGQE----AREKLIRHNLRLVVSIAKRYRSSELPLIDLIQEG 132 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 NIGLM A E++D LGY+FSTYA +W++QAI R++A+ S TIR+PVHM D I K+ R Sbjct: 133 NIGLMTAVERYDPELGYRFSTYATFWIRQAIGRAVANLSRTIRVPVHMHDLIAKIRRAEA 192 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 ++ + R T EE+A+ L + V + + SL+ PIG++ S +GD + D + Sbjct: 193 QIEQQKGRPATNEELAELLGIDVARIEQARTQIPRTSSLDKPIGEDGESSIGDLLPDPRS 252 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 ++ A+ +RE R L LT RE VL MRFG+ TL E+ ++RER+R Sbjct: 253 DDVVEEALTNAIREQIRRSLEQLTERERTVLVMRFGLDGEQPRTLAEIADALKISRERVR 312 Query: 658 QIEAKAIRKLKH 669 Q+E +A++KL++ Sbjct: 313 QVEKEALQKLRN 324 >gi|297843640|ref|XP_002889701.1| hypothetical protein ARALYDRAFT_470915 [Arabidopsis lyrata subsp. lyrata] gi|297335543|gb|EFH65960.1| hypothetical protein ARALYDRAFT_470915 [Arabidopsis lyrata subsp. lyrata] Length = 572 Score = 190 bits (483), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 100/247 (40%), Positives = 154/247 (62%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK ++ K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G Sbjct: 322 LRKRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKG 381 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW+KQA+ +S++DQS IR+P HM + ++V +++ ++ + P EEIA Sbjct: 382 FKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIA 441 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + ++ + VL K P SL+ IG + I D AV+ D I+ +R+ Sbjct: 442 EATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDL 501 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +VL SL RE++V+R RFG+ TL+E+G+ V+RER+RQIE+ A RKLK+ RS Sbjct: 502 DKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRS 561 Query: 674 KKLRSFL 680 L+ +L Sbjct: 562 NHLQQYL 568 >gi|330964173|gb|EGH64433.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. actinidiae str. M302091] Length = 335 Score = 190 bits (483), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 90/238 (37%), Positives = 152/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +IA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 DIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|288927719|ref|ZP_06421566.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] gi|288330553|gb|EFC69137.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] Length = 287 Score = 190 bits (483), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 97/268 (36%), Positives = 170/268 (63%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E IS+ E + ++KG+ +A +++ +ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGHEELISVEEEVELAQRIKKGDRKAL---EKLTKANLRFVVSVAKQYQNQGLSLQD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 79 LINEGNVGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ EIA+K +P + + +K+T IS++ P D + + L D + Sbjct: 139 NKILSKFEQENERRPSINEIAEKTDLPEDKIEDAIKVTGRHISVDAPFVDGEDNSLLDLL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + + + ++ +LR L L RE V+ FGI + TLEE+G ++ +T Sbjct: 199 ANTDTPTVDNELVKESLRAEIADALQYLNERERNVIEAFFGINQ-MEMTLEEIGDKYGLT 257 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIR+L++ +++K L+++L Sbjct: 258 RERVRQIKEKAIRRLRNNTKNKMLKTYL 285 >gi|126660003|ref|ZP_01731125.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] gi|126618681|gb|EAZ89428.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110] Length = 297 Score = 190 bits (483), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 96/230 (41%), Positives = 153/230 (66%), Gaps = 3/230 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +M++ANLRLV+S+AKKY N GL LDLIQEG++GL++ EKFD GYKFSTYA WW Sbjct: 61 ARDKMIQANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKFDPSRGYKFSTYAYWW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA+QS TIR+P+H+ + ++K ++ R ++ K+ R+PT +EIA+ + + V+ + Sbjct: 121 IRQGITRAIAEQSRTIRLPIHINENLNKYRKSIRELTLKLGRKPTQQEIAENMDITVDKL 180 Query: 564 RKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 R + + + SL I DE+ + LG + D+ VSP D Q R+L +L+ Sbjct: 181 RFLQQAAFKTKSRSLNIVI-DENNTELGQLLPDEEGVSPSDFVKQQEKISQINRMLENLS 239 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 PR++ V+ +RFG+ + + +G+Q ++ ER RQI ++A+R L+ S Sbjct: 240 PRQKEVIILRFGLRDGKQLSYKAIGEQCGISHERARQIYSRALRILRKQS 289 >gi|25900789|emb|CAD57977.1| RNA polymerase sigma factor [Pseudomonas oleovorans] Length = 335 Score = 190 bits (483), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 95/256 (37%), Positives = 156/256 (60%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Q+ TIR+P H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMSQTRTIRLPFHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 LRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + + +L+ Sbjct: 305 RERVRQIQVEGLERLR 320 >gi|327438872|dbj|BAK15237.1| DNA-directed RNA polymerase [Solibacillus silvestris StLB046] Length = 425 Score = 190 bits (483), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 149/239 (62%), Gaps = 6/239 (2%) Query: 448 MVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +VEAN +LV + K Y+ G D+ Q G IGL+KAAEKFD LGY+FSTYA WW+ Sbjct: 184 LVEANRKLVWKIVKHYSGLATVGFDENDMYQVGFIGLLKAAEKFDVSLGYQFSTYATWWI 243 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAITR IAD S IRIPVH R+K++K ++ + N++ R T EI+K++ P + Sbjct: 244 RQAITRGIADYSTLIRIPVHYREKMNKFIKIENELWNELARPATTFEISKEMEEPTNVIE 303 Query: 565 KV-LKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LT 621 ++ I++ + SL+ +GD++ + LG+ + D N P + + LR T + S LT Sbjct: 304 ELRFYISQSNLDSLDRLVGDDENTSLGELVLDDNLKMPDEEYYKIELRNTIGEIFQSNLT 363 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +VL RFG + TLEEVG+ + +TRERIRQIEAKA+RKL+ + L+ +L Sbjct: 364 EREMQVLYYRFGFKNDETKTLEEVGQIYNLTRERIRQIEAKALRKLRKQKTTTVLKEYL 422 >gi|256420372|ref|YP_003121025.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] gi|256035280|gb|ACU58824.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] Length = 291 Score = 190 bits (483), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 96/240 (40%), Positives = 160/240 (66%), Gaps = 5/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 52 ALEKLTKANLRFVVSVAKQYQNQGLSLSDLINEGNLGLIKAAQRFDETRGFKFISYAVWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS +R+P++ +K+ + ++ + +REP+P+E+A L + E V Sbjct: 112 IRQSILQALAEQSRIVRLPLNKVGLSNKISKAYSQLEQEFEREPSPDELATILEINTEEV 171 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRETTTRVLASL 620 L + +S++ P D + + L D + + NAV+ LD +LR R L++L Sbjct: 172 EATLGVAARHVSMDAPFIDGEDNSLLDVLANPNAVNADEELDH--HDSLRREIERSLSTL 229 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T R++ V+ + FGI + +LE++G++F +TRER+RQI+ KAI KL+ SRSK LR++L Sbjct: 230 TDRQKDVIILYFGIAVEHPMSLEDIGEKFGLTRERVRQIKDKAITKLRTTSRSKLLRNYL 289 >gi|28899327|ref|NP_798932.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus RIMD 2210633] gi|28807551|dbj|BAC60816.1| RNA polymerase sigma factor RpoS [Vibrio parahaemolyticus RIMD 2210633] Length = 319 Score = 190 bits (482), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 93/213 (43%), Positives = 142/213 (66%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 86 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PVE V Sbjct: 146 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D I D N P S +++ + L L P+ Sbjct: 206 SKMLRLNERISSVDTPIGGDGEKALLDIIPDANNSDPEVSTQDDDIKSSLIHWLEELNPK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 ++ VL RFG+ TLEEVG + ER+ Sbjct: 266 QKEVLARRFGLLGYEPSTLEEVGLRLKKWDERL 298 >gi|186687052|ref|YP_001870195.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186469355|gb|ACC85154.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme PCC 73102] Length = 316 Score = 190 bits (482), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 106/250 (42%), Positives = 162/250 (64%), Gaps = 9/250 (3%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S++++G+ AK++MV ANLRLV+SVAKKY N L FLDL+QEG +GL + EKFD Sbjct: 73 SVIQQGQK----AKQKMVTANLRLVVSVAKKYQNYSLDFLDLLQEGALGLQRGIEKFDPN 128 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYK STY WW+ Q+ITR++AD+S TIR+P+H+ +K++K+ R +++S + R P E Sbjct: 129 KGYKLSTYVYWWITQSITRAVADKSRTIRLPIHINEKLNKIRRVQQQLSQSLGRPPVVAE 188 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 IA+ L + +R+ L+I+K +SLE +GDE S L D + + +S LD I +L+ Sbjct: 189 IAESLNLSPNQIREYLQISKPLVSLEKRVGDEGESELADIL-PMDGIS-LDEQITLESLQ 246 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + ++LA L PR+ VL +RFG+ N TL +V K+ ++RE IR+ E A+ L+ Sbjct: 247 QDLAKLLALLKPRQREVLTLRFGLSDNQQLTLSQVAKRLNLSRETIRKTEHLALSILR-- 304 Query: 671 SRSKKLRSFL 680 S K++ +L Sbjct: 305 SHQNKIKDYL 314 >gi|17545926|ref|NP_519328.1| RNA polymerase sigma factor RpoS [Ralstonia solanacearum GMI1000] gi|17428221|emb|CAD14909.1| rna polymerase sigma s (sigma-38) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 377 Score = 189 bits (481), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 105/289 (36%), Positives = 174/289 (60%), Gaps = 6/289 (2%) Query: 391 PEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 PE +++ + E+ + +++ + IS++ ++ +E H ++ + GE A ++ M+E Sbjct: 88 PEEDFRTVLQAELAAD-TVQHYLNRISIKPLLTPAEELHFSTLAKAGEFAA---RQVMIE 143 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 NLRLV+S+AK Y NRG+ LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R Sbjct: 144 RNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIER 203 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 +I +Q+ T+R+PVH+ ++++V+R R + S R+ + E+IA L E V+ VL Sbjct: 204 AIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLS 263 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + + SL+TP + + L DF+ D++ SP L + LA L+ + V+ Sbjct: 264 LNEHTTSLDTPFDLDPGTSLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVV 323 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 RFG+ TLEE+ + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 324 ERRFGLNHIEPATLEELAAEMGLTRERVRQIQQEALVKLKRHFASQGVR 372 >gi|88705821|ref|ZP_01103530.1| RNA polymerase sigma-38 subunit [Congregibacter litoralis KT71] gi|88699892|gb|EAQ97002.1| RNA polymerase sigma-38 subunit [Congregibacter litoralis KT71] Length = 331 Score = 189 bits (481), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 92/258 (35%), Positives = 163/258 (63%), Gaps = 6/258 (2%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 NEI + + ++ E +H + +KG+ A+K M+E+NLRLV+ +A++Y +RG+ Sbjct: 64 NEIGFVPL---LTADEEKHYARLTQKGD---EAARKRMIESNLRLVVKIARRYLHRGMSL 117 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 LDLI+EGN+GLM+A EKFD G++FSTYA WW++Q I R I +Q+ TIR+P+H+ ++ Sbjct: 118 LDLIEEGNLGLMRAVEKFDPERGFRFSTYATWWIRQTIERGIMNQARTIRLPIHVVKDLN 177 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 +R AR ++ ++ EPT +EIA + + V +++ + + S++ P+G + S + + Sbjct: 178 GCLRAARELTQQLDHEPTTQEIASRTHKSAKEVSRLMGLNERVSSVDAPLGPDSDSSVVE 237 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 I D + P + ++ ++ L LT ++ V+ RFG+ + TLEEVG++ Sbjct: 238 TIADDHLCDPSEQLQNDDVHDSVADWLNELTDKQREVVMRRFGLLGHESSTLEEVGQEIG 297 Query: 651 VTRERIRQIEAKAIRKLK 668 +TRER+RQI+ +A+++L+ Sbjct: 298 LTRERVRQIQVEALKRLR 315 >gi|117165089|emb|CAJ88642.1| putative RNA polymerase principal sigma factor HrdC [Streptomyces ambofaciens ATCC 23877] Length = 338 Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 95/253 (37%), Positives = 156/253 (61%), Gaps = 12/253 (4%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + VR G AK MV ANLRLV+S+AK++ +RGL LD+IQEGN+GL++A EK Sbjct: 89 RALEETVRDGRA----AKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEK 144 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD G+KFSTYA WW++QAI R +A + T+R+PVH+ +++ K+ + R++ ++ REP Sbjct: 145 FDHTKGFKFSTYATWWIRQAIERGLATHARTVRLPVHVVEQLQKLAKVERKLRGRLDREP 204 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD----S 603 T +E+A + + + V + ++ ++ +SL+TP+ + + +GD I D + + Sbjct: 205 TADEVAAESGIDGDKVVWLRRVGRDAVSLDTPVDEAGETVVGDLIPDTEVLQAPEVAEFQ 264 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A+ A LRE + +L PRE +L +R+G+ TL +V + +TRER+RQ+E + Sbjct: 265 ALAAELRE----AVGTLAPREAMILSLRYGLHDGRPRTLHQVAQHVGLTRERVRQLEKAS 320 Query: 664 IRKLKHPSRSKKL 676 + L+ P +L Sbjct: 321 LDHLRAPETRDRL 333 >gi|315499353|ref|YP_004088157.1| RNA polymerase, sigma 70 subunit, rpod [Asticcacaulis excentricus CB 48] gi|315417365|gb|ADU14006.1| RNA polymerase, sigma 70 subunit, RpoD [Asticcacaulis excentricus CB 48] Length = 696 Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 100/177 (56%), Positives = 125/177 (70%), Gaps = 6/177 (3%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E + D + D +D KK IK A+ RGYVT++ELN LP +E +SEQ+EDT+AML+ M Sbjct: 9 EADTPSDGPLLDLTDAGVKKFIKNAKARGYVTMDELNKVLPSEEFTSEQIEDTLAMLTEM 68 Query: 74 GINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIEL 133 G+NVVD ++ E EG E +A V + ++ + DR TDDPVRMYLREMGS+EL Sbjct: 69 GVNVVDSEE-EATEGGE----IAVREETGGVVVAEKTSAYDR-TDDPVRMYLREMGSVEL 122 Query: 134 LSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 LSREGEIAIAKRIEAGR M+ LCES LTF+A++IWR+EL G LLREIIDLE Sbjct: 123 LSREGEIAIAKRIEAGRDTMIRGLCESALTFEAIMIWREELESGRILLREIIDLEGT 179 >gi|257092978|ref|YP_003166619.1| RNA polymerase sigma factor RpoS [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257045502|gb|ACV34690.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 319 Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 99/249 (39%), Positives = 156/249 (62%), Gaps = 2/249 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V+ R+ A+++M+E NLRLV+++AK Y NRG+ LDLI+EGN+GL+ A EK+D Sbjct: 68 VNWARRARAGEFPARQKMIEHNLRLVVNIAKHYLNRGIPLLDLIEEGNLGLIHAIEKYDP 127 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q+I R+I +QS TIR+PVH+ I+ V+R R + + RE P+ Sbjct: 128 ERGFRFSTYATWWIRQSIERAIMNQSRTIRLPVHVVKDINLVLRAIRHLESASGREICPD 187 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-L 609 IA + PVE VR+V+ + + SL+ P+ + + +GD I D++ + P D +Q+N L Sbjct: 188 RIAHLIDRPVEDVRRVMALNERIASLDAPLQVDPSQTVGDLIADESLLDP-DELLQSNEL 246 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E L L + +VL R+G+G + TLEE+ +TRER+RQI+ +A+ L+ Sbjct: 247 GELLRNWLGQLAGKHRQVLERRYGLGGSEPSTLEEIAFDLNLTRERVRQIQIEALDHLRR 306 Query: 670 PSRSKKLRS 678 R + + S Sbjct: 307 IIRRRGVTS 315 >gi|91217671|ref|ZP_01254628.1| putative sigma factor A [Psychroflexus torquis ATCC 700755] gi|91184175|gb|EAS70561.1| putative sigma factor A [Psychroflexus torquis ATCC 700755] Length = 288 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 100/260 (38%), Positives = 167/260 (64%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I+ E + +R+G+ +A++ K + ANLR V+SVAK+Y N+GL+ DLI EGN+GL Sbjct: 31 ITAEEEVELAQRIREGD-QAALEK--LTNANLRFVVSVAKQYQNQGLKLPDLINEGNVGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ I+K+ +T + Sbjct: 88 VKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRVVRLPLNKIGVINKINKTFSHLEQ 147 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSHLGDFIEDKNAVSP 600 +R P+ EIAK+L M V+ LK + +S++ P + E+ S+L D + + +P Sbjct: 148 VNERPPSAIEIAKELDMSEAQVKVALKNSGRHLSMDAPFKEGENDSNLYDVLSSAESPTP 207 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L R L +L+ RE V+R+ +GIG TL+E+G F ++RER+RQI Sbjct: 208 DDQLMRDSLSIEINRALETLSQREADVIRLNYGIGNQPAMTLQEIGDTFDLSRERVRQIR 267 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K IR+LKH S++K L+ +L Sbjct: 268 EKGIRRLKHQSKNKMLKKYL 287 >gi|34499137|ref|NP_903352.1| RNA polymerase sigma factor RpoS [Chromobacterium violaceum ATCC 12472] gi|34104988|gb|AAQ61344.1| RNA sigma factor RpoS [Chromobacterium violaceum ATCC 12472] Length = 316 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 103/248 (41%), Positives = 154/248 (62%), Gaps = 4/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V GE EA +++M+E NLRLV+++AK Y NRGL LDLI+EGNIGLM A EKFD G Sbjct: 71 VVAGEFEA---RQKMIEHNLRLVVNIAKHYINRGLALLDLIEEGNIGLMHALEKFDPERG 127 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q+I R+I +QS TIR+PVH+ +++ +R +R + ++I REP+ EEIA Sbjct: 128 FRFSTYATWWIRQSIERAIMNQSRTIRLPVHVIKELNVYLRASRHLESQIGREPSVEEIA 187 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + PVE VRKVL + + SL+ P+ + +G+ I D+ P + L Sbjct: 188 HLVGKPVEDVRKVLNLNERMASLDAPLDIDPMLSIGESIPDEQHEEPELQLHNSQLEMFV 247 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L+ L ++ V+ R+G+ TLEE+ +TRER+RQI+ + + +L+ R Sbjct: 248 HDWLSQLNEKQRLVIERRYGLNGYEICTLEELAASLNLTRERVRQIQIEGLEQLRRILRR 307 Query: 674 KKL-RSFL 680 K + R FL Sbjct: 308 KGISRDFL 315 >gi|298500963|ref|ZP_07010764.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MAK 757] gi|297540211|gb|EFH76271.1| RNA polymerase sigma factor RpoS [Vibrio cholerae MAK 757] Length = 233 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 89/213 (41%), Positives = 145/213 (68%) Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 ++ ++++Y+NR L LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R++ +Q Sbjct: 1 MVKISRRYSNRRLTLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQ 60 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V K+L++ + S Sbjct: 61 TRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDVTKMLRLNERISS 120 Query: 576 LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 ++TPIG + L D + D + P S ++RE+ L L P+++ VL RFG+ Sbjct: 121 VDTPIGGDGDKALLDILPDSHNADPEFSTQDDDIRESLLNWLDELNPKQKEVLARRFGLL 180 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEEVG++ +TRER+RQI+ + +R+L+ Sbjct: 181 GYEPSTLEEVGREINLTRERVRQIQVEGLRRLR 213 >gi|6175878|gb|AAF05319.1|AF178851_2 sigma factor 38 [Pseudomonas putida] Length = 335 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 94/256 (36%), Positives = 157/256 (61%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E H + +KG+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 68 LNEIGFSPLLSPEEEVHFARLSQKGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 124 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TI +P+H+ +++ Sbjct: 125 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIPLPIHVVKELNVY 184 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 185 SRAARELTQKLDHEPSPEEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 244 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P + +L ++ + L LT ++ V+ RFG+ + TLE+VG + +T Sbjct: 245 TDDRPTDPCELLQDDDLSQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLT 304 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + +++L+ Sbjct: 305 RERVRQIQVEGLKRLR 320 >gi|238926534|ref|ZP_04658294.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas flueggei ATCC 43531] gi|238885480|gb|EEQ49118.1| DNA-directed RNA polymerase sigma subunit RpoD [Selenomonas flueggei ATCC 43531] Length = 352 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 106/259 (40%), Positives = 161/259 (62%), Gaps = 12/259 (4%) Query: 430 IVSMVRKGECEA----SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + +M+++G +A + K++V+ + + K+Y +R L F D+ Q G IGL+ AA Sbjct: 99 LCAMIQQGNLQAEQDLCVKNKKLVD---KYALGYEKRYRHR-LDFDDIEQAGFIGLITAA 154 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD +GY FSTYA+WW+KQAITR I D IRIPVHM ++I KV M +++ R Sbjct: 155 KKFDISMGYSFSTYAVWWIKQAITREIMDHGFVIRIPVHMMEQIIKVA-GVENMFSELNR 213 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLD 602 E ++ + E VR+ + + + + SL +G+++T LG+F+ D A+S + Sbjct: 214 EERIVKVMDETGYKEERVRECMMLKEYVLTYSSLNVTVGEDETVELGEFLSDDGAISIEE 273 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 LR VL +LT +E++V+++RFG+ N TLEEVGK F VTRERIRQIE+K Sbjct: 274 MIENKELRRMLDDVLNTLTEKEKKVIKLRFGLEDNRQWTLEEVGKLFNVTRERIRQIESK 333 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKL+HPSR ++SFL+ Sbjct: 334 ALRKLRHPSRLHNIKSFLE 352 >gi|255565968|ref|XP_002523972.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis] gi|223536699|gb|EEF38340.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis] Length = 569 Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 99/247 (40%), Positives = 156/247 (63%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK +I K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G Sbjct: 321 LRKRINHGTICKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKG 380 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW+KQA+ +S++DQS TIR+P HM + ++V +++ ++ R P EE+A Sbjct: 381 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPDDEEVA 440 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + ++ + VL K P SL+ IG + I D A + + ++ +++ Sbjct: 441 EAAGLSMKRLSAVLLTPKAPRSLDQKIGMNMDLKPSEVIADPEAETAEELLMKQFMKQDL 500 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +VL +L PRE +V+R RFG+ TL+E+G+ V+RERIRQIE+ A RKLK+ R+ Sbjct: 501 EKVLNTLNPRETQVVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQIESSAFRKLKNKKRT 560 Query: 674 KKLRSFL 680 K+L+ +L Sbjct: 561 KQLKQYL 567 >gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa] gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa] Length = 567 Score = 189 bits (480), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 95/238 (39%), Positives = 153/238 (64%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA W Sbjct: 328 LCKDKMIKSNVRLVISIAKNYQGTGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 387 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W+KQA+ +S++D+S TIR+P HM D ++V +++ ++ R P +E+A+ + ++ Sbjct: 388 WIKQAVRKSLSDRSRTIRLPFHMVDATYRVKEARKQLYSENGRHPDDKEVAEAAGLSMKR 447 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + VL K P SL+ +G L + D A + D ++ +++ +VL SL+P Sbjct: 448 LSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMKEFMKKDLAKVLGSLSP 507 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +V+R RFG+ TL+E+G+ V+RER+RQIE A RKLK+ +R+K+LR ++ Sbjct: 508 RENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFRKLKNKNRTKQLRQYM 565 >gi|1769413|dbj|BAA13122.1| RpoD2 sigma factor [Microcystis aeruginosa] Length = 376 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 105/238 (44%), Positives = 170/238 (71%), Gaps = 2/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M+ +NLRLV+S+AK+Y NRG+ FLDLIQEG IGL +AAEKFD GYKFSTYA WW Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYWW 198 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IA+ + TIR+P+H+ +K++K ++ A+ + ++R P E+A++L + E + Sbjct: 199 IRQAITRTIANDARTIRLPIHIVEKLNK-LKKAQILKQDLQRNPNERELAERLEITPEQL 257 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTP 622 R++L++ ++ +SL +G + + L D +ED + P D + +R+ VL+ LT Sbjct: 258 RQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLTE 317 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE+ V+ +R+G+ + +TLEEVG F ++RER+RQI+ KA+RKL+ P +++L+ +L Sbjct: 318 REKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRRPQVARRLKGWL 375 >gi|309782329|ref|ZP_07677056.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA] gi|308918947|gb|EFP64617.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA] Length = 378 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 165/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H ++ + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 106 VQHYLNRISIKPLLTPAEELHFSTLAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 163 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 222 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L E V+ VL + + SL+TP + + Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDPGT 282 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 283 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELA 342 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 343 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 373 >gi|282877766|ref|ZP_06286579.1| RNA polymerase sigma factor RpoD family protein [Prevotella buccalis ATCC 35310] gi|281300082|gb|EFA92438.1| RNA polymerase sigma factor RpoD family protein [Prevotella buccalis ATCC 35310] Length = 298 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 101/270 (37%), Positives = 172/270 (63%), Gaps = 8/270 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E ISI E + ++KG+ +A +++ +ANLR V+SVAK+Y N+GL D Sbjct: 33 LQEIGHEDLISIEEEIELAQRIKKGDRKAL---EKLTKANLRFVVSVAKQYQNQGLSLPD 89 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 90 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 149 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R + + +R P +EIA ++ +P + + + +K+ + IS++ PI + S L D + Sbjct: 150 NRILNKFEQEHERRPNVDEIADQIDLPEDKIVEAMKVNGKHISVDAPIMEGADSSLLDVL 209 Query: 593 EDKNAVSPL--DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 N SP+ + + +LRE L L RE ++ +GI + TLEE+G +F Sbjct: 210 --PNTESPMADNELVMESLREEVASALNVLNERERNIIECFYGIN-QREMTLEEIGDKFG 266 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ KA+R+L+ ++SK+L+++L Sbjct: 267 LTRERVRQIKEKALRRLRQNTKSKQLKAYL 296 >gi|193089925|gb|ACF15191.1| RpoS [Pseudomonas sp. DF41] Length = 335 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 91/238 (38%), Positives = 151/238 (63%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 143 ERGSRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 203 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QSIDQWLSELTDKQWEVVIRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320 >gi|241662747|ref|YP_002981107.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12D] gi|240864774|gb|ACS62435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ralstonia pickettii 12D] Length = 378 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 165/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H ++ + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 106 VQHYLNRISIKPLLTPAEELHFSTLAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 163 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 222 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L E V+ VL + + SL+TP + + Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDPGT 282 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 283 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELA 342 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 343 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 373 >gi|78188365|ref|YP_378703.1| RNA polymerase sigma factor rpoD (sigma-A) [Chlorobium chlorochromatii CaD3] gi|78170564|gb|ABB27660.1| RNA polymerase sigma factor rpoD (Sigma-A) [Chlorobium chlorochromatii CaD3] Length = 299 Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 94/242 (38%), Positives = 155/242 (64%), Gaps = 1/242 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDPNTRELASLLEMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHM-PDYGLTRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFRLTRERVRQIKEKAIRRLRQSAYSKVLKEYI 297 Query: 681 DG 682 G Sbjct: 298 GG 299 >gi|315185379|gb|EFU19152.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 292 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 99/259 (38%), Positives = 167/259 (64%), Gaps = 16/259 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + +G+ +A K+++V ANLR V++VAKKY N+GL DLI EGNIGL+ A E+F Sbjct: 41 HYARLAAQGDQDA---KEKLVTANLRFVVNVAKKYQNQGLPLADLISEGNIGLLNAIERF 97 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD------KIHKVVRTARRMSNK 542 D GY F +YA+WW++QAI ++I+++S IR+P++ + K K+V+T N+ Sbjct: 98 DPDKGYHFISYAVWWIRQAILKAISEKSRMIRLPLNRANELVQIEKARKLVQTESGEHNE 157 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPL 601 IK+ +A+ L + V +L ++KE +SL+TP+ D D++ LGD+++D+ + P Sbjct: 158 IKK------VAETLDYDEDHVANLLNLSKEYVSLDTPVYEDRDSAMLGDYLKDEASRPPE 211 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D ++ L+E VLA+LT +E +++ RFG+ +L+E+G + +T+ERIRQIE Sbjct: 212 DVVLEKTLQEEIQEVLATLTEKEAEIIQYRFGLNGRHPMSLKEIGDMYNLTKERIRQIEK 271 Query: 662 KAIRKLKHPSRSKKLRSFL 680 KA++K++ ++K L ++L Sbjct: 272 KALKKIQQSEKAKVLETYL 290 >gi|46205316|ref|ZP_00048697.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 326 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 119/272 (43%), Positives = 157/272 (57%), Gaps = 43/272 (15%) Query: 96 ASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMA 155 AS + +V ++ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A Sbjct: 45 ASGSRAVAVATPTTREPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIA 103 Query: 156 SLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGFFHGTEGHSYQKREDS 214 LCESPLTFQA+IIWRDEL DG LLR+IIDLEA GP+++GG Sbjct: 104 GLCESPLTFQAIIIWRDELVDGKVLLRDIIDLEATYAGPDARGG---------------- 147 Query: 215 SQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMED 274 + +D + PPE + DED+ ++ +L+AME Sbjct: 148 --------------PQVAEEGEESEDGEEGPVPPEGGD------DEDDMENNVSLAAMEA 187 Query: 275 QLRPKVMCALDEIAEVYRELRSLQD-----NAVNGQKDEKSSVKCKVLKEKLVKLVGSLS 329 +++P+V+ D IA YR+LR LQ+ A G + K LK+ +V V SLS Sbjct: 188 EIKPRVLETFDNIASNYRKLRKLQNEEAEFKASGGTVTPAQTKKQAELKDIVVTDVKSLS 247 Query: 330 LNQSRIDLLVEQLYDISKRIMHNEGELLRLAQ 361 LN RI+ VEQ+YDI +R++ +EG L+ A+ Sbjct: 248 LNAKRIEAPVEQVYDIHERLISHEGRLICAAE 279 >gi|229496411|ref|ZP_04390127.1| RNA polymerase sigma-70 factor [Porphyromonas endodontalis ATCC 35406] gi|229316639|gb|EEN82556.1| RNA polymerase sigma-70 factor [Porphyromonas endodontalis ATCC 35406] Length = 287 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 102/268 (38%), Positives = 168/268 (62%), Gaps = 3/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I + E + +R+G A + ++ ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREELIDVDEEVRLAQEIRRGNRRA---QDKLTRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ K+ Sbjct: 79 LIDEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGAQAKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P+ E+A L E V LK + +S++ P D + + L D + Sbjct: 139 KKAIEQFEQENERRPSIAELAIILDQSEEKVAVTLKSFSKHVSIDAPFVDGEDNSLLDVL 198 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +++A S S ++ +L RVL++L+ RE ++++ FGIG N + TLEE+G +F +T Sbjct: 199 VNEDAPSTDRSLMRDSLNTEIDRVLSTLSEREAEIIKLFFGIGPNPEMTLEEIGDKFGLT 258 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI+ KAIRKL+ ++ +L+SFL Sbjct: 259 RERVRQIKEKAIRKLRAGNKCDQLKSFL 286 >gi|33241240|ref|NP_876182.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33238770|gb|AAQ00835.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 328 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 103/257 (40%), Positives = 159/257 (61%), Gaps = 14/257 (5%) Query: 416 ISVETGISISEF-RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 ++++ GIS+ E + + VR AK+ MV ANLRLV+SVAKKYT R ++ LDLI Sbjct: 72 LAIDAGISVRELSKRLKRGVR--------AKERMVSANLRLVVSVAKKYTKRNMELLDLI 123 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVR 534 QEG IGL++ EKFD GYKFSTYA WW++Q ITR+IA++S IR+P+H+ + ++K+ + Sbjct: 124 QEGTIGLVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRIIRLPIHITELLNKLKK 183 Query: 535 TARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSHLGDFIE 593 R +S ++R PT +E++ + +PVE V+ ++ +P+SLE+ +GD EDTS L Sbjct: 184 GQRELSQHLERTPTMQELSAYVEIPVEEVKDLMFRASQPVSLESKVGDGEDTSLLDLLAI 243 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPR-EERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D + D I+ + + VL P + RVLRMRFGI TL +G+ ++ Sbjct: 244 DTDLP---DQQIELDCMKGDLEVLLQKLPELQNRVLRMRFGINGEEPMTLTGIGRMLGIS 300 Query: 653 RERIRQIEAKAIRKLKH 669 R+R+R + ++ L+ Sbjct: 301 RDRVRNLLRDGLKGLRQ 317 >gi|262197834|ref|YP_003269043.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262081181|gb|ACY17150.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 436 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 93/245 (37%), Positives = 148/245 (60%), Gaps = 3/245 (1%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F + V+ + + E V ANLRLV+++A++Y G+ DLIQEGN+GLM A Sbjct: 185 FGEYLRAVKSSFARGARLRNEFVHANLRLVVTMARRYDRGGMPLADLIQEGNLGLMHAVS 244 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD+ G +FSTYA WW++ AI R++AD+S +RIPVHM + ++ + ++ ++ RE Sbjct: 245 RFDYRRGLRFSTYACWWIRHAIGRALADKSRAVRIPVHMLEAQQQLAKVQAKLIGELGRE 304 Query: 547 PTPEEIAKKLAMPVEGVRKVLK-ITKEPISLETPIGDEDTSHLGDFIEDKNA--VSPLDS 603 PTP E+AK +P+ + ++ + + +P+SL+ P+ D+D GD + D + SP+D Sbjct: 305 PTPSELAKAAQVPLAKLNQMHRYLMGQPMSLDRPLYDDDDRAFGDMLADPLSEDSSPVDD 364 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 L +L LTP E VLR RFG+ + + T E+G Q+ ++RERIRQI+ A Sbjct: 365 LTTQTLTSRVETLLDHLTPIEADVLRQRFGLMDDEERTFREIGDQYDLSRERIRQIQNAA 424 Query: 664 IRKLK 668 + KL+ Sbjct: 425 LGKLR 429 >gi|187928144|ref|YP_001898631.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12J] gi|187725034|gb|ACD26199.1| RNA polymerase, sigma 70 subunit, RpoD family [Ralstonia pickettii 12J] Length = 378 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 165/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H ++ + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 106 VQHYLNRISIKPLLTPAEELHFSTLAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 162 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 163 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 222 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L E V+ VL + + SL+TP + + Sbjct: 223 LNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDPGT 282 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 283 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELA 342 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 343 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 373 >gi|15223259|ref|NP_172330.1| SIG2 (RNA POLYMERASE SIGMA SUBUNIT 2); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|6664315|gb|AAF22897.1|AC006932_14 T27G7.22 [Arabidopsis thaliana] gi|9802550|gb|AAF99752.1|AC003981_2 F22O13.2 [Arabidopsis thaliana] gi|2443357|dbj|BAA22427.1| SigB [Arabidopsis thaliana] gi|2597831|emb|CAA75584.1| sigma factor [Arabidopsis thaliana] gi|2879922|dbj|BAA24825.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] gi|5478446|dbj|BAA82449.1| sigma factor SigB [Arabidopsis thaliana] gi|133778838|gb|ABO38759.1| At1g08540 [Arabidopsis thaliana] gi|332190182|gb|AEE28303.1| RNApolymerase sigma subunit 2 [Arabidopsis thaliana] Length = 572 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 97/240 (40%), Positives = 151/240 (62%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 ++ K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA Sbjct: 329 GTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYA 388 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQA+ +S++DQS IR+P HM + ++V +++ ++ + P EEIA+ + + Sbjct: 389 HWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSM 448 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + + VL K P SL+ IG + I D AV+ D I+ +R+ +VL SL Sbjct: 449 KRLMAVLLSPKPPRSLDQKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSL 508 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE++V+R RFG+ TL+E+G+ V+RER+RQIE+ A RKLK+ R+ L+ +L Sbjct: 509 GTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYL 568 >gi|228471226|ref|ZP_04056039.1| RNA polymerase sigma-70 factor [Porphyromonas uenonis 60-3] gi|228307041|gb|EEK16123.1| RNA polymerase sigma-70 factor [Porphyromonas uenonis 60-3] Length = 286 Score = 188 bits (478), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 160/240 (66%), Gaps = 7/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++VEANLR V+SVAK+Y N+GL DLI EGNIG++KAAEKFD G+KF +YA+WW Sbjct: 50 ALNKLVEANLRFVVSVAKQYQNQGLSLPDLINEGNIGMIKAAEKFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIP---VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++Q+I +++A+QS +R+P V ++ K++K + +++ R P+P+EIA +L +P Sbjct: 110 IRQSILQALAEQSRIVRLPLNQVGLQQKMNKAIVKFEQLNG---RRPSPQEIADELELPE 166 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +R+ LK+ + SL+ P + + +++ D + +++ S S I +L R+L L Sbjct: 167 DKIREALKVQGKHQSLDAPFVEGEDNNMLDVLVNEDTPSTDSSLINESLSAEIDRILEQL 226 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE VLR FGIG + TLEE+G++ ++RER+RQI+ KAIR+LK R + L+++L Sbjct: 227 GDREAEVLRCFFGIGC-PEMTLEEIGERTKLSRERVRQIKEKAIRRLKQSDRCEYLKAYL 285 >gi|313886597|ref|ZP_07820310.1| putative RNA polymerase sigma factor RpoD [Porphyromonas asaccharolytica PR426713P-I] gi|332300881|ref|YP_004442802.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Porphyromonas asaccharolytica DSM 20707] gi|312923953|gb|EFR34749.1| putative RNA polymerase sigma factor RpoD [Porphyromonas asaccharolytica PR426713P-I] gi|332177944|gb|AEE13634.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Porphyromonas asaccharolytica DSM 20707] Length = 286 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 160/240 (66%), Gaps = 7/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++VEANLR V+SVAK+Y N+GL DLI EGNIG++KAAEKFD G+KF +YA+WW Sbjct: 50 ALNKLVEANLRFVVSVAKQYQNQGLSLPDLINEGNIGMIKAAEKFDETRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIP---VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++Q+I +++A+QS +R+P V ++ K++K + +++ R P+P+EIA +L +P Sbjct: 110 IRQSILQALAEQSRIVRLPLNQVGLQQKMNKAIVKFEQLNG---RRPSPQEIAAELELPE 166 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +R+ LK+ + SL+ P + + +++ D + +++ S S I +L R+L L Sbjct: 167 DKIREALKVQGKHQSLDAPFVEGEDNNMLDVLVNEDTPSTDSSLINESLSAEIDRILDQL 226 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE VLR FGIG + TLEE+G++ ++RER+RQI+ KAIR+LK R + L+++L Sbjct: 227 GDREAEVLRCFFGIGC-PEMTLEEIGERTKLSRERVRQIKEKAIRRLKQSDRCEYLKAYL 285 >gi|292491540|ref|YP_003526979.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] gi|291580135|gb|ADE14592.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus halophilus Nc4] Length = 311 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 99/248 (39%), Positives = 154/248 (62%), Gaps = 6/248 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E +H + ++G+ +A + M+E+NLR+VI +A ++ NRGL +DLI+EGN+GL Sbjct: 52 LSAEEEKHYARLAQQGDRKA---RDRMIESNLRMVIKMATRHVNRGLPLMDLIEEGNLGL 108 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + A EKFD LG++FSTYA WW++QAI R++ +Q T+RIPVH+ I + R A+R+ Sbjct: 109 IHAVEKFDPELGFRFSTYASWWIEQAIERALMNQVRTVRIPVHVLKTIRRYQREAKRLGQ 168 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSP 600 EP EEIAK L P+E +++ L SL P+ +++ L D + D +N + Sbjct: 169 THNTEPRLEEIAKALNEPLEKIQRYLSFQIPETSLNDPLSEDNEDCLADLLPDERNNPAI 228 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 L N+ T L+ LT R++ VL+ R+G+ TLEEVG+ +TRER+RQI+ Sbjct: 229 LWEIFDKNI--TINHQLSQLTDRQQEVLKRRYGLDGYEATTLEEVGQTIGITRERVRQIQ 286 Query: 661 AKAIRKLK 668 AI++L+ Sbjct: 287 QTAIKRLR 294 >gi|87301677|ref|ZP_01084517.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87283894|gb|EAQ75848.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 349 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 96/228 (42%), Positives = 146/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 111 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 171 IRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLSELAVCVELPEEEV 230 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L ++P+SLET +GD + + L D ++ + P +S LR +L L Sbjct: 231 KDLLCRARQPVSLETKVGDGEDTELLDLLQGDGTL-PAESVDSECLRGDMRALLEQLPEL 289 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + VL MR+GI + +L +G+ ++R+RIR +E + L+ S Sbjct: 290 QRSVLSMRYGIDVEEPMSLTGIGRILGMSRDRIRNLERDGLASLRRLS 337 >gi|119717204|ref|YP_924169.1| sigma-70 region 3 domain-containing protein [Nocardioides sp. JS614] gi|119537865|gb|ABL82482.1| sigma-70 region 3 domain protein [Nocardioides sp. JS614] Length = 319 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 89/221 (40%), Positives = 143/221 (64%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + ANLRLV+S+A+KY + LDLIQEGN GL++A EKFD+ GYKFSTYA WWV+QA Sbjct: 90 FITANLRLVVSIARKYGRAQMPMLDLIQEGNTGLIRAVEKFDYTKGYKFSTYATWWVRQA 149 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR IA Q+ +R+PVH+ +++++V R + K+ REP P EIA++L M V+ V ++ Sbjct: 150 ITRGIAQQARVVRLPVHVVEELNQVGGARRTLERKLGREPEPREIAEELGMEVDRVLDLM 209 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 +E +SL++P+ ++ + LGD + + A P + I R+ ++ L R + Sbjct: 210 AWGREHVSLDSPVDEDGDTSLGDLMAQETAPGPDLNFIDVESRDRLNSLVGKLDDRAADI 269 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +R R+G+ H L ++G + ++ ER+RQ+E +A++KL+ Sbjct: 270 IRSRYGLVDGRQHKLADIGAKHGISAERVRQLEREALQKLR 310 >gi|78183723|ref|YP_376157.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78168017|gb|ABB25114.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9902] Length = 332 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 94/228 (41%), Positives = 148/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P + V Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + N + P D + L+ +L L Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDNEL-PSDQVEEDCLKGDLRSLLGQLPHL 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E+VLRMRFG+ +L +G+ ++R+R+R +E + L+ S Sbjct: 276 QEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRRVS 323 >gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana] Length = 574 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 97/240 (40%), Positives = 151/240 (62%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 ++ K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA Sbjct: 331 GTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYA 390 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQA+ +S++DQS IR+P HM + ++V +++ ++ + P EEIA+ + + Sbjct: 391 HWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSM 450 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + + VL K P SL+ IG + I D AV+ D I+ +R+ +VL SL Sbjct: 451 KRLMAVLLSPKPPRSLDRKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSL 510 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE++V+R RFG+ TL+E+G+ V+RER+RQIE+ A RKLK+ R+ L+ +L Sbjct: 511 GTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYL 570 >gi|302555769|ref|ZP_07308111.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] gi|302473387|gb|EFL36480.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes DSM 40736] Length = 339 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 89/247 (36%), Positives = 155/247 (62%), Gaps = 5/247 (2%) Query: 435 RKGECEASI-----AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 R+GE E + AK MV ANLRLV+S+A+++ +RGL LD+IQEGN+GL++A EKFD Sbjct: 88 RRGELEETARDGQRAKDHMVRANLRLVVSMARRHAHRGLPLLDVIQEGNLGLIRAVEKFD 147 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G+KFSTYA WW++Q+I R +A + T+R+P+ + +++ K+ + RR+ + REP+ Sbjct: 148 HTKGFKFSTYATWWIRQSIERGLAAHARTVRLPMQVVEQLQKIAKVERRLQLDLGREPSV 207 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+A++ + + + + ++ ++ +SL+TP+ D + +GD I D + + A L Sbjct: 208 AEVARESGLAEDRIDWLRRVGRQAVSLDTPVDDTGETVVGDLIPDTEVLQAPEVAEYTAL 267 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E + +L PRE +L +R+G+ T +EV ++ +TRER+RQ+E ++ +L+ Sbjct: 268 AEELREAVGTLGPREAMILSLRYGLHDGHTRTRDEVARRVGLTRERVRQLEKASLARLRE 327 Query: 670 PSRSKKL 676 P ++L Sbjct: 328 PENRERL 334 >gi|206602787|gb|EDZ39268.1| RNA polymerase, RpoD-like sigma subunit [Leptospirillum sp. Group II '5-way CG'] Length = 499 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 108/274 (39%), Positives = 166/274 (60%), Gaps = 13/274 (4%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 E D + + + +K + ++ E + + VR G+ A ++ M+++NLRLV+S+A Sbjct: 41 LEDDHLSALGSYLKKLQKSHLLTFEEEQDLAKRVRAGDESA---RQAMIQSNLRLVVSIA 97 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 K+Y RGL DLI+EGN+GLMKA KFD G++FSTYA WW++QAI R I +Q IR Sbjct: 98 KRYIGRGLLLEDLIEEGNLGLMKAVSKFDPDKGFRFSTYASWWIRQAIERGIINQGHMIR 157 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +PVHM +K++ + R ++P E +A+K + V ++++ + K +SL+TPI Sbjct: 158 LPVHMMEKVNAYLNAIERQVAD-GQQPDIENLARKNGLKVRDLQEIQALLKNTVSLDTPI 216 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGI--- 634 GD + S L D + D + SP+ S I++ RE R+ LA L +E RV+ +RFG+ Sbjct: 217 GDREDSTLKDILVDPTSFSPI-STIES--REEGDRLRESLALLKDKERRVIHLRFGLPGE 273 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 G TLE +G+ VTRER+RQIEA A+ KL+ Sbjct: 274 GPEEGMTLEAIGQMLGVTRERVRQIEASAMAKLR 307 >gi|307150096|ref|YP_003885480.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC 7822] gi|306980324|gb|ADN12205.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp. PCC 7822] Length = 298 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 89/228 (39%), Positives = 156/228 (68%), Gaps = 4/228 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++M++ANLRLV+S+AK+Y RGL LDLIQEG++GL++A EKFD GYKFSTYA WW Sbjct: 62 AKQQMIQANLRLVVSIAKRYQRRGLSLLDLIQEGSLGLIRAVEKFDPSKGYKFSTYAYWW 121 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAITR++A++S TIR+P+HM + ++ + ++ R ++ ++ R+PT +E+A+++ +P+E + Sbjct: 122 VRQAITRALAEKSRTIRLPIHMTENLNHLKKSVRELTGELGRKPTEQEVAQRMEIPLEKL 181 Query: 564 RKVLKIT--KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +++ + SL + D++ + LG+ + D+ ++ P+D + L +L L Sbjct: 182 QEIRHAVYRTDAKSLNITL-DDNQTELGEVLPDETSL-PIDFVSERELMTKVDDLLEDLP 239 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 PR+ ++ +RFG+ + +E+G+Q ++ ER RQ+ +A+R LK Sbjct: 240 PRQREIITLRFGLLTGKRMSYKEIGRQCGISHERARQLLNRAMRTLKQ 287 >gi|116071698|ref|ZP_01468966.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] gi|116065321|gb|EAU71079.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. BL107] Length = 332 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 94/228 (41%), Positives = 148/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P + V Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + N + P D + L+ +L L Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDNEL-PSDQVEEDCLKGDLRSLLGQLPHL 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E+VLRMRFG+ +L +G+ ++R+R+R +E + L+ S Sbjct: 276 QEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRRVS 323 >gi|87303408|ref|ZP_01086196.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87282056|gb|EAQ74018.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 330 Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 97/237 (40%), Positives = 152/237 (64%), Gaps = 3/237 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 95 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 154 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 155 IRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLSELAVCVELPEEEV 214 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L ++P+SLET +GD + + L D ++ + P +S LR +L L Sbjct: 215 KDLLCRARQPVSLETKVGDGEDTELLDLLQGDGTL-PAESVDSECLRGDMRALLEQLPEL 273 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + VL MR+GI + +L + + ++R++ R +E +A+ ++ SRS +L +L Sbjct: 274 QRSVLSMRYGIDGDEPMSLTSIARTLGMSRDKTRNLERRALEGIR--SRSCRLEGYL 328 >gi|124514327|gb|EAY55841.1| RNA polymerase, sigma 70 subunit, RpoD family [Leptospirillum rubarum] Length = 499 Score = 187 bits (476), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 108/274 (39%), Positives = 166/274 (60%), Gaps = 13/274 (4%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 E D + + + +K + ++ E + + VR G+ A ++ M+++NLRLV+S+A Sbjct: 41 LEDDHLSALGSYLKKLQKSHLLTFEEEQDLAKRVRAGDESA---RQAMIQSNLRLVVSIA 97 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 K+Y RGL DLI+EGN+GLMKA KFD G++FSTYA WW++QAI R I +Q IR Sbjct: 98 KRYIGRGLLLEDLIEEGNLGLMKAVSKFDPDKGFRFSTYASWWIRQAIERGIINQGHMIR 157 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +PVHM +K++ + R ++P E +A+K + V ++++ + K +SL+TPI Sbjct: 158 LPVHMMEKVNAYLNAIERQVAD-GQQPDIETLARKNGLKVRDLQEIQALLKNTVSLDTPI 216 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGI--- 634 GD + S L D + D + SP+ S I++ RE R+ LA L +E RV+ +RFG+ Sbjct: 217 GDREDSTLKDILVDPTSFSPI-STIES--REEGDRLRESLALLKDKERRVIHLRFGLPGE 273 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 G TLE +G+ VTRER+RQIEA A+ KL+ Sbjct: 274 GPEEGMTLEAIGQMLGVTRERVRQIEASAMAKLR 307 >gi|307718169|ref|YP_003873701.1| RNA polymerase sigma-70 factor family protein [Spirochaeta thermophila DSM 6192] gi|306531894|gb|ADN01428.1| RNA polymerase sigma-70 factor family protein [Spirochaeta thermophila DSM 6192] Length = 303 Score = 187 bits (476), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 97/244 (39%), Positives = 161/244 (65%), Gaps = 13/244 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++V ANLR V++VAKKY N+GL DLI EGNIGL+ A E+FD GY F +YA+WW Sbjct: 64 AKEKLVTANLRFVVNVAKKYQNQGLPLADLISEGNIGLLNAIERFDPDKGYHFISYAVWW 123 Query: 504 VKQAITRSIADQSCTIRIPVHMRD------KIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 ++QAI ++I+++S IR+P++ + K K+V+T N+IK+ +A+ L Sbjct: 124 IRQAILKAISEKSRMIRLPLNRANELVQIEKARKLVQTESGEHNEIKK------VAETLD 177 Query: 558 MPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + V +L ++KE +SL+TP+ D D++ LGD+++D+ + P D ++ L+E V Sbjct: 178 YDEDHVANLLNLSKEYVSLDTPVYEDRDSAMLGDYLKDEASRPPEDVVLEKTLQEEIQEV 237 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 LA+LT +E +++ RFG+ +L+E+G + +T+ERIRQIE KA++K++ ++K L Sbjct: 238 LATLTEKEAEIIQYRFGLNGRHPMSLKEIGDLYNLTKERIRQIEKKALKKIQQSEKAKIL 297 Query: 677 RSFL 680 ++L Sbjct: 298 ETYL 301 >gi|189345950|ref|YP_001942479.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium limicola DSM 245] gi|189340097|gb|ACD89500.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium limicola DSM 245] Length = 299 Score = 187 bits (476), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTRELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDHGLNKDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYSKVLKEYI 297 >gi|54401868|gb|AAV34620.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401871|gb|AAV34621.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401874|gb|AAV34622.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 299 Score = 187 bits (475), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 85/210 (40%), Positives = 144/210 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + VL RFG+ TLE+VG++ +TR Sbjct: 270 QREVLARRFGLLGYEAATLEDVGREIGLTR 299 >gi|254432638|ref|ZP_05046341.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] gi|197627091|gb|EDY39650.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] Length = 335 Score = 187 bits (475), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 97/242 (40%), Positives = 154/242 (63%), Gaps = 8/242 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 95 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 154 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 155 IRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVTELAGYVELPEEEV 214 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L ++P+SLET +GD + + L D + + P + L+ +L L Sbjct: 215 KDLLCRARQPVSLETKVGDGEDTELLDLLAGDGEL-PEERVDGECLKGDLRALLEQLPEL 273 Query: 624 EERVLRMRFGI-----GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 + RVL+MR+G+ G+ +L + K ++R++ R +E KA+ ++ S+S++L Sbjct: 274 QGRVLKMRYGLDPEGQGLTEPMSLSSIAKNLGMSRDKTRNLERKALEGIR--SQSRRLEG 331 Query: 679 FL 680 +L Sbjct: 332 YL 333 >gi|119357820|ref|YP_912464.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeobacteroides DSM 266] gi|119355169|gb|ABL66040.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeobacteroides DSM 266] Length = 299 Score = 187 bits (475), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTRELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDHGLNKDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYSKILKEYI 297 >gi|189500956|ref|YP_001960426.1| RNA polymerase, sigma 70 subunit, RpoD family [Chlorobium phaeobacteroides BS1] gi|189496397|gb|ACE04945.1| RNA polymerase, sigma 70 subunit, RpoD family [Chlorobium phaeobacteroides BS1] Length = 299 Score = 187 bits (475), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDPNTKELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQN-DGHKPDHGLTRDSLNLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAI++L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIKRLRQSAYSKVLKEYI 297 >gi|67920853|ref|ZP_00514372.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67856970|gb|EAM52210.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 297 Score = 187 bits (475), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 94/227 (41%), Positives = 151/227 (66%), Gaps = 3/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+EANLRLV+S+AKKY N GL LDLIQEG++GL++ EKFD GYKFSTYA WW Sbjct: 61 ARERMIEANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKFDPARGYKFSTYAYWW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA+QS TIR+P+H+ + ++K ++ R ++ K+ R+PT EIA+ + + V+ + Sbjct: 121 IRQGITRAIAEQSRTIRLPIHINENLNKYRKSIRELTLKLGRKPTQREIAENMEISVDRL 180 Query: 564 RKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + + + SL I DE+ + LG + D+ ++SP D Q +L SLT Sbjct: 181 QFLQQAAFKTKSRSLNVVI-DENQTELGQLLPDEESISPSDFVKQEEKISQINNLLESLT 239 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PR++ V+ +RFG+ + + +G++ V+ ER RQI ++A++ L+ Sbjct: 240 PRQKEVIILRFGLRDGKQMSYKAIGEKCGVSHERARQIYSRALKILR 286 >gi|311742672|ref|ZP_07716481.1| RNA polymerase principal sigma factor SigB [Aeromicrobium marinum DSM 15272] gi|311314300|gb|EFQ84208.1| RNA polymerase principal sigma factor SigB [Aeromicrobium marinum DSM 15272] Length = 320 Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 89/230 (38%), Positives = 145/230 (63%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E A +E ++ANLRLV+S+A+KY + LDL+QEGN GL++A EKFD+ G+KFST Sbjct: 82 AEGERALQEFIQANLRLVVSIARKYGRSAMPMLDLVQEGNTGLIRAVEKFDYVKGFKFST 141 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WWV+QAITR IA Q+ +R+PVH+ +++++V R + + +P P EI+ +L M Sbjct: 142 YATWWVRQAITRGIAQQARVVRLPVHVVEELNQVTAARRNLERTLGYDPEPAEISAELGM 201 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V+ V +L ++ +SL+TP+ ++ + LGD I + A P S + R +++ Sbjct: 202 DVDRVIDLLSWGRDHVSLDTPVDEDGDTSLGDLIARETAPGPDSSMMSDATRGMIAQLID 261 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++R R+G+ L ++GK+ ++ ER+RQ+E +A+ KL+ Sbjct: 262 HLGEREADIVRARYGLLDGRQQKLADIGKRHGISAERVRQLEREALAKLR 311 >gi|237738339|ref|ZP_04568820.1| RNA polymerase [Fusobacterium mortiferum ATCC 9817] gi|229420219|gb|EEO35266.1| RNA polymerase [Fusobacterium mortiferum ATCC 9817] Length = 273 Score = 187 bits (474), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 99/239 (41%), Positives = 151/239 (63%), Gaps = 8/239 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ NLRLV+++AK Y NRGL +DLI EGN GL+ A EKFD G++FSTYA+WW Sbjct: 40 AKNKLILCNLRLVVNIAKNYVNRGLSLIDLISEGNFGLIYAIEKFDMKKGFRFSTYAVWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTPEEIAKKLAMPV 560 +KQ+IT++I + IRIP + D + KV R + N+++ E PT EEI++ L + Sbjct: 100 IKQSITKAIICKGRGIRIPSYKYDLLSKV---NRYVLNRVREEGIYPTVEEISEDLNVNK 156 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E + +++ ++P+SL IGD+ L D I + + S D I+ RE +++ L Sbjct: 157 EKIEEIMVAFQDPMSLSASIGDD--IQLEDIIANNSETSIEDDIIEEMGREQVRQIVKVL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RE+++L++RFG+ HTLEE+G+ F +TRER+RQIE K ++KLK K + F Sbjct: 215 DEREKQILKLRFGLDGEEIHTLEEIGQTFNITRERVRQIEKKTLKKLKMQCEKNKDKFF 273 >gi|82949200|dbj|BAE53364.1| sigma factor [Streptomyces sp. AJ9463] Length = 195 Score = 187 bits (474), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 86/138 (62%), Positives = 111/138 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 58 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+AK+L M E V Sbjct: 118 IRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEKV 177 Query: 564 RKVLKITKEPISLETPIG 581 +V K +EPISL TP+G Sbjct: 178 IEVQKYGREPISLHTPLG 195 >gi|153875311|ref|ZP_02003170.1| RNA polymerase subunit sigma-38 [Beggiatoa sp. PS] gi|152068225|gb|EDN66830.1| RNA polymerase subunit sigma-38 [Beggiatoa sp. PS] Length = 314 Score = 187 bits (474), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 96/238 (40%), Positives = 147/238 (61%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ + A+ M+E NLRLV+ +A+ Y NRGL LDLI+EGN+GLM+A KFD Sbjct: 61 IKYARRAQQGNEAARNRMIEGNLRLVVKIARNYMNRGLALLDLIEEGNLGLMRAVNKFDP 120 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +I++ +RT +S + EPT E Sbjct: 121 EKGFRFSTYATWWIRQTIERAIMNQNRTIRLPIHVLKEINQCLRTNHVLSQTLDHEPTSE 180 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK L + V K+L++ + IS+++P + L D I D+ P A++ Sbjct: 181 EIAKTLKKSKQEVEKLLEVNERAISMDSPWMNYSEKSLIDNIPDELNPDPRLILEDADII 240 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L+ LT ++ V+ RFGIG + TLEE+G + +TRER+RQI+ A +LK Sbjct: 241 KCLHLWLSQLTDKQRLVVERRFGIGNGDEATLEEIGAELELTRERVRQIQITATERLK 298 >gi|254253609|ref|ZP_04946926.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] gi|124898254|gb|EAY70097.1| DNA-directed RNA polymerase sigma subunit [Burkholderia dolosa AUO158] Length = 773 Score = 187 bits (474), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 97/222 (43%), Positives = 140/222 (63%), Gaps = 9/222 (4%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 467 VDEVRQVERQILHI------VVDKCGMPRSEFIARFPGNETDLDWAE--KIAAEGHPYSA 518 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 ++ + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 519 VLSRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 578 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ Sbjct: 579 SIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 638 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 TIRIPVHM + I+K+ R +R++ + EP P +A+K+ MP Sbjct: 639 TIRIPVHMIETINKMNRISRQILQETGLEPDPATLAEKMEMP 680 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 85/158 (53%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 188 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 247 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 248 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 307 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 308 GLRHMVMAISACPTTIADILAMAERVANEEIRVDELVD 345 >gi|300691814|ref|YP_003752809.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum PSI07] gi|299078874|emb|CBJ51535.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum PSI07] Length = 377 Score = 187 bits (474), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 101/271 (37%), Positives = 165/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H ++ + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 105 VQHYLNRISIKPLLTPAEELHFSTLAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 161 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 162 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 221 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L + V+ VL + + SL+TP + + Sbjct: 222 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLNEHTTSLDTPFDLDPGT 281 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 282 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELA 341 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 342 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 372 >gi|298373668|ref|ZP_06983657.1| RNA polymerase sigma-70 factor [Bacteroidetes oral taxon 274 str. F0058] gi|298274720|gb|EFI16272.1| RNA polymerase sigma-70 factor [Bacteroidetes oral taxon 274 str. F0058] Length = 287 Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 104/269 (38%), Positives = 171/269 (63%), Gaps = 5/269 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E I+I + + +RKG+ A++ K +V ANLR V+SVAK+Y N+GL D Sbjct: 22 LQEIGREELITIEQEVELAQRIRKGD-HAALDK--LVRANLRFVVSVAKQYQNQGLSLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 79 LIDEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNQVGALNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSHLGDF 591 + +R + +R P+ EEIA L + ++ + +K++ IS++ P D ED + L Sbjct: 139 NKAFQRFEQEHERLPSVEEIATDLEISLDKITDTMKVSGRHISVDAPFVDGEDNTLLDVL 198 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + D + + ++ L E + A L RE +++M FGIG + TLEE+G QF + Sbjct: 199 MNDSSPATDQKLMSESLLTEIERALDALLQERERDIVKMFFGIGC-AEMTLEEIGDQFGL 257 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI+ KAIR+L+ S++K L+ +L Sbjct: 258 TRERVRQIKEKAIRRLRGNSKNKLLKVYL 286 >gi|83747939|ref|ZP_00944970.1| RpoS [Ralstonia solanacearum UW551] gi|83725357|gb|EAP72504.1| RpoS [Ralstonia solanacearum UW551] Length = 381 Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 164/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H + + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 109 VQHYLNRISIKPLLTPAEELHFSTRAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 165 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 166 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 225 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L E V+ VL + + SL+TP + + Sbjct: 226 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDSGT 285 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 286 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELA 345 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 346 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 376 >gi|302036606|ref|YP_003796928.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Nitrospira defluvii] gi|300604670|emb|CBK41002.1| RNA polymerase, sigma S (sigma 38) factor [Candidatus Nitrospira defluvii] Length = 332 Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 88/225 (39%), Positives = 145/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++EM+EANLRLVIS+ K+Y NRG F D+++EGN+GL+KA EKF++ G++FSTYA WW Sbjct: 94 ARQEMIEANLRLVISIGKRYMNRGFPFADIVEEGNLGLIKAVEKFNYKRGFRFSTYASWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q +R+PVH+ +++++ + ++ +++ REP +E+A KL V V Sbjct: 154 IRQFIERAIINQGKLVRLPVHVVERLNRYLGKVEQLVHELGREPRADEVAAKLKTSVAEV 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ + SL++PI D + L D IED ++P ++ R + L + Sbjct: 214 DDLKQLVRTTCSLDSPISDRQDTFLRDVIEDPLCLTPAETTEGVMRRAELMAWVKELPEK 273 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E V+ RFG+ TLEE+G++ +TRER+RQIE A+ +L+ Sbjct: 274 ERTVILARFGLDGAESRTLEEIGQEMGLTRERVRQIETAALARLR 318 >gi|284104060|ref|ZP_06386126.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] gi|283830219|gb|EFC34468.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus Poribacteria sp. WGA-A3] Length = 271 Score = 186 bits (473), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 95/257 (36%), Positives = 165/257 (64%), Gaps = 5/257 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ +E + +++G+ EA + ++ ANLR V+SVAKK+ +GL DLI EGN GL Sbjct: 15 VTPAEEAELARRIKQGDEEALL---KLTRANLRFVVSVAKKFQGQGLHLTDLINEGNYGL 71 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA++FD G+KF +YA+WW++Q+I +++A+Q +R+P++ I K+ +++ R++ Sbjct: 72 IKAAKRFDETRGFKFISYAVWWIRQSILQALAEQGRVVRLPLNQIGTISKIRKSSARLAQ 131 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +R+P EE+A L + +E VR ++ T +S++ P +ED + L D + N ++P Sbjct: 132 EHERDPNLEELATDLQIDIEKVRSAMQRTARHLSMDAPFNEEDENSLLDVLPS-NEIAPP 190 Query: 602 DSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D ++ +L+ L+SL PRE + R+ FG+G TLEE+G +F +TRER+RQI+ Sbjct: 191 DEPLRGESLKIDIEVALSSLCPREAEITRLYFGVGREHPLTLEEIGLRFDLTRERVRQIK 250 Query: 661 AKAIRKLKHPSRSKKLR 677 KA+RKL+ R + L+ Sbjct: 251 EKALRKLRQKHRREDLK 267 >gi|158340842|ref|YP_001522010.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311083|gb|ABW32696.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 299 Score = 186 bits (473), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 96/226 (42%), Positives = 141/226 (62%), Gaps = 2/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+ NLRLV+++AKKY RG+ +DLIQEG++GL +A EKFD GY+FSTYA WW Sbjct: 62 AKHRMICGNLRLVVTIAKKYQKRGMDLIDLIQEGSLGLERAVEKFDPAKGYRFSTYAYWW 121 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+ITR+IA QS TIRIPVHM +K++++ R R +S + R PT +E+ +L + +E + Sbjct: 122 IRQSITRAIAMQSHTIRIPVHMTEKLNRIKRVRRELSQTLGRTPTHQEMVAELGITLEQL 181 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +K L+ + P SL +G + LGD +ED SP + Q LR LA L Sbjct: 182 QKTLQAAQISNPESLNIRVGKDQEMELGDLLEDLQMPSPNEVVEQDFLRNALWSALAQLN 241 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E VL +R+G+ + +L V +Q ++RE +R++E A KL Sbjct: 242 DNERTVLILRYGLEDGRERSLYRVSQQMGISREWVRKLEQTAKSKL 287 >gi|299067258|emb|CBJ38455.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum CMR15] Length = 376 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 101/271 (37%), Positives = 165/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H ++ + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 104 VQHYLNRISIKPLLTPAEELHFSTLAKAGEFPA---RQVMIERNLRLVVSIAKGYLNRGV 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 161 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 220 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L + V+ VL + + SL+TP + + Sbjct: 221 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLNEHTTSLDTPFDLDPGT 280 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 281 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELA 340 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 341 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 371 >gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma akashiwo] Length = 404 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 100/256 (39%), Positives = 153/256 (59%), Gaps = 9/256 (3%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK AS +K ++ ANLRLV+S AK Y RG+ F DL+QEG GL KA EKFD G Sbjct: 138 IRKNLKRASKSKSAIINANLRLVVSTAKAYQYRGVSFQDLVQEGTCGLHKATEKFDPRKG 197 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW+KQ I R++ DQS +R+PVH+ D + + R + REPT E+A Sbjct: 198 FRFSTYATWWIKQGIMRAVTDQSRVVRLPVHVHDALFHIRRAKANFWTEHLREPTLAELA 257 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG--------DEDTSHLGDFIEDKNAVSPLDSAI 605 + + + + + + S++ +G ++ + D +D P ++A Sbjct: 258 EATGLTPQKIVFYDTVKDKVSSIDKTVGIGTKTNSMEKSQIAISDMCKDSRN-KPEETAQ 316 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +LR+ +R++ +L+PRE+ V+RMR+G+ TLEE+G F VTRER+RQIEA+A+ Sbjct: 317 VESLRQDISRLINTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQIEARALH 376 Query: 666 KLKHPSRSKKLRSFLD 681 KL+ P R+ +L+ LD Sbjct: 377 KLRQPYRNHRLKGQLD 392 >gi|110596913|ref|ZP_01385203.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Chlorobium ferrooxidans DSM 13031] gi|110341600|gb|EAT60060.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Chlorobium ferrooxidans DSM 13031] Length = 299 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTRELATLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDYGLNRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYSKVLKEYI 297 >gi|78780107|ref|YP_398219.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78713606|gb|ABB50783.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9312] Length = 344 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 95/229 (41%), Positives = 148/229 (64%), Gaps = 3/229 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 109 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 168 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E+AK + +P E V Sbjct: 169 IRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDV 228 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 + ++ +P+SLET +GD + + L D + + D I+ + +R +L L Sbjct: 229 KDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMRGDLHSLLHQLPD 286 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ S Sbjct: 287 LQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLS 335 >gi|194334634|ref|YP_002016494.1| RNA polymerase sigma-32 subunit RpoH [Prosthecochloris aestuarii DSM 271] gi|194312452|gb|ACF46847.1| RNA polymerase, sigma 32 subunit, RpoH [Prosthecochloris aestuarii DSM 271] Length = 299 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 93/240 (38%), Positives = 153/240 (63%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTKELATVLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D ++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQ-HDGQKPDHGLTRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIRSYFGIGMENPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYSKVLKEYI 297 >gi|283780188|ref|YP_003370943.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] gi|283438641|gb|ADB17083.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi DSM 6068] Length = 320 Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 98/250 (39%), Positives = 158/250 (63%), Gaps = 11/250 (4%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S + R + + + G+ A + MV ANLRLV+++A+ YT +GL DLI+EGN+GL Sbjct: 56 LSARDERELAAAIADGDVRA---RDRMVRANLRLVVNIARGYTGKGLSLQDLIEEGNLGL 112 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A E FD +G +FSTYA +W+KQ+I R++ + + TIRIP +M + + K R R++ Sbjct: 113 LRAVEGFDPAVGTRFSTYASYWIKQSIKRALINSAKTIRIPAYMVELLSKWRRATARLTE 172 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL--ETPIGDEDTS--HLGDFIEDKNA 597 ++ R PTPEE+A+ L + +K L I K+ I + TP D+ + LG+ + D+ Sbjct: 173 ELGRGPTPEEVARVLGL----AKKKLPIIKKAIRIYNSTPQTDQSEAGWSLGEIVMDERL 228 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P D ++ ++ + +L ++ RE VLRMRFG+G T HTL+E+G+ +TRER+R Sbjct: 229 KNPEDELVEQDVLKHVMEMLHTMDSREATVLRMRFGLGDTTPHTLKEIGESLGLTRERVR 288 Query: 658 QIEAKAIRKL 667 QIE +A+ KL Sbjct: 289 QIETEALGKL 298 >gi|86608620|ref|YP_477382.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] gi|86557162|gb|ABD02119.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)] Length = 319 Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 102/248 (41%), Positives = 148/248 (59%), Gaps = 8/248 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ S GI ++E + I+ R+GE AKK MVE NLRLV+S+AK+Y NRGL FLD Sbjct: 52 VEGWSQRLGIPLAELQQIL---RQGEA----AKKRMVECNLRLVVSIAKRYRNRGLPFLD 104 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEG IGL +A EKFD GYKFSTYA WW++Q++ R I ++ IR+P HM +K+ +V Sbjct: 105 LIQEGTIGLTRAVEKFDPTRGYKFSTYATWWIRQSVNRGIQNKGRMIRLPAHMYEKVSQV 164 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 R R +S + P EE+ L + + + E SL +GDED + L FI Sbjct: 165 KRRYRELSAERGSRPQAEEVFDSLDIGDNYRELITRHMAEMRSLNVGVGDEDGTELQHFI 224 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D++ P++ Q RE ++ L+ RE +V+ R+G+ + TL E+G+ ++ Sbjct: 225 PDEDN-DPVEHLTQLARREEVRALVGQLSERERQVIVARYGLDGSRGLTLREIGEHIGLS 283 Query: 653 RERIRQIE 660 RER+RQIE Sbjct: 284 RERVRQIE 291 >gi|72383045|ref|YP_292400.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] gi|72002895|gb|AAZ58697.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL2A] Length = 335 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 100/269 (37%), Positives = 167/269 (62%), Gaps = 10/269 (3%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 E++S L + +I + + GIS + + + R+ AK+ MV ANLRLV+SVA Sbjct: 64 TELESDLGEKPDINFFADKAGISPIQLKKKLKSGRR-------AKERMVAANLRLVVSVA 116 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 KKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW++Q ITR+IA++S +IR Sbjct: 117 KKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRSIR 176 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +P+H+ + ++K+ + R +S ++ R PT +E+++ + +P V+ ++ +P+SLET I Sbjct: 177 LPIHITEMLNKLKKGQRELSQELSRTPTLKELSEYVELPETDVKDLMSRAGQPVSLETKI 236 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTPREERVLRMRFGIGMNTD 639 GD + + L D + N + I+++ ++ +L L + RVLRMR+GI + Sbjct: 237 GDGEDTILLDLL--SNEIDMPSEQIESDCMKGDLETLLEQLPELQNRVLRMRYGIDGDDP 294 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +G+ ++R+R+R +E +R L+ Sbjct: 295 MSLTGIGRVLGISRDRVRNLERDGLRGLR 323 >gi|145219258|ref|YP_001129967.1| RNA polymerase, sigma 32 subunit, RpoH [Prosthecochloris vibrioformis DSM 265] gi|145205422|gb|ABP36465.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobium phaeovibrioides DSM 265] Length = 299 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 155/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDPNTKELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDHGLNRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V++ FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIKSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYSKVLKEYI 297 >gi|313810026|gb|EFS47747.1| sigma-70 region 2 [Propionibacterium acnes HL083PA1] Length = 464 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 85/137 (62%), Positives = 109/137 (79%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA W Sbjct: 273 VAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATW 332 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W+KQAITR++ADQ+ TIRIPVHM + I+K+ R R+M + REPTPEE+A +L M E Sbjct: 333 WIKQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELASELDMTAEK 392 Query: 563 VRKVLKITKEPISLETP 579 V +V K +EPISL TP Sbjct: 393 VIEVQKYGREPISLHTP 409 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/34 (50%), Positives = 26/34 (76%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E+ +AKRIEAG Sbjct: 209 ATADPVKDYLKQIGKVALLNAVEEVDLAKRIEAG 242 >gi|2792523|gb|AAC38577.1| alternative RNA sigma factor RpoS [Ralstonia solanacearum] Length = 376 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 102/271 (37%), Positives = 164/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H + + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 104 VQHYLNRISIKPLLTPAEELHFSTRAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 161 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 220 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L E V+ VL + + SL+TP + + Sbjct: 221 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDPGT 280 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 281 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELA 340 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 341 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 371 >gi|149188695|ref|ZP_01866986.1| RNA polymerase sigma factor RpoS [Vibrio shilonii AK1] gi|148837356|gb|EDL54302.1| RNA polymerase sigma factor RpoS [Vibrio shilonii AK1] Length = 296 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 100/258 (38%), Positives = 156/258 (60%), Gaps = 5/258 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 K ++ +S + RHI R G+ ++A++ ++ +NLRLVI AK+Y+NRGL F D Sbjct: 28 FKEVAGHDLLSAEDERHIARKARAGD---TLARQHLINSNLRLVIRTAKRYSNRGLDFYD 84 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIGL++A +KFD LGY+FSTYA+WW++QAI R+I +Q TIR+PVH+ +I + Sbjct: 85 LINEGNIGLIQAVDKFDPELGYRFSTYAVWWIQQAIDRAIMNQGRTIRVPVHVTKQIREC 144 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED--TSHLGD 590 + A + + EPT EIA++ E V K+LK++++ +SL+ +E HL Sbjct: 145 SKAAHELRKEGNHEPTSSEIAERTGRAPEEVSKLLKLSEQSLSLDNGWDEEGDKKDHLQT 204 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +D P + NL + ++ SL ++ +L RFG+ + TLE+VG+ Sbjct: 205 IDDDDVFELPEQDIVTQNLNKALIDLVDSLPDKQRVILHHRFGLLDDDPKTLEQVGEIVG 264 Query: 651 VTRERIRQIEAKAIRKLK 668 VTRER+RQI+ A+ L+ Sbjct: 265 VTRERVRQIQKSAMETLR 282 >gi|254526733|ref|ZP_05138785.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] gi|221538157|gb|EEE40610.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9202] Length = 333 Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 96/241 (39%), Positives = 153/241 (63%), Gaps = 3/241 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S+++K AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD Sbjct: 86 SIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 145 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E Sbjct: 146 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 205 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LR 610 +AK + +P + V+ ++ +P+SLET +GD + + L D + + D I+ + +R Sbjct: 206 LAKYVELPEDDVKDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMR 263 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +L L + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ Sbjct: 264 GDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRL 323 Query: 671 S 671 S Sbjct: 324 S 324 >gi|33862185|ref|NP_893746.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33634403|emb|CAE20088.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 333 Score = 186 bits (471), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 95/231 (41%), Positives = 149/231 (64%), Gaps = 3/231 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 157 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E+AK + +P + V Sbjct: 158 IRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTISELAKYVELPEDDV 217 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 + ++ +P+SLET +GD + + L D + + D I+ + +R +L L Sbjct: 218 KDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMRGDLHSLLHQLPD 275 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ S S Sbjct: 276 LQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSES 326 >gi|330946768|gb|EGH47674.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 184 Score = 186 bits (471), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 96/179 (53%), Positives = 128/179 (71%), Gaps = 3/179 (1%) Query: 370 FLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFR 428 FL + G E+D W + AK + ++ + I + + ++ ++ ETG+ I+E + Sbjct: 8 FLRQFPGNEVDESWTDALAKG--KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIK 65 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 66 DINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 125 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 ++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ REP Sbjct: 126 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP 184 >gi|282880271|ref|ZP_06288987.1| putative RNA polymerase sigma factor RpoD [Prevotella timonensis CRIS 5C-B1] gi|281305866|gb|EFA97910.1| putative RNA polymerase sigma factor RpoD [Prevotella timonensis CRIS 5C-B1] Length = 292 Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 96/268 (35%), Positives = 166/268 (61%), Gaps = 4/268 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I E +S E + ++KG+ +A ++ +ANLR V+SVAK+Y N+GL D Sbjct: 27 LQEIGREDLLSTEEEIELAQRIKKGDRKAL---DKLTKANLRFVVSVAKQYQNQGLSLPD 83 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 84 LINEGNLGLIKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSVNKI 143 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + + +R P EIA+++ +P + V +K + +S++ P D D + L D + Sbjct: 144 NQLQNKFEQEFERRPNSSEIAERIDIPEDKVIDAMKANGKHVSVDAPFSDGDDNSLIDVL 203 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D + + + +LR+ L +L RE V+ +GI + TLEE+G ++ +T Sbjct: 204 PDSDIPMADNELVMESLRKEIADALHTLNERERNVIECFYGIN-QPEMTLEEIGDRYGLT 262 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI KA+RKL+ +++K+L+S+L Sbjct: 263 RERVRQIREKALRKLRKNTKNKQLKSYL 290 >gi|318066977|emb|CBY89103.1| RNA polymerase sigma70 factor [Halomonas ventosae] Length = 366 Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 143/400 (35%), Positives = 202/400 (50%), Gaps = 61/400 (15%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R + DL + GF EG + +E+ RD+ + ++ AK Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEAEVPEEEPRDEPRRMPTTEDAEAK- 130 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 PP++ E R ++ + +A +A+ED R E EL Sbjct: 131 ----EETTGGPPDSEEARAR-FEQIREQNAAAQAAIEDHGRGS--------KEAQEELAR 177 Query: 297 LQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGEL 356 L GQ + K++ + +LVG + ++ VEQ+ K IMH Sbjct: 178 L------GQ----LFLPIKLVPKHFERLVGQVRIS-------VEQVRAQEKAIMH----- 215 Query: 357 LRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI--- 413 + + R F++ G E +P W+ DF K E +R +I Sbjct: 216 -LCVKKAKVSRKTFIKAFPGSESNPEWLD---DFSAANPKYAARLE-----PLRGDIQRA 266 Query: 414 -KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ 469 + I+ E + ++E + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQ Sbjct: 267 QRKIAFEEEMIQLPVTEIKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ 326 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 FLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 327 FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 366 >gi|123967051|ref|YP_001012132.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123201417|gb|ABM73025.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9515] Length = 333 Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 148/229 (64%), Gaps = 3/229 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 157 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E+AK + +P + V Sbjct: 158 IRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTISELAKYVELPEDDV 217 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 + ++ +P+SLET +GD + + L D + + D I+ + +R +L L Sbjct: 218 KDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMRGDLHSLLHQLPD 275 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ S Sbjct: 276 LQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLS 324 >gi|1519644|gb|AAB07555.1| SigA [Chlorobaculum tepidum] Length = 299 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 156/240 (65%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDPNTKELADLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHM-PDYTLNRDSLSLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + +K L+ ++ Sbjct: 238 APREADVIRSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYNKVLKEYI 297 >gi|973980|gb|AAB05357.1| RNA polymerase sigma factor [Cyanidium caldarium] Length = 609 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 107/278 (38%), Positives = 159/278 (57%), Gaps = 38/278 (13%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A++ +V ANLRLV+SVAK++TNRGL DLIQEG+IGL+K AE+FD+ G++FSTYA Sbjct: 330 AQRARESLVAANLRLVVSVAKQFTNRGLSMQDLIQEGSIGLIKGAERFDYRTGFRFSTYA 389 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 MWW++QA+ R+IAD S IRIP + D ++ R +S+ + R+PT E+A L + V Sbjct: 390 MWWIRQAMQRAIADTSRPIRIPSTITDLSVQIYRARLELSSTLGRDPTDAELADFLDISV 449 Query: 561 EGVRKVLKITKE--PISLETPI--------------GDED----------------TSH- 587 + ++ V T + +SL+ P+ GD D + H Sbjct: 450 QRLQDVKLYTNQSATVSLDAPVSRQVTNTCIKSKGTGDTDVFSSKADGKLSKNGYGSRHK 509 Query: 588 -----LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 LGD ++ +VSP + +R+ L+ L P E V+RMRFG+ ++ Sbjct: 510 LGDFTLGDTVQTDESVSPEHMMADSLMRDDIECALSLLNPYEREVIRMRFGLDDGRMKSV 569 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +EV +CV RIR+IEA+A+RKL+HPS LR ++ Sbjct: 570 DEVCAYYCVQTSRIRRIEARALRKLRHPSVWHMLRDYI 607 >gi|160872453|ref|ZP_02062585.1| RNA polymerase sigma factor RpoS [Rickettsiella grylli] gi|159121252|gb|EDP46590.1| RNA polymerase sigma factor RpoS [Rickettsiella grylli] Length = 330 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 98/256 (38%), Positives = 155/256 (60%), Gaps = 3/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S E + ++ KG+ +A +K M+E+NLRLV+ +A+ Y NRGLQFLD Sbjct: 63 LNEIGFSPLLSAEEEVYYARLIAKGDQDA---RKRMIESNLRLVVKIARHYNNRGLQFLD 119 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GLM A EKFD G++FSTYA WWV+QAI R+I +Q+ T+R+P+H+ +++ Sbjct: 120 LIEEGNLGLMHAVEKFDPERGFRFSTYATWWVRQAIERAIMNQARTVRLPIHVVKELNVY 179 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 ++ AR ++ K+ +PT +EIAK L P E V ++L + + S++ P E L + + Sbjct: 180 LQAARELTQKLDHKPTSDEIAKWLDRPFEEVERMLGLNEHITSVDAPASSEADKPLLETL 239 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P NLR+ L L+ + V+ R+G+ TLEEVG+ +T Sbjct: 240 SDNRENDPEHILEGENLRKRLEGWLKQLSTNQREVIARRYGLLGCDRMTLEEVGEVIGLT 299 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQI+ + ++ L+ Sbjct: 300 RERVRQIQVEGLKTLR 315 >gi|301601105|dbj|BAJ13241.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 120/261 (45%), Positives = 151/261 (57%), Gaps = 42/261 (16%) Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 DGD+ + EG E + A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREG Sbjct: 17 DGDEEAESEGGE-----LAPAGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREG 70 Query: 139 EIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKG 197 EIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K Sbjct: 71 EIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKA 130 Query: 198 GF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSKDDRSKVDSPPEN 250 F E ++ +EK R DD+ GD++ + +D+ Sbjct: 131 APQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEEDEDE-------- 182 Query: 251 AENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNG 304 S +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 183 --------------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAG 228 Query: 305 QKDEKSSVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 229 TLSSGQERRYKELKDQLITAV 249 >gi|226226116|ref|YP_002760222.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089307|dbj|BAH37752.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 295 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 152/237 (64%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V+ NLR VISVAKKY NRGL +DLI EGN+GL+ AA KFD G KF +YA+WW Sbjct: 58 ALQELVKRNLRFVISVAKKYQNRGLPLIDLIGEGNVGLLTAARKFDPDQGVKFISYAVWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI S+A Q T+R+P++ + ++++ + + K++REP+PEE+A+ + V+ V Sbjct: 118 IRQAILSSLARQGRTVRVPLNRTADLSRIIKASEILRQKLRREPSPEELAQVTGLSVDVV 177 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + + + + L+ P+ D D S + F+ D+ + + A+ L + + L++L P Sbjct: 178 QSLAALNTGDVRLDAPMDPDGDRSLIERFVADEMPDTE-EEAMNRFLTDEIEQALSTLPP 236 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 R+ +VLR+ FG+ +HTLEE+G VTRER+RQ+ +A+++L+ + L SF Sbjct: 237 RDAKVLRLYFGLEGGREHTLEEIGSMLGVTRERVRQLRDRALKRLREGDVGRALSSF 293 >gi|54401876|gb|AAV34623.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401880|gb|AAV34625.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401882|gb|AAV34626.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401884|gb|AAV34627.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401886|gb|AAV34628.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401888|gb|AAV34629.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 238 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 85/210 (40%), Positives = 144/210 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 29 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 89 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 148 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 149 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 208 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + VL RFG+ TLE+VG++ +TR Sbjct: 209 QREVLARRFGLLGYEAATLEDVGREIGLTR 238 >gi|260436019|ref|ZP_05789989.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] gi|260413893|gb|EEX07189.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8109] Length = 335 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 147/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P + V Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEDDV 219 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + + P D + L+ +L L Sbjct: 220 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDGDL-PSDQVEEDCLKGDLRSLLGQLPHL 278 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E+VLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 279 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRRVS 326 >gi|54401878|gb|AAV34624.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 238 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 85/210 (40%), Positives = 144/210 (68%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 29 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 89 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 148 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 149 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 208 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + VL RFG+ TLE+VG++ +TR Sbjct: 209 QREVLARRFGLLGYEAATLEDVGREIGLTR 238 >gi|114155168|dbj|BAF31034.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|114155684|dbj|BAF31028.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|114155686|dbj|BAF31029.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|114155688|dbj|BAF31030.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|118562877|dbj|BAF37806.1| RNA polymerase major sigma factor [Agrobacterium vitis] gi|118562879|dbj|BAF37807.1| RNA polymerase major sigma factor [Agrobacterium vitis] gi|301601097|dbj|BAJ13237.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601101|dbj|BAJ13239.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601103|dbj|BAJ13240.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601112|dbj|BAJ13244.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601114|dbj|BAJ13245.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601116|dbj|BAJ13246.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601120|dbj|BAJ13248.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601126|dbj|BAJ13251.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601128|dbj|BAJ13252.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601130|dbj|BAJ13253.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601132|dbj|BAJ13254.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601138|dbj|BAJ13257.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 124/273 (45%), Positives = 156/273 (57%), Gaps = 47/273 (17%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ S +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDE----------------------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQ 216 Query: 299 DN------AVNGQKDEKSSVKCKVLKEKLVKLV 325 D A G + K LK++L+ V Sbjct: 217 DQQVEARLACAGTLSSGQERRYKELKDQLITAV 249 >gi|301601142|dbj|BAJ13259.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 118/247 (47%), Positives = 147/247 (59%), Gaps = 41/247 (16%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ S +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDE----------------------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQ 216 Query: 299 DNAVNGQ 305 D V + Sbjct: 217 DQQVEAR 223 >gi|33864638|ref|NP_896197.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33632161|emb|CAE06617.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 8102] Length = 332 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 148/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P + V Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTITELAQYVELPEDDV 216 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + +A P D + ++ +L L Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLAG-DADLPSDQVEEDCMKGDLRSLLGQLPHL 275 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E+VLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 276 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRRIS 323 >gi|149916650|ref|ZP_01905152.1| RNA polymerase sigma factor rpoD [Plesiocystis pacifica SIR-1] gi|149822367|gb|EDM81756.1| RNA polymerase sigma factor rpoD [Plesiocystis pacifica SIR-1] Length = 398 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 98/283 (34%), Positives = 166/283 (58%), Gaps = 6/283 (2%) Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISE-FRHIVSMVRKGECEASIAKKEMVE 450 +G++ V+ ++ +I R ++ +S+ S F V R AK E V+ Sbjct: 107 DGKYGELVSVDLQAIEANRRDVVRLSITYPPRGSRPFARYVQRARSAHQALCWAKNEFVQ 166 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLV+++A++Y R + DLIQEGNIGLMKA ++FD GY+FSTYA WW++ +I R Sbjct: 167 ANLRLVVTIARRYDQRLMPLSDLIQEGNIGLMKAVDRFDGKRGYRFSTYATWWIRHSINR 226 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 ++A++ T+R+P H+ I ++ R R + + P+ +E+AK+ + VRK+ K++ Sbjct: 227 ALANKGRTVRLPAHVSADIQRIQRATRELETRTGESPSVDELAKETGLSKTRVRKLSKLS 286 Query: 571 -KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 P+SL+ P D+D+ L D +ED +A D ++ E +++L P E +LR Sbjct: 287 LHNPVSLDAPSSDDDSRGLLDRLEDSSAPRLADMVELEDMSEHLREAMSALEPIEADILR 346 Query: 630 MRFGIGMNTDH----TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+G+G+ + TL E+G+ ++RERIRQ++ +A+ KL+ Sbjct: 347 RRYGLGVAGEEFEAMTLRELGEMHQLSRERIRQLQQRALNKLR 389 >gi|126697159|ref|YP_001092045.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126544202|gb|ABO18444.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9301] Length = 344 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 96/243 (39%), Positives = 154/243 (63%), Gaps = 3/243 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S+++K AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD Sbjct: 97 SVIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LR 610 +AK + +P + V+ ++ +P+SLET +GD + + L D + + D I+ + +R Sbjct: 217 LAKYVELPEDDVKDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMR 274 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +L L + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ Sbjct: 275 GDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRL 334 Query: 671 SRS 673 S + Sbjct: 335 SHN 337 >gi|157414236|ref|YP_001485102.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157388811|gb|ABV51516.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9215] Length = 344 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 96/241 (39%), Positives = 153/241 (63%), Gaps = 3/241 (1%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S+++K AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD Sbjct: 97 SIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 GYKFSTYA WW++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LR 610 +AK + +P + V+ ++ +P+SLET +GD + + L D + + D I+ + +R Sbjct: 217 LAKYVELPEDDVKDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMR 274 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +L L + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ Sbjct: 275 GDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRL 334 Query: 671 S 671 S Sbjct: 335 S 335 >gi|114155164|dbj|BAF31032.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 185 bits (469), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 118/247 (47%), Positives = 147/247 (59%), Gaps = 41/247 (16%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ S +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDE----------------------SNLSLAAMEAELRPQVMETLDLIADTYKKLRXLQ 216 Query: 299 DNAVNGQ 305 D V + Sbjct: 217 DQQVEAR 223 >gi|194476921|ref|YP_002049100.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Paulinella chromatophora] gi|171191928|gb|ACB42890.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Paulinella chromatophora] Length = 321 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 102/280 (36%), Positives = 171/280 (61%), Gaps = 6/280 (2%) Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E + L+++N IK E S+ ++ V++ AK++MV +NLRLV+S+AK Sbjct: 48 ETEQKLELKNGIKPTQEELANSLDLS---INQVKRKIIHGKRAKEQMVSSNLRLVVSIAK 104 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KYT R ++ LDL+QEG IGL++ EKFD GYKFSTYA WW++Q ITR+I++QS TIR+ Sbjct: 105 KYTKRSMELLDLVQEGTIGLIRGVEKFDPTRGYKFSTYAYWWIRQGITRAISEQSRTIRL 164 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 P+H+ ++++K+ + R +S + R PT E+AK + + + V+++L K+P+SLE IG Sbjct: 165 PIHITEELNKLKKAQRDLSQSLGRTPTVIELAKMIKLTEKEVKELLCHAKQPVSLEMKIG 224 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D D + L + + + + P + + LR ++ L + R+L+MR+G T Sbjct: 225 DGDDTVLLELLPSEIEL-PEEYVNRKCLRRDLLALVEQLPEIQVRILKMRYGFDSTEPLT 283 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 L +G+ ++R+R+R +E I +L+ S+S + +LD Sbjct: 284 LTGIGRVLGMSRDRVRNLERDGINRLQKLSKS--IEGYLD 321 >gi|301601134|dbj|BAJ13255.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 118/247 (47%), Positives = 147/247 (59%), Gaps = 41/247 (16%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ S +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDE----------------------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQ 216 Query: 299 DNAVNGQ 305 D V + Sbjct: 217 DQQVEAR 223 >gi|261749591|ref|YP_003257277.1| RNA polymerase sigma factor rpoD [Blattabacterium sp. (Periplaneta americana) str. BPLAN] gi|261497684|gb|ACX84134.1| RNA polymerase sigma factor rpoD [Blattabacterium sp. (Periplaneta americana) str. BPLAN] Length = 287 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 96/250 (38%), Positives = 161/250 (64%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ S A +++V ANLR V+SVAK+Y N+GL DLI EGN+GL+K +FD Sbjct: 37 VEYARRAREGDSSAIEKLVNANLRFVVSVAKQYQNQGLSLCDLINEGNLGLIKGILRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+K +Y +WW++QAI ++IA+QS +IR P + ++K+++T ++ +++R P+ Sbjct: 97 TRGFKCISYVVWWIRQAILQAIAEQSRSIRQPTNKLALLNKILKTLAQLEQELQRTPSAR 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+ L M + V + +K + +S++ P+ + + S+L D + + P + + +LR Sbjct: 157 EIAEHLDMNEKDVEESIKNSGRHVSMDAPLIEGEDSNLYDLVRSDESPRPDEHLERESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + R+L +L+ RE RV+ + FG+ + TLEEVG+ +TRER+RQIE+ A+++LKH Sbjct: 217 KDIKRILETLSERERRVIILHFGLNGSPPMTLEEVGQSCDLTRERVRQIESIALKRLKHS 276 Query: 671 SRSKKLRSFL 680 SRSK L+ +L Sbjct: 277 SRSKILKPYL 286 >gi|123969371|ref|YP_001010229.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123199481|gb|ABM71122.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. AS9601] Length = 344 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 148/229 (64%), Gaps = 3/229 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 109 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 168 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R PT E+AK + +P + V Sbjct: 169 IRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEDDV 228 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 + ++ +P+SLET +GD + + L D + + D I+ + +R +L L Sbjct: 229 KDLMCKAGQPVSLETKVGDGEDTVLLDLLAGGEDLP--DEQIEMDCMRGDLHSLLHQLPD 286 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ S Sbjct: 287 LQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLS 335 >gi|78211648|ref|YP_380427.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196107|gb|ABB33872.1| type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. CC9605] Length = 335 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 147/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P + V Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEDDV 219 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + + P D + L+ +L L Sbjct: 220 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDGDL-PSDQVEEDCLKGDLRSLLGQLPHL 278 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E+VLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 279 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRRVS 326 >gi|307824679|ref|ZP_07654903.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Methylobacter tundripaludum SV96] gi|307734333|gb|EFO05186.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Methylobacter tundripaludum SV96] Length = 342 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 86/225 (38%), Positives = 147/225 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GLM A EKFD G++FSTYA WW Sbjct: 103 ARKIMIESNLRLVVKISRRYLNRGLPLLDLIEEGNLGLMHAVEKFDPERGFRFSTYATWW 162 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ ++ R +S ++ EP E+IA+ L +PV V Sbjct: 163 IRQTIERAIMNQTRTIRLPIHIVKEMNTYLKAQRHLSQLLEHEPNAEDIAEHLDIPVNKV 222 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+LK+ + S++ P G + L + I D ++SP + + ++ + + L+ + Sbjct: 223 EKMLKLNERVTSIDMPGGKDFDKPLVESISDGESLSPAEKIQEDGIKHNIAKWVFQLSEK 282 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ R+G+ TLE+V ++ VTRER+RQI+ ++++K Sbjct: 283 QREVICRRYGLCGYEGSTLEQVAQELGVTRERVRQIQMDGLKRMK 327 >gi|86134980|ref|ZP_01053562.1| RNA polymerase sigma-70 factor [Polaribacter sp. MED152] gi|85821843|gb|EAQ42990.1| RNA polymerase sigma-70 factor [Polaribacter sp. MED152] Length = 287 Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 89/234 (38%), Positives = 159/234 (67%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V+ANLR V+SVAK+Y N+GL+ DLI EGN+GL+KAA++FD G+KF +YA+WW++Q Sbjct: 53 KLVKANLRFVVSVAKQYQNQGLKLSDLINEGNLGLVKAAKRFDETRGFKFISYAVWWIRQ 112 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I +S+A+QS +R+P++ I K+ + ++ + +R PT EIA +L V V + Sbjct: 113 SIMQSLAEQSRIVRLPLNKIGSISKINKVYSKLEQRNERIPTYVEIANELDTTVRNVAQS 172 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +K + +S++ P + + S+L + ++ + P + ++ +L R L +L+ +E + Sbjct: 173 MKNSGRHVSMDAPFREGEDSNLYNVLKSDESPRPDKNLMKQSLDIEIDRALETLSHKEAK 232 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V++M FG+G +T +L E+G+ F +TRER+RQ++ +AIR+L++ SR++ LR +L Sbjct: 233 VIKMFFGLGNHTASSLSEIGETFDLTRERVRQVKQRAIRRLQNKSRTEVLRYYL 286 >gi|194337394|ref|YP_002019188.1| RNA polymerase, sigma 32 subunit, RpoH [Pelodictyon phaeoclathratiforme BU-1] gi|194309871|gb|ACF44571.1| RNA polymerase, sigma 32 subunit, RpoH [Pelodictyon phaeoclathratiforme BU-1] Length = 299 Score = 184 bits (468), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTRELATLLEMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDYGLNRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V++ FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + SK L+ ++ Sbjct: 238 APREADVIKSYFGIGMDNPLTLEEIGEKFRLTRERVRQIKEKAIRRLRQSAYSKILKEYI 297 >gi|88809912|ref|ZP_01125417.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786102|gb|EAR17264.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 355 Score = 184 bits (468), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 146/228 (64%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 120 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R P+ E+A + +P + V Sbjct: 180 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEDEV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++P+SLE +GD D + L D + + P + L+ +L L Sbjct: 240 KELMCRARQPVSLEMKVGDGDDTELLDLLAGDGEL-PSEQVEGECLKGDLRDLLGQLPEL 298 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +ERVLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 299 QERVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDGLAGLRRLS 346 >gi|300704422|ref|YP_003746025.1| RNA polymerase sigma factor rpos [Ralstonia solanacearum CFBP2957] gi|299072086|emb|CBJ43418.1| RNA polymerase sigma factor rpoS [Ralstonia solanacearum CFBP2957] Length = 376 Score = 184 bits (468), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 101/271 (37%), Positives = 164/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ ++ +E H + + GE A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 104 VQHYLNRISIKPLLTPAEELHFSTRAKAGEFAA---RQVMIERNLRLVVSIAKGYLNRGV 160 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 161 PLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 220 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + S R+ + E+IA L + V+ VL + + SL+TP + + Sbjct: 221 LNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTTDEVQDVLSLNEHTTSLDTPFDLDPGT 280 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ SP L + LA L+ + V+ RFG+ TLEE+ Sbjct: 281 SLLDFLSDEHGASPDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELA 340 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + +TRER+RQI+ +A+ KLK S+ +R Sbjct: 341 AEMGLTRERVRQIQQEALVKLKRHFASQGVR 371 >gi|124026787|ref|YP_001015902.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123961855|gb|ABM76638.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. NATL1A] Length = 335 Score = 184 bits (468), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 149/226 (65%), Gaps = 3/226 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S +IR+P+H+ + ++K+ + R +S ++ R PT +E+++ + +P V Sbjct: 160 IRQGITRAIAEKSRSIRLPIHITEMLNKLKKGQRELSQELSRTPTLKELSEYVELPETDV 219 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 + ++ +P+SLET IGD + + L D + N + I+++ ++ +L L Sbjct: 220 KDLMSRAGQPVSLETKIGDGEDTILLDLL--SNEIDMPSEQIESDCMKGDLETLLEQLPE 277 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + RVLRMR+G+ + +L +G+ ++R+R+R +E +R L+ Sbjct: 278 LQNRVLRMRYGMDGDDPMSLTGIGRVLGISRDRVRNLERDGLRGLR 323 >gi|313673100|ref|YP_004051211.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Calditerrivibrio nitroreducens DSM 19672] gi|312939856|gb|ADR19048.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calditerrivibrio nitroreducens DSM 19672] Length = 327 Score = 184 bits (468), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 87/248 (35%), Positives = 157/248 (63%), Gaps = 4/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA +++ +N++ V+S+A +Y N G+ DLI +GN+GL++AA++FD G Sbjct: 84 IQQGDQEAL---NKLILSNIKFVVSMANRYKNTGVSLSDLINQGNLGLVEAAKRFDPDKG 140 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KF +YA+WW++QA+ + +A+QS T+++P+ ++K+ +S K REPT EEI+ Sbjct: 141 VKFISYAVWWIRQAMIQLLAEQSGTVKLPIKQASLLYKINEAIETLSKKYHREPTSEEIS 200 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L +P E + +L ++K +S E+PI D + D +E + + D I L++T Sbjct: 201 EYLNIPKENIENILMVSKNYLSFESPIKDGEDRTFLDLMESR-TIKVEDEVINHTLKDTL 259 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 ++ L RE ++L+MR+G+ TLEEVG ++RER+RQIE++A+ KL+ + Sbjct: 260 QSLIQELDEREAKILKMRYGLDGENPMTLEEVGNILNISRERVRQIESRALSKLRKKAVK 319 Query: 674 KKLRSFLD 681 K+L+ +L+ Sbjct: 320 KRLQDYLN 327 >gi|301601136|dbj|BAJ13256.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 119/247 (48%), Positives = 148/247 (59%), Gaps = 41/247 (16%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ NL +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDES-------------NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQ 216 Query: 299 DNAVNGQ 305 D V + Sbjct: 217 DQQVEAR 223 >gi|160358239|dbj|BAF93440.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601099|dbj|BAJ13238.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 119/255 (46%), Positives = 149/255 (58%), Gaps = 38/255 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEE + +LA A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAK Sbjct: 19 DEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAK 76 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHG 202 RIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K F Sbjct: 77 RIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQS 136 Query: 203 TEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 E ++ +EK R DD+ GD++ + +D+ Sbjct: 137 PEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEEDEDE-------------- 182 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQKDEKS 310 S +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 183 --------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAGTLSSGQ 234 Query: 311 SVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 235 ERRYKELKDQLITAV 249 >gi|294507979|ref|YP_003572037.1| RNA polymerase sigma-70 factor [Salinibacter ruber M8] gi|294344307|emb|CBH25085.1| RNA polymerase sigma-70 factor [Salinibacter ruber M8] Length = 279 Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 96/238 (40%), Positives = 155/238 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ANLR V+SVAKKY +GL DLI EGN GL+KAA++FD G+KF +YA+WW Sbjct: 42 ALHKLCRANLRFVVSVAKKYQGQGLSLADLINEGNYGLIKAAKRFDETRGFKFISYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++A+QS +R+P++ I K+ + + R+ + R+P EE+A++L + V+ V Sbjct: 102 IRQAILQALAEQSRVVRLPLNRIGTISKIRKASARLQQDLDRKPNIEELAEELEIDVQKV 161 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ +K T +S++ P +ED + L D + D++ SP + + +++ R L++L R Sbjct: 162 REAMKHTSRHLSMDAPFNEEDDNSLLDVLPDEDNDSPDEEMLSESVKIDIERALSALHDR 221 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E + R+ FGIG TLEE+GK+F +TRER+RQI+ KA+RKL+ + L+ D Sbjct: 222 EAEITRLYFGIGREHPLTLEEIGKRFDLTRERVRQIKEKALRKLRQRHSKQDLQPHTD 279 >gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba] Length = 575 Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 96/247 (38%), Positives = 153/247 (61%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RK + K M+++N+RLVIS+AK Y G+ F DL+QEG GL++ AEKFD G Sbjct: 322 LRKRITHGTQCKDRMIKSNIRLVISIAKNYQGAGMDFQDLVQEGCRGLVRGAEKFDATKG 381 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KFSTYA WW+KQA+ +S++DQS IR+P HM + ++V +++ ++ ++P EE+A Sbjct: 382 FKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKQPKNEEVA 441 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + ++ + VL K P SL+ IG + I D A + D ++ +R+ Sbjct: 442 EATGLSMKRLMAVLLSPKPPRSLDQKIGINLNLKPSEVIADPEAETSEDILMKQFMRQDL 501 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +VL SL+ RE++V+R RFG+ TL+E+G+ V+RER+RQI+ A RKLK+ R+ Sbjct: 502 DKVLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQIDTSAFRKLKNKKRN 561 Query: 674 KKLRSFL 680 L+ +L Sbjct: 562 SHLQQYL 568 >gi|301601107|dbj|BAJ13242.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 121/255 (47%), Positives = 152/255 (59%), Gaps = 30/255 (11%) Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 DGD+ + EG E + A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREG Sbjct: 17 DGDEEAESEGGE-----LAPAGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREG 70 Query: 139 EIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKG 197 EIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K Sbjct: 71 EIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKA 130 Query: 198 GF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 F E ++ +EK R V+ +E DI + + + E+ Sbjct: 131 APQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEEEDEDES------ 183 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQKDEKS 310 NL +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 184 NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAGTLSSGQ 234 Query: 311 SVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 235 ERRYKELKDQLITAV 249 >gi|221198089|ref|ZP_03571135.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2M] gi|221204352|ref|ZP_03577369.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2] gi|221175209|gb|EEE07639.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2] gi|221182021|gb|EEE14422.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD2M] Length = 338 Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 103/278 (37%), Positives = 166/278 (59%), Gaps = 13/278 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 60 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 116 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 117 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 176 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 177 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 236 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 237 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 295 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 TLEE+ + +TRER+RQI+ +A+ +LK S +R Sbjct: 296 ATLEELADEMGLTRERVRQIQQEALVRLKRFFASNGVR 333 >gi|301601095|dbj|BAJ13236.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (466), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 119/255 (46%), Positives = 149/255 (58%), Gaps = 38/255 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEE + +LA A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAK Sbjct: 19 DEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAK 76 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHG 202 RIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K F Sbjct: 77 RIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQS 136 Query: 203 TEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 E ++ +EK R DD+ GD++ + +D+ Sbjct: 137 PEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEEDEDE-------------- 182 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQKDEKS 310 S +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 183 --------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAGTLSSGQ 234 Query: 311 SVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 235 ERRYKELKDQLITAV 249 >gi|159897807|ref|YP_001544054.1| RNA polymerase, sigma 32 subunit, RpoH [Herpetosiphon aurantiacus ATCC 23779] gi|159890846|gb|ABX03926.1| RNA polymerase, sigma 32 subunit, RpoH [Herpetosiphon aurantiacus ATCC 23779] Length = 303 Score = 184 bits (466), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 98/225 (43%), Positives = 143/225 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ANLRLV+S+AK+Y GL F DLIQEGNIGLM A E+FD G +FSTYA WW Sbjct: 74 AHEQLVRANLRLVVSIAKRYRGFGLPFQDLIQEGNIGLMNAIERFDATKGVRFSTYATWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITRS+A+Q IR+PVH + + KV R ++ + REP+ EI+ L +P E + Sbjct: 134 IRQAITRSLANQGRLIRLPVHRWELLIKVRRIETKLLQALGREPSANEISTALGVPEEKI 193 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L I + PISL TP +E LGD + D++ L+ + + + T +L L+ + Sbjct: 194 CDLLSIAQVPISLATPKNEETDMLLGDSLPDEDWEDELECLLTSIDAQYTRAMLNQLSEQ 253 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ VL +R+G+ +L EVG TR+RI+QIEA A++ L+ Sbjct: 254 EQEVLTLRYGLKDGKSRSLSEVGAVVGRTRQRIQQIEAGALQVLR 298 >gi|83721572|ref|YP_442747.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis E264] gi|167581696|ref|ZP_02374570.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis TXDOH] gi|167619812|ref|ZP_02388443.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis Bt4] gi|257138958|ref|ZP_05587220.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis E264] gi|83655397|gb|ABC39460.1| RpoS [Burkholderia thailandensis E264] Length = 363 Score = 184 bits (466), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 102/269 (37%), Positives = 165/269 (61%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 85 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 141 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 142 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 201 Query: 529 IHKVVRTARRM-SNKI-------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + N + +RE + ++IA E V +L + + SL+ P+ Sbjct: 202 LNQVLRAKRHLEKNSLSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 261 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 262 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 320 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 321 ATLEELADEMGLTRERVRQIQQEALVRLK 349 >gi|269104472|ref|ZP_06157168.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268161112|gb|EEZ39609.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 294 Score = 184 bits (466), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 97/238 (40%), Positives = 149/238 (62%), Gaps = 4/238 (1%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK + +KK M+E+NLRLV+S+AKKY G+Q D+I EGNIGL+ A EKFD G+ Sbjct: 41 RKALVGDAKSKKVMIESNLRLVVSIAKKYRGSGMQLSDMIDEGNIGLITAVEKFDPERGF 100 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+KQ I R+I +Q+ TIR+PVH+ +I+ ++RT +++ EPT EE+A Sbjct: 101 RFSTYATWWIKQTIERAIHNQARTIRLPVHVSKEINTILRTHKQLMKTNNSEPTHEEVAD 160 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN-LRE 611 +L VE + +L +S + I ED++ + FI D + P D+ I N +++ Sbjct: 161 ELDKSVEDISALLSYDAPVMSFDQTISSEDSNSQTMASFISDDSDNGP-DAQIDKNDIQK 219 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 T +L L PR+ +L RFG+ TL++V ++ +TRERIRQ++ ++ KLK+ Sbjct: 220 LTLTMLEGLNPRDREILCRRFGLMGYEAQTLQQVAEEVGLTRERIRQLQVSSLNKLKN 277 >gi|254252249|ref|ZP_04945567.1| Sigma-70 region 2 [Burkholderia dolosa AUO158] gi|124894858|gb|EAY68738.1| Sigma-70 region 2 [Burkholderia dolosa AUO158] Length = 361 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGDAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|152995337|ref|YP_001340172.1| RpoD family RNA polymerase sigma factor [Marinomonas sp. MWYL1] gi|150836261|gb|ABR70237.1| RNA polymerase, sigma 70 subunit, RpoD family [Marinomonas sp. MWYL1] Length = 338 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 147/226 (65%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 95 ARTRMIESNLRLVVKISRRYLNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 154 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ EEIA+ L PVE V Sbjct: 155 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSAEEIAEMLDCPVEDV 214 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +K+L + ++ S++ GD + L + + D P ++ + L L+ Sbjct: 215 QKMLGLNEKVSSIDATFGGDNNDKSLVEILADTLHQGPEADRQDGDVLNSIELWLDELSE 274 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ V+ RFG+ + TLE VG + +TRER+RQI+ +A+RKL+ Sbjct: 275 KQCEVITRRFGLRGHEASTLEHVGAEIGLTRERVRQIQVEALRKLR 320 >gi|325521809|gb|EGD00541.1| RNA polymerase sigma factor RpoS [Burkholderia sp. TJI49] Length = 339 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 103/278 (37%), Positives = 166/278 (59%), Gaps = 13/278 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 61 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 117 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 118 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 177 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 178 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 237 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 238 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 296 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 TLEE+ + +TRER+RQI+ +A+ +LK S +R Sbjct: 297 ATLEELADEMGLTRERVRQIQQEALVRLKRFFASNGVR 334 >gi|262340892|ref|YP_003283747.1| RNA polymerase sigma-70 factor [Blattabacterium sp. (Blattella germanica) str. Bge] gi|262272229|gb|ACY40137.1| RNA polymerase sigma-70 factor [Blattabacterium sp. (Blattella germanica) str. Bge] Length = 287 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 97/246 (39%), Positives = 160/246 (65%), Gaps = 1/246 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E +AS K +V ANLR V+SVAK+Y N+GL DLI EGN+GL+K +FD G+ Sbjct: 42 RAREGDASAIDK-LVNANLRFVVSVAKQYQNQGLSLCDLINEGNLGLIKGILRFDETRGF 100 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 K +Y +WW++QAI ++IA+QS +IR P + ++K+++T ++ +++R P+ EIA+ Sbjct: 101 KCISYVVWWIRQAILQAIAEQSRSIRQPTNKLALLNKILKTLAQLEQELQRTPSAREIAE 160 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L M + V + +K + +S++ P+ + + S+L D + + P + + +LR+ Sbjct: 161 YLDMNEKDVEESIKNSGRHVSMDAPLIEGEDSNLYDLVRSDESPRPDEHLEKESLRKDIK 220 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 R+L +L+ RE RV+ + FG+ + TLEEVG+ +TRER+RQIE+ A+++LKH SRSK Sbjct: 221 RILETLSERERRVIILHFGLNGSPPMTLEEVGQSCDLTRERVRQIESIALKRLKHSSRSK 280 Query: 675 KLRSFL 680 L+ +L Sbjct: 281 ILKPYL 286 >gi|186682180|ref|YP_001865376.1| SigH/RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC 73102] gi|186464632|gb|ACC80433.1| RNA polymerase, sigma 70 subunit SigH, RpoD family [Nostoc punctiforme PCC 73102] Length = 321 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 88/218 (40%), Positives = 142/218 (65%), Gaps = 3/218 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+S+AK+Y R L+ +DLIQEG +GL + EKF+ LGY+FSTYA WW Sbjct: 94 AKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPALGYRFSTYAYWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA Q IR+P+H+ +K++K+ R R +S + R PT EIA L++ + Sbjct: 154 IRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTEIANALSLKPSQI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLASLTP 622 R+ L + ISL+ + E L D IED S +S I + +L + +L++L+ Sbjct: 214 REFLLLATRTISLDIRVSSEKDLRLQDLIEDYKYSS--NSYITEESLNQEVNSLLSNLSR 271 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +++ +L + FG+ + +L+++G++ ++RER+RQIE Sbjct: 272 QQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309 Score = 38.9 bits (89), Expect = 2.8, Method: Compositional matrix adjust. Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 4/57 (7%) Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 F + + +++T D VR YL+E+G I LL++E EI A+ ++ +M L ES Sbjct: 5 TFSDTKASNTNKATTDTVRAYLKEIGRIPLLTQEQEIIFAQEVQ----QLMTILAES 57 >gi|148238489|ref|YP_001223876.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147847028|emb|CAK22579.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 355 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 145/228 (63%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 120 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S + R P+ E+A + +P + V Sbjct: 180 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSVTELAAFVELPEDEV 239 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++P+SLE +GD D + L D + + P + L+ +L L Sbjct: 240 KELMCRARQPVSLEMKVGDGDDTELLDLLAGDGEL-PSEQVEGECLKGDLRDLLGQLPEL 298 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +ERVLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 299 QERVLRMRYGMDGEDPMSLTGIGRVIGISRDRVRNLERDGLAGLRRLS 346 >gi|167836384|ref|ZP_02463267.1| RNA polymerase sigma factor RpoS [Burkholderia thailandensis MSMB43] Length = 366 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 102/269 (37%), Positives = 165/269 (61%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRM-SNKI-------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + N + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSLSTGAAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|161524626|ref|YP_001579638.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|189350618|ref|YP_001946246.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|221212761|ref|ZP_03585737.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD1] gi|160342055|gb|ABX15141.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia multivorans ATCC 17616] gi|189334640|dbj|BAG43710.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans ATCC 17616] gi|221166974|gb|EED99444.1| RNA polymerase sigma factor RpoS [Burkholderia multivorans CGD1] Length = 361 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|114155170|dbj|BAF31035.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 119/255 (46%), Positives = 149/255 (58%), Gaps = 38/255 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEE + +LA A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAK Sbjct: 19 DEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAK 76 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHG 202 RIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K F Sbjct: 77 RIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQS 136 Query: 203 TEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 E ++ +EK R DD+ GD++ + +D+ Sbjct: 137 PEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEEDEDE-------------- 182 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQKDEKS 310 S +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 183 --------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAGTLSSGQ 234 Query: 311 SVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 235 ERRYKELKDQLITAV 249 >gi|114155172|dbj|BAF31036.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|160358237|dbj|BAF93439.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601118|dbj|BAJ13247.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601144|dbj|BAJ13260.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 125/267 (46%), Positives = 157/267 (58%), Gaps = 35/267 (13%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDGDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 LE GPE+K F E ++ +EK R V+ +E DI + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEE 177 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---- 300 + E+ NL +L+AME +LRP+VM LD IA+ Y++LR LQD Sbjct: 178 EDEDES------NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEA 222 Query: 301 --AVNGQKDEKSSVKCKVLKEKLVKLV 325 A G + K LK++L+ V Sbjct: 223 RLACAGTLSSGQERRYKELKDQLITAV 249 >gi|53719139|ref|YP_108125.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei K96243] gi|53723558|ref|YP_103014.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 23344] gi|67639892|ref|ZP_00438721.1| RNA polymerase sigma factor RpoS [Burkholderia mallei GB8 horse 4] gi|76810144|ref|YP_333760.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710b] gi|121600326|ref|YP_993163.1| RNA polymerase sigma factor RpoS [Burkholderia mallei SAVP1] gi|124385284|ref|YP_001026062.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10229] gi|126440772|ref|YP_001059233.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 668] gi|126450398|ref|YP_001080670.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10247] gi|126452489|ref|YP_001066500.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106a] gi|134277449|ref|ZP_01764164.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 305] gi|167002252|ref|ZP_02268042.1| RNA polymerase sigma factor RpoS [Burkholderia mallei PRL-20] gi|167719257|ref|ZP_02402493.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei DM98] gi|167738254|ref|ZP_02411028.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 14] gi|167815444|ref|ZP_02447124.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 91] gi|167823855|ref|ZP_02455326.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 9] gi|167845396|ref|ZP_02470904.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei B7210] gi|167893937|ref|ZP_02481339.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 7894] gi|167902387|ref|ZP_02489592.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei NCTC 13177] gi|167910629|ref|ZP_02497720.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 112] gi|167918658|ref|ZP_02505749.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei BCC215] gi|217421435|ref|ZP_03452939.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 576] gi|226197238|ref|ZP_03792815.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pakistan 9] gi|237812557|ref|YP_002897008.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei MSHR346] gi|242315690|ref|ZP_04814706.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106b] gi|254178572|ref|ZP_04885227.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 10399] gi|254179542|ref|ZP_04886141.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1655] gi|254189067|ref|ZP_04895578.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pasteur 52237] gi|254197294|ref|ZP_04903716.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei S13] gi|254199960|ref|ZP_04906326.1| RNA polymerase sigma factor RpoS [Burkholderia mallei FMH] gi|254206293|ref|ZP_04912645.1| RNA polymerase sigma factor RpoS [Burkholderia mallei JHU] gi|254261861|ref|ZP_04952915.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710a] gi|254297419|ref|ZP_04964872.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 406e] gi|254358292|ref|ZP_04974565.1| RNA polymerase sigma factor RpoS [Burkholderia mallei 2002721280] gi|28394113|gb|AAO34104.1| rpoS [Burkholderia pseudomallei] gi|52209553|emb|CAH35506.1| RNA polymerase sigma factor [Burkholderia pseudomallei K96243] gi|52426981|gb|AAU47574.1| RNA polymerase sigma factor [Burkholderia mallei ATCC 23344] gi|76579597|gb|ABA49072.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710b] gi|121229136|gb|ABM51654.1| RNA polymerase sigma factor RpoS [Burkholderia mallei SAVP1] gi|124293304|gb|ABN02573.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10229] gi|126220265|gb|ABN83771.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 668] gi|126226131|gb|ABN89671.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106a] gi|126243268|gb|ABO06361.1| RNA polymerase sigma factor RpoS [Burkholderia mallei NCTC 10247] gi|134251099|gb|EBA51178.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 305] gi|147749556|gb|EDK56630.1| RNA polymerase sigma factor RpoS [Burkholderia mallei FMH] gi|147753736|gb|EDK60801.1| RNA polymerase sigma factor RpoS [Burkholderia mallei JHU] gi|148027419|gb|EDK85440.1| RNA polymerase sigma factor RpoS [Burkholderia mallei 2002721280] gi|157807858|gb|EDO85028.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 406e] gi|157936746|gb|EDO92416.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pasteur 52237] gi|160699611|gb|EDP89581.1| RNA polymerase sigma factor RpoS [Burkholderia mallei ATCC 10399] gi|169654035|gb|EDS86728.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei S13] gi|184210082|gb|EDU07125.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1655] gi|217395177|gb|EEC35195.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 576] gi|225930617|gb|EEH26627.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei Pakistan 9] gi|237506433|gb|ACQ98751.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei MSHR346] gi|238520504|gb|EEP83963.1| RNA polymerase sigma factor RpoS [Burkholderia mallei GB8 horse 4] gi|242138929|gb|EES25331.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1106b] gi|243062069|gb|EES44255.1| RNA polymerase sigma factor RpoS [Burkholderia mallei PRL-20] gi|254220550|gb|EET09934.1| RNA polymerase sigma factor RpoS [Burkholderia pseudomallei 1710a] Length = 359 Score = 183 bits (465), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 81 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 137 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 138 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 197 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 198 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 257 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 258 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 316 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 317 ATLEELADEMGLTRERVRQIQQEALVRLK 345 >gi|194290015|ref|YP_002005922.1| RNA polymerase sigma factor rpos [Cupriavidus taiwanensis LMG 19424] gi|193223850|emb|CAQ69859.1| RNA polymerase sigma factor rpoS [Cupriavidus taiwanensis LMG 19424] Length = 395 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 100/271 (36%), Positives = 163/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ +S E H ++ + G+ A++ M+E NLRLV+S+AK Y NRG+ Sbjct: 123 VQHYLNRISIKPLLSAPEELHFSTLAKDGDF---AARQVMIERNLRLVVSIAKGYLNRGV 179 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 180 PLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 239 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + R+ + E+IA L + V+ VL + + SL+TP + S Sbjct: 240 LNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTPDEVQDVLALNEHTTSLDTPFDLDPGS 299 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ +P L LA L+ + V+ RFG+ TLEE+ Sbjct: 300 SLLDFLSDEHNAAPDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELA 359 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++ +TRER+RQI+ +A+ KLK S+ +R Sbjct: 360 EEMGLTRERVRQIQQEALVKLKRHFASQGVR 390 >gi|114155166|dbj|BAF31033.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 119/241 (49%), Positives = 148/241 (61%), Gaps = 29/241 (12%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDGDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 LE GPE+K F E ++ +EK R V+ +E DI + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEE 177 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 + ED+S +L+AME +LRP+VM LD IA+ Y++LR LQD V Sbjct: 178 ED---------------EDESNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEA 222 Query: 305 Q 305 + Sbjct: 223 R 223 >gi|167587040|ref|ZP_02379428.1| RNA polymerase sigma factor RpoS [Burkholderia ubonensis Bu] Length = 360 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 138 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 139 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 198 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 199 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 258 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 259 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 317 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 318 ATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|323453176|gb|EGB09048.1| hypothetical protein AURANDRAFT_53467 [Aureococcus anophagefferens] Length = 468 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 101/249 (40%), Positives = 154/249 (61%), Gaps = 14/249 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+ ANLRLV+S++K+Y +RGL F D+IQEG GL +A EKFD G+KFSTYA WW Sbjct: 213 AKAAMINANLRLVVSISKRYQHRGLHFQDVIQEGTFGLTRAVEKFDPEKGFKFSTYATWW 272 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+ R+IADQS TIR+PVH+ D++ + + R + ++ RE T EE+A KL + + Sbjct: 273 IKQAVMRAIADQSRTIRLPVHVHDQLQSMKKVTRDLGAELGRECTDEELAGKLDLATTKM 332 Query: 564 RKVLKITKEPISLETPI------------GDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + ++ +S++ + G + + L D + D A+ P + A +L+ Sbjct: 333 DWLRSCERQTMSMDATVRVSGKGSSAGTGGAGNEAKLSDNLADAAAL-PDERAETKSLQS 391 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +L +L+ RE V+R+RFG+ TLEE+G F +TRER+RQIEA+A+ KL+ P Sbjct: 392 DIHGLLRTALSDRECDVVRLRFGLDDGKARTLEEIGTVFSITRERVRQIEARALHKLRQP 451 Query: 671 SRSKKLRSF 679 R+ L ++ Sbjct: 452 YRNHMLEAY 460 >gi|284031338|ref|YP_003381269.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kribbella flavida DSM 17836] gi|283810631|gb|ADB32470.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kribbella flavida DSM 17836] Length = 316 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 143/225 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ V ANLRLV+S+A++Y + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 83 AQQRFVTANLRLVVSIARRYGRSQMPLLDLVQEGNTGLIRAVEKFDYRKGFKFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAITR IA Q+ +R+PVH+ ++++++ R + K+ REP +EIA +L + E V Sbjct: 143 VRQAITRGIAQQARVVRLPVHVVEQLNQIGSARRTLERKLGREPEIDEIAAELDLDEERV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++I ++ ISL+ PI DE + LGD I + A P A+ R ++ L PR Sbjct: 203 TELIRIGRDHISLDNPIDDEGETSLGDLIAAETAPGPDQLVADASDRSGLFSLVDQLDPR 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+R R+G+ L ++G ++ ER+RQIE +A+ +L+ Sbjct: 263 SADVIRRRYGLHDGRQAKLADIGAVHGISAERVRQIEREALGRLR 307 >gi|73541783|ref|YP_296303.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha JMP134] gi|72119196|gb|AAZ61459.1| Sigma-70 region 1.2 [Ralstonia eutropha JMP134] Length = 391 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 100/271 (36%), Positives = 163/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ +S E H ++ + G+ A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 119 VQHYLNRISIKPLLSAPEELHFSTLAKDGDFSA---RQVMIERNLRLVVSIAKGYLNRGV 175 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 176 PLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 235 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + R+ + E+IA L + V+ VL + + SL+TP + S Sbjct: 236 LNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTPDEVQDVLALNEHTTSLDTPFDLDPGS 295 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ +P L LA L+ + V+ RFG+ TLEE+ Sbjct: 296 SLLDFLSDEHNAAPDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELA 355 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++ +TRER+RQI+ +A+ KLK S+ +R Sbjct: 356 EEMGLTRERVRQIQQEALVKLKRHFASQGVR 386 >gi|172060780|ref|YP_001808432.1| RNA polymerase sigma factor RpoS [Burkholderia ambifaria MC40-6] gi|171993297|gb|ACB64216.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MC40-6] Length = 361 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|107029001|ref|YP_626096.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia AU 1054] gi|105898165|gb|ABF81123.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia AU 1054] Length = 362 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DPDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|301601109|dbj|BAJ13243.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 119/255 (46%), Positives = 149/255 (58%), Gaps = 38/255 (14%) Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 DEE + +LA A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAK Sbjct: 19 DEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAK 76 Query: 145 RIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKGGF-FHG 202 RIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K F Sbjct: 77 RIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQS 136 Query: 203 TEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 E ++ +EK R DD+ GD++ + +D+ Sbjct: 137 PEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEEDEDE-------------- 182 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN------AVNGQKDEKS 310 S +L+AME +LRP+VM LD IA+ Y++LR LQD A G Sbjct: 183 --------SNLSLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEARLACAGTLSSGQ 234 Query: 311 SVKCKVLKEKLVKLV 325 + K LK++L+ V Sbjct: 235 ERRYKELKDQLITAV 249 >gi|301601140|dbj|BAJ13258.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 119/241 (49%), Positives = 148/241 (61%), Gaps = 29/241 (12%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDGDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 LE GPE+K F E ++ +EK R V+ +E DI + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEE 177 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 + E+ NL +L+AME +LRP+VM LD IA+ Y++LR LQD V Sbjct: 178 EDEDES------NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEA 222 Query: 305 Q 305 + Sbjct: 223 R 223 >gi|193212077|ref|YP_001998030.1| RNA polymerase sigma 32 subunit RpoH [Chlorobaculum parvum NCIB 8327] gi|193085554|gb|ACF10830.1| RNA polymerase, sigma 32 subunit, RpoH [Chlorobaculum parvum NCIB 8327] Length = 299 Score = 183 bits (465), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 91/240 (37%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDPNTKELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHM-PDHTLNRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V+R FGIGM TLEE+G++F +TRER+RQI+ KAIR+L+ + + L+ ++ Sbjct: 238 APREADVIRSYFGIGMENPLTLEEIGEKFKLTRERVRQIKEKAIRRLRQSAYKEVLKEYI 297 >gi|88808921|ref|ZP_01124430.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] gi|88786863|gb|EAR18021.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 7805] Length = 322 Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 146/226 (64%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R P+ E+A + +P + V Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEDEV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++P+SLE +GD D + L D + + P + L+ +L L Sbjct: 206 KELMCRARQPVSLEMKVGDGDDTELLDLLAGDGEL-PSEQVEGECLKGDLRDLLGQLPEL 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +ERVLRMR+G+ +L + K ++R+R R++E + ++ L+ Sbjct: 265 QERVLRMRYGMDGEEPMSLTGIAKTLKMSRDRTRRLEREGLQSLRQ 310 >gi|270668763|ref|ZP_06222551.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae HK1212] gi|270316653|gb|EFA28454.1| RNA polymerase sigma factor RpoD [Haemophilus influenzae HK1212] Length = 151 Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 90/147 (61%), Positives = 113/147 (76%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 D I + N + T ++I++ R I V +GE +A AKKEMVEANLRLVIS+AKKY Sbjct: 5 DRIYEALNNLAITEENTKLTITQMRDICDAVARGEQKARRAKKEMVEANLRLVISIAKKY 64 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 TNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPV Sbjct: 65 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 124 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPE 550 HM + I+K+ R +R++ ++ RE TPE Sbjct: 125 HMIETINKLNRISRQLLQEMGREATPE 151 >gi|78186275|ref|YP_374318.1| RNA polymerase sigma-70 factor [Chlorobium luteolum DSM 273] gi|78166177|gb|ABB23275.1| RNA polymerase sigma-70 factor [Chlorobium luteolum DSM 273] Length = 299 Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 91/240 (37%), Positives = 154/240 (64%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++++ NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA Sbjct: 59 AKRALDKLIKGNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETRGFKFISYA 118 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P +E+A L M Sbjct: 119 VWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEFERDPNTKELANLLDMDS 178 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V LKI +S++ P D + L D +++ + P + +L R L+ L Sbjct: 179 QDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHL-PDHGLNRDSLTLEVERSLSVL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 PRE V++ FGIGM+ TLEE+G++F +TRER+RQI+ KAIR+L+ + K L+ ++ Sbjct: 238 APREADVIKSYFGIGMDNPLTLEEIGEKFKLTRERVRQIKEKAIRRLRTSAYCKVLKEYI 297 >gi|78066590|ref|YP_369359.1| RNA polymerase sigma factor RpoS [Burkholderia sp. 383] gi|77967335|gb|ABB08715.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. 383] Length = 362 Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|288940519|ref|YP_003442759.1| RNA polymerase sigma-70 subunit RpoD subfamily [Allochromatium vinosum DSM 180] gi|288895891|gb|ADC61727.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Allochromatium vinosum DSM 180] Length = 338 Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 84/238 (35%), Positives = 149/238 (62%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R + + A++ M+ NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 86 IRFARLAQAGDNAARQRMIVCNLRLVVKIARRYLNRGLPLLDLIEEGNLGLIRAVEKFDP 145 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ T+R+P+H+ +I+ ++ +R+++ + +PT E Sbjct: 146 ERGFRFSTYATWWIRQTIERAIMNQTRTVRLPIHVVKEINIYLKASRQLAQSLDHDPTSE 205 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +IA+ L P+ V+++L + + S++TP + L D ++D + P + ++ Sbjct: 206 DIAQLLDRPINEVKRMLGLNERITSVDTPYSKDADKPLVDMLQDDGSSDPTERIQDDDIH 265 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L ++ V+ RFG+ + + TLE V ++ VTRER+RQI+ A+R+L+ Sbjct: 266 VNIEHWLGLLNDKQREVVERRFGLHGHENSTLESVARELGVTRERVRQIQMDALRRLR 323 >gi|113868347|ref|YP_726836.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha H16] gi|113527123|emb|CAJ93468.1| DNA-directed RNA polymerase sigma subunit (sigma38) [Ralstonia eutropha H16] Length = 392 Score = 183 bits (464), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 100/271 (36%), Positives = 163/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ +S E H ++ + G+ A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 120 VQHYLNRISIKPLLSAPEELHFSTLAKDGDFAA---RQVMIERNLRLVVSIAKGYLNRGV 176 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 177 PLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 236 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + R+ + E+IA L + V+ VL + + SL+TP + S Sbjct: 237 LNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTPDEVQDVLALNEHTTSLDTPFDLDPGS 296 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ +P L LA L+ + V+ RFG+ TLEE+ Sbjct: 297 SLLDFLSDEHNAAPDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELA 356 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++ +TRER+RQI+ +A+ KLK S+ +R Sbjct: 357 EEMGLTRERVRQIQQEALVKLKRHFASQGVR 387 >gi|115351809|ref|YP_773648.1| RNA polymerase sigma factor RpoS [Burkholderia ambifaria AMMD] gi|115281797|gb|ABI87314.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria AMMD] Length = 361 Score = 183 bits (464), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|206560255|ref|YP_002231019.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia J2315] gi|198036296|emb|CAR52192.1| RNA polymerase sigma factor [Burkholderia cenocepacia J2315] Length = 362 Score = 183 bits (464), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|171321354|ref|ZP_02910311.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MEX-5] gi|171093372|gb|EDT38562.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria MEX-5] Length = 361 Score = 183 bits (464), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|83815083|ref|YP_446059.1| RNA polymerase sigma-70 factor [Salinibacter ruber DSM 13855] gi|83756477|gb|ABC44590.1| RNA polymerase sigma-70 factor [Salinibacter ruber DSM 13855] Length = 313 Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 96/238 (40%), Positives = 155/238 (65%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ANLR V+SVAKKY +GL DLI EGN GL+KAA++FD G+KF +YA+WW Sbjct: 76 ALHKLCRANLRFVVSVAKKYQGQGLSLADLINEGNYGLIKAAKRFDETRGFKFISYAVWW 135 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++A+QS +R+P++ I K+ + + R+ + R+P EE+A++L + V+ V Sbjct: 136 IRQAILQALAEQSRVVRLPLNRIGTISKIRKASARLQQDLDRKPNIEELAEELEIDVQKV 195 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ +K T +S++ P +ED + L D + D++ SP + + +++ R L++L R Sbjct: 196 REAMKHTSRHLSMDAPFNEEDDNSLLDVLPDEDNDSPDEEMLSESVKIDIERALSALHDR 255 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E + R+ FGIG TLEE+GK+F +TRER+RQI+ KA+RKL+ + L+ D Sbjct: 256 EAEITRLYFGIGREHPLTLEEIGKRFDLTRERVRQIKEKALRKLRQRHSKQDLQPHTD 313 >gi|170703618|ref|ZP_02894360.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria IOP40-10] gi|170131475|gb|EDT00061.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia ambifaria IOP40-10] Length = 361 Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|94311053|ref|YP_584263.1| RNA polymerase sigma factor RpoS [Cupriavidus metallidurans CH34] gi|93354905|gb|ABF08994.1| RNA polymerase sigma 38 (sigma S) factor [Cupriavidus metallidurans CH34] Length = 386 Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 100/271 (36%), Positives = 163/271 (60%), Gaps = 5/271 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +++ + IS++ +S E H ++ + G+ A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 114 VQHYLNRISIKPLLSAPEELHFSTLAKGGDFSA---RQVMIERNLRLVVSIAKGYLNRGV 170 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 171 PLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 230 Query: 529 IHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 +++V+R R + R+ + E+IA L + V+ VL + + SL+TP + S Sbjct: 231 LNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTPDEVQDVLALNEHTTSLDTPFDLDPGS 290 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L DF+ D++ +P L LA L+ + V+ RFG+ TLEE+ Sbjct: 291 SLLDFLSDEHNAAPDQEVAHRELENLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELA 350 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++ +TRER+RQI+ +A+ KLK S+ +R Sbjct: 351 EEMGLTRERVRQIQQEALVKLKRHFASQGVR 381 >gi|114155174|dbj|BAF31037.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 119/241 (49%), Positives = 148/241 (61%), Gaps = 29/241 (12%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDGDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKV 244 LE GPE+K F E ++ +EK R V+ +E DI + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEE 177 Query: 245 DSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNG 304 + E+ NL +L+AME +LRP+VM LD IA+ Y++LR LQD V Sbjct: 178 EDEDES------NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEA 222 Query: 305 Q 305 + Sbjct: 223 R 223 >gi|297626467|ref|YP_003688230.1| RNA polymerase principal sigma factor HrdD [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296922232|emb|CBL56802.1| RNA polymerase principal sigma factor HrdD [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 309 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 90/229 (39%), Positives = 141/229 (61%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A + V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTY Sbjct: 75 EGERAMQHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTY 134 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WWV+QAI+R IA Q +R+PVH+ ++++++ R + ++ REP EIA +L + Sbjct: 135 ATWWVRQAISRGIAQQGRIVRLPVHVAEQVNQISAVRRNLERQLGREPEVSEIANELGLE 194 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V +++ ++E +SL+ P+ D+ + LGD I + A P + + R +LA+ Sbjct: 195 ENKVIDLIRYSREHVSLDAPVEDDGDTSLGDLIARETAPGPDELVLDLEDRSRLEALLAN 254 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R V+R R+G+ L ++GK + +T ER+RQIE A+ +L+ Sbjct: 255 LDDRSADVMRRRYGLLDGHQAKLSDIGKVWGITAERVRQIERAALNQLR 303 >gi|301601122|dbj|BAJ13249.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] gi|301601124|dbj|BAJ13250.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 118/242 (48%), Positives = 146/242 (60%), Gaps = 41/242 (16%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQ 298 D+ NL +L+AME +LRP+VM LD IA+ Y++LR LQ Sbjct: 179 DEDES-------------NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQ 216 Query: 299 DN 300 D Sbjct: 217 DQ 218 >gi|281420881|ref|ZP_06251880.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405173|gb|EFB35853.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 287 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 95/271 (35%), Positives = 172/271 (63%), Gaps = 9/271 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I+ E +S E + +RKG+ A + + +ANLR V+SVAK+Y N+G+ D Sbjct: 22 LQDIAHEELLSTDEEVELAQRIRKGDRRAL---ERLTKANLRFVVSVAKQYQNQGISLPD 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 79 LINEGNVGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRLVRLPLNQVGSVNKI 138 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP--ISLETPIGDEDTSHLGD 590 R + + +R+P+ +EIA ++ +P + + +K T +S++ P D++ + D Sbjct: 139 NREMSKFEQEFERKPSVDEIADRIDLPEDKIEDAMKATSTSRHLSVDAPFSDDEDGSMLD 198 Query: 591 FIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + N+ P D +Q +LR R+L +L ++++++ +GIG + TLEE+G ++ Sbjct: 199 LM--ANSDDPTDKELQTESLRAEIERLLKTLPDKDQKIIAAFYGIG-TPELTLEEIGTKY 255 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI+ K IR+L++ + K L+S+L Sbjct: 256 HLTRERVRQIKEKTIRRLRNKTTDKLLKSYL 286 >gi|169245684|gb|ACA50888.1| RpoD [Agrobacterium tumefaciens] gi|169245688|gb|ACA50890.1| RpoD [Agrobacterium tumefaciens str. C58] gi|169245694|gb|ACA50893.1| RpoD [Agrobacterium tumefaciens] Length = 174 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 96/174 (55%), Positives = 121/174 (69%), Gaps = 6/174 (3%) Query: 279 KVMCALDEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IA+ Y++LR LQD A G + K LK++L+ V SLSLNQ Sbjct: 1 QVMETLDTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKSLSLNQ 60 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + Sbjct: 61 NRIDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSITNLAA 120 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 WK F E ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKK Sbjct: 121 RGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKK 174 >gi|114155176|dbj|BAF31038.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 249 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 115/229 (50%), Positives = 143/229 (62%), Gaps = 24/229 (10%) Query: 79 DGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREG 138 DGD+ + EG E + A N++V K+K+ DR TDDPVRMYLREMGS+ELLSREG Sbjct: 17 DGDEEAESEGGE-----LAPAGNTAVATAKKKEPTDR-TDDPVRMYLREMGSVELLSREG 70 Query: 139 EIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESKG 197 EIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIIDLE GPE+K Sbjct: 71 EIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKA 130 Query: 198 GF-FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 F E ++ +EK R V+ +E DI + + + E+ Sbjct: 131 APQFQSPEKIEADRKAAEEKEKTR-RVRSSEDDITNVGGDMPMPEEEEEDEDES------ 183 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ 305 NL +L+AME +LRP+VM LD IA+ Y++LR LQD V + Sbjct: 184 NL---------SLAAMEAELRPQVMETLDLIADTYKKLRKLQDQQVEAR 223 >gi|113954561|ref|YP_729335.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113881912|gb|ABI46870.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 335 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 94/256 (36%), Positives = 156/256 (60%), Gaps = 8/256 (3%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 ++ G+S ++ + + R+ AK+ MV ANLRLV+SVAKKYT R ++ LDLIQ Sbjct: 79 VAKAAGVSAAQLKRKLQAGRR-------AKERMVAANLRLVVSVAKKYTKRNMELLDLIQ 131 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EG IGL++ EKFD GYKFSTYA WW++Q ITR+IA++S TIR+P+H+ + ++K+ + Sbjct: 132 EGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKG 191 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 R +S ++ R P+ E+A + +P E V+ ++ ++P+SLE +GD D + L + + Sbjct: 192 QRELSQELGRTPSVTELASFVELPEEEVKDLMCRARQPVSLEMKVGDGDDTELLELLAGD 251 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 + P D L+ +L+ L + +VLRMR+G+ +L +G+ ++R+R Sbjct: 252 GEL-PSDQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRDR 310 Query: 656 IRQIEAKAIRKLKHPS 671 +R +E + L+ S Sbjct: 311 VRNLERDGLAGLRRLS 326 >gi|167562539|ref|ZP_02355455.1| RNA polymerase sigma factor RpoS [Burkholderia oklahomensis EO147] gi|167569723|ref|ZP_02362597.1| RNA polymerase sigma factor RpoS [Burkholderia oklahomensis C6786] Length = 362 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 165/269 (61%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE +A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFDA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRM-SNKI-------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + N + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSLSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|169245678|gb|ACA50885.1| RpoD [Agrobacterium tumefaciens] gi|169245698|gb|ACA50895.1| RpoD [Agrobacterium tumefaciens] gi|169245702|gb|ACA50897.1| RpoD [Agrobacterium rhizogenes] gi|169245712|gb|ACA50902.1| RpoD [Agrobacterium tumefaciens] Length = 174 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 96/174 (55%), Positives = 121/174 (69%), Gaps = 6/174 (3%) Query: 279 KVMCALDEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IA+ Y++LR LQD A G + K LK++L+ V SLSLNQ Sbjct: 1 QVMETLDTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKSLSLNQ 60 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +RID LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + Sbjct: 61 NRIDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSIANLAA 120 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 WK F E ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKK Sbjct: 121 RGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKK 174 >gi|20330084|emb|CAD30008.1| RNA polymerase sigma factor [Burkholderia cepacia] Length = 362 Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|87123242|ref|ZP_01079093.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86168962|gb|EAQ70218.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 309 Score = 182 bits (462), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 95/235 (40%), Positives = 149/235 (63%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 74 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 133 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 134 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAGFVELPEEEV 193 Query: 564 RKVLKITKEPISLETPIGDEDTSHL-------GDFIEDKNAVSPLDSAIQANLRETTTRV 616 + ++ ++P+SLE +GD D + L G+ E++ V ++ +LR+ + Sbjct: 194 KDLMCRARQPVSLEMKVGDGDDTELLELLAGDGELPEEQVEV----ECLKGDLRD----L 245 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 L L + RVLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 246 LEQLPDLQRRVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDGLAGLRRLS 300 >gi|116689841|ref|YP_835464.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia HI2424] gi|170733180|ref|YP_001765127.1| RNA polymerase sigma factor RpoS [Burkholderia cenocepacia MC0-3] gi|116647930|gb|ABK08571.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia HI2424] gi|169816422|gb|ACA91005.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia cenocepacia MC0-3] Length = 362 Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 261 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|319955411|ref|YP_004166678.1| RNA polymerase, sigma 70 subunit, rpod subfamily [Cellulophaga algicola DSM 14237] gi|319424071|gb|ADV51180.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulophaga algicola DSM 14237] Length = 286 Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 90/247 (36%), Positives = 159/247 (64%), Gaps = 3/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +V ANLR V+SVAK+Y GL+ DLI EGN+GL+KAA++FD G Sbjct: 43 IREGD---QVALNTLVNANLRFVVSVAKQYQGSGLRLSDLINEGNVGLVKAAKRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++I++ S +R+P++ +I K+ + + ++R P EIA Sbjct: 100 FKFISYAVWWIRQSILQAISELSRMVRLPLNKIGEIGKINKVFSYLEQSLQRPPNAIEIA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L M V+ +K T + +S++ P + ++S+L + ++ K A SP + +Q +L Sbjct: 160 RELDMSTSQVKLAMKNTGKHLSMDAPFAEGESSNLYNVVQSKEANSPDTNLMQESLSSDI 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L++L RE ++R+ +GIG +L E+G+ F ++RER+RQI KAIR L+ S+ Sbjct: 220 GDLLSTLPSRESDIIRLYYGIGEKAPMSLTEIGEIFDISRERVRQIREKAIRVLRRKSQK 279 Query: 674 KKLRSFL 680 + L+++L Sbjct: 280 EVLKAYL 286 >gi|148239880|ref|YP_001225267.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH 7803] gi|147848419|emb|CAK23970.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 322 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 144/226 (63%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S + R P+ E+A + +P + V Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSVTELAAFVELPEDEV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++P+SLE +GD D + L D + + P + L+ +L L Sbjct: 206 KELMCRARQPVSLEMKVGDGDDTELLDLLAGDGEL-PSEQVEGECLKGDLRDLLGQLPEL 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +ERVLRMR+G+ +L + K ++R+R R++E + + L+ Sbjct: 265 QERVLRMRYGMDGEDPMSLTGIAKTLKMSRDRTRRLEREGLESLRQ 310 >gi|86130344|ref|ZP_01048944.1| RNA polymerase sigma factor RpoD [Dokdonia donghaensis MED134] gi|332293359|ref|YP_004431968.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] gi|85819019|gb|EAQ40178.1| RNA polymerase sigma factor RpoD [Dokdonia donghaensis MED134] gi|332171445|gb|AEE20700.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Krokinobacter diaphorus 4H-3-7-5] Length = 288 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 101/273 (36%), Positives = 166/273 (60%), Gaps = 4/273 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 + N ++ +S I+ E + ++KG+ A A + ANLR VISVAK+Y N+GL Sbjct: 18 LNNYLQDVSKIDLITAEEEVELAQRIQKGDERALDA---LTRANLRFVISVAKQYQNQGL 74 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I ++IA+ + T+R+P++ + Sbjct: 75 SLSDLINEGNVGLVKAAKRFDETRGFKFISYAVWWIRQSILQAIAEHARTVRLPLNKIGE 134 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-EDTSH 587 I K+ + + +R+PT EIAK L + E V+ LK +S++ P + E+ ++ Sbjct: 135 ISKINKAMVYLQQVHERKPTSGEIAKYLDISEEKVKISLKNVSRSLSMDAPFAEGENDNN 194 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D + + P +Q +L R L +LT +E V+R+ +G+G TL+E+G Sbjct: 195 LYDVLSSSESPRPDRELMQESLSIEINRALDTLTEKEAEVVRLNYGLGNQPAMTLQEIGD 254 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 F ++RER+RQI KAI++L+H S+SK L +L Sbjct: 255 IFDLSRERVRQIREKAIKRLRHTSKSKILMKYL 287 >gi|238027063|ref|YP_002911294.1| RNA polymerase sigma factor RpoS [Burkholderia glumae BGR1] gi|76057940|emb|CAJ30487.1| stationary phase sigma factor [Burkholderia plantarii] gi|121663602|emb|CAM12359.1| stationary phase sigma factor [Burkholderia glumae] gi|237876257|gb|ACR28590.1| Stationary phase sigma factor [Burkholderia glumae BGR1] Length = 364 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 162/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 86 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 142 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 143 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 202 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE ++IA E V +L + + SL+ P+ Sbjct: 203 LNQVLRAKRHLEKNSMSTGEAAERREAGIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 262 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 263 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 321 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 322 ATLEELADEMGLTRERVRQIQQEALVRLK 350 >gi|239934542|emb|CAR94585.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 297 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 121/308 (39%), Positives = 183/308 (59%), Gaps = 26/308 (8%) Query: 140 IAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 IAIAKRIEAGR M+A LCESP+TFQA+I+WR+ELN+ LLR+IIDL+A +G KG Sbjct: 6 IAIAKRIEAGRDTMIAGLCESPVTFQAIIVWREELNEERVLLRDIIDLDATLG---KG-- 60 Query: 200 FHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLD 259 Q +++ + E +++ A +++ ++ D+P +A + + D Sbjct: 61 -------PGQPGNEANNANAGGNAASNEA-VKAEAPAKQENAAEGDAPKTDASEADVSDD 112 Query: 260 EDEDDSAH--TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQ--------KDEK 309 +D+DD+ +L+AME LRP+V+ D+IA Y++L L++ + G+ + EK Sbjct: 113 DDDDDADSNMSLAAMEALLRPQVLEIFDKIAANYKKLHKLEEARIEGKVGNDPLSTQQEK 172 Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDV 369 VK L+++ V LV SL LN +RI+ LV+ +Y I+KR++ EG LLRLA +G+ R Sbjct: 173 RYVK---LRDETVTLVQSLHLNNNRIEALVDLMYSINKRLIGFEGRLLRLADYHGVDRAE 229 Query: 370 FLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRH 429 FL++++ ELD +W W+ F E I +IR+EI IS ETG+ I EFR Sbjct: 230 FLDQYRSHELDANWSRRVGRLKSKGWQEFTKKERVQIKEIRDEIAQISQETGLEIGEFRR 289 Query: 430 IVSMVRKG 437 IV V+KG Sbjct: 290 IVHTVQKG 297 >gi|330817175|ref|YP_004360880.1| Stationary phase sigma factor [Burkholderia gladioli BSR3] gi|327369568|gb|AEA60924.1| Stationary phase sigma factor [Burkholderia gladioli BSR3] Length = 366 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 101/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 88 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 144 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 145 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 204 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 205 LNQVLRAKRHLEKNSMSTGEAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 264 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 265 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNNIEP 323 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 324 ATLEELADEMGLTRERVRQIQQEALVRLK 352 >gi|254432550|ref|ZP_05046253.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] gi|197627003|gb|EDY39562.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Cyanobium sp. PCC 7001] Length = 319 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 95/233 (40%), Positives = 146/233 (62%), Gaps = 6/233 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 79 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 139 IRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVTELAGYVELPEEEV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +L ++P+SLET +GD + + L D + + P + L+ +L L Sbjct: 199 KDLLCRARQPVSLETKVGDGEDTELLDLLAGDGEL-PEERVDGECLKGDLRALLEQLPEL 257 Query: 624 EERVLRMRFGIG-----MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVL+MR+GI M +L +G+ ++R+R+R +E + L+ S Sbjct: 258 QGRVLKMRYGIDPQSAEMAEPMSLTGIGRILGISRDRVRNLERDGLAGLRRLS 310 >gi|88854620|ref|ZP_01129287.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] gi|88816428|gb|EAR26283.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1] Length = 1108 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 98/240 (40%), Positives = 144/240 (60%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +N RLV S+A++Y N GL + DLIQEG +GL++A +KFD+ G+KFSTYA WW Sbjct: 683 AFARFAASNYRLVFSIARRYVNNGLDYADLIQEGALGLLRAIQKFDYMKGFKFSTYATWW 742 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAITR++AD TIRIPVHM ++ +K+ + AR + R+PT E+A + + Sbjct: 743 VRQAITRALADLGSTIRIPVHMVEQQNKLRQAARSFELQNDRKPTISELAAGAEVTEQDA 802 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + L +S++ + E L + + D++ V+P+D I A R VL++L Sbjct: 803 SRALGYEYSFLSIDKELDPGEGFGSLHNLLVDES-VAPVDLLIHAEFRGAMNNVLSALPK 861 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK-KLRSFLD 681 RE ++MRFGIG TL+ +G F VTRERIRQIE K + L+ + + +L FLD Sbjct: 862 RESTTIQMRFGIGGQDPATLDHIGDIFGVTRERIRQIEKKTMESLRSSAEVQGRLGDFLD 921 >gi|116074383|ref|ZP_01471645.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116069688|gb|EAU75440.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 341 Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 91/228 (39%), Positives = 145/228 (63%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 106 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 165 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 166 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEEEV 225 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + + P + L+ +L L Sbjct: 226 KDLMCRARQPVSLEMKVGDGDDTELLELLAGDGEL-PSEQVEGECLKGDLRDLLEQLPEL 284 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + +VLRMR+G+ +L +G+ ++R+R+R +E + L+ S Sbjct: 285 QRKVLRMRYGMNGEDPMSLTGIGRIIGISRDRVRNLERDGLAGLRRLS 332 >gi|134295851|ref|YP_001119586.1| RNA polymerase sigma factor RpoS [Burkholderia vietnamiensis G4] gi|134139008|gb|ABO54751.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia vietnamiensis G4] Length = 361 Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 100/269 (37%), Positives = 163/269 (60%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE +A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 83 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFDA---RQVMIERNLRLVVSIAKGYLNRGV 139 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 140 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 199 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +RE + ++IA E V +L + + SL+ P+ Sbjct: 200 LNQVLRAKRHLEKNSMSTGDAAERREASIDDIAYLTGKTAEEVTDILALNEHTASLDAPL 259 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 + S L D + D + SP D+ +Q ET TR L+ L+ + V+ RFG+ Sbjct: 260 DLDPASSLLDLLPDDQSQSP-DAEVQHRELETLTRAWLSRLSDKHRHVIERRFGLNHIEP 318 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 319 ATLEELADEMGLTRERVRQIQQEALVRLK 347 >gi|169245674|gb|ACA50883.1| RpoD [Agrobacterium tumefaciens] gi|169245676|gb|ACA50884.1| RpoD [Agrobacterium tumefaciens] gi|169245680|gb|ACA50886.1| RpoD [Agrobacterium tumefaciens] gi|169245682|gb|ACA50887.1| RpoD [Agrobacterium tumefaciens] gi|169245686|gb|ACA50889.1| RpoD [Agrobacterium tumefaciens] gi|169245690|gb|ACA50891.1| RpoD [Agrobacterium tumefaciens] gi|169245692|gb|ACA50892.1| RpoD [Agrobacterium tumefaciens] gi|169245696|gb|ACA50894.1| RpoD [Agrobacterium tumefaciens] gi|169245700|gb|ACA50896.1| RpoD [Agrobacterium tumefaciens] gi|169245704|gb|ACA50898.1| RpoD [Agrobacterium tumefaciens] gi|169245706|gb|ACA50899.1| RpoD [Agrobacterium tumefaciens] gi|169245708|gb|ACA50900.1| RpoD [Agrobacterium tumefaciens] gi|169245710|gb|ACA50901.1| RpoD [Agrobacterium tumefaciens] Length = 174 Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 95/174 (54%), Positives = 121/174 (69%), Gaps = 6/174 (3%) Query: 279 KVMCALDEIAEVYRELRSLQDN------AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQ 332 +VM LD IA+ Y++LR LQD A G + K LK++L+ V SLSLNQ Sbjct: 1 QVMETLDTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKDLKDQLITAVKSLSLNQ 60 Query: 333 SRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPE 392 +R+D LVEQLYDISKR+M NEG LLRLA+SYG+KRD FLE++ G ELDP+W+ + Sbjct: 61 NRVDSLVEQLYDISKRLMQNEGRLLRLAESYGVKRDSFLEQYHGAELDPNWMKSIANLAA 120 Query: 393 GEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 WK F E ++I +IR EI+++S ETGISI+EFR IVSMV+KGE EA IAKK Sbjct: 121 RGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKK 174 >gi|159904297|ref|YP_001551641.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159889473|gb|ABX09687.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9211] Length = 335 Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 92/226 (40%), Positives = 145/226 (64%), Gaps = 3/226 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+S+AKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 100 AKERMVAANLRLVVSIAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWW 159 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S IR+P+H+ + ++K+ + R +S ++ R P+ E+A+ + + E V Sbjct: 160 IRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRDLSQQLSRTPSVAELAEYIDVSEEEV 219 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ +P+SLE +GD+D + L D + N SP I+ + + +L P Sbjct: 220 KDLMLKASQPVSLEMKVGDKDDTVLLDLLSTDND-SP-QQQIELDCMKGDLEILLEKLPE 277 Query: 624 -EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + RVLRMR+GI +L +G+ ++R+R+R +E +R L+ Sbjct: 278 LQYRVLRMRYGIDGEEPMSLTGIGRVLGISRDRVRNLERSGLRGLR 323 >gi|86605925|ref|YP_474688.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab] gi|86554467|gb|ABC99425.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab] Length = 318 Score = 181 bits (459), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 99/240 (41%), Positives = 145/240 (60%), Gaps = 8/240 (3%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GI + E + I+ R+GE AKK MVE NLRLV+S+AK+Y NRGL FLDLIQEG IG Sbjct: 60 GIPLEELQQIL---RQGEA----AKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIG 112 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L +A EKFD GYKFSTYA WW++Q++ R I ++ IR+P HM +K+ +V R R +S Sbjct: 113 LTRAVEKFDPTRGYKFSTYATWWIRQSVNRGIQNKGRLIRLPAHMYEKVSQVKRRYRELS 172 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + P EE+ L + + + E SL +GDED + L FI D++ P Sbjct: 173 AEKGSRPAAEEVFDSLDIGDNYRELITRHMAEIRSLNVGVGDEDGTELQHFIPDEDN-DP 231 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ + E +++ L+ RE++V+ R+G+ + TL E+G+ ++RER+RQIE Sbjct: 232 IEHLNRVAHCEEVRALVSQLSEREQQVIVARYGLDGSKGLTLREIGEHIGLSRERVRQIE 291 >gi|54302639|ref|YP_132632.1| DNA-directed RNA polymerase sigma factor [Photobacterium profundum SS9] gi|90412658|ref|ZP_01220660.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum 3TCK] gi|46916063|emb|CAG22832.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum SS9] gi|90326466|gb|EAS42878.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium profundum 3TCK] Length = 291 Score = 181 bits (459), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 93/227 (40%), Positives = 144/227 (63%), Gaps = 1/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK M+E+NLRLV+S+AKKY G+Q DLI EGNIGL+ + EKFD G++FSTYA WW Sbjct: 48 AKKVMIESNLRLVVSIAKKYRGSGMQLSDLIDEGNIGLITSVEKFDPERGFRFSTYATWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R I +Q+ TIR+PVH+ +I+ ++RT +++ K +EPT EE+A+KL V+ + Sbjct: 108 IKQTIERCIHNQARTIRLPVHVSKEINTIIRTHKQLMKKNNQEPTREEVAEKLERSVDDI 167 Query: 564 RKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 VL +S + I D+ S + FI D ++ P + +++ +L +L Sbjct: 168 SSVLAYDAPIVSFDQTINDDANSQSISVFIADDSSDKPESQVDKDDIKGLALAMLENLNQ 227 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ +L RFG+ TL++V + +TRERIRQ++ +++KLK+ Sbjct: 228 RDREILCRRFGLLGYEVQTLQQVANEVGLTRERIRQLQVSSLKKLKN 274 >gi|9621765|gb|AAF89531.1|AF160964_1 RNA polymerase sigma factor [Peanut witches'-broom phytoplasma] Length = 458 Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 109/237 (45%), Positives = 144/237 (60%), Gaps = 10/237 (4%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +NLR+V+S+AKK + RG FLDLI EGN+GLMK +KFD+ G+KFSTYA WW++QAITR Sbjct: 222 SNLRIVVSIAKKQSERGQYFLDLIHEGNMGLMKTVDKFDYTKGFKFSTYATWWIRQAITR 281 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPVEGVR-KV 566 ++ADQS TIR PVH+ D ++K +++ + R+ EIAK AM +E + + Sbjct: 282 AVADQSRTIRCPVHVSDILNKNFAFKSKLTQDLARKARKAENHEIAK--AMNIETKKLMI 339 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREE 625 K K F + + N ++T L +LTPRE+ Sbjct: 340 YKWLKRNDFFRNIYSWWRWFFFRWFYKRSLRYFASWLYVTRNFKKTLEESLEEALTPREQ 399 Query: 626 RVLRMRFGI--GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 VL+MR+GI G N HTLEEVG + VTRERIRQIE KA+RKL+HPSRS L SFL Sbjct: 400 LVLKMRYGILEGDNRVHTLEEVGAKLGVTRERIRQIETKALRKLRHPSRSNPL-SFL 455 >gi|161899381|ref|XP_001712917.1| sigma 2 transcription factor [Bigelowiella natans] gi|75756411|gb|ABA27305.1| sigma 2 transcription factor [Bigelowiella natans] Length = 389 Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 95/233 (40%), Positives = 156/233 (66%), Gaps = 2/233 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 I+K+ +++ +L+L+IS+AK+Y GL F DLI EG +GLMK K+D+ G+KFSTYA Sbjct: 147 GKISKEILIKRSLKLIISIAKRYNGCGLSFEDLIAEGILGLMKGIRKYDFSKGHKFSTYA 206 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++Q+I+RSI DQS IR+PV++++ + K+ + + KR PT EEI+ + +P+ Sbjct: 207 HWWIRQSISRSIDDQSRIIRLPVYVKEILSKINKIKNKFYEDKKRYPTEEEISLLIGIPL 266 Query: 561 EGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + +RK+L + ISL++ I ++ D++ L D IED ++ AI+ +L++ + L Sbjct: 267 KKLRKLLLSCNDLISLDSLIENDSNDSNMLNDSIEDSKVINSEVYAIEKSLKQDLNKALL 326 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L+ RE V+R+R+G+ + TLEE+G+ VTRER RQIE KA++KL+ + Sbjct: 327 TLSDRESAVIRLRYGLDDGNERTLEEIGEYLNVTRERARQIEIKALKKLQFNT 379 >gi|300312263|ref|YP_003776355.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] gi|300075048|gb|ADJ64447.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 96/277 (34%), Positives = 169/277 (61%), Gaps = 6/277 (2%) Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K +A E+ S ++ + I + ++ +E H + + GE +A+++M+E NL Sbjct: 51 ELKKVLAAEL-STDTTQHYLNKIGAKPLLTAAEELHFATQAKAGEF---VARQKMIEHNL 106 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK Y NRG+ LDLI+EGN+GLM+A +KF+ G++FSTYA WW++Q+I R+I Sbjct: 107 RLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIM 166 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKVLKITK 571 +Q+ T+R+PVHM ++++++R + + + R+ + E+IA + PVE V+ VL +++ Sbjct: 167 NQARTVRLPVHMVRELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVEEVQDVLALSE 226 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 SL+TP+ ++ + L D + P A + L SL+ ++ V+ R Sbjct: 227 HAASLDTPLDNDPQASLMDLLPSAVEEHPDTRAESQEMAVLIREWLKSLSEKQRVVVARR 286 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 FG+ + TLE++ + +TRER+RQ++ +A+ KLK Sbjct: 287 FGLDNDDPSTLEQLASEMGITRERVRQVQQEALIKLK 323 >gi|58257340|gb|AAK30051.2| RpoS sigma factor [Pseudomonas fluorescens] Length = 335 Score = 181 bits (458), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 87/238 (36%), Positives = 149/238 (62%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ + AR ++ K+ EP+PE Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLGAARELTQKLDHEPSPE 202 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ + + + D + D + + +L Sbjct: 203 EIANMLEKPVTEVKRMLGLNERVSSVDVSLDPDSDKTVLDTLTDDRPTDRCEVLQEDDLS 262 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 263 QGIDQWLSELTEKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQIEGLKRLR 320 >gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea] Length = 575 Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 92/240 (38%), Positives = 151/240 (62%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 + K +M+++N+RLVIS+AK Y G+ DL+QEG GL++ AEKFD G+KFSTYA Sbjct: 334 GTFCKDKMIKSNVRLVISIAKNYQGSGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 393 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+KQA+ +S++DQS TIR+P HM + ++V +++ ++ ++P EE+A+ + + Sbjct: 394 HWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLLSENGKQPNNEEVAEATGLSM 453 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + + VL K P SL+ IG + I D A + D + +R+ +VL +L Sbjct: 454 KRLTAVLMTPKAPRSLDQKIGFNMNLKPSEVIADPEAETAEDLLTKQFMRQDLEKVLDTL 513 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + RE++V+R RFG+ TL+E+G+ V+RERIRQIE+ A RKL++ ++ L+ ++ Sbjct: 514 SSREKQVIRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLQNKKKTINLQQYM 573 >gi|116073053|ref|ZP_01470315.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] gi|116068358|gb|EAU74110.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9916] Length = 321 Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 145/226 (64%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEEEV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + + P + L+ +L L Sbjct: 206 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDGEL-PSEQVESECLKGDLRDLLEQLPEL 264 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +VLRMR+G+ +L + K ++R+R R++E + + L++ Sbjct: 265 QRKVLRMRYGMNGEDPMSLTGIAKTLKMSRDRTRRLEREGLEMLRN 310 >gi|158340427|ref|YP_001521783.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310668|gb|ABW32282.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 273 Score = 180 bits (457), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 94/241 (39%), Positives = 155/241 (64%), Gaps = 2/241 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ + AK+ M+E NLRLV+S+AKK+ NRGL F+DLIQEG+IGL +A EKF+ Sbjct: 26 IQLARQAKAGNLRAKQRMIECNLRLVVSIAKKHQNRGLPFMDLIQEGSIGLSRAVEKFEP 85 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FSTYA WW++Q ITRSI + S IR+PV +++ +T R++S + REPT Sbjct: 86 EQGYRFSTYAYWWIRQGITRSIQNNSRVIRLPVWHWQTGNQIKQTQRQLSQEFGREPTLA 145 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+A+ + + ++ +++ + ++ +SL+ +G E + LG+ IE + + +P + N Sbjct: 146 ELAEAMEIDLDKLKQNMHHLQDVLSLDMQVGKEQDTTLGELIEAEQS-TPTHLEL-LNQS 203 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E + L+ L R+ V+ R+G+ T++++G+Q V+RERIRQI KA++KL+ Sbjct: 204 EEVSSYLSLLDERQRYVIVQRYGLEDGEAKTMQDIGQQLGVSRERIRQIINKAMKKLQKN 263 Query: 671 S 671 S Sbjct: 264 S 264 >gi|312796084|ref|YP_004029006.1| RNA polymerase sigma factor rpoS [Burkholderia rhizoxinica HKI 454] gi|312167859|emb|CBW74862.1| RNA polymerase sigma factor rpoS [Burkholderia rhizoxinica HKI 454] Length = 358 Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 101/270 (37%), Positives = 163/270 (60%), Gaps = 14/270 (5%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE +A ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 79 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFDA---RQMMIERNLRLVVSIAKGYLNRGV 135 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 136 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 195 Query: 529 IHKVVRTARRMSNKI---------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 +++V+R R + R+ + ++IA + E V +L + + SL+ P Sbjct: 196 LNQVLRAKRHLERNASAPASGADEHRDASVDDIAYLIGKTPEEVADILALNEHTASLDAP 255 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER-VLRMRFGIGMNT 638 + + S L D + D+ + SP D+ Q ET TRV S P + R V+ RFG+ Sbjct: 256 LELDPASSLLDLLSDEQSQSP-DAEAQHRELETLTRVWLSRLPDKHRHVIERRFGLNNIE 314 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 315 PATLEELADEMGLTRERVRQIQQEALARLK 344 >gi|23013686|ref|ZP_00053554.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 322 Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 98/189 (51%), Positives = 127/189 (67%), Gaps = 3/189 (1%) Query: 5 KKRNRDSDSEHED-SDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQM 63 K N SE++D + D + D + KKM+ ++RGYVT +ELNA +PP+EVSSEQ+ Sbjct: 4 KSTNTAEVSENQDEAMDGPLLDTLGVAVKKMVAKGKERGYVTYDELNAAMPPEEVSSEQI 63 Query: 64 EDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRM 123 EDT+AMLS +GINVV+ ++ ED + + S +D TDDPVRM Sbjct: 64 EDTMAMLSELGINVVESEEGEDNAPEAAEEEATETEGYSGAGNVDEEDLG--RTDDPVRM 121 Query: 124 YLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLRE 183 YLREMGS+ELLSREGEIAIAKRIEAGR MM+ +CESPLT +A++ W D L +G LLR+ Sbjct: 122 YLREMGSVELLSREGEIAIAKRIEAGREMMIGGICESPLTLRAVVDWHDALVEGKMLLRD 181 Query: 184 IIDLEACIG 192 IIDL+A G Sbjct: 182 IIDLDATYG 190 >gi|323388685|gb|ADX60147.1| SIGMA70-like transcription factor [Zea mays] Length = 428 Score = 180 bits (456), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 92/237 (38%), Positives = 149/237 (62%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+AK++ G++F DLIQ+G GL++ AEKFD G++FSTY+ WW Sbjct: 187 CKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFSTYSHWW 246 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR P+ EEIA M + V Sbjct: 247 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDTGMTIRRV 306 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +S + +G D ++ + + D +A + ++ + +++ L SL+PR Sbjct: 307 EAAMSLPKYSVSFTSKVGCTDVTY-QEIMPDTSAETAEETLHRWLMKKDVNTALDSLSPR 365 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E++V+R RFGI TL ++G+ V+RERIRQIE A RKL+ +R + L+ +L Sbjct: 366 EKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLRSKNRLQSLQHYL 422 >gi|207743818|ref|YP_002260210.1| rna polymerase sigma d (sigma-70) factor (partial sequence c terminus) protein [Ralstonia solanacearum IPO1609] gi|206595218|emb|CAQ62145.1| rna polymerase sigma d (sigma-70) factor (partial sequence c terminus) protein [Ralstonia solanacearum IPO1609] Length = 684 Score = 180 bits (456), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 88/187 (47%), Positives = 127/187 (67%), Gaps = 3/187 (1%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGI 422 G+ R F+ R G E + W++ +G+ + V + ++ +++ ++ + + Sbjct: 498 GMSRGDFVSRFPGNETNLGWINTV--VADGKPYSAIVERNIPAVHELQQKLIDLQSRVVL 555 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++E + + + +GE A AK+EM EANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 556 PLAELKDVNKKMSEGERRAREAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 615 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R++ + Sbjct: 616 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQE 675 Query: 543 IKREPTP 549 EP P Sbjct: 676 TGNEPDP 682 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V D + L + Sbjct: 205 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLND 264 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 265 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 323 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 324 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 362 >gi|55274951|gb|AAV49275.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 205 Score = 180 bits (456), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 83/204 (40%), Positives = 139/204 (68%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++ Sbjct: 1 RRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIR 60 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V + Sbjct: 61 QTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSR 120 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +L++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ Sbjct: 121 MLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQR 180 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQF 649 VL RFG+ TLE+VG++ Sbjct: 181 EVLARRFGLLGYEAATLEDVGREI 204 >gi|87124760|ref|ZP_01080608.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] gi|86167639|gb|EAQ68898.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. RS9917] Length = 321 Score = 180 bits (456), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 94/233 (40%), Positives = 148/233 (63%), Gaps = 15/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 86 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A + +P E V Sbjct: 146 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAGFVELPEEEV 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHL-------GDFIEDKNAVSPLDSAIQANLRETTTRV 616 + ++ ++P+SLE +GD D + L G+ E++ V ++ +LR+ + Sbjct: 206 KDLMCRARQPVSLEMKVGDGDDTELLELLAGDGELPEEQVEV----ECLKGDLRD----L 257 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L L + RVLRMR+G+ +L + K ++R+R R++E + + L+ Sbjct: 258 LEQLPDLQRRVLRMRYGMDGEEPMSLTGIAKSLRMSRDRTRRLEREGLEMLRR 310 >gi|54401890|gb|AAV34630.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274947|gb|AAV49273.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] Length = 203 Score = 180 bits (456), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 83/203 (40%), Positives = 139/203 (68%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++ Sbjct: 1 RRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIR 60 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V + Sbjct: 61 QTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSR 120 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +L++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ Sbjct: 121 MLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQR 180 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQ 648 VL RFG+ TLE+VG++ Sbjct: 181 EVLARRFGLLGYEAATLEDVGRE 203 >gi|55274937|gb|AAV49269.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 204 Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 83/202 (41%), Positives = 138/202 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDNDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 182 LARRFGLLGYEAATLEDVGREI 203 >gi|71894468|ref|YP_278576.1| RNA polymerase sigma factor [Mycoplasma synoviae 53] Length = 490 Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 100/263 (38%), Positives = 154/263 (58%), Gaps = 18/263 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG A+ +++ NLRLV++ AKKY NRGL F+DL+ EGN GL+KAA+KFD G+K Sbjct: 222 KGGSRGKRARDLIIKRNLRLVVNAAKKYKNRGLSFIDLVSEGNAGLLKAAQKFDIKKGFK 281 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++Q+I+R++ADQ+ IR+PVHM + I+K+ + R + + E EEIA + Sbjct: 282 FSTYATWWIRQSISRAVADQARIIRVPVHMVETINKIYKIEREIQQENGGEIIDEEIAAR 341 Query: 556 LA-----MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 L +R + KI PISL+ +G E+ S GDF++D++ +SP++ A + L Sbjct: 342 LGGKSKKYDASYIRYIRKINTSPISLDKQVGKENDSFFGDFVKDESIISPVEFADKEELI 401 Query: 611 ETTTRVLASLTPREERVLRMRF-GIGMNT------DHTLEEVGKQF-----CVTRERIRQ 658 + L E L R+ GIG + TL+E+ K F +++ER+RQ Sbjct: 402 TKINYYVEKLLSEAEADLIKRYHGIGYDAKGNPVRSATLDEISKDFRGEGKKISKERVRQ 461 Query: 659 IEAKAIRKLK-HPSRSKKLRSFL 680 I K +KL+ +P + +F+ Sbjct: 462 IITKIYKKLRGYPEVVELFENFI 484 >gi|313837139|gb|EFS74853.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA2] gi|314927839|gb|EFS91670.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL044PA1] gi|314971910|gb|EFT16008.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA3] gi|328907302|gb|EGG27068.1| sigma-70 region 2 [Propionibacterium sp. P08] Length = 312 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 139/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 AMAHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGREPETSEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L +L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRGRLEGLLDNLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALDSMRQ 304 >gi|55274976|gb|AAV49287.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 204 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 83/204 (40%), Positives = 139/204 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCV 651 L RFG+ TLE+VG++ + Sbjct: 181 LARRFGLLGYEAATLEDVGREIGL 204 >gi|54401898|gb|AAV34634.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274877|gb|AAV49241.1| RNA polymerase subunit sigma-38 [Escherichia albertii] gi|55274996|gb|AAV49295.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 201 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 83/201 (41%), Positives = 138/201 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQ 648 L RFG+ TLE+VG++ Sbjct: 181 LARRFGLLGYEAATLEDVGRE 201 >gi|44662845|gb|AAS47504.1| major sigma factor 70 [Meiothermus ruber DSM 1279] Length = 168 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 92/168 (54%), Positives = 117/168 (69%), Gaps = 2/168 (1%) Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTARRM ++ REP+ EEIA + Sbjct: 1 TYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARRMQQELGREPSYEEIADAMG 60 Query: 558 --MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V + KI +EP+SLETPIGDE S GDFI D++ SP+DSA Q+ L E + Sbjct: 61 PGWDAKKVEETFKIAQEPVSLETPIGDEKDSFYGDFIPDEHMASPVDSAAQSMLSEELEK 120 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 L L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 121 ALGKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 168 >gi|54401894|gb|AAV34632.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|54401896|gb|AAV34633.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274921|gb|AAV49262.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274982|gb|AAV49290.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 203 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 83/202 (41%), Positives = 138/202 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 181 LARRFGLLGYEAATLEDVGREI 202 >gi|55274915|gb|AAV49259.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274917|gb|AAV49260.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274923|gb|AAV49263.1| RNA polymerase subunit sigma-38 [Shigella flexneri] gi|55274925|gb|AAV49264.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274928|gb|AAV49265.1| RNA polymerase subunit sigma-38 [Shigella sonnei] gi|55274932|gb|AAV49267.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274939|gb|AAV49270.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274949|gb|AAV49274.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274955|gb|AAV49277.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274957|gb|AAV49278.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] gi|55274959|gb|AAV49279.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274961|gb|AAV49280.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274974|gb|AAV49286.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274980|gb|AAV49289.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274991|gb|AAV49293.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274993|gb|AAV49294.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 204 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 83/202 (41%), Positives = 138/202 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 182 LARRFGLLGYEAATLEDVGREI 203 >gi|255020521|ref|ZP_05292585.1| RNA polymerase sigma factor RpoS [Acidithiobacillus caldus ATCC 51756] gi|254970041|gb|EET27539.1| RNA polymerase sigma factor RpoS [Acidithiobacillus caldus ATCC 51756] Length = 316 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 93/236 (39%), Positives = 145/236 (61%), Gaps = 3/236 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +V++G+ A + M+E NLRLV+ VA++Y +RG+ LDLI+EGN+GL++A EKFD Sbjct: 69 LVQQGDVRA---RTRMIECNLRLVVRVARRYLHRGMPLLDLIEEGNLGLIRAVEKFDPER 125 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q I R++ +Q+ TIR+PVH+ ++ V+R AR + +++REP+ +E+ Sbjct: 126 GFRFSTYATWWIRQNIERALMNQTRTIRLPVHVMKELAVVLRAARCLEQELRREPSVDEV 185 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A L PV+ VR L++ SL+ + L + + D A P NL Sbjct: 186 AAALDRPVDQVRGCLEMDGRVTSLDNSGQRDQGRDLNEVLSDAEAQGPEAMVAAQNLAVR 245 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L+ + VL RFG+ TLEEVG + +TRER+RQI+ +A+ L+ Sbjct: 246 LQSWLAGLSEKHRLVLSWRFGLDGGDGATLEEVGTRLGITRERVRQIQVEALLILR 301 >gi|119897381|ref|YP_932594.1| RNA polymerase sigma factor RpoS [Azoarcus sp. BH72] gi|119669794|emb|CAL93707.1| putative RNA polymerase sigma factor [Azoarcus sp. BH72] Length = 311 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 92/235 (39%), Positives = 152/235 (64%), Gaps = 3/235 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR G+ +A ++ M+E NLRLV+++AK Y NRG+ LDL++EGN+GLM A EKFD G Sbjct: 66 VRAGDFDA---RQTMIERNLRLVVNIAKHYLNRGIPLLDLVEEGNLGLMHALEKFDPERG 122 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q I R+I +QS TIR+PVH+ ++++V+R R + + + +EIA Sbjct: 123 FRFSTYATWWIRQNIERAIMNQSRTIRLPVHVVKELNQVLRAQRVVEAASNGDFSLDEIA 182 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++L P+E VR +L +++ SL+ P+ + T +G+ + D++A +P A + Sbjct: 183 RRLDKPIEEVRAILALSEHTASLDAPLDIDPTLSIGESLADEHAETPESQIHNAEIEGLI 242 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L ++ V+R R+GIG TLEE+ + +TRER+RQI+ +A+ +L+ Sbjct: 243 RAWIDMLNDKQRLVIRHRYGIGECELMTLEELAARLELTRERVRQIQLEALGQLR 297 >gi|55274911|gb|AAV49257.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274963|gb|AAV49281.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 202 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 83/202 (41%), Positives = 138/202 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 181 LARRFGLLGYEAATLEDVGREI 202 >gi|15606622|ref|NP_214002.1| RNA polymerase sigma factor RpoS [Aquifex aeolicus VF5] gi|2983844|gb|AAC07398.1| RNA polymerase sigma factor RpoS [Aquifex aeolicus VF5] Length = 310 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 99/303 (32%), Positives = 172/303 (56%), Gaps = 34/303 (11%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I +K IS ++ E + + ++G+ EA K++VE+NLR V+SVAK+Y GL Sbjct: 10 INQYLKKISKIPLLTPEEEKELARRAKQGDKEAL---KKLVESNLRFVVSVAKQYIGYGL 66 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 F +LI GN+GL++AA++FD G KF +YA+WW++QAI ++++ Q+ +RIP+ Sbjct: 67 PFSELIAAGNLGLLEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQTGAVRIPLKQSHI 126 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLA------------------------------- 557 I+K+ +S K++REP+PEEIA++L+ Sbjct: 127 INKISHIYGELSKKLEREPSPEEIAEELSKQMIAKELEKELGREPTEEEIEERFKKEGYK 186 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + E V K L++ + P+SL+ P+G+ + + DF+ + IQ +++ +L Sbjct: 187 ITPEEVEKYLQVCRVPLSLDAPVGENEDTFFIDFLSKHGTAEVEEKVIQEVIQKEIDDLL 246 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 + LT +E +V+ +RFG+ N TL E+G+ ++RER+RQ+E +A+RKL+ + + L+ Sbjct: 247 SKLTDKERKVIELRFGLKGNEPKTLREIGEILGLSRERVRQLETRALRKLRSLAMKRHLK 306 Query: 678 SFL 680 FL Sbjct: 307 DFL 309 >gi|113954287|ref|YP_730230.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113881638|gb|ABI46596.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 318 Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 90/226 (39%), Positives = 144/226 (63%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 83 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R P+ E+A + +P E V Sbjct: 143 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEEEV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + + + P D L+ +L+ L Sbjct: 203 KDLMCRARQPVSLEMKVGDGDDTELLELLAGDGEL-PSDQVEGECLKGDLRDLLSQLPEL 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +VLRMR+G+ +L + K ++R+R R++E + + L+ Sbjct: 262 QGKVLRMRYGMDGEEPMSLTGIAKSMKMSRDRTRRLEREGLEMLRR 307 >gi|302518878|ref|ZP_07271220.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] gi|302427773|gb|EFK99588.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78] Length = 201 Score = 179 bits (454), Expect = 1e-42, Method: Composition-based stats. Identities = 95/201 (47%), Positives = 139/201 (69%) Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L++A EKFD+ G+KFSTYA WW++QA++R++ADQ+ TIR+PVH+ + I++VVR R + Sbjct: 1 LIRAVEKFDYTRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRGLL 60 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + EP+ E+A L + E V +VL++ +EP+SL TP+G ED LGD IED +A SP Sbjct: 61 QERGHEPSHAEVAALLGLTKERVGEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSP 120 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +SA LR VL++L RE +V+++R+G+ TLEE+G F VTRERIRQIE Sbjct: 121 PESAALLLLRRHLEDVLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIE 180 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AK + KL+ + + +LR +LD Sbjct: 181 AKTLAKLRSHAFADQLRGYLD 201 >gi|55274913|gb|AAV49258.1| RNA polymerase subunit sigma-38 [Escherichia coli] gi|55274972|gb|AAV49285.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 83/200 (41%), Positives = 137/200 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGK 647 L RFG+ TLE+VG+ Sbjct: 181 LARRFGLLGYEAATLEDVGR 200 >gi|323345487|ref|ZP_08085710.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093601|gb|EFZ36179.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 290 Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 94/263 (35%), Positives = 162/263 (61%), Gaps = 8/263 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +SI E + ++RKG E AK++++ ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 VSIDEETELAQLIRKGGKEGERAKEKLINANLRFVVSVAKQYQHQGLSLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + Sbjct: 91 VKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGALSKINSEVAKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R P+ +E+A + + + ++ +S++ P D+D + + D + +D A Sbjct: 151 EHQRRPSTQELASLTNIDENKISQTMRADNHHMSIDAPFSDDDENSMADVLASGDDSRAD 210 Query: 599 SPLD-SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +D ++ ++L + +L PRE +L+ FGIG T+ LEE+G++F +TRER+R Sbjct: 211 RIVDRESMNSDLDDAMAN---ALKPREVAILKESFGIGC-TEKGLEEIGEEFGLTRERVR 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QI K+I+KL+ ++ L +L Sbjct: 267 QIREKSIQKLRESGYARILVKYL 289 >gi|25991939|gb|AAN76997.1|AF481773_1 putative sigma 70 transcription factor [Frankia sp. ACoN24d] Length = 185 Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 81/168 (48%), Positives = 120/168 (71%) Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 + RG+ LDL+QEGN+GL++ +KFD+ GYKFSTYA WW++QAI R++ADQ TIRIPV Sbjct: 1 SGRGMTLLDLVQEGNLGLIRPVKKFDYAKGYKFSTYATWWIRQAIGRALADQGRTIRIPV 60 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 + ++I+K+ R R++ + + REPT EE+A +L MP+E V ++ + ++ +SLET +GD+ Sbjct: 61 XVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQVVELRRYAQDTVSLETSVGDD 120 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 S LGDFIED +A SP D+A +++ VL L PRE V+R+R Sbjct: 121 GDSVLGDFIEDSDATSPADAASYGAMQDEIENVLGGLNPREREVMRLR 168 >gi|42566466|gb|AAS21045.1| major sigma factor 70 [Meiothermus silvanus DSM 9946] Length = 168 Score = 178 bits (452), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 91/168 (54%), Positives = 118/168 (70%), Gaps = 2/168 (1%) Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR+M ++ REPT EEI++ + Sbjct: 1 TYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQMQQELGREPTYEEISEAMG 60 Query: 558 --MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V + KI +EP+SLETPIGDE S GDFI D++ SP+DSA Q+ L E + Sbjct: 61 PGWDAKKVEETFKIAQEPVSLETPIGDEKDSFYGDFIPDEHMASPVDSAAQSMLSEELEK 120 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 L L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA Sbjct: 121 ALGKLSDREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKA 168 >gi|54401892|gb|AAV34631.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 83/199 (41%), Positives = 136/199 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVG 646 L RFG+ TLE+VG Sbjct: 182 LARRFGLLGYEAATLEDVG 200 >gi|282854020|ref|ZP_06263357.1| sigma-70 region 2 [Propionibacterium acnes J139] gi|282583473|gb|EFB88853.1| sigma-70 region 2 [Propionibacterium acnes J139] gi|314922987|gb|EFS86818.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL001PA1] gi|314966764|gb|EFT10863.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL082PA2] gi|314981098|gb|EFT25192.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA3] gi|315091924|gb|EFT63900.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA4] gi|315093320|gb|EFT65296.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL060PA1] gi|315103425|gb|EFT75401.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA2] gi|327327589|gb|EGE69365.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL103PA1] Length = 312 Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 138/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 ALAHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGREPETFEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRSRLEGLLDDLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALASMRQ 304 >gi|54401900|gb|AAV34635.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 203 Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 83/202 (41%), Positives = 137/202 (67%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL +A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLNRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 181 LARRFGLLGYEAATLEDVGREI 202 >gi|55274945|gb|AAV49272.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 204 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 82/202 (40%), Positives = 138/202 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRL++ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLMVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 182 LARRFGLLGYEAATLEDVGREI 203 >gi|313812945|gb|EFS50659.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL025PA1] Length = 312 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 138/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 ALAHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGREPETFEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRSRLEGLLDDLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALASMRQ 304 >gi|258648419|ref|ZP_05735888.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] gi|260851166|gb|EEX71035.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] Length = 286 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 97/265 (36%), Positives = 157/265 (59%), Gaps = 4/265 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E IS E + + KG+ EA +++ +ANLR V+SVAK+Y N+GL DLI Sbjct: 25 IGREGLISTDEEVELAQRIHKGDAEAL---EKLTKANLRFVVSVAKQYQNQGLALNDLID 81 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL++AA+KFD G+KF +YA+WW++Q+I ++I++QS +R+P++ K+ + Sbjct: 82 EGNLGLIRAAQKFDETRGFKFISYAVWWIRQSILQAISEQSRIVRMPLNQVGFQSKLTKA 141 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + +R P+ +E+A L V V++ + + +S++ P D+D++ L D + D+ Sbjct: 142 IVNFEQEFERRPSVQELADILDTDVAKVQEAMGTNGKKVSVDAPFQDDDSNSLIDIMTDE 201 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NA D + +L L +LT RE VL+M FGIG N + T EEV +TRER Sbjct: 202 NAPGTDDQMEKESLSSDLDAALGTLTERERLVLKMLFGIGRN-EMTAEEVANSLSLTRER 260 Query: 656 IRQIEAKAIRKLKHPSRSKKLRSFL 680 +RQI+ +A+R+L+ L +L Sbjct: 261 VRQIKERALRRLREADNIHILTKYL 285 >gi|50842514|ref|YP_055741.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes KPA171202] gi|289425060|ref|ZP_06426837.1| sigma-70 region 2 [Propionibacterium acnes SK187] gi|289427240|ref|ZP_06428956.1| sigma-70 region 2 [Propionibacterium acnes J165] gi|295130591|ref|YP_003581254.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes SK137] gi|50840116|gb|AAT82783.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes KPA171202] gi|289154038|gb|EFD02726.1| sigma-70 region 2 [Propionibacterium acnes SK187] gi|289159709|gb|EFD07897.1| sigma-70 region 2 [Propionibacterium acnes J165] gi|291376720|gb|ADE00575.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes SK137] gi|313764457|gb|EFS35821.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL013PA1] gi|313772161|gb|EFS38127.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL074PA1] gi|313807516|gb|EFS46003.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA2] gi|313810025|gb|EFS47746.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL083PA1] gi|313815996|gb|EFS53710.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL059PA1] gi|313818558|gb|EFS56272.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL046PA2] gi|313820325|gb|EFS58039.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA1] gi|313822868|gb|EFS60582.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA2] gi|313825200|gb|EFS62914.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL063PA1] gi|313827776|gb|EFS65490.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL063PA2] gi|313830353|gb|EFS68067.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL007PA1] gi|313833726|gb|EFS71440.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL056PA1] gi|314915450|gb|EFS79281.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA4] gi|314918267|gb|EFS82098.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA1] gi|314920080|gb|EFS83911.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL050PA3] gi|314925213|gb|EFS89044.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL036PA3] gi|314931602|gb|EFS95433.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL067PA1] gi|314955755|gb|EFT00155.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL027PA1] gi|314958169|gb|EFT02272.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA1] gi|314960004|gb|EFT04106.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA2] gi|314967831|gb|EFT11930.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL037PA1] gi|314973357|gb|EFT17453.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL053PA1] gi|314976035|gb|EFT20130.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL045PA1] gi|314978426|gb|EFT22520.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL072PA2] gi|314983943|gb|EFT28035.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA1] gi|314988127|gb|EFT32218.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA2] gi|314989932|gb|EFT34023.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL005PA3] gi|315080642|gb|EFT52618.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL078PA1] gi|315084315|gb|EFT56291.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL027PA2] gi|315085658|gb|EFT57634.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL002PA3] gi|315088920|gb|EFT60896.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL072PA1] gi|315095902|gb|EFT67878.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL038PA1] gi|315098533|gb|EFT70509.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL059PA2] gi|315101109|gb|EFT73085.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL046PA1] gi|315105655|gb|EFT77631.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL030PA1] gi|315108329|gb|EFT80305.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL030PA2] gi|327326184|gb|EGE67974.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL096PA2] gi|327331941|gb|EGE73678.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL096PA3] gi|327443142|gb|EGE89796.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL013PA2] gi|327445926|gb|EGE92580.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL043PA2] gi|327448094|gb|EGE94748.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL043PA1] gi|327450785|gb|EGE97439.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA3] gi|327453871|gb|EGF00526.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL083PA2] gi|328753473|gb|EGF67089.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL020PA1] gi|328754203|gb|EGF67819.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL087PA1] gi|328754545|gb|EGF68161.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL025PA2] gi|328760855|gb|EGF74421.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL099PA1] gi|332675431|gb|AEE72247.1| RNA polymerase principal sigma factor HrdD [Propionibacterium acnes 266] Length = 312 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 138/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 ALAHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGREPETFEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRSRLEGLLDDLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALASMRQ 304 >gi|225440035|ref|XP_002276710.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|297741628|emb|CBI32760.3| unnamed protein product [Vitis vinifera] Length = 561 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/239 (37%), Positives = 149/239 (62%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLR+V+ +AK+Y RGL DL+QEG++GLM + EKF G +F++YA WW Sbjct: 321 SRQKLIYANLRMVVHIAKQYQGRGLNLQDLLQEGSMGLMNSVEKFKPNAGCRFASYAYWW 380 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ ++I S TIR+P +M + KV R + +PT EEIA+++ + +E + Sbjct: 381 IRQAVRKAIFQHSRTIRLPENMYSLLGKVKEAKRLFIQEGHHDPTKEEIAERVGITIEKL 440 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +++L T+ P+S++ P+ D+DT+ + D P S + +R+ +L LTP Sbjct: 441 QRLLLHTRMPLSMQQPVWADQDTT-FQEVTADTGIEIPDVSVAKQLMRQHVRNLLHVLTP 499 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +E R++R+RFGIG TL E+G F ++ER+RQ+E +A+ KLK S L S+ D Sbjct: 500 KERRIIRLRFGIGDGIPRTLSEIGLVFGFSKERVRQLEQRALHKLKQCLSSHGLESYTD 558 >gi|313792143|gb|EFS40244.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA1] gi|313801904|gb|EFS43138.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL110PA2] gi|313838730|gb|EFS76444.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL086PA1] gi|314962802|gb|EFT06902.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL082PA1] gi|315078018|gb|EFT50069.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL053PA2] gi|327453138|gb|EGE99792.1| RNA polymerase sigma factor SigB [Propionibacterium acnes HL092PA1] Length = 312 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 138/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 ALARFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRNLERQLGREPETFEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRSRLEGLLDDLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALASMRQ 304 >gi|327330254|gb|EGE72003.1| RNA polymerase principal sigma factor SigA [Propionibacterium acnes HL097PA1] Length = 312 Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 138/226 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A V ANLRLV+SVA+KY + LDL+QEGN GL++A EKFD+ G+KFSTYA WW Sbjct: 79 ALAHFVRANLRLVVSVARKYGRSQMPLLDLVQEGNTGLIRAVEKFDYAKGFKFSTYATWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+QAI+R IA Q +R+PVH+ +++++V R + ++ REP EIA +L + E V Sbjct: 139 VRQAISRGIAQQGRIVRLPVHVAEQVNQVSAARRSLERQLGREPETFEIADELEITEERV 198 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++++ ++ +SL+ P+ D+ + LGD I + + P D + A R +L L R Sbjct: 199 IELIRFGRDHVSLDAPVEDDGDTSLGDLIARETSPGPDDIVLDAEDRSRLEGLLDDLDER 258 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 V+R R+G+ L ++GK + +T ER+RQIE A+ ++ Sbjct: 259 SADVVRRRYGLVDGRQAKLADIGKVWGITAERVRQIERAALASMRQ 304 >gi|325109992|ref|YP_004271060.1| RNA polymerase, sigma 38 subunit, RpoS [Planctomyces brasiliensis DSM 5305] gi|324970260|gb|ADY61038.1| RNA polymerase, sigma 38 subunit, RpoS [Planctomyces brasiliensis DSM 5305] Length = 286 Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 96/259 (37%), Positives = 159/259 (61%), Gaps = 11/259 (4%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I+ + +S E + + + + G+ EA + MV ANLRLV+++A+ Y ++GL D Sbjct: 28 LREINETSLLSADEEKELANRIAMGDLEA---RDRMVRANLRLVVNIARGYASKGLPLQD 84 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A E FD + +FSTYA +W+KQ+I RS+ + + TIRIP +M + + K Sbjct: 85 LIEEGNLGLLRAVEGFDPNMNTRFSTYASYWIKQSIKRSLVNCAKTIRIPAYMVELLSKW 144 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL--ETPIGDEDTS--HL 588 + R+ +++ R PT EE+A +L +P +K L I K+ I L TP D++ S L Sbjct: 145 RKATARLQDELNRTPTAEEVAAELGLP----KKKLNIVKKAIQLYNSTPQSDDEESGWSL 200 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 G+ + D+ A+ P + + + R+L + RE +LRMRFG+ TL+E+G+ Sbjct: 201 GEMVADERAIGPEEELVNNDNLNHVYRMLDDMDDRESTILRMRFGLDHEEPKTLKEIGES 260 Query: 649 FCVTRERIRQIEAKAIRKL 667 +TRER+RQIE +A+ +L Sbjct: 261 LGLTRERVRQIEQEALNRL 279 >gi|55274943|gb|AAV49271.1| RNA polymerase subunit sigma-38 [Shigella dysenteriae] Length = 204 Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 82/202 (40%), Positives = 137/202 (67%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDFSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 182 LARRFGLLGYEAATLEDVGREI 203 >gi|325264732|ref|ZP_08131461.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030024|gb|EGB91310.1| RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 292 Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 142/229 (62%), Gaps = 1/229 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ E+ L LV+S+A +Y+ RGL F+DLIQEGNIGLM+AAEK+D+ FS YA W Sbjct: 61 AKLKLEESALCLVVSIAGQYSGRGLLFMDLIQEGNIGLMQAAEKYDYTKDGGFSGYARRW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA-MPVEG 562 ++ AI ++ +QS IR+P ++ + + KV + A + ++ RE T EIA KL E Sbjct: 121 IEDAIKHAVDEQSREIRVPAYVAENMKKVQKAAYELQQELGREATAGEIAGKLGDKSEEE 180 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +L K P+SL+ P+ D D +L D I D+ +P D+ +E +L SL+ Sbjct: 181 IESILTFLKNPVSLDAPVEDGDDENLEDTIADREEKTPEDAVNSLIQKEEVLHLLESLSE 240 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +E +V+ RFG+ HTLEEVG++ V+RERI QIE A++KL+ + Sbjct: 241 KERQVISKRFGLEDGRVHTLEEVGQELNVSRERISQIEEHAMKKLRQAA 289 >gi|300112902|ref|YP_003759477.1| RpoD subfamily RNA polymerase sigma 70 subunit [Nitrosococcus watsonii C-113] gi|299538839|gb|ADJ27156.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nitrosococcus watsonii C-113] Length = 310 Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 86/240 (35%), Positives = 150/240 (62%), Gaps = 3/240 (1%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + +KG S +K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL+ A EKF Sbjct: 59 YYARLAKKGN---SAGRKRMIESNLRLVVKISRRYMNRGLALLDLIEEGNLGLIHAVEKF 115 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D +G++FSTYA WW++Q I R++ +Q+ T+R+PVH+ +I R A +++ +++ +P+ Sbjct: 116 DPEMGFRFSTYATWWIRQTIERALMNQTRTVRLPVHVVKEIKSYQRVANKLAQELEHDPS 175 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EE+A++L PVE +++V + S++T + L D + D+ A P + Sbjct: 176 FEELAQQLDKPVEEIKRVWSLKDNTASMDTGYRNNQEKTLLDALPDEGAPDPTVLLQNDD 235 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L+ L ++ V+ RFG+ TLE+VG+ VTRER+RQI+ + +++L+ Sbjct: 236 MQARLELWLSQLNDKQREVVIRRFGLQGYEPQTLEQVGQAIGVTRERVRQIQLETLKRLR 295 >gi|7416823|dbj|BAA94072.1| rpoS [Rubrivivax gelatinosus] Length = 322 Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 92/229 (40%), Positives = 144/229 (62%), Gaps = 4/229 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLV+S+AK Y RG+ +DLI+EGN+GLM A KF+ G++FSTYA WW Sbjct: 80 ARQAMIERNLRLVVSIAKHYVGRGMPMIDLIEEGNLGLMHATGKFEPERGFRFSTYASWW 139 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN----KIKREPTPEEIAKKLAMP 559 ++Q+I R+I Q+ IR+PVH+ ++++V++ R + + + +R + +E+A L P Sbjct: 140 IRQSIERAIMHQARLIRLPVHVVRELNQVLKARRALESARRGEAERPVSVDEVAAALQRP 199 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 VE V ++LK+ ++P SL+ P+ E + D + D++A+ PL + LA Sbjct: 200 VEEVAELLKLAEQPTSLDMPLERESGESMLDTVADEDAIDPLGLTLSREAVHLLDNGLAE 259 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE VL RFG+ TLEE+ + +TRERIRQI+ +A+ KLK Sbjct: 260 LNEREREVLAGRFGLRDREPETLEELAARLGLTRERIRQIQQEALLKLK 308 >gi|55274978|gb|AAV49288.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 200 Score = 177 bits (449), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 82/200 (41%), Positives = 137/200 (68%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L+ Sbjct: 61 ERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLR 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + + S++TP+G + L D + D+ P D+ +++++ + L L ++ VL Sbjct: 121 LNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVL 180 Query: 629 RMRFGIGMNTDHTLEEVGKQ 648 RFG+ TLE+VG++ Sbjct: 181 ARRFGLLGYEAATLEDVGRE 200 >gi|284042443|ref|YP_003392783.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283946664|gb|ADB49408.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 285 Score = 177 bits (449), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 93/235 (39%), Positives = 141/235 (60%), Gaps = 3/235 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV +NLRLV+S+A+ Y +GL DL+QEG +GL++A EKFDW G++FSTYA W Sbjct: 50 AKERMVNSNLRLVMSIARHYQGQGLGMGDLVQEGTLGLIRAVEKFDWRKGFRFSTYATLW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R + + TIR+PVH+ + KV R R ++ K R+ T EEIA+ +PVE V Sbjct: 110 IRQSIQRGLENTGRTIRLPVHVGQRARKVARIRRELTAKHGRDATDEEIAEAARLPVEQV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR-ETTTRVLASLTP 622 + + +EP SL+ P+G++ + LG I K D + LR ET R + L Sbjct: 170 IEAGRADREPTSLDAPVGEDGDTALGALI--KTDTPEPDEEVADTLRHETVQRAIDDLPD 227 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 E+ V+ +RFG TL ++G++ V+ R R+IE +A+R+L + LR Sbjct: 228 NEKTVIHLRFGTAGEPPQTLTQIGRRLGVSSSRAREIEEQALRRLSRETSLSALR 282 >gi|330982601|gb|EGH80704.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 459 Score = 177 bits (449), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 87/225 (38%), Positives = 141/225 (62%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 36 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 95 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+PE Sbjct: 96 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSPE 155 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA L PV V+++L + + S++ +G + L D + D P + +L Sbjct: 156 EIANLLEKPVGEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDLS 215 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER Sbjct: 216 QSIDQWLSELTEKQREVVIRRFGLRGHESSTLEDVGLEIGLTRER 260 >gi|299472557|emb|CBN79859.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus siliculosus] Length = 835 Score = 177 bits (449), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 96/243 (39%), Positives = 151/243 (62%), Gaps = 13/243 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+ ANLRLV+S+A+ Y RGL F DLIQEG +GL+KA EKF+ +G++F TYA WW Sbjct: 300 AKEHMISANLRLVVSMARGYRGRGLAFPDLIQEGTMGLVKACEKFNPEMGFQFYTYARWW 359 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK---REPTPEEIAKKLAMPV 560 +K++I IA+QS IR+P ++H + + R+ + ++ + PT EE+ KL V Sbjct: 360 IKKSILTGIANQSRVIRLPT----QVHAFLSSIRKYTYELTVDGKVPTDEELGDKLGATV 415 Query: 561 EGVR--KVLKITKEPISLE----TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 E ++ + + + ISL+ + D LG I +K+ P D+ ++ T Sbjct: 416 EKIQHYRQAALRTDSISLDIRASNKVSDGAADDLGTQIGEKSTPDPEDATQAFYMKGKVT 475 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +LA+L RE++V+R R+G+ T TLEE+G+ +TRER+RQIE+KA+ KL+ P R+ Sbjct: 476 ALLATLKDREQKVVRARYGLDGATSKTLEEIGRDLGLTRERVRQIESKALSKLRQPYRNY 535 Query: 675 KLR 677 ++R Sbjct: 536 RVR 538 >gi|163783667|ref|ZP_02178655.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] gi|159881072|gb|EDP74588.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] Length = 309 Score = 177 bits (449), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 100/303 (33%), Positives = 168/303 (55%), Gaps = 34/303 (11%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I +K IS +S E + + ++G+ E+ K++VE+NLR V+SVAK+Y GL Sbjct: 9 INQYLKRISKIPLLSPEEEKELARKAKEGDEESL---KKLVESNLRFVVSVAKQYIGYGL 65 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 F +LI GN+GL++AA++FD G KF +YA+WW++QAI ++++ Q+ +RIP+ Sbjct: 66 PFSELIAAGNLGLLEAAKRFDPERGVKFISYAVWWIRQAIMQALSQQTGAVRIPLKQSHL 125 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLA------------------------------- 557 I K+ ++ +++REPTPEE+A++L+ Sbjct: 126 ISKIGTIYAELAKELEREPTPEEVAEQLSKEMIAKELTKELGREPTDEEVQKKFKKEGYK 185 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + E V K L++ + P+SL+ P+G+ + + DF+ +S IQ L + +L Sbjct: 186 ISPEEVEKYLQVCRIPLSLDAPVGENEDTFFVDFLSKHGTAEVEESVIQEVLEKEIYDLL 245 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 L +E RV+ +RFG+ N TL E+G V+RER+RQ+E +A+RKL+ + + L+ Sbjct: 246 DKLPEKERRVVELRFGLKGNEPKTLREIGDILGVSRERVRQLETRALRKLRSLAMKRHLK 305 Query: 678 SFL 680 FL Sbjct: 306 DFL 308 >gi|56475838|ref|YP_157427.1| RNA polymerase sigma factor RpoS [Aromatoleum aromaticum EbN1] gi|56311881|emb|CAI06526.1| RNA sigma factor RpoS [Aromatoleum aromaticum EbN1] Length = 311 Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 94/236 (39%), Positives = 151/236 (63%), Gaps = 5/236 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR G+ A ++ M+E NLRLV+++AK Y NRG+ LDL++EGN+GLM A EKFD G Sbjct: 66 VRTGDFPA---RQIMIERNLRLVVNIAKHYLNRGIPLLDLVEEGNLGLMHALEKFDPERG 122 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q I R+I +QS TIR+PVH+ ++++V+R R + E T E++A Sbjct: 123 FRFSTYATWWIRQNIERAIMNQSRTIRLPVHVVKELNQVLRAQRTLEASGNGEFTLEQVA 182 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRET 612 +L V+ VR +L +++ SL+ P+ + T +G+ + D A P D+ IQ A + + Sbjct: 183 HRLDKSVDEVRAILALSEHTASLDAPLEIDPTLSIGESLADDQA-EPPDTHIQDAEVEKL 241 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L ++ V+R R+G+ TLEE+ + C+TRER+RQI+ +A+ +L+ Sbjct: 242 IQEWIGMLNEKQRLVIRHRYGLDECEVMTLEELASRLCLTRERVRQIQLEALGQLR 297 >gi|149177995|ref|ZP_01856592.1| RNA polymerase sigma factor rpoS [Planctomyces maris DSM 8797] gi|148843188|gb|EDL57554.1| RNA polymerase sigma factor rpoS [Planctomyces maris DSM 8797] Length = 279 Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 98/259 (37%), Positives = 160/259 (61%), Gaps = 11/259 (4%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K I+ +S E R + + + G+ EA + MV ANLRLV+++A+ Y+ +GL D Sbjct: 21 LKEINETALLSAEEERELSNRIEHGDKEA---RDRMVRANLRLVVNIARAYSGKGLPLQD 77 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A E FD +G +FSTYA +W+KQ+I R++ + + TIRIP +M + + K Sbjct: 78 LIEEGNLGLLRAVEGFDPEMGTRFSTYASYWIKQSIKRALVNSAKTIRIPAYMVELLTKW 137 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL--ETPIGDEDTS--HL 588 R ++ + + R PT EE+A++L +P K LKI K+ I L +P ++ + L Sbjct: 138 RRATAQLQDTLDRTPTTEEVARELDLPP----KKLKIVKKAIQLYNSSPQSEQHDAGWSL 193 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 G+ I D P D ++ + + R+L + RE +LRMRFG+ + TL+E+G+ Sbjct: 194 GEMIPDDRLKGPDDELVENDNLKHVFRLLKEIPEREANILRMRFGLDGDEPKTLKEIGQA 253 Query: 649 FCVTRERIRQIEAKAIRKL 667 +TRER+RQIE++A++KL Sbjct: 254 LGLTRERVRQIESEALKKL 272 >gi|282858973|ref|ZP_06268111.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282588253|gb|EFB93420.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 286 Score = 177 bits (448), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 91/247 (36%), Positives = 155/247 (62%), Gaps = 4/247 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RKG+ +A + + ANLR V+SVAK+Y +G+ DLI EGN+GL+KAA++FD G Sbjct: 43 IRKGDKKAL---ERLTRANLRFVVSVAKQYQTQGIDLPDLINEGNMGLIKAAKRFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++IA Q IR+P + ++K+ R + + +R P +E+A Sbjct: 100 FKFISYAVWWIRQSILQAIAAQGRLIRLPANQIGVVNKITRILNKFEQENERIPNIDELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +++ + E + L ++ +S+++P D++ L D + N S S + +L+E Sbjct: 160 REVDLSEEHIEDALSLSFRQVSMDSPFKDDEGVSLLDVMPSTNVPSTDKSLVDESLKEEI 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +R L L+ RE++VL +GIG + +LEE+G +F ++RER+RQI+ KAIR L+ + Sbjct: 220 SRALKILSEREQKVLCAYYGIG-QLEMSLEEIGDKFGLSRERVRQIKEKAIRNLRKAGNN 278 Query: 674 KKLRSFL 680 K LR +L Sbjct: 279 KTLRVYL 285 >gi|289805026|ref|ZP_06535655.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 196 Score = 177 bits (448), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 97/178 (54%), Positives = 125/178 (70%), Gaps = 5/178 (2%) Query: 370 FLERHQGRELDPHWV--SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEF 427 F+ G E W + A + P E + VA EV L+ +++ I ETG++I + Sbjct: 22 FITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQV 78 Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K Sbjct: 79 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 138 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 F++ GYKFSTYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ R Sbjct: 139 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR 196 >gi|219111033|ref|XP_002177268.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217411803|gb|EEC51731.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 324 Score = 177 bits (448), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 97/251 (38%), Positives = 150/251 (59%), Gaps = 12/251 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV++N+RLV+S+A+KY+N G+ DL+QEG++GL +AAEKF+ G+KFSTYA WW Sbjct: 71 AKQRMVQSNMRLVVSIARKYSNVGVSLQDLVQEGSLGLSRAAEKFEPKKGFKFSTYASWW 130 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ RSIA S TIR+PVH+ + +++V + + ++ R PT EE+A++L M ++ Sbjct: 131 IQQAVFRSIAYHSRTIRLPVHVHNLLNRVRKVRNNLQRELSRTPTNEEMAEELGMTLQKY 190 Query: 564 RKVLKITKEPISLETP--------IGDEDTSHLGDFIEDKNAV----SPLDSAIQANLRE 611 K+L++TK ISLETP +G E LGD I +A+ +P + E Sbjct: 191 NKMLRLTKRSISLETPKYQSNPKDLGHESHDLLGDTISASSALFDESTPEKRVDRGIFHE 250 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L E RV+ R+G+ T+ V Q ++ +R E +A+RKL+ P Sbjct: 251 DLHEMLEILDEDERRVICSRYGLSDGLTRTVTAVASQMKQSKAWVRSQECRALRKLRRPW 310 Query: 672 RSKKLRSFLDG 682 KKL+ D Sbjct: 311 YEKKLKEHQDA 321 >gi|162458864|ref|NP_001104924.1| sigma-like factor2B [Zea mays] gi|4336608|gb|AAD17855.1| sigma factor SIG2B [Zea mays] Length = 527 Score = 177 bits (448), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 91/237 (38%), Positives = 149/237 (62%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+AK++ G++F DLIQ+G GL++ AEKFD G++FSTY+ WW Sbjct: 286 CKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFSTYSHWW 345 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR P+ EEIA M + V Sbjct: 346 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDTGMTIRRV 405 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +S + +G D ++ + + D +A + ++ + +++ L SL+PR Sbjct: 406 EAAMSLPKYSVSFTSKVGCTDVTY-QEIMPDTSAETAEETLHRWLMKKDVNTALDSLSPR 464 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +++V+R RFGI TL ++G+ V+RERIRQIE A RKL+ +R + L+ +L Sbjct: 465 KKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLRSKNRLQSLQHYL 521 >gi|55274919|gb|AAV49261.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 201 Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 82/200 (41%), Positives = 137/200 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EG++GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGSLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEVGK 647 L RFG+ TLE+VG+ Sbjct: 182 LARRFGLLGYEAATLEDVGR 201 >gi|114776318|ref|ZP_01451363.1| RpoS [Mariprofundus ferrooxydans PV-1] gi|114553148|gb|EAU55546.1| RpoS [Mariprofundus ferrooxydans PV-1] Length = 282 Score = 176 bits (447), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 91/227 (40%), Positives = 150/227 (66%), Gaps = 3/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV+ANLRLV+ ++++Y NRG+ DLI+EGN+GL++A EKFD G +FSTYA WW Sbjct: 43 AHHYMVQANLRLVVKISRRYMNRGVALADLIEEGNLGLIRAVEKFDVTHGCRFSTYATWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ R+I +QS TIR+PVH+ +++ + + R+ ++++R+PT EIA+ + + V+ + Sbjct: 103 IRQAVERAIMNQSRTIRVPVHVGKELYALTKHTNRLRSELERDPTDVEIAEAMGVSVQRI 162 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTP 622 ++++ S + + D+ L D D+ A SP D +Q LR +V ++ L Sbjct: 163 QELMGAAVRTDSADDMLHDDSDFTLYDVTADEAAESPGDQ-MQTVLRNEILQVWMSKLEK 221 Query: 623 REERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E V+R+R+G+ D TLE +G+Q VTRERIRQI+ +A++KL+ Sbjct: 222 KEREVVRLRYGLDDAGDPWTLEMIGEQLGVTRERIRQIQVQALQKLR 268 >gi|4100832|gb|AAD00998.1| RpoS [Escherichia coli] Length = 269 Score = 176 bits (447), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 78/191 (40%), Positives = 133/191 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 77 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 136 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 137 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 196 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 197 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 256 Query: 624 EERVLRMRFGI 634 + VL RFG+ Sbjct: 257 QREVLARRFGL 267 >gi|55275000|gb|AAV49297.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 203 Score = 176 bits (447), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 82/202 (40%), Positives = 137/202 (67%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL L LI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 181 LARRFGLLGYEAATLEDVGREI 202 >gi|77163721|ref|YP_342246.1| RpoS [Nitrosococcus oceani ATCC 19707] gi|254436220|ref|ZP_05049727.1| RNA polymerase sigma factor RpoS [Nitrosococcus oceani AFC27] gi|76882035|gb|ABA56716.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosococcus oceani ATCC 19707] gi|207089331|gb|EDZ66603.1| RNA polymerase sigma factor RpoS [Nitrosococcus oceani AFC27] Length = 321 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 145/225 (64%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL+ A EKFD +G++FSTYA WW Sbjct: 82 GRKRMIESNLRLVVKISRRYMNRGLALLDLIEEGNLGLIHAVEKFDPEMGFRFSTYATWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ T+R+PVH+ +I R A +++ +++ +P+ EE+A++L PVE + Sbjct: 142 IRQTIERALMNQTRTVRLPVHVVKEIKSYQRVANKLAQELEHDPSFEELAQQLNKPVEEI 201 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++V + S++T + L D + D++A P +++ L+ L + Sbjct: 202 KRVWSLKDNTASMDTGYRNNQEKTLLDALPDEDAPDPTVLLQNDDMQSRLKLWLSQLNDK 261 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLE+VG+ VTRER+RQI+ + +++L+ Sbjct: 262 QREVVIRRFGLQGYEPQTLEQVGQAIGVTRERVRQIQLETLKRLR 306 >gi|2564653|gb|AAC45358.1| group 2 alternative sigma factor [Nostoc punctiforme PCC 73102] Length = 321 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 85/218 (38%), Positives = 140/218 (64%), Gaps = 3/218 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+S+AK+Y R L+ +DLIQEG +GL + EKF+ LGY+ +TYA WW Sbjct: 94 AKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPALGYRKTTYAYWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA Q IR+P+H+ +K++K+ R R +S + R PT EIA L++ + Sbjct: 154 IRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTEIANALSLKPSQI 213 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLASLTP 622 R+ L + ISL+ + L D IED S +S I + +L + +L++L+ Sbjct: 214 REFLLLATRTISLDIRVSSAKDLRLQDLIEDYKYSS--NSYITEESLNQEVNSLLSNLSR 271 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +++ +L + FG+ + +L+++G++ ++RER+RQIE Sbjct: 272 QQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309 Score = 38.9 bits (89), Expect = 2.6, Method: Compositional matrix adjust. Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 4/57 (7%) Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCES 160 F + + +++T D VR YL+E+G I LL++E EI A+ ++ +M L ES Sbjct: 5 TFSDTKASNTNKATTDTVRAYLKEIGRIPLLTQEQEIIFAQEVQ----QLMTILAES 57 >gi|14581457|gb|AAK29754.1| stationary phase sigma factor RpoS [Azotobacter vinelandii] Length = 238 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 88/241 (36%), Positives = 147/241 (60%), Gaps = 3/241 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I ++ +E H + ++G+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 1 LNEIGFSPLLTPAEEVHFARLAQRGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 57 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 58 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 117 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+ EEIA L PV V+++L + + S++ +G + L D + Sbjct: 118 LRAARELTQKLDHEPSAEEIANLLEKPVAEVKRMLGLNERVTSVDVSLGPDSDKTLLDVL 177 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D P D +L ++ + L LT ++ V+ RFG+ + TLEEVG++ +T Sbjct: 178 TDDRPFDPCDLLQDDDLSQSIDQWLFDLTEKQREVVVRRFGLRGHESCTLEEVGQEIGLT 237 Query: 653 R 653 R Sbjct: 238 R 238 >gi|67925817|ref|ZP_00519113.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] gi|67852341|gb|EAM47804.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] Length = 386 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 100/255 (39%), Positives = 159/255 (62%), Gaps = 17/255 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E GIS+ E + I+ ++ AK++M++ANLRLV++V+KKY +GL+F+DL+ EGN Sbjct: 5 EIGISVRELQLILKRGKR-------AKEKMIQANLRLVVAVSKKYQGKGLEFMDLVSEGN 57 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++A EKF++ GYKFSTYA W++QA+ R+I D+ TIR+PVH+ ++I K+ + Sbjct: 58 LGLIRAVEKFEYDKGYKFSTYAYHWIRQALVRAICDKGRTIRVPVHINEEISKLKKVQLE 117 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNA 597 + K R T E++++L + E +R + + +SL+ + GDED S L F+ D N Sbjct: 118 IRQKYGRSATVRELSERLEISPEKIRVLRSVNNPMLSLDQKVLGDEDNSTLLSFLADPNG 177 Query: 598 --VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRE 654 LD+ N +E + L L P+E+RVLR + + T TL E+GK+ ++RE Sbjct: 178 DLQKFLDNL--GN-KELVEQCLCGLKPQEQRVLREYY---LETPSLTLNEIGKKMNLSRE 231 Query: 655 RIRQIEAKAIRKLKH 669 R+R I+ A+ KLK Sbjct: 232 RVRHIKNNALDKLKQ 246 >gi|4100836|gb|AAD01000.1| RpoS [Escherichia coli] Length = 259 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 78/191 (40%), Positives = 133/191 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 67 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 126 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 127 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 186 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 187 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 246 Query: 624 EERVLRMRFGI 634 + VL RFG+ Sbjct: 247 QREVLARRFGL 257 >gi|4100834|gb|AAD00999.1| RpoS [Escherichia coli] Length = 258 Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 78/191 (40%), Positives = 133/191 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 66 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 126 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 185 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 186 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 245 Query: 624 EERVLRMRFGI 634 + VL RFG+ Sbjct: 246 QREVLARRFGL 256 >gi|257452079|ref|ZP_05617378.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|257466122|ref|ZP_05630433.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] gi|315917279|ref|ZP_07913519.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] gi|317058628|ref|ZP_07923113.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|313684304|gb|EFS21139.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 3_1_5R] gi|313691154|gb|EFS27989.1| RNA polymerase sigma factor RpoD [Fusobacterium gonidiaformans ATCC 25563] Length = 272 Score = 176 bits (445), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 99/242 (40%), Positives = 152/242 (62%), Gaps = 14/242 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ NLRLV++VAK Y ++G+ +DLI EGN+GL++A EKFD G++FSTYA+WW Sbjct: 39 AKNQLILCNLRLVVNVAKGYRSKGMNLIDLISEGNLGLIRAIEKFDVGKGFRFSTYAVWW 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I+++I + IRIP + D ++K+ + PT EE+A+ L MPV V Sbjct: 99 IKQSISKAIIFKGREIRIPSYRYDILNKINKYVTETVKLCGIYPTVEEVAEYLKMPVNKV 158 Query: 564 RKVLKITKEPISLETPIGD----EDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +V+ +EP+SL T IG+ EDT S + E+K +Q L++ +L+ Sbjct: 159 EEVMIEFQEPMSLSTEIGEDIYLEDTLSGAEEHFEEKVYY----KMMQQRLKD----ILS 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE+ +L++RFG+ HTLE++GK F +TRER+RQIE ++KLK +K+LR Sbjct: 211 RLESREQEILKLRFGLDGYEIHTLEDIGKNFNITRERVRQIEKNTLKKLKRKY-TKELRE 269 Query: 679 FL 680 L Sbjct: 270 TL 271 >gi|55274989|gb|AAV49292.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 199 Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 82/198 (41%), Positives = 135/198 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGIGMNTDHTLEEV 645 L RFG+ TLE+V Sbjct: 182 LARRFGLLGYEAATLEDV 199 >gi|55274998|gb|AAV49296.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 198 Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 82/198 (41%), Positives = 135/198 (68%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGIGMNTDHTLEEV 645 L RFG+ TLE+V Sbjct: 181 LARRFGLLGYEAATLEDV 198 >gi|310779070|ref|YP_003967403.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] gi|309748393|gb|ADO83055.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter polytropus DSM 2926] Length = 275 Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 98/245 (40%), Positives = 151/245 (61%), Gaps = 5/245 (2%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 K CE AK +++ +NLRLV+++AK Y ++G+ F+DLI EGN GLM A EKFD G++ Sbjct: 34 KSGCED--AKHKLILSNLRLVVNIAKSYVHKGMGFIDLISEGNFGLMHAIEKFDVEKGFR 91 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA+WW+KQ+I+++I + IRIP + D ++KV + K P E+IA Sbjct: 92 FSTYAVWWIKQSISKAIISKGREIRIPSYKHDLLNKVNKFIMEFVMKNSVYPNIEDIALG 151 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 L + + V+KV+ ++ +SL IGD+ L D I + S D + R Sbjct: 152 LEITPKKVQKVMLEFQDLLSLNASIGDD--IFLEDTISQPDEESLEDEVLGEIGRNEIND 209 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +L L PRE+ +L++R+G+ HTLEE+GK F +TRER+RQIE K ++KL++ S++ Sbjct: 210 ILEVLKPREKEILKLRYGLDGYEIHTLEEIGKSFSITRERVRQIEKKTLQKLRNKF-SEE 268 Query: 676 LRSFL 680 L+ +L Sbjct: 269 LKPYL 273 >gi|144575120|gb|AAZ43865.2| DNA-directed RNA polymerase sigma factor [Mycoplasma synoviae 53] Length = 798 Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 99/253 (39%), Positives = 150/253 (59%), Gaps = 18/253 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG A+ +++ NLRLV++ AKKY NRGL F+DL+ EGN GL+KAA+KFD G+K Sbjct: 530 KGGSRGKRARDLIIKRNLRLVVNAAKKYKNRGLSFIDLVSEGNAGLLKAAQKFDIKKGFK 589 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA WW++Q+I+R++ADQ+ IR+PVHM + I+K+ + R + + E EEIA + Sbjct: 590 FSTYATWWIRQSISRAVADQARIIRVPVHMVETINKIYKIEREIQQENGGEIIDEEIAAR 649 Query: 556 LA-----MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 L +R + KI PISL+ +G E+ S GDF++D++ +SP++ A + L Sbjct: 650 LGGKSKKYDASYIRYIRKINTSPISLDKQVGKENDSFFGDFVKDESIISPVEFADKEELI 709 Query: 611 ETTTRVLASLTPREERVLRMRF-GIGMNT------DHTLEEVGKQF-----CVTRERIRQ 658 + L E L R+ GIG + TL+E+ K F +++ER+RQ Sbjct: 710 TKINYYVEKLLSEAEADLIKRYHGIGYDAKGNPVRSATLDEISKDFRGEGKKISKERVRQ 769 Query: 659 IEAKAIRKLK-HP 670 I K +KL+ +P Sbjct: 770 IITKIYKKLRGYP 782 >gi|90577776|ref|ZP_01233587.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90440862|gb|EAS66042.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 291 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 143/236 (60%), Gaps = 1/236 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK C + +K ++E+NLRLV+S+AKKY + DLI EGNIGLM A EKFD G+ Sbjct: 40 RKSLCGDACSKNVLIESNLRLVVSIAKKYRGSSIHISDLIDEGNIGLMTAVEKFDPEKGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+KQ I R+I +Q TIR+PVH+ +I+ ++RT +++ K +EP+ E +A+ Sbjct: 100 RFSTYATWWIKQTIERAIHNQGRTIRLPVHVSKEINTIIRTHKQLVKKNNQEPSTELVAE 159 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETT 613 L ++ V L +S + I E TS + I D+N+ P + +++ T Sbjct: 160 VLNKTLDDVSTTLSYDTPIVSYDQSITSEATSQSIAVLIADENSAKPDELVDDLAIQKIT 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 VL L R++ ++ RFG+ TL+EV ++ +TRERIRQ++ ++ KLK+ Sbjct: 220 ANVLKCLNNRDKEIICRRFGLLGYEAQTLQEVAEEVGLTRERIRQLQVTSLAKLKN 275 >gi|33862400|ref|NP_893960.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33640513|emb|CAE20302.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 335 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 92/230 (40%), Positives = 143/230 (62%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 100 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 219 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + P + ++ +L L Sbjct: 220 KDLMCRARQPMSLEMKVGDGDETEL-LELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 278 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + RVLRMR+GI L +G+ ++R+R+R +E + L+ S + Sbjct: 279 QGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNLERHGLNGLRQLSET 328 >gi|327538655|gb|EGF25307.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica WH47] Length = 330 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 90/230 (39%), Positives = 147/230 (63%), Gaps = 10/230 (4%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+ +MV ANLRLV+++++ YT +GL DLI+EGN+GL++A E FD G +FSTYA + Sbjct: 94 MARDQMVRANLRLVVNISRGYTGKGLGLQDLIEEGNLGLLRAVEGFDPIHGTRFSTYASY 153 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--- 559 W+KQ+I R++ + + TIRIP +M + + K R R++ ++ R PT EE+A+ L +P Sbjct: 154 WIKQSIKRALINSAKTIRIPAYMVELLSKWRRATARLNEELGRTPTNEEVARVLGLPKKK 213 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + +RK +KI TP D+ + LGD ++D+ +P + + ++ + +L Sbjct: 214 LPIIRKAIKINN-----STPQSDQTEAGWSLGDMVQDERLKAPDEEMLDHDILKHAMSLL 268 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE VL++RFG+G TL+E+G + +TRER+RQIE +A+R+L Sbjct: 269 GDLEERESTVLKLRFGLGGVEPMTLKEIGAELGLTRERVRQIETEALRRL 318 >gi|149921691|ref|ZP_01910139.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149817429|gb|EDM76901.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 384 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 89/223 (39%), Positives = 140/223 (62%), Gaps = 1/223 (0%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 + +ANLRLV+S+A++ +N L DLIQEGNIGL+KA E+FD G++FSTYA WW++ Sbjct: 153 DFAKANLRLVVSLARRLSNGRLPLQDLIQEGNIGLLKAIERFDHRKGFRFSTYASWWIRH 212 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 +I+R+I ++ +R+PVH+ D K+ R RR +I REPT EEIA ++ +P+ V K+ Sbjct: 213 SISRAIYNKGRQVRLPVHVYDVHQKITRVRRRYEAQIGREPTHEEIANEIGVPLAKVEKI 272 Query: 567 LKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 I PI SL+ P+ D D +ED+ + P L E L++L P E Sbjct: 273 AAIELGPIVSLDAPLSRNDDRSGVDLLEDQVSPGPGFELELGELEEGLEDALSALRPMEA 332 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LR R+G+ TL E+G+++ ++RERIRQ++ +A+ +++ Sbjct: 333 DILRRRYGLDGVEKETLREIGERYALSRERIRQLQERAVSRMR 375 >gi|124021877|ref|YP_001016184.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123962163|gb|ABM76919.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 350 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 92/230 (40%), Positives = 143/230 (62%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 115 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 174 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 175 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 234 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + P + ++ +L L Sbjct: 235 KDLMCRARQPMSLEMKVGDGDETEL-LELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 293 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + RVLRMR+GI L +G+ ++R+R+R +E + L+ S + Sbjct: 294 QGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNLERHGLNGLRQLSET 343 >gi|158833999|gb|ABW81805.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 79/202 (39%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ C +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 67 VYFARRALCGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDP 126 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +QS TIR+P+H+ +++ +RTAR +++K+ EP+ E Sbjct: 127 ERGFRFSTYATWWIRQTIERAIMNQSRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAE 186 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S+++P+G + L D + D + P D+ +++ Sbjct: 187 EIAEQLDRPVDDVSRMLRLNERITSVDSPLGGDSEKALLDILSDDSENGPEDTTQNDDMK 246 Query: 611 ETTTRVLASLTPREERVLRMRF 632 + + L L ++ VL RF Sbjct: 247 HSIVKWLFELNAKQREVLARRF 268 >gi|312891071|ref|ZP_07750594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311296379|gb|EFQ73525.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 285 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 89/239 (37%), Positives = 156/239 (65%), Gaps = 5/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + + NLR V+SVAK+Y N+GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTKTNLRFVVSVAKQYQNQGLTLGDLINEGNLGLIKAAKRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++A+QS +R+P++ ++K+ + ++ + +REP+ E+A L + + Sbjct: 110 IRQSILSAVAEQSRIVRLPLNQIGSLNKIRQAFSKLEQQYEREPSQAELADILETTEDKI 169 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + +S++ P G+E+T L D +++ N + D ++ +L + R L +L Sbjct: 170 CDSLSNSGRHVSMDAPFVQGEENT--LLDVLQN-NEPTTDDYLMEESLSQEIMRSLVTLA 226 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+ + FG+G N +LEE+G+++ +TRER+RQI+ KA+++L+H SRS L+S+L Sbjct: 227 EREREVIVLFFGLGNNYPLSLEEIGEKYNLTRERVRQIKDKALQRLRHTSRSNLLQSYL 285 >gi|114155162|dbj|BAF31031.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis] Length = 250 Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 114/236 (48%), Positives = 142/236 (60%), Gaps = 41/236 (17%) Query: 76 NVVDGDDLED---------EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLR 126 NVV+ +D ED EE + +LA A N++V K+K+ DR TDDPVRMYLR Sbjct: 1 NVVEDEDAEDPAAEESDNDEEAESEGGELAP-AGNTAVATAKKKEPTDR-TDDPVRMYLR 58 Query: 127 EMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 EMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQALIIWRDELN+GTTLLREIID Sbjct: 59 EMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIID 118 Query: 187 LEACI-GPESKGGF-FHGTEGHSYQKREDSSQEKER------DDVQETEGDIESAAKVSK 238 LE GPE+K F E ++ +EK R DD+ GD++ + + Sbjct: 119 LETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRVRSSEDDITNVGGDMQMPEEEEE 178 Query: 239 DDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYREL 294 D+ NL +L+AME +LRP+VM LD IA+ Y++L Sbjct: 179 DEDES-------------NL---------SLAAMEAELRPQVMETLDLIADTYKKL 212 >gi|32472693|ref|NP_865687.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica SH 1] gi|32443930|emb|CAD73372.1| RNA polymerase sigma factor rpoS [Rhodopirellula baltica SH 1] Length = 355 Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 90/230 (39%), Positives = 147/230 (63%), Gaps = 10/230 (4%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+ +MV ANLRLV+++++ YT +GL DLI+EGN+GL++A E FD G +FSTYA + Sbjct: 119 MARDQMVRANLRLVVNISRGYTGKGLGLQDLIEEGNLGLLRAVEGFDPIHGTRFSTYASY 178 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--- 559 W+KQ+I R++ + + TIRIP +M + + K R R++ ++ R PT EE+A+ L +P Sbjct: 179 WIKQSIKRALINSAKTIRIPAYMVELLSKWRRATARLNEELGRTPTNEEVARVLGLPKKK 238 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + +RK +KI TP D+ + LGD ++D+ +P + + ++ + +L Sbjct: 239 LPIIRKAIKINN-----STPQSDQTEAGWSLGDMVQDERLKAPDEEMLDHDILKHAMSLL 293 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE VL++RFG+G TL+E+G + +TRER+RQIE +A+R+L Sbjct: 294 GDLEERESTVLKLRFGLGGVEPMTLKEIGAELGLTRERVRQIETEALRRL 343 >gi|260773542|ref|ZP_05882458.1| RNA polymerase sigma factor RpoS [Vibrio metschnikovii CIP 69.14] gi|260612681|gb|EEX37884.1| RNA polymerase sigma factor RpoS [Vibrio metschnikovii CIP 69.14] Length = 297 Score = 174 bits (442), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 82/189 (43%), Positives = 128/189 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 81 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 140 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPT EEIA +L PVE V Sbjct: 141 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTAEEIAAELDKPVEDV 200 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L++ + S++TPIG + L D + D N P S ++R + L L P+ Sbjct: 201 NKMLRLNERISSVDTPIGGDGDKALLDILPDSNHSDPEVSTQDEDIRLSLLNWLDELNPK 260 Query: 624 EERVLRMRF 632 ++ VL R Sbjct: 261 QKEVLARRL 269 >gi|77165179|ref|YP_343704.1| RpoS [Nitrosococcus oceani ATCC 19707] gi|254434741|ref|ZP_05048249.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] gi|76883493|gb|ABA58174.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosococcus oceani ATCC 19707] gi|207091074|gb|EDZ68345.1| RNA polymerase sigma factor, sigma-70 family [Nitrosococcus oceani AFC27] Length = 303 Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 155/250 (62%), Gaps = 10/250 (4%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E RH + ++G+ EA + ++E+NLR+VI +A ++ NRGL +DLI+EGN+GL Sbjct: 52 LSAEEERHYARLAQQGDREA---RNHIIESNLRIVIRMATRHINRGLPLMDLIEEGNLGL 108 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + A EKF+ LG++FSTYA WW++QAI R++ +Q+ TIR+P+H+ KI + AR Sbjct: 109 IDAVEKFNPELGFRFSTYASWWIRQAIERALMNQTRTIRVPIHVFKKIRCYQKEARYFRQ 168 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP EIAK L P+E +++ L + ISL+ P+ ++ L D + D+ Sbjct: 169 RYNIEPHLGEIAKLLHEPLERIQRYLSLQAPEISLDDPLSEDTDDCLVDLLPDERN---- 224 Query: 602 DSAIQANLRETTTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 + AI + + + L+ L R++ +++ R+G+ TLEE+G++ +TRER+RQ Sbjct: 225 NPAILWEIFDKKASIHNQLSQLPERQQEIIKCRYGLDGYEVTTLEEIGQKLGITRERVRQ 284 Query: 659 IEAKAIRKLK 668 I+ AI++L+ Sbjct: 285 IQQTAIKRLR 294 >gi|158833997|gb|ABW81804.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 78/202 (38%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ C +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 67 VYFARRALCGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDP 126 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ E Sbjct: 127 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAE 186 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S+++P+G + L D + D + P D+ +++ Sbjct: 187 EIAEQLDRPVDDVSRMLRLNERITSVDSPLGGDSEKALLDILSDDSENGPEDTTQNDDMK 246 Query: 611 ETTTRVLASLTPREERVLRMRF 632 + + L L ++ VL RF Sbjct: 247 HSIVKWLFELNAKQREVLARRF 268 >gi|317060654|ref|ZP_07925139.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] gi|313686330|gb|EFS23165.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] Length = 276 Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 99/242 (40%), Positives = 151/242 (62%), Gaps = 14/242 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ NLRLV++VAK Y ++G+ +DLI EGN+GL++A EKFD G++FSTYA+WW Sbjct: 43 AKNQLILCNLRLVVNVAKGYRSKGMNLIDLISEGNLGLIRAIEKFDVEKGFRFSTYAVWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I+++I + IRIP + D ++K+ R P+ EE+A+ L MPV V Sbjct: 103 IKQSISKAIIFKGREIRIPSYRYDILNKINRYVTEEIKLYGVYPSVEEVAEYLNMPVNKV 162 Query: 564 RKVLKITKEPISLETPIGD----EDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +++ +EP+SL T IG+ EDT S + E+K +Q L++ +L Sbjct: 163 EEIMIEFQEPMSLSTEIGEDIYLEDTLSGTEEHFEEKVYY----KMMQQRLKD----ILN 214 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE+ +L++RFG+ HTLEE+GK F +TRER+RQIE ++KLK +K+LR Sbjct: 215 RLDTREQEILKLRFGLDGYEIHTLEEIGKNFNITRERVRQIEKNTLKKLKRKY-TKELRE 273 Query: 679 FL 680 L Sbjct: 274 TL 275 >gi|257463050|ref|ZP_05627452.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. D12] Length = 272 Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 99/242 (40%), Positives = 151/242 (62%), Gaps = 14/242 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ NLRLV++VAK Y ++G+ +DLI EGN+GL++A EKFD G++FSTYA+WW Sbjct: 39 AKNQLILCNLRLVVNVAKGYRSKGMNLIDLISEGNLGLIRAIEKFDVEKGFRFSTYAVWW 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I+++I + IRIP + D ++K+ R P+ EE+A+ L MPV V Sbjct: 99 IKQSISKAIIFKGREIRIPSYRYDILNKINRYVTEEIKLYGVYPSVEEVAEYLNMPVNKV 158 Query: 564 RKVLKITKEPISLETPIGD----EDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +++ +EP+SL T IG+ EDT S + E+K +Q L++ +L Sbjct: 159 EEIMIEFQEPMSLSTEIGEDIYLEDTLSGTEEHFEEKVYY----KMMQQRLKD----ILN 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 L RE+ +L++RFG+ HTLEE+GK F +TRER+RQIE ++KLK +K+LR Sbjct: 211 RLDTREQEILKLRFGLDGYEIHTLEEIGKNFNITRERVRQIEKNTLKKLKRKY-TKELRE 269 Query: 679 FL 680 L Sbjct: 270 TL 271 >gi|149916815|ref|ZP_01905317.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] gi|149822532|gb|EDM81921.1| RNA polymerase sigma factor RpoD [Plesiocystis pacifica SIR-1] Length = 421 Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 97/286 (33%), Positives = 163/286 (56%), Gaps = 9/286 (3%) Query: 392 EGEWKNFVACEVDSILKIRNEIKSISVETGISISE-FRHIVSMVRKGECEASIAKKEMVE 450 +G + + VA ++++I R E ++ V S F V VR +K + V+ Sbjct: 127 DGNYSDCVAADLEAIDAHRREGVALEVSYPPKGSRPFARYVQKVRSSGHALRWSKNKFVK 186 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLV+++A+++ + + DL+QEGN+GLMKA ++FD GY+FSTYA WW++ AI R Sbjct: 187 ANLRLVVTIARRFDHGLMPLQDLVQEGNLGLMKAVDRFDPTRGYRFSTYATWWIRHAINR 246 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 ++A++ T+R+P H+ + ++ R R + K PTPE++A+ + VRK+ K+T Sbjct: 247 ALANKGRTVRLPAHVSADLQRLRRVTRELEAKTGETPTPEQLAQAAGLSKTRVRKLSKLT 306 Query: 571 KEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 +P +SL+ P D+D L D +ED + D L E L +L P E +L+ Sbjct: 307 LDPTVSLDAPSHDDDARGLLDRLEDASVPVAADILEHQALNEHLRDALYNLQPIELDILK 366 Query: 630 MRFGIGMNTDH-------TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+GI + TL ++G++ ++RERIRQ++ +A+ KL+ Sbjct: 367 RRYGIATSEAESVDFEPMTLRQLGERHSLSRERIRQLQERALTKLR 412 >gi|55274930|gb|AAV49266.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 81/198 (40%), Positives = 134/198 (67%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++ Sbjct: 1 RRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIR 60 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V + Sbjct: 61 QTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSR 120 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 +L++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ Sbjct: 121 MLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQR 180 Query: 626 RVLRMRFGIGMNTDHTLE 643 VL RFG+ TLE Sbjct: 181 EVLARRFGLLGYEAATLE 198 >gi|42566462|gb|AAS21043.1| major sigma factor 70 [Deinococcus grandis] gi|42566464|gb|AAS21044.1| major sigma factor 70 [Deinococcus proteolyticus] Length = 168 Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 89/168 (52%), Positives = 120/168 (71%), Gaps = 2/168 (1%) Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ RE T EEIA+ + Sbjct: 1 TYATWWIRQAINRAIADQARTIRIPVHMVETINKLTRTARQLQQELSREATYEEIAEAMG 60 Query: 558 MPVEG--VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V +V K+++EP+SLETPIGDE S GDFI D+N SP+++A + L E + Sbjct: 61 PGWDAAKVEEVQKVSQEPVSLETPIGDEKDSFYGDFIPDENLDSPVENAAKTLLSEELEK 120 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 L+ LT RE VL+ R G+ +HTLEEVG++F VTRERIRQIE KA Sbjct: 121 ALSKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKA 168 >gi|158833995|gb|ABW81803.1| RNA polymerase sigma 38 [Candidatus Regiella insecticola] Length = 268 Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 78/202 (38%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R+ C +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 67 VYFARRALCGDQQSRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDP 126 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +++K+ EP+ E Sbjct: 127 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELAHKLDHEPSAE 186 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S+++P+G + L D + D + P D+ +++ Sbjct: 187 EIAEQLDRPVDDVSRMLRLNERITSVDSPLGGDSEKALLDILSDDSENGPEDTTQNDDMK 246 Query: 611 ETTTRVLASLTPREERVLRMRF 632 + + L L ++ VL RF Sbjct: 247 HSIVKWLFELNAKQREVLARRF 268 >gi|326518320|dbj|BAJ88189.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326533296|dbj|BAJ93620.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 552 Score = 173 bits (439), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 93/236 (39%), Positives = 152/236 (64%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ GL+ DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 312 KNRMVTSNVRLVISIAREFEGPGLELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWI 371 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++Q+ R+P HM + ++V +R+ K+KR P+ EEIA + MPV+ V Sbjct: 372 KQAMRKSVSEQTQIFRLPAHMVEASYRVKECTKRLRRKLKRRPSNEEIAVDIGMPVKRVE 431 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D +A + + + ++++ + L +L+PRE Sbjct: 432 AAVSLPKYSVSLDSKIGSTDMTY-QEVTADPSAETAEEMLNRMSMKKDVHQALDTLSPRE 490 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +V+++RFGI TL+E+G V+RERIRQIE+ A RKL+ + K L +L Sbjct: 491 RQVVKLRFGINDGRIRTLQEIGNIMGVSRERIRQIESGAFRKLRGKKKVKCLMDYL 546 >gi|307822780|ref|ZP_07653011.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307736384|gb|EFO07230.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 448 Score = 173 bits (439), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 89/237 (37%), Positives = 146/237 (61%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ + EAN LV+ +A +Y L F DL+QEG GL++A +KFD+ LG++FSTYA +W Sbjct: 213 SRQALAEANSGLVLFLANQYKCGFLDFDDLVQEGQTGLLRAIDKFDYHLGFQFSTYAAYW 272 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI+R+++ +R+P IHKV+R + +K REP+ +E+ + +P + + Sbjct: 273 IKQAISRALSRNERVVRVPCEQVANIHKVLRAKNELLSKTGREPSIKELTEYSKIPDDQI 332 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +L I++ +SLE DED+ DF+E + +P Q++L+ + + L PR Sbjct: 333 NVILSISQTAVSLENLDDDEDSLAPIDFLEQQVFANPFKKIEQSDLKAWLGKAIKILDPR 392 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+ FGI + TL+E+G + +TRER+RQI+ KA+ K+K S K+L SFL Sbjct: 393 ELKVICCHFGINTGNEMTLQEIGAELNLTRERVRQIQVKALNKMKL-SYGKQLMSFL 448 >gi|213621937|ref|ZP_03374720.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 197 Score = 173 bits (439), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 78/190 (41%), Positives = 132/190 (69%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW+ Sbjct: 1 RRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWI 60 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 61 RQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVS 120 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ Sbjct: 121 RMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQ 180 Query: 625 ERVLRMRFGI 634 VL RFG+ Sbjct: 181 REVLARRFGL 190 >gi|89073765|ref|ZP_01160279.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89050540|gb|EAR56032.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 291 Score = 173 bits (439), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 142/236 (60%), Gaps = 1/236 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK + +K ++E+NLRLV+S+AKKY + DLI EGNIGLM A EKFD G+ Sbjct: 40 RKSLSGDAYSKNVLIESNLRLVVSIAKKYRGSSIHISDLIDEGNIGLMTAVEKFDPEKGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+KQ I R+I +Q TIR+PVH+ +I+ ++RT +++ K +EP+ E +A+ Sbjct: 100 RFSTYATWWIKQTIERAIHNQGRTIRLPVHVSKEINTIIRTHKQLVKKNNQEPSTELVAE 159 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETT 613 L ++ + L +S + I E +S + I D+N+ P D +++ T Sbjct: 160 VLNKTLDDISTTLSYDTPIVSYDQSITSEASSQSIAVLIADENSAKPDDLVDDLAIQKIT 219 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 T VL L R++ ++ RFG+ TL+EV + +TRERIRQ++ ++ KLK+ Sbjct: 220 TNVLNCLNNRDKEIICRRFGLLGYEAQTLQEVADEVGLTRERIRQLQVTSLAKLKN 275 >gi|189501483|ref|YP_001957200.1| RNA polymerase sigma factor [Candidatus Amoebophilus asiaticus 5a2] gi|189496924|gb|ACE05471.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Amoebophilus asiaticus 5a2] Length = 287 Score = 173 bits (438), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 98/238 (41%), Positives = 159/238 (66%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA +++ +ANLR V+SVAK+Y N+GL DLI EGN+GL+K+A++FD G+KF +YA+W Sbjct: 49 IALEQLTKANLRFVVSVAKQYQNQGLSLSDLINEGNLGLIKSAQRFDETRGFKFISYAVW 108 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q+I +++A+QS +R+P++ ++K+ RT ++ K KREPT EE+A++L + Sbjct: 109 WIRQSILQALAEQSRIVRLPLNRVGTLNKLSRTFSQLEQKYKREPTAEELAEELEVTPGE 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +KI+ +S++ P + L D +ED + P D+ I +L + R L+ LT Sbjct: 169 ISDTMKISGRHVSMDAPFVQGEEHSLLDVLEDDDEDKPDDTLIDESLCKDIERALSLLTE 228 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE V+ FG+ TLEE+G +F +TRER+RQI+ KAI+KL+H + SK L+++L Sbjct: 229 REAGVISYYFGLKGTNPMTLEEIGTRFNLTRERVRQIKEKAIKKLRHVASSKTLKNYL 286 >gi|55274875|gb|AAV49240.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 193 Score = 173 bits (438), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 78/187 (41%), Positives = 130/187 (69%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 1 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 61 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 121 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 180 Query: 628 LRMRFGI 634 L RFG+ Sbjct: 181 LARRFGL 187 >gi|292492664|ref|YP_003528103.1| RNA polymerase sigma factor RpoS [Nitrosococcus halophilus Nc4] gi|291581259|gb|ADE15716.1| RNA polymerase sigma factor RpoS [Nitrosococcus halophilus Nc4] Length = 325 Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 83/225 (36%), Positives = 143/225 (63%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL+ A EKFD +G++FSTYA WW Sbjct: 86 GRKRMIESNLRLVVKIARRYMNRGLALLDLIEEGNLGLIHAVEKFDPEMGFRFSTYATWW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ T+R+PVH+ +I R A +++ +++ +PT EE+A++L VE + Sbjct: 146 IRQTIERALMNQTRTVRLPVHVVKEIKSYQRVASKLAQELEHDPTFEELAQQLDKSVEEI 205 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++ + S++T + L D + D+ P +++ L+ L + Sbjct: 206 KRMWSLKDNIASMDTGYRSDQEKTLLDTLPDEGTPDPTTLLQNDDMQSRLELWLSQLNNK 265 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V+ RFG+ TLE+VG+ VTRER+RQI+ +A+++L+ Sbjct: 266 QREVVIRRFGLQGYESQTLEQVGQAIGVTRERVRQIQLEALKRLR 310 >gi|302851352|ref|XP_002957200.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f. nagariensis] gi|300257450|gb|EFJ41698.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f. nagariensis] Length = 733 Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 145/226 (64%), Gaps = 3/226 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++++N RLV++V K+Y +G+ DL+ EG GL++ E +D G++F TYA WW Sbjct: 474 AKELLLKSNYRLVMTVCKRYIGKGMHLQDLVSEGVKGLLRGVEMYDASRGFRFGTYAHWW 533 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++RS+A+ +R+PVHM +++ K+ ++ ++ REP+ EE+A+ + +P V Sbjct: 534 IRQAVSRSMAETGRAVRLPVHMIEQLTKLKNATAALAMELNREPSVEEMAEAVGLPPSRV 593 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLASLTP 622 +L + S+E+ IG +D + D ++D+ + D A ++ +R +L L+ Sbjct: 594 ELLLDAARAASSMESAIGGDDGLTIKDAVQDERMAA--DEAFGSDSMRADVESMLEGLSD 651 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE VLR+RFG+ + TLE++G + VTRERIRQ+EAKA+RKL+ Sbjct: 652 REACVLRLRFGLEDGVEWTLEDIGSRLGVTRERIRQLEAKALRKLQ 697 >gi|152980760|ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinobacterium sp. Marseille] gi|151280837|gb|ABR89247.1| RNA polymerase nonessential primary-like sigma factor [Janthinobacterium sp. Marseille] Length = 345 Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 98/280 (35%), Positives = 168/280 (60%), Gaps = 12/280 (4%) Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K +A E+ S ++ + I +++ E H ++ ++G A +++M+E NL Sbjct: 59 ELKKVLATEL-STDATQHYLNQIGTRPLLTVPEEVHFATLAKQGNFAA---RQKMIEHNL 114 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK Y NRG+ LDLI+EGN+GLM+A +KF+ G++FSTYA WW++Q+I R+I Sbjct: 115 RLVVSIAKHYINRGVILLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIM 174 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKVLKITK 571 +Q+ T+R+PVH+ ++++ +R + + ++ T E+IA + VE V+ +L +++ Sbjct: 175 NQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVDRSVEDVQDILALSE 234 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVL 628 SL+ P+ + S L D ++ +A P D+ + N E T V L L ++ V+ Sbjct: 235 HATSLDAPLDGDPQSSLMDLLQGDHANDP-DALAEHN--EMTVLVHDWLEKLPDKQRLVI 291 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RFG+ + TLE + + VTRER+RQI+ +A+ KLK Sbjct: 292 TRRFGLDNDDPATLEALAAEMHVTRERVRQIQQEALVKLK 331 >gi|332667453|ref|YP_004450241.1| RpoD subfamily RNA polymerase sigma-70 subunit [Haliscomenobacter hydrossis DSM 1100] gi|332336267|gb|AEE53368.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliscomenobacter hydrossis DSM 1100] Length = 288 Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 94/248 (37%), Positives = 154/248 (62%), Gaps = 4/248 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A +AK + ANLR V+SVAK+Y N+GL DLI EGN+GLMKAA++FD G Sbjct: 43 IRQGDDDA-MAK--LTRANLRFVVSVAKQYQNQGLSLSDLINEGNVGLMKAAKRFDETKG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++I + S +R+P++ +KV + +REP+ EE+ Sbjct: 100 FKFISYAVWWIRQSILQAIVEYSRIVRLPLNKVGSYNKVNEAYLAFIQQFEREPSNEELG 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + L M V +LK +S++ P+ G+E S + D I D++ + P ++ +L++ Sbjct: 160 ELLEMNPREVGNMLKGNGRHVSVDAPLSGEEGDSTMLDVITDEDDMGPDFRLMEQSLKDE 219 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L+ L RE VL +G+ TLEE+G+ + +TRER+RQI+ +AIR+L+ Sbjct: 220 VKQGLSILNIREVEVLSAYYGLEGQKPLTLEEIGEMYGLTRERVRQIKERAIRRLRKSYN 279 Query: 673 SKKLRSFL 680 LRS+L Sbjct: 280 RNNLRSYL 287 >gi|55274970|gb|AAV49284.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 196 Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 78/187 (41%), Positives = 130/187 (69%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP+G + L D + D+ P D+ +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREV 181 Query: 628 LRMRFGI 634 L RFG+ Sbjct: 182 LARRFGL 188 >gi|256425191|ref|YP_003125844.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] gi|256040099|gb|ACU63643.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chitinophaga pinensis DSM 2588] Length = 285 Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 84/237 (35%), Positives = 147/237 (62%), Gaps = 2/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + NLR V+SVAK+Y ++GL DLI EGN+GL+KAA++FD G+KF +YA+WW Sbjct: 50 ALERLTTGNLRFVVSVAKQYQHQGLSLSDLINEGNLGLIKAAQRFDETKGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+Q +R+P + +K + + +REP+ EE+A+ L M + Sbjct: 110 IRQSILQALAEQGRLVRLPQNKIGTYNKANKAYMAFEQENEREPSTEELAEILEMSESEI 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + +SL+ P+ + + +GD +E + D ++ +LRE RVL SL+PR Sbjct: 170 NNIFQSNTRHMSLDAPVHEAEDVAMGDLLEGGDITD--DDVMRDSLREEIRRVLKSLSPR 227 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++ FG+ T+E++G+++ +T+ERIRQI+ +AI++L+ S L+S+L Sbjct: 228 EAEIVNAYFGLDGENGATIEQIGQKYDLTKERIRQIKERAIKRLQKARYSGALKSYL 284 >gi|33863339|ref|NP_894899.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9313] gi|33640788|emb|CAE21243.1| Type II alternative RNA polymerase sigma factor, sigma-70 family [Prochlorococcus marinus str. MIT 9313] Length = 320 Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 91/228 (39%), Positives = 142/228 (62%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + P + ++ +L L Sbjct: 205 KDLMCRARQPMSLEMKVGDGDETEL-LELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVLRMR+GI L + K ++R+R R++E + + ++ S Sbjct: 264 QGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRLEREGLALMRTSS 311 >gi|303235908|ref|ZP_07322511.1| putative RNA polymerase sigma factor RpoD [Prevotella disiens FB035-09AN] gi|302483781|gb|EFL46773.1| putative RNA polymerase sigma factor RpoD [Prevotella disiens FB035-09AN] Length = 293 Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 86/237 (36%), Positives = 151/237 (63%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + +ANLR V+SVAK+Y N+GL DLI EGN GL+KAA+K+D G+KF +YA+WW Sbjct: 56 ALERLTKANLRFVVSVAKQYQNQGLALPDLINEGNFGLIKAAQKYDETRGFKFISYAVWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I ++I++QS +R+P++ +++ + + + +R P+ E+ + + + E + Sbjct: 116 IRQSIMQAISEQSRMVRVPINQMGSANRIRKFINQFEQEHERYPSLSELTEHIDLLEEKI 175 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + L + +S++ P + L D + +KNA S D + +L LASL+ R Sbjct: 176 VEALAMATTQVSMDAPFTSNEEGSLLDVLPNKNAPSADDLLVAESLSTEVANALASLSER 235 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ +++ FGI + +LEE+G++ +TRER+RQI+ KAI +L+ S+S++L+SFL Sbjct: 236 EQIIIKCFFGIN-QPEMSLEEIGERTGLTRERVRQIKEKAIIRLRKNSQSERLKSFL 291 >gi|213419842|ref|ZP_03352908.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 115 Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 86/114 (75%), Positives = 94/114 (82%) Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 KI KEPIS+ETPIGD++ SHLGDFIED PLDSA +LR T VLA LT RE +V Sbjct: 1 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKV 60 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LRMRFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 61 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 114 >gi|159470255|ref|XP_001693275.1| chloroplast RNA polymerase sigma factor, c [Chlamydomonas reinhardtii] gi|42742499|gb|AAM88387.2|AF525691_1 RNA polymerase sigma factor [Chlamydomonas reinhardtii] gi|47076042|emb|CAF25319.1| sigma-like transcription factor [Chlamydomonas reinhardtii] gi|158277533|gb|EDP03301.1| chloroplast RNA polymerase sigma factor, c [Chlamydomonas reinhardtii] Length = 752 Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 143/228 (62%), Gaps = 6/228 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++++N +LV++V K + +G DL+ EG GL+K EK+D G++F TYA WW Sbjct: 490 AKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGFRFGTYAHWW 549 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++RS+A+ +R+P+HM +++ ++ + ++ ++ REPT E+AK +PV V Sbjct: 550 IRQAVSRSLAETGRAVRLPMHMIEQLTRLKNLSAKLQTQLAREPTLPELAKAAGLPVTRV 609 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA---NLRETTTRVLASL 620 + +++ + SL+TPIG + LG ++D + + +LR +L L Sbjct: 610 QMLMETARSAASLDTPIGGNE---LGPTVKDSVEDEREAADEEFGSDSLRNDMEAMLLEL 666 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE RV+R+RFG+ + TLEE+G+ VTRERIRQIEAKA+RKL+ Sbjct: 667 PEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEAKALRKLR 714 >gi|330447824|ref|ZP_08311472.1| RNA polymerase sigma factor, sigma-70 family protein [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492015|dbj|GAA05969.1| RNA polymerase sigma factor, sigma-70 family protein [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 286 Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 137/226 (60%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK +VE+NLRLV+S+AKKY L DLI EGNIGLM A +KFD G++FSTYA WW Sbjct: 43 AKKILVESNLRLVVSIAKKYRASKLSLSDLIDEGNIGLMTAVDKFDPEKGFRFSTYASWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R+I +Q+ TIR+PVH+ +I+ ++RT R + EPT ++IA+ L + + Sbjct: 103 IKQTIERAIHNQNRTIRLPVHVSKEINTLLRTHRELMKVNNNEPTQDDIARVLNRDINEI 162 Query: 564 RKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L +SLE +GD++ S+ + + D+ SP ++ + T +L L Sbjct: 163 SSLLASEVNVVSLEQTLGDDENSNTVAYLVADEQIASPSAEVDSDDIMKVTNMILHKLPS 222 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++ R+G+ HTL+EV +TRERIRQ++ K + LK Sbjct: 223 RDREIMCRRYGLMGYEPHTLQEVADSVGLTRERIRQLQIKTLNTLK 268 >gi|124022691|ref|YP_001016998.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] gi|123962977|gb|ABM77733.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 320 Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 91/228 (39%), Positives = 142/228 (62%), Gaps = 1/228 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ MV ANLRLV+SVAKKYT R ++ LDLIQEG IGL++ EKFD GYKFSTYA WW Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q ITR+IA++S TIR+P+H+ + ++K+ + R +S ++ R PT E+A+ + +P E V Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 204 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ ++P+SLE +GD D + L + P + ++ +L L Sbjct: 205 KDLMCRARQPMSLEMKVGDGDETEL-LELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 263 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + RVLRMR+GI L + K ++R+R R++E + + ++ S Sbjct: 264 QGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRLEREGLALMRTSS 311 >gi|299783172|gb|ADJ41170.1| RNA polymerase sigma factor [Lactobacillus fermentum CECT 5716] Length = 287 Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 76/124 (61%), Positives = 100/124 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E+ EANLRLV+S+AK+Y RG+QFLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 143 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 202 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ TIRIPVHM + I+K++R R++ + REP PEEI ++ M + V Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMDTQKV 262 Query: 564 RKVL 567 R +L Sbjct: 263 RDIL 266 Score = 52.0 bits (123), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 34/108 (31%), Positives = 57/108 (52%), Gaps = 6/108 (5%) Query: 55 PDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSAD 114 P ++++ M+ + + + G++VVD E G D L ++ SS L+ + Sbjct: 51 PFGLNADGMDALLQNVEDAGVSVVD------ENGDPDLRALKATEKLSSKALKDTTAPSS 104 Query: 115 RSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 +DPVRMYL+E+G + LL+ + E+A+A RIE G L E+ L Sbjct: 105 IKINDPVRMYLKEIGRVNLLTADEEVALALRIEKGDETAKQELAEANL 152 >gi|318066935|emb|CBY89082.1| RNA polymerase sigma70 factor [Halomonas cupida] Length = 365 Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 139/405 (34%), Positives = 201/405 (49%), Gaps = 72/405 (17%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R + DL + GF EG D + +E + T GD E Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEADVPEIEE----EATAGDDEDDDAD 127 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCA--LDEIAEVYREL 294 +++D S PE A ++ + SA +A+E R L +AE++ + Sbjct: 128 AEEDDSGGGPDPEEARA---RFEQIREQSALADAAIEAHGRQSAQAQEELARLAELFSPI 184 Query: 295 RSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 K++ + +LVG + ++ VEQ+ K +M Sbjct: 185 --------------------KLVPKHFERLVGQVRIS-------VEQVRAQEKSVMQ--- 214 Query: 355 ELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE---VDSILKIRN 411 L + + R F++ G E W+ +F+A D + ++R Sbjct: 215 ---LLVKQAKVPRKSFIKAFPGNESRLDWLD-----------DFMAANARYADRLGELRA 260 Query: 412 EI----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 ++ + I+ E + +SE + + + GE +A AKKEMVEANLRLVIS+AKKYT Sbjct: 261 DVQRAQRKIAFEEEMVRLPVSEIKEVNRKLSIGEAKARRAKKEMVEANLRLVISIAKKYT 320 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 NRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 321 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 365 >gi|255312659|gb|ACU01739.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 80/195 (41%), Positives = 132/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDLERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|6273430|emb|CAB60192.1| putative sigma-like transcription factor [Arabidopsis thaliana] Length = 487 Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 83/238 (34%), Positives = 146/238 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLRLV+ +AK+Y NRGL F DL+QEG++GLMK+ EKF G +F+TYA WW Sbjct: 247 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 306 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +SI S TIR+P ++ + KV + + P+ EE+A + + E + Sbjct: 307 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTEKL 366 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L T+ P+S++ PI + + + D +P S + +R +L L+P+ Sbjct: 367 DKLLYNTRTPLSMQQPIWSDQDTTFQEITPDSGIETPTMSVGKQLMRNHVRNLLNVLSPK 426 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E R++++RFGI +L E+G+ + +++ER+RQ+E++A+ +LK S L ++ D Sbjct: 427 ERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQNMNSHGLHAYAD 484 >gi|55274901|gb|AAV49252.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 80/197 (40%), Positives = 133/197 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGKQF 649 G+ TLE+VG++ Sbjct: 181 GLLGYEAATLEDVGREI 197 >gi|296535367|ref|ZP_06897567.1| possible DNA-directed RNA polymerase sigma subunit SigA [Roseomonas cervicalis ATCC 49957] gi|296264309|gb|EFH10734.1| possible DNA-directed RNA polymerase sigma subunit SigA [Roseomonas cervicalis ATCC 49957] Length = 1063 Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 141/227 (62%), Gaps = 5/227 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E+VE NL+ V+ +A++Y + FLDL+QEG IGL++A ++FD G++F TYA WW Sbjct: 827 ARQEIVEGNLKRVVWLARRYARAAVPFLDLVQEGQIGLLRAIDRFDPDRGFRFGTYATWW 886 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+++R + DQ T+R+PVHM ++I K R + + K PTP+E+A L V V Sbjct: 887 IRQSMSRYVQDQGRTVRVPVHMLERIAKAKRASEALRAKTGVVPTPQELAAALEADVVSV 946 Query: 564 RKVLKITKEPISLE--TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L E IS + + DED + + +++ +PL + + +LR L L Sbjct: 947 ERALAADLEGISFDDMGSLPDEDAALVAPLVDE---ATPLTALLHHDLRRLLAASLRRLD 1003 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ R++ +RFG+ TLEEVG+ + VTRERIRQIEAK++++L Sbjct: 1004 ARQARIIDLRFGLTDGNPLTLEEVGQFYGVTRERIRQIEAKSLKRLP 1050 >gi|255312689|gb|ACU01754.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 80/195 (41%), Positives = 132/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKSLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|257055481|ref|YP_003133313.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256585353|gb|ACU96486.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 315 Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 85/233 (36%), Positives = 141/233 (60%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+ ANLRLV++ A+K + L LD IQEGN+GL++A EKFD+ G+KFSTYAMWW Sbjct: 78 AKDHMIRANLRLVVTAARKNRHTNLPLLDAIQEGNLGLIRAVEKFDYAKGFKFSTYAMWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R A QS IR+P+H+ +++ K+ R R + ++ E T EE+A MPVE V Sbjct: 138 IRQAIQRGNAFQSNAIRLPMHVSEQVAKLDRLERTLQSRSNHELTVEELAAAAEMPVERV 197 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + + +SL+ + ++ +L D + D + + + + + + SL P Sbjct: 198 EALRQAGRSTVSLDMSLDEDGELYLRDLVADGTVPAVGEGIERQAMVDQVRATIDSLPPM 257 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 E V+ +R+G+ HT+ E+ ++ ++R+R+R +E +A+ L+ P RS+ L Sbjct: 258 EAAVVSLRYGLRDGHQHTIPEISQRLGLSRKRVRTLEQRAMAMLREPQRSEPL 310 >gi|182416213|ref|YP_001821279.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1] gi|177843427|gb|ACB77679.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae PB90-1] Length = 347 Score = 171 bits (433), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 92/242 (38%), Positives = 142/242 (58%), Gaps = 14/242 (5%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR+G+ A + M+ ANLRLV+ +AK Y GL DLI EGN+GL+ A ++FD +G Sbjct: 60 VRRGDAGA---RDHMIRANLRLVVRIAKDYAQYGLPLADLISEGNVGLIHAVDRFDPRIG 116 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 K STYA WW++QAI R+ A + IR+PVHM D+I ++ R +S + RE T +E+A Sbjct: 117 GKLSTYAAWWIRQAIRRAFAHHARAIRLPVHMLDRIARLRRAQASLSEQFGREATTDELA 176 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 +L PVE + P SL+ +G ++ L + I D+ A + LR+ Sbjct: 177 AELQAPVEKIALWKSAGDAPFSLDAAVGTGSESRRLSETIRDERAPTAF-----TQLRDA 231 Query: 613 TT-----RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 TT ++A+L RE +LR+RFG+ + TL V +F +TRER+RQ+E +A++ + Sbjct: 232 TTARDLRAIIATLDVREATILRLRFGLDGDEPQTLHAVSLRFGITRERVRQLERRALQNV 291 Query: 668 KH 669 ++ Sbjct: 292 RN 293 >gi|18404292|ref|NP_565856.1| SIGF (RNA POLYMERASE SIGMA-SUBUNIT F); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|7209640|dbj|BAA92288.1| SigF [Arabidopsis thaliana] gi|7688083|emb|CAB89775.1| sigma factor-like protein [Arabidopsis thaliana] gi|16604647|gb|AAL24116.1| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana] gi|20197948|gb|AAD31584.2| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana] gi|20259557|gb|AAM14121.1| putative RNA polymerase sigma-70 factor protein [Arabidopsis thaliana] gi|330254238|gb|AEC09332.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana] Length = 547 Score = 171 bits (433), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 86/239 (35%), Positives = 149/239 (62%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLRLV+ +AK+Y NRGL F DL+QEG++GLMK+ EKF G +F+TYA WW Sbjct: 307 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 366 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +SI S TIR+P ++ + KV + + P+ EE+A + + E + Sbjct: 367 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTEKL 426 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 K+L T+ P+S++ PI D+DT+ + D +P S + +R +L L+P Sbjct: 427 DKLLYNTRTPLSMQQPIWSDQDTT-FQEITPDSGIETPTMSVGKQLMRNHVRNLLNVLSP 485 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +E R++++RFGI +L E+G+ + +++ER+RQ+E++A+ +LK S L ++ D Sbjct: 486 KERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQNMNSHGLHAYAD 544 >gi|90577256|ref|ZP_01233067.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90440342|gb|EAS65522.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 286 Score = 171 bits (433), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 91/226 (40%), Positives = 136/226 (60%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +KK ++E+NLRLV+S+AKKY L DLI EGNIGLM A EKFD G++FSTYA WW Sbjct: 43 SKKILIESNLRLVVSIAKKYRASNLSLSDLIDEGNIGLMTAVEKFDPEKGFRFSTYASWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R+I +Q+ TIR+PVH+ +I+ ++RT R + EPT E+IA+ L + + Sbjct: 103 IKQTIERAIHNQNRTIRLPVHISKEINTLLRTHRELMKLNNNEPTHEDIAQALNKDSKEI 162 Query: 564 RKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + ISL+ IGD + S + + D+ SP ++ + T +L + Sbjct: 163 SALFSNEVNVISLDQTIGDTEKSQTIAYLVADEQITSPSAEVDNDDMVKITNLILNGINA 222 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R++ ++ RFG+ HTL+EV +TRERIRQ++ K++ LK Sbjct: 223 RDKEIICRRFGLMGYEPHTLQEVADAVGLTRERIRQLQIKSLSSLK 268 >gi|82701632|ref|YP_411198.1| RNA polymerase sigma factor RpoS [Nitrosospira multiformis ATCC 25196] gi|82409697|gb|ABB73806.1| RNA polymerase, sigma 38 subunit, RpoS [Nitrosospira multiformis ATCC 25196] Length = 317 Score = 171 bits (433), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 88/257 (34%), Positives = 150/257 (58%), Gaps = 8/257 (3%) Query: 420 TGISISEFRHIVSMVRKGECEAS--------IAKKEMVEANLRLVISVAKKYTNRGLQFL 471 T I +E H + K E E + A+++M+E NLRLV+++AK YTN G+ L Sbjct: 47 TQIYFNEIGHNALLTPKEEAELTRRVRQNDFAARQKMIECNLRLVVNIAKHYTNHGVALL 106 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI+EGN+G+M A +KFD G++FSTYA WW++Q I R I +QS TIR+PVH+ ++ Sbjct: 107 DLIEEGNMGMMHALDKFDPERGFRFSTYATWWIRQNIERCIMNQSRTIRLPVHVIKDLNI 166 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 +++ AR + ++P E++A L V+ V+++L + + +SL+ P+ + +GD Sbjct: 167 ILQAARHLEAHTGKDPKAEDVAHLLGRTVKEVQRMLSLNQSMMSLDAPLDVDPLLSIGDA 226 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 I D + P Q+ ++ L L ++ ++ R+G+ TLE++ + Sbjct: 227 IADDQSPGPDLMWEQSEIKGRVQDWLNRLNDKQRYIIEQRYGLNGYETQTLEQLAASLDL 286 Query: 652 TRERIRQIEAKAIRKLK 668 TRER+RQI+ +A++ L+ Sbjct: 287 TRERVRQIQLEALQTLR 303 >gi|89072392|ref|ZP_01158971.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89051924|gb|EAR57376.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 286 Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 93/235 (39%), Positives = 138/235 (58%), Gaps = 1/235 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK +KK ++E+NLRLV+S+AKKY L DLI EGNIGLM A EKFD G+ Sbjct: 34 RKSLTGDPASKKILIESNLRLVVSIAKKYRAANLSLSDLIDEGNIGLMTAVEKFDPEKGF 93 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+KQ I R+I +Q+ TIR+PV++ +I+ ++RT R + EPT E+IA+ Sbjct: 94 RFSTYASWWIKQTIERAIHNQNRTIRLPVNISKEINTLLRTHRELMKLNNNEPTHEDIAQ 153 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETT 613 L + + + +SL+ IGD + SH + + D+ SP ++ + T Sbjct: 154 ALNKESKEISALFSNEVNVVSLDQTIGDNENSHTIAYLVADEQITSPSAEVDNDDMIKIT 213 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 VL + R+ ++ RFG+ HTL+EV +TRERIRQ++ K++ LK Sbjct: 214 NLVLNGINKRDREIICRRFGLMGYEPHTLQEVADAVGLTRERIRQLQIKSLNSLK 268 >gi|307107488|gb|EFN55731.1| hypothetical protein CHLNCDRAFT_35462 [Chlorella variabilis] Length = 267 Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 93/242 (38%), Positives = 147/242 (60%), Gaps = 6/242 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS-TYAMW 502 A++ MV N+RLV+S+AKKY RGL DL+ EG +GL +A +KFD + + YA W Sbjct: 26 AREHMVNCNMRLVVSIAKKYVGRGLALQDLVAEGMVGLQRAVDKFDASTRLQVTPAYAHW 85 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q++TR+I+DQ+ +R+PVH+ + + KV R + + ++ P P+ +A + + Sbjct: 86 WIRQSVTRAISDQARVVRLPVHLHEAMGKVRRAEQALWDETGLLPAPQAVADRCGLTHSK 145 Query: 563 VRKVLKITKEPISLE-TPI---GDEDTSHLGD-FIEDKNAVSPLDSAIQANLRETTTRVL 617 + + K + P S + P G D G+ ++E+ P + A ++E VL Sbjct: 146 LMALYKSFRAPTSRDGVPTLGAGSVDAKAPGEQWVEEVGEEDPAELAHHRMMKEDLNHVL 205 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 +LT RE +++MR+G+ + TLEEVG+ F VTRERIRQIEAKAIRKL+ PSR +L Sbjct: 206 LTLTERECGIIKMRYGLDDGEEKTLEEVGRAFNVTRERIRQIEAKAIRKLRSPSRVGQLV 265 Query: 678 SF 679 ++ Sbjct: 266 TY 267 >gi|318066907|emb|CBY89068.1| RNA polymerase sigma70 factor [Chromohalobacter israelensis] gi|318066913|emb|CBY89071.1| RNA polymerase sigma70 factor [Chromohalobacter salexigens] Length = 367 Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 138/411 (33%), Positives = 192/411 (46%), Gaps = 82/411 (19%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSSLAYLPGAVDSILSAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R I P+ G G + + + E D GD+ Sbjct: 81 EEAPGRLSDLFSGFIDPD------EGIPGVAEAEVPEPEPEPSAAD-----GDVSEDDDE 129 Query: 237 SKDDRSKVDSPPENA--------ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIA 288 ++++ + PE A E +ER E+ + A +Q R +A Sbjct: 130 AEEEETGGGPDPEEARARFEQIREQNERAKAAIEEHGLGSKEASAEQAR---------LA 180 Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 E++ + K++ + +LVG + ++ VEQ+ K Sbjct: 181 ELFSPI--------------------KLVPKHFERLVGQVRIS-------VEQIRGQEKA 213 Query: 349 IMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV---DS 405 IM + + R F+ G E D W+ F+A D Sbjct: 214 IMQI------FVKQAKVPRKTFIGSFPGAESDLEWLD-----------RFMAKHTKFADR 256 Query: 406 ILKIRNEI----KSISVETGISISEFRHIVSMVRK---GECEASIAKKEMVEANLRLVIS 458 + R +I + I E + + HI + R+ GE +A AKKEMVEANLRLVIS Sbjct: 257 LEPFRADIQRAQRKIGFEEEMVLLPVSHIKEVNRRLSIGEAKARRAKKEMVEANLRLVIS 316 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 +AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 317 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 >gi|213417289|ref|ZP_03350433.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 277 Score = 171 bits (432), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 76/188 (40%), Positives = 130/188 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 Query: 624 EERVLRMR 631 + VL R Sbjct: 270 QREVLARR 277 >gi|281357500|ref|ZP_06243988.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Victivallis vadensis ATCC BAA-548] gi|281316103|gb|EFB00129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Victivallis vadensis ATCC BAA-548] Length = 432 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 96/229 (41%), Positives = 138/229 (60%), Gaps = 6/229 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ANLRLV+ +A + GL LDLI EGNIGLM+A EKFD G KFS+YA WW Sbjct: 196 ARSTLIKANLRLVVKIAHDFKGLGLPLLDLISEGNIGLMRAVEKFDPAKGAKFSSYAAWW 255 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ++ R++A+QS TIRIPV KI+K+ +++ ++ REP+ EIA+ L V Sbjct: 256 IKQSMRRALANQSRTIRIPVQSAGKINKIKSVRMKLAEELGREPSDAEIAEHLDFSERTV 315 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR---VLASL 620 + SL PI + D I D++A++P I ++ E+ R +L L Sbjct: 316 AGLRLADLRTFSLHDPIQQGEEGEFQDIIPDRHAMTP--DQILGDV-ESVFRLMDLLEKL 372 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRFG+ N TLEEV ++ TRER+RQI+ +A+ KLK Sbjct: 373 EERERRILEMRFGLRGNRPLTLEEVSQEIGRTRERVRQIQNQALAKLKQ 421 >gi|55274885|gb|AAV49245.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|255312609|gb|ACU01714.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312611|gb|ACU01715.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312613|gb|ACU01716.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312615|gb|ACU01717.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312617|gb|ACU01718.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312619|gb|ACU01719.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312621|gb|ACU01720.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312623|gb|ACU01721.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312625|gb|ACU01722.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312627|gb|ACU01723.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312629|gb|ACU01724.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312631|gb|ACU01725.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312635|gb|ACU01727.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312637|gb|ACU01728.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312649|gb|ACU01734.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312651|gb|ACU01735.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312655|gb|ACU01737.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312657|gb|ACU01738.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312667|gb|ACU01743.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312673|gb|ACU01746.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312675|gb|ACU01747.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312677|gb|ACU01748.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312679|gb|ACU01749.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312681|gb|ACU01750.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312683|gb|ACU01751.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312685|gb|ACU01752.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312687|gb|ACU01753.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312691|gb|ACU01755.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312693|gb|ACU01756.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312695|gb|ACU01757.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312699|gb|ACU01759.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312701|gb|ACU01760.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312703|gb|ACU01761.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312705|gb|ACU01762.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 80/195 (41%), Positives = 132/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|55274967|gb|AAV49283.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 194 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 77/186 (41%), Positives = 129/186 (69%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L+ Sbjct: 61 ERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLR 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + + S++TP+G + L D + D+ P D+ +++++ + L L ++ VL Sbjct: 121 LNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVL 180 Query: 629 RMRFGI 634 RFG+ Sbjct: 181 ARRFGL 186 >gi|134094484|ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimonas arsenicoxydans] gi|133738387|emb|CAL61432.1| RNA polymerase sigma factor rpoS (Sigma-38) [Herminiimonas arsenicoxydans] Length = 344 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 96/280 (34%), Positives = 168/280 (60%), Gaps = 12/280 (4%) Query: 394 EWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 E K ++ E+ S ++ + I +++ E H ++ ++G A +++M+E NL Sbjct: 58 ELKKVLSSEL-STDATQHYLNQIGARPLLTVPEEVHFATLAKQGNFAA---RQKMIEHNL 113 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLV+S+AK Y NRG+ LDLI+EGN+GLM+A +KF+ G++FSTYA WW++Q+I R+I Sbjct: 114 RLVVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIM 173 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKVLKITK 571 +Q+ T+R+PVH+ ++++ +R + + ++ T E+IA + VE V+ +L +++ Sbjct: 174 NQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVERSVEDVQDILALSE 233 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVL 628 SL+ P+ + S L D ++ +A P + A +E V L L+ ++ V+ Sbjct: 234 HASSLDAPLDGDPQSSLMDLLQGDHANDP---DVLAEHQEMIVLVRDWLDKLSDKQRLVI 290 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RFG+ + TLEE+ + VTRER+RQI+ +A+ KLK Sbjct: 291 TRRFGLDNDDPATLEELATEMHVTRERVRQIQQEALVKLK 330 >gi|253582113|ref|ZP_04859337.1| RNA polymerase [Fusobacterium varium ATCC 27725] gi|251836462|gb|EES64999.1| RNA polymerase [Fusobacterium varium ATCC 27725] Length = 275 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 88/228 (38%), Positives = 147/228 (64%), Gaps = 8/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +K +++ +NLRLV+++AK Y N+GL F+DLI EGN+GL+ A EKFD G++FSTYA+WW Sbjct: 41 SKNQLILSNLRLVVNIAKGYINKGLSFIDLISEGNLGLIYAIEKFDITKGFRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTPEEIAKKLAMPV 560 +KQ+I++++ + IRIP + D ++KV R + +++K E P EEIA +L + V Sbjct: 101 IKQSISKAVIVKGREIRIPSYKYDLLNKV---NRYVMSRLKDEGNYPPVEEIAAELNIDV 157 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + ++ ++ ++P+SL T IGD+ +L D + + S + R+ ++ L Sbjct: 158 DKIQDIIMDFQDPMSLSTQIGDD--IYLEDTLAQQEDFSMEEEIFNEMGRKQVRDMVNQL 215 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L++R+G+ HTLEE+G +TRER+RQIE K ++KL+ Sbjct: 216 EEREKEILKLRYGLDGYEIHTLEEIGNTLNITRERVRQIEKKTLQKLR 263 >gi|55274953|gb|AAV49276.1| RNA polymerase subunit sigma-38 [Shigella flexneri 2a] Length = 193 Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 77/186 (41%), Positives = 129/186 (69%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I Sbjct: 1 IESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L+ Sbjct: 61 ERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLR 120 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + + S++TP+G + L D + D+ P D+ +++++ + L L ++ VL Sbjct: 121 LNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVL 180 Query: 629 RMRFGI 634 RFG+ Sbjct: 181 ARRFGL 186 >gi|91202979|emb|CAJ72618.1| similar to DNA-directed RNA polymerase sigma subunit [Candidatus Kuenenia stuttgartiensis] Length = 256 Score = 170 bits (431), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 91/250 (36%), Positives = 152/250 (60%), Gaps = 5/250 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E I V KG+ EA ++++++ANLRLV+S+AK++ NRG FLDLI+EGN+GL Sbjct: 2 LTFEEELEIARKVAKGDAEA---REKLIKANLRLVVSIAKEFVNRGFSFLDLIEEGNLGL 58 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A E FD G +FSTYA WW+KQAI R+IA+++ IRIP +M +I ++ + + Sbjct: 59 IRAVEDFDITTGNRFSTYATWWIKQAIRRAIANKARIIRIPSYMLQRISQMKHASSGLLK 118 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 K +R P+ +EIA ++ + + V+ + + SL+ P+ G + L D + + Sbjct: 119 KHERSPSEQEIAAEIDITAQNVKNIELSLQSMTSLDAPLVSGADIIWALSDITPNGKTLP 178 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P + + +ET ++L +L R V+ MR+G+ TLE++ K ++RER+RQI Sbjct: 179 PEEGLEETYEKETLKKLLDTLDKRAATVITMRYGLVDGESRTLEDISKILKISRERVRQI 238 Query: 660 EAKAIRKLKH 669 E + I+KL + Sbjct: 239 EKETIQKLHY 248 >gi|297827203|ref|XP_002881484.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata] gi|297327323|gb|EFH57743.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata] Length = 546 Score = 170 bits (431), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 85/239 (35%), Positives = 149/239 (62%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLRLV+ +AK+Y NRGL F DL+QEG++GLMK+ EKF G +F+TYA WW Sbjct: 306 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 365 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +SI S TIR+P ++ + KV + + P+ E++A + + E + Sbjct: 366 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEQLAGHVGVSTEKL 425 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 K+L T+ P+S++ PI D+DT+ + D +P S + +R +L L+P Sbjct: 426 DKLLYNTRTPLSMQQPIWSDQDTT-FQEITPDSGIETPTMSVGKQMMRNHVRNLLNVLSP 484 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +E R++++RFGI +L E+G+ + +++ER+RQ+E++A+ +LK S L ++ D Sbjct: 485 KERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQHMNSHGLHAYAD 543 >gi|224068757|ref|XP_002326192.1| predicted protein [Populus trichocarpa] gi|222833385|gb|EEE71862.1| predicted protein [Populus trichocarpa] Length = 535 Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 83/238 (34%), Positives = 146/238 (61%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLR+V+ +AK+Y NRGL DL+QEG +GLMK+ EKF G +F+TYA WW Sbjct: 295 SREKLINANLRMVVHIAKRYQNRGLGLQDLLQEGTVGLMKSIEKFKPQAGCRFATYAYWW 354 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q IT++I S TIR+P ++ + KV+ R + +PT EEIA+++ + ++ + Sbjct: 355 IRQTITKAIFQHSRTIRLPENVYGLLGKVMEAKRSYIQEGNHQPTAEEIARRVGIAIDKL 414 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K+L T+ P+S++ + + + + D P S + +R+ +L L+ + Sbjct: 415 EKLLCFTRTPLSMQQTVWSDQNTTFQEITADTEIEIPDMSVAKQLMRKHIRGLLNILSLK 474 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E R++R+RFGI +L E+G F +++ER+RQ+E++A+ KLK S L ++ D Sbjct: 475 ERRIIRLRFGIEDGKQKSLSEIGNVFGLSKERVRQLESRALYKLKQCVGSHGLDAYAD 532 >gi|332753462|gb|EGJ83842.1| RNA polymerase sigma factor rpoS domain protein [Shigella flexneri 4343-70] Length = 215 Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 80/207 (38%), Positives = 139/207 (67%) Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ ++ Sbjct: 1 MLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKEL 60 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 + +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++TP+G + L Sbjct: 61 NVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDTPLGGDSEKALL 120 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D + D+ P D+ +++++ + L L ++ VL RFG+ TLE+VG++ Sbjct: 121 DILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREI 180 Query: 650 CVTRERIRQIEAKAIRKLKHPSRSKKL 676 +TRER+RQI+ + +R+L+ +++ L Sbjct: 181 GLTRERVRQIQVEGLRRLREILQTQGL 207 >gi|302338308|ref|YP_003803514.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635493|gb|ADK80920.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta smaragdinae DSM 11293] Length = 281 Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 91/234 (38%), Positives = 143/234 (61%), Gaps = 2/234 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 RK + A+ ++EANLRLV+ +AK Y G LDLIQEGN+GL++AAEK+D Sbjct: 37 RKIQSGDEAARHRLIEANLRLVVKIAKSYVTPGFGLLDLIQEGNMGLIRAAEKYDHRKQV 96 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW++Q+I R+IA + IR+P + + K+ RT ++S +++ EP+ EEIA Sbjct: 97 RFSTYAAWWIRQSIVRAIAKKQKAIRLPHRKNNLLKKIQRTYYQLSQELEHEPSAEEIAV 156 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ + V ++L++ +SL+ IGD D S L D +ED + P I +++E T Sbjct: 157 EIGIEPSIVDQMLQVGNPVVSLDCEIGD-DASTLLDMLED-STYEPERVCINKSMQEDTM 214 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L RE ++L RF +TL+++G + ++ E +RQIE +AIRKL+ Sbjct: 215 HFLDHLKERERQILLYRFAFFGGKKYTLKKIGMEMGISPETVRQIEMRAIRKLR 268 >gi|87306425|ref|ZP_01088572.1| RNA polymerase sigma factor rpoS [Blastopirellula marina DSM 3645] gi|87290604|gb|EAQ82491.1| RNA polymerase sigma factor rpoS [Blastopirellula marina DSM 3645] Length = 296 Score = 170 bits (430), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 94/226 (41%), Positives = 146/226 (64%), Gaps = 4/226 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ MV ANLRLV+++A+ YT +GL DLI+EGN+GL++A E FD +G +FSTYA +W Sbjct: 50 ARDRMVRANLRLVVNIARGYTGKGLGLQDLIEEGNLGLLRAVEGFDPAMGTRFSTYASYW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I R++ + + TIRIP +M + + K R R++ ++ R PTPEEIA+ L +P + + Sbjct: 110 IKQSIKRALINCAKTIRIPAYMVELLSKWRRATNRLTEELGRTPTPEEIARVLGLPKKKL 169 Query: 564 RKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + K K S TP D+ S LG+ + D +P D ++ + + ++L ++ Sbjct: 170 PIIKKAIKIYNS--TPQTDQADSGWSLGEMVMDDRLKNPEDEMVEHDDLKNVMQMLKTMD 227 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE VLRMRFG+ HTL+E+G++ +TRER+RQIE +A+ KL Sbjct: 228 GREATVLRMRFGLEGMDPHTLKEIGEKLGLTRERVRQIETEALGKL 273 >gi|318066957|emb|CBY89093.1| RNA polymerase sigma70 factor [Halomonas maura] Length = 365 Score = 170 bits (430), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 131/396 (33%), Positives = 198/396 (50%), Gaps = 54/396 (13%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILDAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R + DL + GF EG ++ + ++ + T GD + A + Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIP-----GVAEAEVPEEPEATVGDADDADES 126 Query: 237 SKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 ++++ P PE A+ + E + S + A + + L +AE++ + Sbjct: 127 AEEEDDSGGGPDPEEAKARFEQIREQNEASRQAIDA-HGRGSAEAQAELARLAELFSPI- 184 Query: 296 SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 K++ + +LVG + ++ VEQ+ K +M Sbjct: 185 -------------------KLVPKHFERLVGQVRIS-------VEQVRAQEKAVMQ---- 214 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDF--PEGEWKNFVACEVDSILKIRNEI 413 + + R F++ G E W+ DF + + +A I + + +I Sbjct: 215 --LCVKKAKVPRKTFIKAFPGNESRQDWLD---DFMGDNARYADRLAPLKADIQRAQRKI 269 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 + ++E + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDL Sbjct: 270 AFEEEMVLLPVTEIKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDL 329 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 IQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 330 IQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 365 >gi|62734062|gb|AAX96171.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group] gi|125589330|gb|EAZ29680.1| hypothetical protein OsJ_13741 [Oryza sativa Japonica Group] Length = 563 Score = 170 bits (430), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 147/236 (62%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ G++ DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 324 KNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWI 383 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++QS R+P HM + ++V +R+ K+KR PT EEIA MP++ V Sbjct: 384 KQAMRKSVSEQSQIFRLPAHMVEASYRVKECIKRLRRKLKRRPTNEEIAADTGMPIKRVE 443 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D A + + + +++ + L +LT RE Sbjct: 444 AAVNLPKYSVSLDSKIGSTDMTY-QEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRE 502 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +V+ +RFG+ TL+E+G V+RERIRQIE+ A RKL+ R L+ +L Sbjct: 503 RQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLRSKKRVNALKDYL 558 >gi|297611772|ref|NP_001067832.2| Os11g0448400 [Oryza sativa Japonica Group] gi|62701714|gb|AAX92787.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group] gi|108864350|gb|ABA93405.2| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|255680064|dbj|BAF28195.2| Os11g0448400 [Oryza sativa Japonica Group] Length = 564 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 147/236 (62%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ G++ DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 324 KNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWI 383 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++QS R+P HM + ++V +R+ K+KR PT EEIA MP++ V Sbjct: 384 KQAMRKSVSEQSQIFRLPAHMVEASYRVKECIKRLRRKLKRRPTNEEIAADTGMPIKRVE 443 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D A + + + +++ + L +LT RE Sbjct: 444 AAVNLPKYSVSLDSKIGSTDMTY-QEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRE 502 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +V+ +RFG+ TL+E+G V+RERIRQIE+ A RKL+ R L+ +L Sbjct: 503 RQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLRSKKRVNALKDYL 558 >gi|54401902|gb|AAV34636.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 194 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 80/194 (41%), Positives = 131/194 (67%) Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+ Sbjct: 1 NLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERA 60 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 IMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNE 120 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL R Sbjct: 121 RITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARR 180 Query: 632 FGIGMNTDHTLEEV 645 FG+ TLE+V Sbjct: 181 FGLLGYEAATLEDV 194 >gi|218442621|ref|YP_002380941.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424] gi|218174979|gb|ACK73711.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424] Length = 308 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 90/229 (39%), Positives = 143/229 (62%), Gaps = 6/229 (2%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E AK ++V+ NLRLVI++AKKY RGL F DL+QEGNIGL++AAE F+ GYKFSTY Sbjct: 79 EGQQAKNQLVQGNLRLVINLAKKYLGRGLSFEDLLQEGNIGLIRAAELFEPSKGYKFSTY 138 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WW++Q I R+I + + TIR+PVH+ +++++ +T +++ ++ R PT +EIA L M Sbjct: 139 AYWWIRQQIIRAINNSARTIRLPVHIIARLNRIKKTQHKLAAQLGRTPTVQEIATSLQMS 198 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + + K ++ ++ ISL T + ++ L D I D N P D + E + + Sbjct: 199 AQEIEKYREVAQKTISLSTIVDEQGRETLQDLIADPNP-QP-DFLERVFSYEQILEKMET 256 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PR + +L+ R + + TLE +G +++ER+RQI KA+ +L+ Sbjct: 257 LPPRYQDILKKR----IYEEQTLEAIGTSTKLSKERVRQIFQKALSRLR 301 >gi|318066933|emb|CBY89081.1| RNA polymerase sigma70 factor [Halomonas campisalis] Length = 367 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 137/404 (33%), Positives = 196/404 (48%), Gaps = 68/404 (16%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAWLPGAVDSILEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R + DL + GF EG + +E+ R E+EGD + Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEAEVPEEEPR---AESEGDGDEDDDE 128 Query: 237 SKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 + P PE A + E ++ A A + P+ L +AE++ + Sbjct: 129 DAGEEETTGGPDPEEARARFEQIRE-LNERARAAIAAHGRGSPEARAELTRLAELFSPI- 186 Query: 296 SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 K++ + +LVG + ++ VEQ+ K +M Sbjct: 187 -------------------KLVPKHFERLVGQVRIS-------VEQVRAQEKAVMQL--- 217 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE---VDSILKIRNE 412 + + R F++ G E W+ F+A D + +R + Sbjct: 218 ---FVKKAKVPRKTFIKAFPGNESRQEWLD-----------EFIAAHGKYADRLSAMRGD 263 Query: 413 I----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I + I+ E +++ E + I + GE +A AKKEMVEANLRLVIS+AKKYTN Sbjct: 264 IQRAQRRIAFEEDMVQLAVPELKEINRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTN 323 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 RGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 324 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 >gi|253761922|ref|XP_002489335.1| hypothetical protein SORBIDRAFT_0010s016080 [Sorghum bicolor] gi|241946983|gb|EES20128.1| hypothetical protein SORBIDRAFT_0010s016080 [Sorghum bicolor] Length = 238 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 91/233 (39%), Positives = 150/233 (64%), Gaps = 1/233 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV +N+RLVIS+A+++ G+ DLIQEG GL++ AEKFD G++FSTY+ WW+KQA Sbjct: 1 MVTSNVRLVISIAREFEGPGMDLYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWIKQA 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + +S+++QS R+P HM + ++V +R+ K++R PT EEIA MP++ V + Sbjct: 61 MRKSVSEQSQIFRLPAHMVEASYRVKECTKRLRRKLRRRPTNEEIALDTGMPIKRVEAAV 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + K +SL++ IG D ++ + D +A + + + ++++ + L +LT RE++V Sbjct: 121 NLPKYSVSLDSKIGSTDMTY-QEVTADPSAETAEEMLNRMSMKKDVHKALDTLTTREKQV 179 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + +RFG+ + TL+E+G V+RERIRQIE+ A RKL+ R K L+ +L Sbjct: 180 VVLRFGLEDDRIRTLQEIGNIMGVSRERIRQIESGAFRKLRSKKRVKALKDYL 232 >gi|46241495|gb|AAS82950.1| chloroplast RPOD [Chlamydomonas reinhardtii] Length = 311 Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 143/228 (62%), Gaps = 6/228 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++++N +LV++V K + +G DL+ EG GL+K EK+D G++F TYA WW Sbjct: 49 AKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGFRFGTYAHWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++RS+A+ +R+P+HM +++ ++ + ++ ++ REPT E+AK +PV V Sbjct: 109 IRQAVSRSLAETGRAVRLPMHMIEQLTRLKNLSAKLQTQLAREPTLPELAKAAGLPVTRV 168 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA---NLRETTTRVLASL 620 + +++ + SL+TPIG + LG ++D + + +LR +L L Sbjct: 169 QMLMETARSAASLDTPIGGNE---LGPTVKDSVEDEREAADEEFGSDSLRNDMEAMLLEL 225 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE RV+R+RFG+ + TLEE+G+ VTRERIRQIEAKA+RKL+ Sbjct: 226 PEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEAKALRKLR 273 >gi|224000633|ref|XP_002289989.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] gi|220975197|gb|EED93526.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] Length = 321 Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 104/279 (37%), Positives = 161/279 (57%), Gaps = 18/279 (6%) Query: 416 ISVETG--ISISEFRHIVS--MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 +SVE G SI+E+ S + R+ A AK+ MV+ N+RLV+S+A++Y G+ Sbjct: 30 LSVEMGRSPSIAEWAAACSPRLFREMMLTAKEAKQRMVQCNMRLVVSIARRYHGVGVNVQ 89 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+QEG++GL +AAEKFD G+KFSTYA WW++QA+ RSIA S TIR+PVH+ + ++K Sbjct: 90 DLVQEGSLGLARAAEKFDPKKGFKFSTYASWWIQQAVFRSIAYHSRTIRLPVHVHNLLNK 149 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--------IGDE 583 V R + + ++ R PT EE+A ++ M +E K+++ T+ ISLE P +G E Sbjct: 150 VRRARQVLQQELGRTPTNEEMAVEMDMTIEKYNKMIRTTRNAISLERPKYKNNPKDLGHE 209 Query: 584 DTSHLGDFIEDKNAV-----SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 + +GD + D +AV +P + L +L L E VL +R+GI Sbjct: 210 SEALVGDMV-DSSAVIFDEKTPEQNVDHGLLHNDIEYMLGKLGEDERSVLCLRYGINDGI 268 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 T+ V + T+ +R E +A+RKL+ P K+L+ Sbjct: 269 TRTVTLVASEMRQTKSWVRSQECRALRKLRRPWYEKRLK 307 >gi|32351878|dbj|BAC78528.1| plastid sigma factor 2A [Oryza sativa Japonica Group] Length = 564 Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 147/236 (62%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ G++ DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 324 KNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWI 383 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++QS R+P HM + ++V +R+ K+KR PT EEIA MP++ V Sbjct: 384 KQAMRKSVSEQSQIFRLPAHMVEASYRVKECIKRLRRKLKRRPTNEEIAADTGMPIKRVE 443 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D A + + + +++ + L +LT RE Sbjct: 444 AAVNLPKYSVSLDSKIGSTDMTY-QEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRE 502 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +V+ +RFG+ TL+E+G V+RERIRQIE+ A RKL+ R L+ +L Sbjct: 503 RQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLRSKKRVNALKDYL 558 >gi|218194307|gb|EEC76734.1| hypothetical protein OsI_14770 [Oryza sativa Indica Group] Length = 563 Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 147/236 (62%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ G++ DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 323 KNRMVTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWI 382 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++QS R+P HM + ++V +R+ K+KR PT EEIA MP++ V Sbjct: 383 KQAMRKSVSEQSQIFRLPAHMVEASYRVKECIKRLRRKLKRRPTNEEIAADTGMPIKRVE 442 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D A + + + +++ + L +LT RE Sbjct: 443 AAVNLPKYSVSLDSKIGSTDMTY-QEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRE 501 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +V+ +RFG+ TL+E+G V+RERIRQIE+ A RKL+ R L+ +L Sbjct: 502 RQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLRSKKRVNALKDYL 557 >gi|149200267|ref|ZP_01877288.1| RNA polymerase sigma-A factor [Lentisphaera araneosa HTCC2155] gi|149136631|gb|EDM25063.1| RNA polymerase sigma-A factor [Lentisphaera araneosa HTCC2155] Length = 274 Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 100/261 (38%), Positives = 154/261 (59%), Gaps = 5/261 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 IRN + +IS + ++ E + + ++ G +A +++++ +NLRLV+ +A + GL Sbjct: 8 IRNYMHNISDYSLVTKEEEVDLAADIKLGSDKA---REKLIVSNLRLVVKIAHDFKGLGL 64 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 DLI EGNIGLM+A EKFD G KFS+YA WW+KQ++ R +A+QS TIRIPV K Sbjct: 65 PLSDLISEGNIGLMRAVEKFDPAKGAKFSSYAAWWIKQSMRRGLANQSRTIRIPVQSAGK 124 Query: 529 IHKVVRTAR-RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 I+K +R AR + K+ REPT +EIA L V + + ISL+ + D + Sbjct: 125 INK-IRNARIELKEKLMREPTDQEIATYLEFSKRTVSGLSTVGGSTISLQAKLQDGEDGE 183 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 + D + DK + + D +A + + + LT RE+ VL +RFG+ TLEEV + Sbjct: 184 IQDIVADKASQTASDIIGEAESINSMMKFIVYLTDREKLVLELRFGLLSGRPKTLEEVSQ 243 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 TRER+RQI+ +A++KL+ Sbjct: 244 AIGRTRERVRQIQNQALKKLR 264 >gi|158339245|ref|YP_001520422.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158309486|gb|ABW31103.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 268 Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 88/230 (38%), Positives = 139/230 (60%), Gaps = 2/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+E NLRLV+S+AKK+ + GL +DLIQEG+IGL A +KFD G KFSTYA WW Sbjct: 40 AKQRMIECNLRLVVSIAKKHQHLGLPLMDLIQEGSIGLNTAVDKFDLAQGCKFSTYAYWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + +AI R++ QS TI IP+H ++ H++ + R+++ + R PT +E++ + + Sbjct: 100 ISEAIKRALKSQSRTIYIPIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLI 159 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ + SL+ P+G E L D I+ ++A PL + + TR +A LT R Sbjct: 160 RNTLQSFQAVSSLDQPVGPEQKDALIDLIQTEDA--PLSIMDGLEIEDALTRCMAYLTER 217 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 E ++ R+G+ ++ +GKQ ++RER+RQI A++K+ RS Sbjct: 218 ERFIVDQRYGLTDGQPKSMGAIGKQIDISRERVRQILNIAMKKMTRQVRS 267 >gi|288800917|ref|ZP_06406374.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] gi|288332378|gb|EFC70859.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] Length = 287 Score = 169 bits (428), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 92/250 (36%), Positives = 155/250 (62%), Gaps = 1/250 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ RK + A +++ ANLR V+SVAK+Y ++GL DLI EGNIGL+KAAEKFD Sbjct: 37 ITLARKIKEGDKDALQKLTRANLRFVVSVAKQYQHQGLSLPDLINEGNIGLIKAAEKFDD 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++Q+I +++ADQS +R+P++ ++K+ + + + + +R+P+ Sbjct: 97 TRGFKFISYAVWWIRQSIMQALADQSRLVRLPLNQVGSVNKINKISHKFEQEFERKPSIA 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA+++ +P E V +K +S++ P+ D + + L D ++ + +LR Sbjct: 157 EIAEEINLPQERVSDAIKGNNRHVSMDAPLTDGNDNGLADLLQGNEGPDIDTHLLLESLR 216 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L L RE V+ +GI + TL+E+G + +TRER RQI KAIRKL+ Sbjct: 217 EELKLALNILDERERFVIEAFYGINQ-PEMTLQEIGAKKGLTRERARQIREKAIRKLRKN 275 Query: 671 SRSKKLRSFL 680 +++K L+S+L Sbjct: 276 TQNKLLKSYL 285 >gi|186475727|ref|YP_001857197.1| RNA polymerase sigma factor RpoS [Burkholderia phymatum STM815] gi|184192186|gb|ACC70151.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia phymatum STM815] Length = 364 Score = 169 bits (428), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 86 IQHYLNRISVKPLLTVEEEQRYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 142 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 143 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 202 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 203 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 262 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 263 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 321 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 322 ATLEELADEMGLTRERVRQIQQEALVRLK 350 >gi|2832900|emb|CAA04387.1| Sigma A [Lysinibacillus sphaericus] Length = 140 Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 86/139 (61%), Positives = 106/139 (76%) Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 + REP+PEEI +++ + E VR++LKI +EP+SLETPIG+ED SHLGDFIED A SP D Sbjct: 2 LGREPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSD 61 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A L+E VL +LT REE VLR+RFG+ TLEEVGK F VTRERIRQIEAK Sbjct: 62 HAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 121 Query: 663 AIRKLKHPSRSKKLRSFLD 681 A+RKL+HPSRSK+L+ FL+ Sbjct: 122 ALRKLRHPSRSKRLKDFLE 140 >gi|158340954|ref|YP_001522121.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311195|gb|ABW32807.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 87/230 (37%), Positives = 140/230 (60%), Gaps = 2/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+E NLRLV+S+AKK+ + GL +DLIQEG+IGL A +KFD G KFSTYA WW Sbjct: 40 AKQRMIECNLRLVVSIAKKHQHLGLPLMDLIQEGSIGLNTAVDKFDLAQGCKFSTYAYWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + +AI R++ QS TI IP+H ++ H++ + R+++ + R PT +E++ + + Sbjct: 100 ISEAIKRALKSQSRTIYIPIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLI 159 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ + SL+ P+G E L D I+ ++A + ++ + + TR +A LT R Sbjct: 160 RNTLQSFQAVSSLDQPVGPEQKDALIDLIQTEDAALSIMDGLE--IEDALTRCMAYLTER 217 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 E ++ R+G+ ++ +GKQ V+RER+RQI A++K+ RS Sbjct: 218 ERFIVDQRYGLTDGQPKSMGVIGKQIGVSRERVRQILNIAMKKMTRQVRS 267 >gi|288926192|ref|ZP_06420119.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608841|ref|ZP_07883815.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337084|gb|EFC75443.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249448|gb|EFU29463.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 290 Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 94/268 (35%), Positives = 159/268 (59%), Gaps = 6/268 (2%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS E +SI E + +RKG E AK+++V ANLR V+SVAK+Y ++GL DLI Sbjct: 25 ISHEPMVSIDEETELAQAIRKGGREGERAKEKLVRANLRFVVSVAKQYQHQGLGLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSIMQAIAEQSRIVRLPLNQVGAVSKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--- 592 + + R P+ +E+A+ + + + + L +S++ P ++D + + D + Sbjct: 145 TSKFVQEHNRRPSIQELAQITGIDEQKIEQSLNADSHHMSIDAPFAEDDDNSMADVLASG 204 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +D +D A+ E + L RE R+++ FGIG + + LEE+G++ +T Sbjct: 205 DDSRTDKQVDFESMAS--ELNNVLKNVLKEREIRIVKECFGIGCH-EKGLEEIGEEMGLT 261 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI K+I K++ ++ L +L Sbjct: 262 RERVRQIREKSILKIRESGNARILMKYL 289 >gi|255312697|gb|ACU01758.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 132/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL L+LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLNLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|197247378|ref|YP_002147821.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197211081|gb|ACH48478.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Agona str. SL483] Length = 269 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 73/172 (42%), Positives = 124/172 (72%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 ++L++ + S++TP+G + L D + D+ P D+ +++++T R Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSTER 261 >gi|209522220|ref|ZP_03270857.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. H160] gi|209497349|gb|EDZ97567.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia sp. H160] Length = 363 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 85 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 141 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 142 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 201 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 202 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 261 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 262 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 320 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 321 ATLEELADEMGLTRERVRQIQQEALVRLK 349 >gi|148656381|ref|YP_001276586.1| RNA polymerase, sigma 32 subunit, RpoH [Roseiflexus sp. RS-1] gi|148568491|gb|ABQ90636.1| RNA polymerase, sigma 32 subunit, RpoH [Roseiflexus sp. RS-1] Length = 398 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 88/235 (37%), Positives = 138/235 (58%), Gaps = 2/235 (0%) Query: 448 MVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 ++ NLRLV +A +Y R L F DL+QEG IGL+KA E+FD + STYA++W++ Sbjct: 162 LMRCNLRLVAKIATRYMPYARHLTFDDLLQEGRIGLLKAIERFDQNCRGRLSTYAVYWIR 221 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 Q+I R++ADQ +R+PVH+ +++H++ +T + REP E+A L + + VR Sbjct: 222 QSIQRALADQDRMVRLPVHIVEQLHRLRKTCEQFRCIHGREPGDAELANALGVSLAKVRS 281 Query: 566 VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + ++ + S++ P+G + + LG+ I D P Q L VL L+ RE Sbjct: 282 LWRVAQHHTSIDRPVGADTNTFLGELIADDREEGPDFICEQQLLHAVLREVLGHLSSRER 341 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +L R+G+ HTLEE+G+ F +TRERIRQIE KA+++L + L+ FL Sbjct: 342 DILERRYGLIDGQTHTLEEIGQIFGLTRERIRQIERKALKRLNRGEYRRILQPFL 396 >gi|74316856|ref|YP_314596.1| RNA polymerase sigma factor RpoS [Thiobacillus denitrificans ATCC 25259] gi|74056351|gb|AAZ96791.1| RNA polymerase sigma-70 factor [Thiobacillus denitrificans ATCC 25259] Length = 316 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 92/236 (38%), Positives = 143/236 (60%), Gaps = 6/236 (2%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V++ R+ A++ M+E NLRLV+++AK Y NRGL LDL++EGN+GL+ A EKFD Sbjct: 65 VALARRTVLGDFEARQTMIERNLRLVVNIAKHYANRGLTLLDLVEEGNLGLIHALEKFDP 124 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +QS TIR+PVH+ +++ +R R + + T + Sbjct: 125 ERGFRFSTYATWWIRQNIERAIMNQSRTIRLPVHIIKELNIYLRAQRHLETHGVTDATSD 184 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +IA PV VR+++++ + SL+ P+ + T LG+ I D NA P D +Q L Sbjct: 185 DIAALTGHPVADVRRIMQLNERIASLDAPLDVDPTLSLGEAIADDNAHLP-DEMLQ--LE 241 Query: 611 ETTTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 E V L L ++ V+ RFG+ TLE++ + VTRER+RQI+ ++ Sbjct: 242 EIENHVQEWLTQLNDKQRWVIERRFGLNGCEACTLEDLALELEVTRERVRQIQMES 297 >gi|255312633|gb|ACU01726.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEI ++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEITEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTEDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|167932999|ref|ZP_02520086.1| RNA polymerase sigma factor RpoD [candidate division TM7 single-cell isolate TM7b] Length = 211 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 76/129 (58%), Positives = 104/129 (80%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M EAN+RLV+S+AK+Y+ RGL FLDLIQEGN GL++A EKFD G+KFSTYA WW Sbjct: 83 AKDKMAEANMRLVVSIAKRYSGRGLDFLDLIQEGNTGLLRAVEKFDPDKGFKFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR+IADQ+ IRIPVHM + I+K++RT RRM+ ++ REPT EE++K+L M + + Sbjct: 143 IRQAITRAIADQARVIRIPVHMVETINKLLRTQRRMTQELNREPTIEELSKELDMEPDKI 202 Query: 564 RKVLKITKE 572 V+KI ++ Sbjct: 203 EYVMKIKQD 211 Score = 39.7 bits (91), Expect = 1.6, Method: Compositional matrix adjust. Identities = 19/36 (52%), Positives = 25/36 (69%) Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 D +DD VR+YLRE+G I LLS E E+ +A R+ G Sbjct: 44 DDVSDDSVRLYLREIGKIPLLSAEEEMELAHRVVQG 79 >gi|75812393|ref|YP_320012.1| sigma-70 [Anabaena variabilis ATCC 29413] gi|75705149|gb|ABA24823.1| Sigma-70 [Anabaena variabilis ATCC 29413] Length = 314 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/270 (35%), Positives = 161/270 (59%), Gaps = 14/270 (5%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ ++ + G S +E I+ + +K AK++M+ ANLRLV+++AKKY L+FLD Sbjct: 56 IQQLAADMGKSETEVFQILRLGQK-------AKEKMIAANLRLVVAIAKKYRWSQLEFLD 108 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L+QEG+IGL KA E+FD GYKFST A WW++Q IT++IA++S TIR P HM D++ K+ Sbjct: 109 LVQEGSIGLQKAVERFDPNRGYKFSTCAYWWIRQEITKAIANKSTTIRTPSHMNDRLIKL 168 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + R + + REP EIA+ + VR+ L + P+SL+ P+G ED DF+ Sbjct: 169 KKVQRELVKILGREPNIAEIAEFAELEPNQVRECLIAFRHPLSLDRPMGQEDEV---DFL 225 Query: 593 E--DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 E + SP + + LR+ L +L P +++VL +RFG+G + +++ ++ Sbjct: 226 EILPADGTSPNEYLDEGFLRQDLANCLITLKPLQKQVLMLRFGLGSVDKLSTKQIAERLN 285 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + + ++ + +AI+ L + ++R +L Sbjct: 286 IKQAKVGTTQKQAIKVLHR--QQPQMREYL 313 >gi|295676469|ref|YP_003604993.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1002] gi|295436312|gb|ADG15482.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1002] Length = 362 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 261 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|91783466|ref|YP_558672.1| RNA polymerase sigma factor RpoS [Burkholderia xenovorans LB400] gi|296157776|ref|ZP_06840610.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. Ch1-1] gi|91687420|gb|ABE30620.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia xenovorans LB400] gi|295892022|gb|EFG71806.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. Ch1-1] Length = 360 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 138 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 139 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 198 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 199 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 258 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 259 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 317 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 318 ATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|162458688|ref|NP_001104923.1| sigma factor SIG2A [Zea mays] gi|4336606|gb|AAD17854.1| sigma factor SIG2A [Zea mays] Length = 539 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 150/236 (63%), Gaps = 1/236 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K MV +N+RLVIS+A+++ G+ F DLIQEG GL++ AEKFD G++FSTY+ WW+ Sbjct: 299 KNRMVTSNVRLVISIAREFEGPGMDFYDLIQEGMQGLIRGAEKFDSSKGFRFSTYSHWWI 358 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQA+ +S+++QS R+P HM + ++V +R+ K++R PT EEIA +P++ V Sbjct: 359 KQAMRKSVSEQSQIFRLPAHMVEASYRVKECTKRLRRKLRRRPTNEEIAVDTGIPIKRVE 418 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + + K +SL++ IG D ++ + D +A + + + ++++ L +LT RE Sbjct: 419 AAVNLPKYSVSLDSKIGSTDMTY-QEVTADPSAETAEEMLNRMSMKKDVHMALDTLTTRE 477 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++V+ +RFG+ TL+E+G V+RERIRQIE+ A RKL+ + K L+ +L Sbjct: 478 KQVVVLRFGLEDGRIRTLQEIGNIMGVSRERIRQIESGAFRKLRSKKKVKALKDYL 533 >gi|124266448|ref|YP_001020452.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Methylibium petroleiphilum PM1] gi|124259223|gb|ABM94217.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Methylibium petroleiphilum PM1] Length = 343 Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 91/245 (37%), Positives = 142/245 (57%), Gaps = 8/245 (3%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 +M + A+++M+E NLRLV+S+AK Y +RGL DLI+EGN+GLM A KF+ Sbjct: 85 AMATRARAGDFAARQQMIERNLRLVVSIAKSYLSRGLPMTDLIEEGNLGLMHAIGKFEPE 144 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-----RE 546 G++FSTYA WW++Q+I R+I Q+ +R+PVH+ ++++V++ R + + R Sbjct: 145 RGFRFSTYASWWIRQSIERAIMHQARLVRLPVHVVRELNQVLKARRALEGEAAASADGRT 204 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDS 603 +EIA L PV V ++L+ ++P SL+ P+ LGD + D+ A PL Sbjct: 205 VRVDEIAAALGRPVTEVSELLRFAEQPTSLDAPLERQAGNGAETLGDMVADEQATDPLGH 264 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L L L+ RE VL R+G+ TLE + ++ +TRERIRQI+ +A Sbjct: 265 TLNHELDVLLEHGLGELSEREREVLAGRYGLHDREPETLEVLAERLGLTRERIRQIQQEA 324 Query: 664 IRKLK 668 + KLK Sbjct: 325 LLKLK 329 >gi|300114080|ref|YP_003760655.1| RpoD subfamily RNA polymerase sigma 70 subunit [Nitrosococcus watsonii C-113] gi|299540017|gb|ADJ28334.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nitrosococcus watsonii C-113] Length = 303 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 91/247 (36%), Positives = 148/247 (59%), Gaps = 4/247 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E R+ + +G+ EA + ++E+NLR+VI VA ++ NRGL +DLI+EGN+GL Sbjct: 52 LNAEEERYYARLALQGDREA---RNRIIESNLRIVIKVASRHVNRGLPLMDLIEEGNLGL 108 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 + A EKF+ LG++FSTYA WW++QAI R++ +Q+ TIR+PVH+ KI + Sbjct: 109 INAVEKFNPELGFRFSTYASWWIRQAIERALMNQTRTIRLPVHVFKKIRSYQKEVILFRQ 168 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + EP EIAK L P+E V++ L + SL+ P+ ++ L D + D+ L Sbjct: 169 RYNIEPRSGEIAKLLHEPLERVQRYLSLQALETSLDDPLNEDTEDCLADLLPDERNNPAL 228 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 I + + + L+ L R++ +L+ R+G+ TLEE+G +TRER+RQI+ Sbjct: 229 LWEI-FDKKASIYNQLSQLPERQQEILKRRYGLDGYEVTTLEEIGHNLGITRERVRQIQQ 287 Query: 662 KAIRKLK 668 AI++L+ Sbjct: 288 AAIKRLR 294 >gi|307729587|ref|YP_003906811.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1003] gi|307584122|gb|ADN57520.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1003] Length = 362 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 84 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 140 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 141 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 200 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 201 LNQVLRAKRHLEKNSMNSGDAAERRDASIDDIAYLTGKTADEVTDILALNEHTASLDAPL 260 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 261 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 319 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 320 ATLEELADEMGLTRERVRQIQQEALVRLK 348 >gi|323526138|ref|YP_004228291.1| RNA polymerase sigma-70 subunit RpoD subfamily [Burkholderia sp. CCGE1001] gi|323383140|gb|ADX55231.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Burkholderia sp. CCGE1001] Length = 358 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 80 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 136 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 137 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 196 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 197 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 256 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 257 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 315 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 316 ATLEELADEMGLTRERVRQIQQEALVRLK 344 >gi|187923827|ref|YP_001895469.1| RNA polymerase sigma factor RpoS [Burkholderia phytofirmans PsJN] gi|187715021|gb|ACD16245.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia phytofirmans PsJN] Length = 360 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 82 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 138 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 139 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 198 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 199 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 258 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 259 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 317 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 318 ATLEELADEMGLTRERVRQIQQEALVRLK 346 >gi|125585746|gb|EAZ26410.1| hypothetical protein OsJ_10293 [Oryza sativa Japonica Group] Length = 497 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 146/237 (61%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+A+++ G++F DLIQEG GL++ AEKFD G++FSTY+ WW Sbjct: 256 CKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSHWW 315 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR PT EEIA MP+ V Sbjct: 316 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECRRRLRRQLKRLPTNEEIASDTGMPLRRV 375 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +SL + +G D ++ + D + + + + ++E R L L+PR Sbjct: 376 EAAMSLPKYTVSLTSKVGCTDMTY-QEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPR 434 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+R RFG+ TL ++G+ V+RERIRQIE A RKL+ + + L+ +L Sbjct: 435 ERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLRGRKKVQSLQHYL 491 >gi|320104603|ref|YP_004180194.1| RNA polymerase sigma-38 subunit RpoS [Isosphaera pallida ATCC 43644] gi|319751885|gb|ADV63645.1| RNA polymerase, sigma 38 subunit, RpoS [Isosphaera pallida ATCC 43644] Length = 277 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 102/276 (36%), Positives = 164/276 (59%), Gaps = 17/276 (6%) Query: 396 KNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRL 455 ++ V +++ L+ NE+ +S E E + + + + KG+ A++ MV ANLRL Sbjct: 9 RDTVQSPLETYLREINEMALLSAE------EEKELAARIAKGD---KTARERMVRANLRL 59 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 V+++A+ Y +GL DLI+EGN+GL++A E FD +G +FSTYA +W+KQ+I R++ + Sbjct: 60 VVNIARGYVGKGLALQDLIEEGNLGLLRAVEGFDPKVGTRFSTYASYWIKQSIKRALVNT 119 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS 575 + IRIP +M + + K R A + +++ R PT +EIA +L +P +K L I K+ I Sbjct: 120 AKPIRIPAYMVELLCKWRRAAIELQDRLGRTPTTDEIAHELRIP----KKKLAIVKKAIK 175 Query: 576 LE--TPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 + P D+ S LGD + D+ P ++A+ + R L + RE VLRMR Sbjct: 176 VYNLVPQSDQPESGWSLGDMLMDERTRPPDVEMVEADNLKLVMRRLEEMDKREATVLRMR 235 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 FG+ TL+E+G+Q +TRER+RQIE +A+ KL Sbjct: 236 FGLDDQPPCTLKEIGEQLGLTRERVRQIENEALNKL 271 >gi|71908137|ref|YP_285724.1| RNA polymerase sigma factor RpoS [Dechloromonas aromatica RCB] gi|71847758|gb|AAZ47254.1| RNA polymerase, sigma 38 subunit, RpoS [Dechloromonas aromatica RCB] Length = 309 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 93/239 (38%), Positives = 147/239 (61%), Gaps = 9/239 (3%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VR+G+ A ++ M+E NLRLV+++AK Y NRG+ LDLI+EGN+GL+ A EKFD Sbjct: 63 LVREGDFSA---RQRMIEHNLRLVVNIAKHYLNRGIPLLDLIEEGNLGLIHALEKFDPER 119 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q I R I +QS TIR+PVH+ +I+ V+R R + + KR+ T E I Sbjct: 120 GFRFSTYATWWIRQNIERGIMNQSRTIRLPVHIVKEINVVLRAMRHLESADKRDSTVERI 179 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A + PV VR++L + + SL+ P+ + + + I D P +S +Q++ E Sbjct: 180 ALLIDRPVADVRRILSLNEHIASLDAPLEIDPNHTMAEVIADDGESDP-ESLLQSS--EV 236 Query: 613 TTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + V L LT R+ V+ R+G+ TL+ + +TRER+RQI+ + + +L+ Sbjct: 237 GSLVDDWLEQLTERQRSVIERRYGLSGADLATLDVIACDLGLTRERVRQIQMEGLDRLR 295 >gi|312282671|dbj|BAJ34201.1| unnamed protein product [Thellungiella halophila] Length = 547 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 85/239 (35%), Positives = 149/239 (62%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLRLV+ +AK+Y NRGL F DL+QEG++GLMK+ EKF G +F+TYA WW Sbjct: 307 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 366 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +SI S TIR+P ++ + KV + P+ E++A + + E + Sbjct: 367 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCIQDGNYRPSKEQLASHVGVSTEKL 426 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 K+L T+ P+S++ PI D+DT+ + D +P S + +R +L L+P Sbjct: 427 DKLLYNTRTPLSMQQPIWSDQDTT-FQEVTPDSGIETPSMSVGKQLMRNHVRNLLNVLSP 485 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +E+R++++RFGI +L E+G+ + +++ER+RQ+E++A+ +LK S L ++ D Sbjct: 486 KEKRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQNMSSHGLNAYAD 544 >gi|15558898|dbj|BAB64922.1| chloroplast RNA polymerase sigma factor [Chlamydomonas reinhardtii] Length = 250 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 143/228 (62%), Gaps = 6/228 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++++N +LV++V K + +G DL+ EG GL+K EK+D G++F TYA WW Sbjct: 7 AKELLLKSNYKLVMTVCKSFVGKGPHIQDLVSEGVKGLLKGVEKYDATKGFRFGTYAHWW 66 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA++RS+A+ +R+P+HM +++ ++ + ++ ++ REPT E+AK +PV V Sbjct: 67 IRQAVSRSLAETGRAVRLPMHMIEQLTRLKNLSAKLQTQLAREPTLPELAKAAGLPVTRV 126 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA---NLRETTTRVLASL 620 + +++ + SL+TPIG + LG ++D + + +LR +L L Sbjct: 127 QMLMETARSAASLDTPIGGNE---LGPTVKDSVEDEREAADEEFGSDSLRNDMEAMLLEL 183 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE RV+R+RFG+ + TLEE+G+ VTRERIRQIEAKA+RKL+ Sbjct: 184 PEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEAKALRKLR 231 >gi|261886011|ref|ZP_06010050.1| RNA polymerase sigma factor RpoD [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 190 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 83/187 (44%), Positives = 126/187 (67%), Gaps = 1/187 (0%) Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 S +QA+ R+IADQ+ TIRIP+HM + I+++ + K + P I ++ Sbjct: 3 SAACSLRARQAMCRAIADQALTIRIPIHMIETINRINKFIENFFQKKGKGPDVAFIPGEV 62 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + ++ V++V+KITKEPISLE PIG ED GDF+EDK +SP++ ++ +L+E V Sbjct: 63 GLSIDKVKQVIKITKEPISLEAPIGSEDDGKYGDFVEDKTNLSPMEQILKGDLKEQIDEV 122 Query: 617 LASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQIE+ AI+KLKHP +K Sbjct: 123 LDQLNDREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRK 182 Query: 676 LRSFLDG 682 L+++++G Sbjct: 183 LKNYIEG 189 >gi|55274897|gb|AAV49250.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 198 Score = 168 bits (426), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 79/197 (40%), Positives = 132/197 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL L LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGKQF 649 G+ TLE+VG++ Sbjct: 181 GLLGYEAATLEDVGREI 197 >gi|318066905|emb|CBY89067.1| RNA polymerase sigma70 factor [Chromohalobacter canadensis] Length = 367 Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 137/402 (34%), Positives = 198/402 (49%), Gaps = 64/402 (15%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ LL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVGLLTREGEIEIAKRIEEGTREVMSSLAYLPGAVDSVLEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQ-EKERDDVQETEGDIESAAK 235 R + DL + GF EG D + E ERD V +GD Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEADVPEPEPERDAV---DGDASEDDD 128 Query: 236 VSKDDRSKVDSPPENA--------ENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEI 287 ++++ + PE A E +ER + + +A ++Q R + Sbjct: 129 DAEEEETGGGPDPEEAKARFEQIREQNERAKAAIDKHGLGSSNADQEQAR---------L 179 Query: 288 AEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISK 347 AE++ + K++ + +LVG + ++ +EQ+ K Sbjct: 180 AELFSPI--------------------KLVPKHFERLVGQVRIS-------IEQIRGQEK 212 Query: 348 RIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 IM L + Q+ + R F+ G E D W+ K ++ + IL Sbjct: 213 AIMQ-----LFVKQAK-VPRKTFIGSFPGAESDLEWLDRFKA-KHSKYAERIEPFRADIL 265 Query: 408 KIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 + + +I + ++ + + + GE +A AKKEMVEANLRLVIS+AKKYTNRG Sbjct: 266 RAQRKIGFEEEMVCLPVTNIKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG 325 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 LQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 326 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 >gi|281420436|ref|ZP_06251435.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405493|gb|EFB36173.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 291 Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 100/268 (37%), Positives = 161/268 (60%), Gaps = 5/268 (1%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E +SI E + +RKG E AK+++V+ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMVSIDEEIELAQKIRKGGREGERAKEKLVKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGALSKISAE 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIED 594 + + +R+P+ E+A+ M + + +K +S++ P G D+D + + D + Sbjct: 145 ISKFEQENQRKPSVAELAQITKMEESKIDQTIKADNHHMSIDAPFGSDDDDNAMVDVMAS 204 Query: 595 KNAVSPLDSAIQ-ANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + S D + ++ RVL S L RE ++L +GIG + + LEE+G +F +T Sbjct: 205 GDD-SRTDKGVDFESMASELDRVLNSVLKDRERKILCYCYGIGCH-EKGLEEIGSEFNLT 262 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI K+I KL+ + K L +L Sbjct: 263 RERVRQIREKSIIKLRDSGKIKILMKYL 290 >gi|255312671|gb|ACU01745.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EE A++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEESAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|115452175|ref|NP_001049688.1| Os03g0271100 [Oryza sativa Japonica Group] gi|29893614|gb|AAP06868.1| unknown protein [Oryza sativa Japonica Group] gi|32351880|dbj|BAC78529.1| plastid sigma factor 2B [Oryza sativa Japonica Group] gi|108707414|gb|ABF95209.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|113548159|dbj|BAF11602.1| Os03g0271100 [Oryza sativa Japonica Group] gi|215704451|dbj|BAG93885.1| unnamed protein product [Oryza sativa Japonica Group] gi|215765869|dbj|BAG87566.1| unnamed protein product [Oryza sativa Japonica Group] Length = 540 Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 146/237 (61%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+A+++ G++F DLIQEG GL++ AEKFD G++FSTY+ WW Sbjct: 299 CKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSHWW 358 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR PT EEIA MP+ V Sbjct: 359 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECRRRLRRQLKRLPTNEEIASDTGMPLRRV 418 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +SL + +G D ++ + D + + + + ++E R L L+PR Sbjct: 419 EAAMSLPKYTVSLTSKVGCTDMTYQ-EITPDTSTETAEEMLHRWLMKEDVDRALDGLSPR 477 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+R RFG+ TL ++G+ V+RERIRQIE A RKL+ + + L+ +L Sbjct: 478 ERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLRGRKKVQSLQHYL 534 >gi|125543279|gb|EAY89418.1| hypothetical protein OsI_10924 [Oryza sativa Indica Group] Length = 540 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 146/237 (61%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+A+++ G++F DLIQEG GL++ AEKFD G++FSTY+ WW Sbjct: 299 CKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSHWW 358 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR PT EEIA MP+ V Sbjct: 359 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECRRRLRRQLKRLPTNEEIASDTGMPLRRV 418 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +SL + +G D ++ + D + + + + ++E R L L+PR Sbjct: 419 EAAMSLPKYTVSLTSKVGCTDMTYQ-EITPDTSTETAEEMLHRWLMKEDVDRALDGLSPR 477 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+R RFG+ TL ++G+ V+RERIRQIE A RKL+ + + L+ +L Sbjct: 478 ERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLRGRKKVQSLQHYL 534 >gi|255312665|gb|ACU01742.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312669|gb|ACU01744.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ T R+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTNRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|296121869|ref|YP_003629647.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296014209|gb|ADG67448.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 290 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 90/244 (36%), Positives = 152/244 (62%), Gaps = 11/244 (4%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + + GE EA + MV ANLRLV+++A+ Y +GL DLI+EGN+GL++A E Sbjct: 47 RELANRIANGEKEA---RDRMVRANLRLVVNIARAYVGKGLPLQDLIEEGNLGLLRAVEG 103 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD + +FSTYA +W+KQ+I R++ + TIRIP +M + + K + ++ ++ KR P Sbjct: 104 FDPDMNTRFSTYASYWIKQSIKRALINCGKTIRIPAYMVELLSKWRKATAKLEDQFKRPP 163 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISL--ETPIGDEDTS--HLGDFIEDKNAVSPLDS 603 T EE+A +L +P +K L I K+ I L TP D++ S + D + D+ P D Sbjct: 164 TQEEVAIELGLP----KKKLSIVKKAIHLYSSTPQTDDEESGWMMSDMVADERVKGPDDE 219 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + + + +L ++ RE ++LR+RFG+ + TL+E+G++ +TRER+RQIE++A Sbjct: 220 LLDVDNLKHVYAMLETMDEREAKILRLRFGLDDSEPKTLKEIGEEMGLTRERVRQIESEA 279 Query: 664 IRKL 667 ++++ Sbjct: 280 LKRI 283 >gi|224007213|ref|XP_002292566.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220971428|gb|EED89762.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 338 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 93/275 (33%), Positives = 161/275 (58%), Gaps = 23/275 (8%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG-----------LQFLDLIQEG 477 H V +++ + AK ++EANLRLVI+VA++ + +QF D Q+G Sbjct: 60 HTVPSLKQQIRRSQRAKAALIEANLRLVITVARQAVKKSPFRSSSHAASSVQFQDACQQG 119 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 IGL +A EKFD LG++FSTYA+WW+++ + +++ +QS T+R+P KI+ + R Sbjct: 120 IIGLTRATEKFDPELGFRFSTYAIWWIQKEVAKNVNEQSRTVRVPGSAIKKINDIRIQER 179 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI------------GDEDT 585 + N++ R P+ +E+A+K + VE + + KE SL+ I GD+D Sbjct: 180 VLMNELGRRPSDDEVAEKCGLTVEKLNFYRQSAKEVKSLDKKIDSRTGKGSAASGGDDDG 239 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 + F+ D SP + Q +++ R++ +L+PRE+ V+R+RFG+ TL ++ Sbjct: 240 KTMEIFVRDTEHPSPSELIDQQMMQQDIRRLVKTLSPREQAVIRLRFGLDDGKPQTLGDI 299 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G++F V +ERI++IEA+A+ KL+ PSRS ++ ++ Sbjct: 300 GEKFGVEKERIKKIEARALLKLRQPSRSSVVKCYV 334 >gi|55274986|gb|AAV49291.1| RNA polymerase subunit sigma-38 [Shigella flexneri] Length = 196 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 78/195 (40%), Positives = 131/195 (67%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I + Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMN 60 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 QTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERIT 120 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 SVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 180 Query: 635 GMNTDHTLEEVGKQF 649 TLE+VG++ Sbjct: 181 LGYEAATLEDVGREI 195 >gi|281420133|ref|ZP_06251132.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281405933|gb|EFB36613.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 290 Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 89/260 (34%), Positives = 154/260 (59%), Gaps = 2/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +SI E + +RKG AK +++EANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 VSIDEEIELAQAIRKGGRAGERAKNKLIEANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAE+FD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++KV + + Sbjct: 91 IKAAERFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKVNQEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +R P+ EE+A + + + + + + + +S++ P D+D + + D + + Sbjct: 151 ENQRRPSVEELAARTGVDEDKISQSMAASGHHVSIDAPFSDDDDNSMADVMASGDDARTD 210 Query: 602 DSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ + +VL L RE +++ +GIG T+ LEE+G + +TRER+RQI Sbjct: 211 KQVDHESMAQDLRQVLKVCLKDRELKIICACYGIG-ETEKGLEEIGDKMGLTRERVRQIR 269 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K+I KL+ + L +L Sbjct: 270 EKSITKLRESGKIGILMKYL 289 >gi|170692344|ref|ZP_02883507.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia graminis C4D1M] gi|170142774|gb|EDT10939.1| RNA polymerase, sigma 38 subunit, RpoS [Burkholderia graminis C4D1M] Length = 359 Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 96/269 (35%), Positives = 159/269 (59%), Gaps = 13/269 (4%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ + ISV+ +++ E + + + GE EA ++ M+E NLRLV+S+AK Y NRG+ Sbjct: 81 IQHYLNRISVKPLLTVEEEQKYSRLAKAGEFEA---RQVMIERNLRLVVSIAKGYLNRGV 137 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI+EGN+GLM A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ + Sbjct: 138 PLLDLIEEGNLGLMHAIEKFDPTRGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRE 197 Query: 529 IHKVVRTARRMSNKI--------KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +++V+R R + +R+ + ++IA + V +L + + SL+ P+ Sbjct: 198 LNQVLRAKRHLEKNSMNSGEAAERRDASIDDIAYLTGKTTDEVTDILALNEHTASLDAPL 257 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTD 639 D D + + + D+ +Q ET TR LA L+ + V+ RFG+ Sbjct: 258 -DLDPASSLLDLLSDDQSQSPDAEVQHRELETLTRAWLARLSDKHRHVIERRFGLNHIEP 316 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLEE+ + +TRER+RQI+ +A+ +LK Sbjct: 317 ATLEELADEMGLTRERVRQIQQEALVRLK 345 >gi|255312647|gb|ACU01733.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312653|gb|ACU01736.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 167 bits (424), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 L LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LLLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|255312639|gb|ACU01729.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312641|gb|ACU01730.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312643|gb|ACU01731.1| RNA polymerase sigma S factor [Escherichia coli] gi|255312645|gb|ACU01732.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 167 bits (424), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 L LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LGLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|55274894|gb|AAV49249.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 195 Score = 167 bits (424), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL L LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLALIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|20151056|pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 gi|20151057|pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 Length = 241 Score = 167 bits (424), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 81/153 (52%), Positives = 114/153 (74%), Gaps = 6/153 (3%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 93 ELKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 148 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKF++ +KFSTYA WW++QAI R+IADQ+ TIRIPVHM + I+K+ RTAR++ ++ R Sbjct: 149 EKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGR 208 Query: 546 EPTPEEIAKKLAMPVEG--VRKVLKITKEPISL 576 EP+ EEIA+ + + V + LKI +EP+SL Sbjct: 209 EPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSL 241 Score = 39.3 bits (90), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/33 (51%), Positives = 24/33 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 T DPVR YL E+G + LL+ E EI +A+++E G Sbjct: 1 TSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEG 33 >gi|269123355|ref|YP_003305932.1| RNA polymerase, sigma 32 subunit, RpoH [Streptobacillus moniliformis DSM 12112] gi|268314681|gb|ACZ01055.1| RNA polymerase, sigma 32 subunit, RpoH [Streptobacillus moniliformis DSM 12112] Length = 280 Score = 167 bits (423), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 132/229 (57%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++ +NLRLV+S AKK G+ +DLI EGN+GL+K+ +KFD+ G +FSTYA+WW Sbjct: 49 AKHLLILSNLRLVVSEAKKLLGNGMPLIDLISEGNLGLIKSIDKFDYTKGLRFSTYAVWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I +SI + IRIP + +++ KV + N+ PT E IA+ L M V Sbjct: 109 IKQTIKKSIVNLGRDIRIPSYKYEQLSKVNKVIESYQNEFGDIPTAEYIAEVLGMKPSKV 168 Query: 564 RKVLKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +E ISL IGD ED D +ED D L E + Sbjct: 169 VLLQNEFQEIISLNDAIGDNIFLEDVIGQSDNVED-------DIIRNDQLSEMYNLFDKT 221 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE+ +L +R+G+ N HTL+E+G++ +TRER+RQIE KAI KLK Sbjct: 222 LNPREKEILELRYGLANNKIHTLKEIGEKLSITRERVRQIEKKAITKLK 270 >gi|318066911|emb|CBY89070.1| RNA polymerase sigma70 factor [Chromohalobacter nigrandesensis] Length = 367 Score = 167 bits (423), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 130/396 (32%), Positives = 191/396 (48%), Gaps = 52/396 (13%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ LL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVGLLTREGEIEIAKRIEEGTREVMSSLAYLPGAVDSVLDAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEG-HSYQKREDSSQEKERDDVQETEGDIESAAK 235 R + DL + GF EG + E E E +GD+ Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEAEVPGPEPE---PSAADGDVSEDDD 128 Query: 236 VSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 ++++ + PE A+ + E + + A+D+ Sbjct: 129 EAEEEETGGGPDPEEAKARFEQIREQNE---------------RAKAAIDK--------H 165 Query: 296 SLQDNAVNGQKDEKSSV--KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 L + N +++ + + K++ + +LVG + ++ +EQ+ K IM Sbjct: 166 GLGSSEANKEQERLAELFSPIKLVPKHFERLVGQVRIS-------IEQVRSQEKAIMQV- 217 Query: 354 GELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI 413 + + R F+ G E D W+ K + D IL+ + +I Sbjct: 218 -----FVKQAKVPRKTFIGSFPGAESDLEWLDRFKAKHAKYAERLEPFRAD-ILRAQRKI 271 Query: 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 + ++ + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDL Sbjct: 272 GFEEEMVRLPVTNIKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDL 331 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 IQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 332 IQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 >gi|148242708|ref|YP_001227865.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851018|emb|CAK28512.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 301 Score = 167 bits (423), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 91/232 (39%), Positives = 147/232 (63%), Gaps = 7/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EKFD G++FSTYA WW Sbjct: 59 AKNQMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKFDPTRGHRFSTYAYWW 118 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ R+ R+P EE+A L +P++ V Sbjct: 119 IRQGLNRALSTQSRTIRIPVNINEKLTKLRAAKARLFQSTGRQPIAEELADYLKLPLDEV 178 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + + D S L D + + + P++ A +T ++L A Sbjct: 179 EDLLGCELRSVTVSLQGVVKSKSDPSELVDVLPSEE-MPPMERAELDERTQTVWKLLDQA 237 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +LTP+E V+ +RFG+ G N TL EV +Q +RE RQ+ +++RKL+ Sbjct: 238 NLTPKERTVVMLRFGLDGTNEWRTLAEVARQMSCSREYCRQVVQRSLRKLRR 289 >gi|55274883|gb|AAV49244.1| RNA polymerase subunit sigma-38 [Shigella boydii] gi|55274899|gb|AAV49251.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 193 Score = 167 bits (423), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 79/193 (40%), Positives = 130/193 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEV 645 G+ TLE+V Sbjct: 181 GLLGYEAATLEDV 193 >gi|158338579|ref|YP_001519756.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158308820|gb|ABW30437.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 89/237 (37%), Positives = 147/237 (62%), Gaps = 2/237 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ R+ + AK++M+EANLRLV+S+AKK+ NRGL LDLIQEGN+GL A +KF+ Sbjct: 27 ITLARQVQAGNPRAKRKMIEANLRLVVSIAKKHQNRGLPLLDLIQEGNLGLSIAVDKFEP 86 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW+ Q +TRS+ ++ +R+PV +++ RT ++S ++ REPT Sbjct: 87 EQGNRFSTYAYWWILQGVTRSLQNKGRVVRLPVKHWQVGNQIKRTRHQLSQELGREPTVV 146 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA + M + ++K L +E +SL+ +G E + LGD IE ++ + + Sbjct: 147 EIADAMEMDLTRLKKYLHSLQETVSLDKFVGSEQDTTLGDLIEGNDSTQSYLDLLLQD-- 204 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E + LA L R+ V+ R+G+ ++E++G++ ++RER+RQI KA++ L Sbjct: 205 EELSGYLALLDDRQRFVISERYGLEDGKPKSMEKIGQKLGISRERVRQIIKKAMQTL 261 >gi|108707415|gb|ABF95210.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica Group] gi|215695353|dbj|BAG90544.1| unnamed protein product [Oryza sativa Japonica Group] Length = 343 Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 93/237 (39%), Positives = 146/237 (61%), Gaps = 1/237 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+A+++ G++F DLIQEG GL++ AEKFD G++FSTY+ WW Sbjct: 102 CKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSHWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR PT EEIA MP+ V Sbjct: 162 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECRRRLRRQLKRLPTNEEIASDTGMPLRRV 221 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +SL + +G D ++ + D + + + + ++E R L L+PR Sbjct: 222 EAAMSLPKYTVSLTSKVGCTDMTY-QEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPR 280 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +V+R RFG+ TL ++G+ V+RERIRQIE A RKL+ + + L+ +L Sbjct: 281 ERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLRGRKKVQSLQHYL 337 >gi|37362432|gb|AAO23112.1| sigma factor S [Vibrio vulnificus] Length = 167 Score = 167 bits (422), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 74/153 (48%), Positives = 114/153 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 13 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 72 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S K+ EPT EEIA +L +PV+ V Sbjct: 73 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVDDV 132 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 K+L++ + S++TPIG + L D I D N Sbjct: 133 GKMLRLNERISSVDTPIGGDGEKALLDIIRDAN 165 >gi|261879347|ref|ZP_06005774.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270334050|gb|EFA44836.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 290 Score = 167 bits (422), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 93/262 (35%), Positives = 157/262 (59%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 I++ E + +RKG E AK+++V+ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ITVDEEIELAQAIRKGGKEGERAKEKLVKANLRFVVSVAKQYQHQGLGLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + Sbjct: 91 VKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGALSKINAEISKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + R P+ +E+A+ + + + +K +S++ P ++D + + D + +D A Sbjct: 151 ENHRPPSVQELARLTNIEEAKIEQTMKADNHHMSIDAPFQEDDDNSMADVLSSGDDSRAD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D ++ +E T + L RE ++R FGIG + + LEE+G Q +TRER+RQ Sbjct: 211 RQVD--YESMSKELDTVLCNVLKERERTIVRECFGIGCH-EKGLEEIGDQLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ ++ L +L Sbjct: 268 IREKSIVKLRESGHAQLLIKYL 289 >gi|255312663|gb|ACU01741.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 167 bits (422), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 131/195 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+ L++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLVLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|1526450|dbj|BAA13238.1| RNA polymerase sigma subunit, truncated form of sigma-38 [Escherichia coli W3110] gi|23306704|gb|AAN15271.1| C-terminal truncated RNA polymerase sigma factor S [Escherichia coli] Length = 269 Score = 167 bits (422), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 73/180 (40%), Positives = 126/180 (70%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+ P D+ +++++ + L L + Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAK 269 >gi|318066921|emb|CBY89075.1| RNA polymerase sigma70 factor [Halomonas almeriensis] Length = 366 Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust. Identities = 132/403 (32%), Positives = 200/403 (49%), Gaps = 67/403 (16%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M +L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMFALAYLPGAVDSILEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQET-EGDIESAAK 235 R I P+ G G + ++ E V +T EG+ + + Sbjct: 81 EEAPGRLSDLFSGFIDPD------EGIPGVA------EAEVPEPQPVHKTAEGEGDEDVE 128 Query: 236 VSKDDRSKVDSPPENAENDERNLDEDEDD----SAHTLSAMEDQLRPKVMCALDEIAEVY 291 +++ P E E+ +++E AH +A E Q L +AE++ Sbjct: 129 AEEEETGGGPDPEEARARFEQIREQNEAARRAIEAHGRAAKEAQ------SELARLAELF 182 Query: 292 RELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMH 351 + K++ + +LVG + ++ VEQ+ K IM Sbjct: 183 SPI--------------------KLVPKHFERLVGQVRIS-------VEQVRAQEKAIMQ 215 Query: 352 NEGELLRLAQSYGIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSIL-KI 409 + + R F++ G E + W+ ++ D + A ++ + +I Sbjct: 216 ------LCVKKAKLPRKTFIKSFPGNESNQEWLDAFMAD------NSRHAARLEPLKGEI 263 Query: 410 RNEIKSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 + + I+ E +++++ + + + GE +A AKKEMVEANLRLVIS+AKKYTNR Sbjct: 264 QRSQRKIAFEEEMVALAVTDLKEVNRKLSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 323 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 GLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 324 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 366 >gi|242041441|ref|XP_002468115.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor] gi|241921969|gb|EER95113.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor] Length = 528 Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 93/238 (39%), Positives = 146/238 (61%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K MV++N+RLVIS+AK++ G++F DLIQEG GL++ AEKFD G++FSTY+ WW Sbjct: 287 CKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWW 346 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI +S+ +Q+ IR+P HM + +V RR+ ++KR P+ EEIA M + V Sbjct: 347 IKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLRRELKRLPSNEEIAVDTGMTIRRV 406 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + K +S + +G D ++ + + D +A + + + +++ L SL+PR Sbjct: 407 EAAMSLPKYSVSFTSKVGCTDVTYQ-EIMPDTSAETAEEVLHRWLMKKDVNTALESLSPR 465 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E+ V+R RFGI TL ++G+ V+RERIRQIE A RKL+ R + L+ +L Sbjct: 466 EKLVMRYRFGIEGGRPRTLHDIGQIMGVSRERIRQIELGAFRKLRSKKRVQSLQHYLQ 523 >gi|225848787|ref|YP_002728951.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Sulfurihydrogenibium azorense Az-Fu1] gi|225643846|gb|ACN98896.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Sulfurihydrogenibium azorense Az-Fu1] Length = 282 Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 97/261 (37%), Positives = 158/261 (60%), Gaps = 5/261 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E R + +KG+ EA K++VE NLR V+++AK + G+ DLI GN+GL Sbjct: 24 LTPEEERELAIRAKKGDKEAL---KKLVEGNLRFVVNIAKNFMGWGVPLTDLIAAGNLGL 80 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AA++FD KF +YA+WW++QAI ++I Q+ +RIP+ I KV ++ Sbjct: 81 IEAAKRFDPDKNVKFISYAVWWIRQAIMQTIFQQTGAVRIPIKESLFISKVKNAYEKLKE 140 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVS 599 + REPT EEIAK+L V+ V+ L I ++PISL+ P+G+ E+ L D + K Sbjct: 141 SLGREPTEEEIAKELKTSVKKVKNALAIVRQPISLDMPLGEGGEEDFTLLDILSKKGTED 200 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +++ L+E R+L L RE ++++R+G+ TLEEVG+ ++RER+RQ+ Sbjct: 201 VEKDLVESTLKEEFERLLNVLDEREREIIKLRYGLEGLEPKTLEEVGEMLGISRERVRQL 260 Query: 660 EAKAIRKLKHPSRSKKLRSFL 680 E +A++KLK + K L++FL Sbjct: 261 EQRALKKLKAVALKKHLQNFL 281 >gi|15240693|ref|NP_196877.1| SIG4 (SIGMA FACTOR 4); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|3983260|gb|AAC97954.1| sigma-like factor [Arabidopsis thaliana] gi|4972296|dbj|BAA78110.1| RNA polymerase sigma subunit SigD [Arabidopsis thaliana] gi|9758039|dbj|BAB08700.1| sigma-like factor [Arabidopsis thaliana] gi|332004550|gb|AED91933.1| sigma factor 4 [Arabidopsis thaliana] Length = 419 Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 138/231 (59%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C A++++ RLV+S+A Y +GL DLIQEG+IGL++ AE+FD GYK ST Sbjct: 174 CRRKEAREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLST 233 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 Y WW+KQAI R+IA +S +++P M + KV + ++ K++R+P+ EEIA+ L + Sbjct: 234 YVYWWIKQAILRAIAHKSRLVKLPGSMWELTAKVAEASNVLTRKLRRQPSCEEIAEHLNL 293 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V VR ++ ++ P+SL+ L + + + P + + +++ ++L Sbjct: 294 NVSAVRLAVERSRSPVSLDRVASQNGRMTLQEIVRGPDETRPEEMVKREHMKHEIEQLLG 353 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 SLT RE RVL + FG+ T + EE+GK ++RER+RQI A++KL++ Sbjct: 354 SLTARESRVLGLYFGLNGETPMSFEEIGKSLKLSRERVRQINGIALKKLRN 404 >gi|255312661|gb|ACU01740.1| RNA polymerase sigma S factor [Escherichia coli] Length = 195 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 79/195 (40%), Positives = 130/195 (66%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 L LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LLLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S +TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSEDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEVGK 647 G+ TLE+VG+ Sbjct: 181 GLLGYEAATLEDVGR 195 >gi|318066941|emb|CBY89085.1| RNA polymerase sigma70 factor [Halomonas eurihalina] Length = 367 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 132/395 (33%), Positives = 193/395 (48%), Gaps = 50/395 (12%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILDAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQ-EKERDDVQETEGDIESAAK 235 R + DL + GF EG D + E ER +G+ Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEADVPEPEPERS---AADGETSDEDD 128 Query: 236 VSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 ++++ S PE A A +Q+R + A I E R + Sbjct: 129 DAEEEESGGGPDPEEAR------------------ARFEQIRQQNEAARRAIEEHGRGAK 170 Query: 296 SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 Q+ + + K++ + +LVG + ++ VEQ+ K IM Sbjct: 171 QAQNELA---RLAELFSPIKLVPKHFERLVGQVRIS-------VEQVRAQEKAIMQ---- 216 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIK 414 + + R F++ G E W+ ++ + + + +A I + + +I Sbjct: 217 --LCVKKAKVPRKTFIKSFPGNESRQDWLDTFMAE--HARYADRLAALKGDIQRAQRKIA 272 Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLI 474 + + + + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLI Sbjct: 273 FEEEMVALVVPDLKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 332 Query: 475 QEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 QEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 333 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 >gi|158341079|ref|YP_001522246.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158311320|gb|ABW32932.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 139/230 (60%), Gaps = 2/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M+E NLRLV+S+AKK+ + GL +DLIQEG+IGL A +KFD G KFSTYA WW Sbjct: 40 AKQRMIECNLRLVVSIAKKHQHLGLPLMDLIQEGSIGLNTAVDKFDLAQGCKFSTYAYWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + +AI R++ QS TI IP+H ++ H++ + R+++ + R PT +E++ + + Sbjct: 100 ISEAIKRALKSQSRTIYIPIHQWERAHRIKKAVRQLTQEKGRTPTLKELSAATGIKSSLI 159 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R L+ + SL+ P+G E L D I+ ++A + ++ + + TR +A LT R Sbjct: 160 RNTLQSFQAISSLDQPVGPEQKDALIDLIQTEDAALSIMDGLE--IEDALTRCMAYLTER 217 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 E ++ R+G+ ++ +GK ++RER+RQI A++K+ RS Sbjct: 218 ERFIVDQRYGLTDGQPKSMGAIGKPIGISRERVRQILNIAMKKMTRQVRS 267 >gi|206901861|ref|YP_002251028.1| RNA polymerase sigma factor RpoD [Dictyoglomus thermophilum H-6-12] gi|206740964|gb|ACI20022.1| RNA polymerase sigma factor RpoD [Dictyoglomus thermophilum H-6-12] Length = 413 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 73/115 (63%), Positives = 95/115 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK+++EANLRLV+SVAK+Y RGL FLDLIQEGN+GL+KA EKFDW GYKFSTYA WW Sbjct: 104 AKKKLIEANLRLVVSVAKRYIGRGLSFLDLIQEGNLGLIKAVEKFDWRKGYKFSTYATWW 163 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 ++QAITR+IADQ+ TIRIPVHM + ++K+ + R ++ + R+PT E+IAK L + Sbjct: 164 IRQAITRAIADQARTIRIPVHMVETMNKIHKITRLLTQNLGRKPTEEDIAKFLVI 218 Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 69/153 (45%), Positives = 104/153 (67%), Gaps = 15/153 (9%) Query: 540 SNKIKREPTPEEIAKK-----------LAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 +NK+ PT EEI +K + E VR++ + +EP+SLE P+G+++ + L Sbjct: 264 NNKV---PTKEEINEKAKELKHVLEEEIRQQTEKVREISMMGQEPLSLEMPVGEDEDNRL 320 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 DF+E+K+ +SP D A+Q +L++ +L L+ RE +L++RFG+ N TLEEVGK Sbjct: 321 ADFVENKD-LSPADIAVQKSLKKDIEELLNELSEREREILKLRFGLEDNQPRTLEEVGKL 379 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+R+L+HPSRSKK++ +L+ Sbjct: 380 FNVTRERIRQIEAKALRRLRHPSRSKKIKDYLE 412 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 24/49 (48%), Positives = 31/49 (63%) Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 D DDPV+MYL+E+G I LL+ E EI +AKR+E G L E+ L Sbjct: 65 DIELDDPVKMYLKEIGKIPLLTPEEEIELAKRVEQGDEEAKKKLIEANL 113 >gi|158833963|gb|ABW81787.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 75/202 (37%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDSDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|330448286|ref|ZP_08311934.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328492477|dbj|GAA06431.1| RNA polymerase sigma factor RpoS [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 291 Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 88/227 (38%), Positives = 134/227 (59%), Gaps = 1/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +KK ++E+NLRLV+S+AKKY + DLI EGNIGL+ A EKFD G++FSTYA WW Sbjct: 49 SKKVLIESNLRLVVSIAKKYRGSPMHISDLIDEGNIGLITAVEKFDPEKGFRFSTYATWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R+I +Q TIR+PVH+ +I+ +VR +++ K EP+ E+IA L + V Sbjct: 109 IKQTIERAIHNQGRTIRLPVHVSKEINTIVRAHKQLVKKNNEEPSKEQIANILNKSLHDV 168 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L IS + + G+ + + I D+ P + + TT VL L Sbjct: 169 STTLSYETPIISYDQSVNGEVNAQSMAVLIADETMAKPDQHVDDLAIEKITTNVLNCLNK 228 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R++ ++ RFG+ TL+EV ++ +TRERIRQ++ ++ KLK+ Sbjct: 229 RDKEIICRRFGLLGYEAQTLQEVAEEVGLTRERIRQLQVTSLSKLKN 275 >gi|55274909|gb|AAV49256.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 193 Score = 166 bits (419), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 76/185 (41%), Positives = 127/185 (68%) Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 E+NLRLV+ +A++Y NRGL LDLI+EGN+ L++A EKFD G++FSTYA WW++Q I Sbjct: 1 ESNLRLVVKIARRYGNRGLALLDLIEEGNLVLIRAVEKFDPERGFRFSTYATWWIRQTIE 60 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ Sbjct: 61 RAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRL 120 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 + S++TP+G + L D + D+ P D+ +++++ + L L ++ VL Sbjct: 121 NERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLA 180 Query: 630 MRFGI 634 RFG+ Sbjct: 181 RRFGL 185 >gi|313799121|gb|ADR82155.1| RNA polymerase sigma factor [Mycoplasma sp. 1220] gi|313799126|gb|ADR82156.1| RNA polymerase sigma factor [Mycoplasma anatis] gi|313799129|gb|ADR82157.1| RNA polymerase sigma factor [Mycoplasma anatis] Length = 183 Score = 166 bits (419), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 79/159 (49%), Positives = 111/159 (69%), Gaps = 2/159 (1%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G A+ ++++ NLRLVI+ AKKY NRGL F+DLI EGN G++KAA+K++ G+KF Sbjct: 25 GGFRGKRARDKLIKRNLRLVINNAKKYKNRGLSFIDLISEGNAGILKAAQKYNVDKGFKF 84 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA WW++QAITR++ADQ+ TIR+PVHM + I+K+ + R + ++ REP EEIA K Sbjct: 85 STYATWWIRQAITRAVADQARTIRVPVHMVETINKITKIERELQQELGREPLDEEIAAKF 144 Query: 557 --AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE 593 A E VR + KI +PISL+ IG E+ S DF++ Sbjct: 145 GNAYTAEKVRYIRKINIDPISLDKQIGKENDSSFSDFVK 183 >gi|158833949|gb|ABW81780.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 75/202 (37%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVNRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|89074640|ref|ZP_01161105.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] gi|89049578|gb|EAR55138.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Photobacterium sp. SKA34] Length = 284 Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 138/226 (61%), Gaps = 1/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E+NLRLV+S+AKKY L D+I EGN+GL+ A EKFD G++FSTYA WW Sbjct: 41 AKEKLIESNLRLVVSIAKKYRAAHLLLGDMIDEGNLGLITAVEKFDPEKGFRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R+I +Q+ IR+PVH+ +I+ ++RT R + K EPT E+IA +L + + Sbjct: 101 IKQNIERAIHNQNRAIRLPVHVSKEINALLRTHRDLMKKQNHEPTHEDIALQLNKETQDI 160 Query: 564 RKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L +SL+ IGD+++ + + D+ SP + ++ +L + P Sbjct: 161 STLLSYELNIVSLDQTIGDDESKGTIASLVVDEQIPSPSHIVEENSMVNLAEGLLNKIKP 220 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +L RFG+ TL+EV +TRER+RQ++ K++ +LK Sbjct: 221 REREILCRRFGMMGYEPQTLQEVASALGLTRERVRQLQMKSLERLK 266 >gi|158833993|gb|ABW81802.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 75/202 (37%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|57996874|emb|CAI45885.1| negative response regulator [Escherichia coli] gi|57996882|emb|CAI45889.1| negative response regulator [Escherichia coli] Length = 191 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 78/191 (40%), Positives = 128/191 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLE 643 G+ TLE Sbjct: 181 GLLGYEAATLE 191 >gi|226309754|ref|YP_002769648.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] gi|226092702|dbj|BAH41144.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599] Length = 314 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 102/266 (38%), Positives = 151/266 (56%), Gaps = 17/266 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E ++ R G+ EA ++ +V A LR V+S A ++ RG+ FLDLIQEG IGL A Sbjct: 54 ELACLIRYQRDGDLEA---RETIVRAYLRYVVSTALRHLKRGMPFLDLIQEGTIGLFTAI 110 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD G + Y+ WW+ QAITR+I D++ IRIPVHM ++I + + + + + R Sbjct: 111 DKFDVGRGVRLYHYSHWWISQAITRAINDKATLIRIPVHMHEQIRQYQKQVLHLVHALNR 170 Query: 546 EPTPEEIAKKLAMPVEGVRKV---LKITKEPISLE-------TPIGDEDTSHLGDFIEDK 595 P +EIA L +P+E V + L + E I E T DE S+ + ++D Sbjct: 171 TPDRQEIAVLLDIPLEKVEAIELALMMKMESIDAELDSEKWQTWHEDESLSY-AEIMDD- 228 Query: 596 NAVSPLDSAIQ-ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 +S LD I+ +LR L L+PR + ++ MR+G+ + +TLEEVGK F +TRE Sbjct: 229 -GLSSLDDWIEKVDLRSQMRAALDRLSPRAQEIISMRYGLYDDQVYTLEEVGKMFGLTRE 287 Query: 655 RIRQIEAKAIRKLKHPSRSKKLRSFL 680 RIRQIEA I +L+ S L+ +L Sbjct: 288 RIRQIEATTIDRLRTQKASHVLKDYL 313 >gi|158833991|gb|ABW81801.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 75/202 (37%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDGSSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|3249731|gb|AAC26668.1| RNA polymerase sigma-like factor [Streptomyces spectabilis] Length = 161 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 81/162 (50%), Positives = 116/162 (71%), Gaps = 1/162 (0%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EP+PEE+A L + Sbjct: 1 YATWWIRQAMSRAMADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPSPEEVAAHLDL 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 P E VR L++ +EP+SL P+G+ED LGD IED +A SP++SA LRE VL+ Sbjct: 61 PHERVRG-LRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLS 119 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +L RE +V+++R+G+ TLEE+G+ F VTRERIRQIE Sbjct: 120 TLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIE 161 >gi|291287615|ref|YP_003504431.1| RNA polymerase, sigma 32 subunit, RpoH [Denitrovibrio acetiphilus DSM 12809] gi|290884775|gb|ADD68475.1| RNA polymerase, sigma 32 subunit, RpoH [Denitrovibrio acetiphilus DSM 12809] Length = 301 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 80/238 (33%), Positives = 143/238 (60%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ NL+ V+S+A +Y N GL D+I +GN+GL++AA++FD KF +YA+WW Sbjct: 65 ALNTLILCNLKFVVSIANRYRNTGLPIADIINQGNLGLVEAAKRFDHTKDVKFISYAVWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I +++A+QS T+++P+ ++K+ +++ K+ REPT E+A++L M + Sbjct: 125 IRQSIIQALAEQSGTVKLPIKQAGILYKINGATEKLNKKLNREPTASELAEQLEMDEADI 184 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL++++ +SLE PI D + D +E D I L+ ++ L R Sbjct: 185 ENVLRVSRNYLSLEAPIKDGEDRSFIDLLESGTKDIEED-IISKTLKTALDDIVDELDER 243 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++ RFG+ TLEE+G+ ++RER+RQ+E +A+ KL+ + KL+ FL+ Sbjct: 244 ESQIIEWRFGLNEEAPKTLEEIGELMDISRERVRQLETRALSKLRKKAMKNKLQDFLN 301 >gi|217967697|ref|YP_002353203.1| putative RNA polymerase, sigma 70 family subunit [Dictyoglomus turgidum DSM 6724] gi|217336796|gb|ACK42589.1| putative RNA polymerase, sigma 70 family subunit [Dictyoglomus turgidum DSM 6724] Length = 413 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 73/115 (63%), Positives = 94/115 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK ++EANLRLV+SVAK+Y RGL FLDLIQEGN+GL+KA EKFDW GYKFSTYA WW Sbjct: 104 AKKRLIEANLRLVVSVAKRYIGRGLSFLDLIQEGNLGLIKAVEKFDWRKGYKFSTYATWW 163 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 ++QAITR+IADQ+ TIRIPVHM + ++K+ + R ++ + R+PT E+IAK L + Sbjct: 164 IRQAITRAIADQARTIRIPVHMVETMNKIHKITRLLTQSLGRKPTEEDIAKFLVI 218 Score = 127 bits (318), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 61/121 (50%), Positives = 92/121 (76%), Gaps = 1/121 (0%) Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E VR++ + +EP+SLE P+G+++ + L DF+E+K+ +SP D A+Q +L++ +L L Sbjct: 293 EKVREISMMGQEPLSLEMPVGEDEDNRLADFVENKD-LSPADIAVQKSLKKDIEELLNEL 351 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + RE +L++RFG+ N TLEEVGK F VTRERIRQIEAKA+R+L+HPSRSKK++ +L Sbjct: 352 SEREREILKLRFGLEDNQPRTLEEVGKLFNVTRERIRQIEAKALRRLRHPSRSKKIKDYL 411 Query: 681 D 681 + Sbjct: 412 E 412 Score = 46.6 bits (109), Expect = 0.016, Method: Compositional matrix adjust. Identities = 23/45 (51%), Positives = 30/45 (66%) Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DDPV+MYL+E+G I LL+ E EI +AKR+E G L E+ L Sbjct: 69 DDPVKMYLKEIGKIPLLTPEEEIELAKRVEQGDEDAKKRLIEANL 113 >gi|158833951|gb|ABW81781.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833953|gb|ABW81782.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833955|gb|ABW81783.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833957|gb|ABW81784.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833961|gb|ABW81786.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833965|gb|ABW81788.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833981|gb|ABW81796.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833983|gb|ABW81797.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833985|gb|ABW81798.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833989|gb|ABW81800.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 75/202 (37%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|329902595|ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] gi|327548742|gb|EGF33384.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium IMCC9480] Length = 334 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 86/258 (33%), Positives = 152/258 (58%), Gaps = 5/258 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +++++ H ++ + G+ A ++ M+E NLRLV+S+AK Y NRG+ LD Sbjct: 66 LNQIGARALLTVAQEVHYATLAKAGDFPA---RQVMIEHNLRLVVSIAKHYINRGVVLLD 122 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GLM+A +KF+ G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ ++++V Sbjct: 123 LIEEGNLGLMRAIDKFEPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRELNQV 182 Query: 533 VRTARRMS--NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD 590 +R + + ++ + ++IA E V+ +L ++ P SL+ P+ + S L D Sbjct: 183 LRAKYHLEALHHDGKDASIDDIAHLTGRSAEDVQDILALSDHPASLDAPLDADPGSSLMD 242 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + P A Q LA L+ ++ ++ RFG+ + TLE + + Sbjct: 243 LLPGDPGDGPEARAEQHETALLVRDWLARLSDKQRLIITRRFGLEDDDPATLEALAAEIG 302 Query: 651 VTRERIRQIEAKAIRKLK 668 VTRER+RQ++ +A+ KLK Sbjct: 303 VTRERVRQVQQEALIKLK 320 >gi|168036108|ref|XP_001770550.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens] gi|14669828|dbj|BAB62006.1| PpSIG1 [Physcomitrella patens] gi|14669830|dbj|BAB62007.1| PpSIG1 [Physcomitrella patens] gi|162678258|gb|EDQ64719.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens] Length = 677 Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 96/257 (37%), Positives = 156/257 (60%), Gaps = 11/257 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +VRK EA A+ +MV ANLRLV+SVAK+Y + GL+ DLIQEG+IGL++ EKFD Sbjct: 419 LVRK-LGEAEWARDKMVMANLRLVVSVAKQYHSFGLEMADLIQEGSIGLLRGVEKFDHTR 477 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYK STY WW++Q +TR+IAD S T+R+PVH+ D + + +R A+ + +EI Sbjct: 478 GYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVHDTLGR-IRKAKSTLLSEGCTASVQEI 536 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIG-----DEDTSHLGDFIEDKNAVS-PLDSAIQ 606 ++ + ++ L++TK+ +SL+ IG D L + D++ + P + Sbjct: 537 SEATNLTGTKIKNTLQVTKKLVSLDKEIGRNTLQSGDGETLHSLVADRDIENQPWTIVER 596 Query: 607 ANLRETTTRVLAS-LTPREERVLRMRFGIGM--NTDHTLEEVGKQFCVTRERIRQIEAKA 663 +++ ++L S L PRE ++R+ +G+G + +LE + ++ V+RER+RQ+E A Sbjct: 597 MLMKDDVDKLLTSQLGPRERDIVRLHYGVGREDGSVMSLESISYRYGVSRERVRQLETAA 656 Query: 664 IRKLKHPSRSKKLRSFL 680 +RKL+ SR + L +L Sbjct: 657 MRKLQIKSREQGLDRYL 673 >gi|291280296|ref|YP_003497131.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] gi|290754998|dbj|BAI81375.1| DNA-directed RNA polymerase sigma 70 factor [Deferribacter desulfuricans SSM1] Length = 313 Score = 165 bits (417), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 80/219 (36%), Positives = 137/219 (62%), Gaps = 1/219 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V +NL+ V+S+A +Y N GL D+I +GN+GL++AA++FD G KF +YA+WW Sbjct: 77 ALEKLVLSNLKFVVSIANRYKNTGLPLADIINQGNLGLLEAAKRFDPERGVKFISYAVWW 136 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++A+QS T+++P+ ++K+ +S ++ REPTP+EIA L M + Sbjct: 137 IRQAIIQALAEQSGTVKLPLKQASILYKINEAIEVLSKELGREPTPDEIAVYLDMDPADI 196 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 VL++++ +SLE PI D + D +E S + L+ ++ L R Sbjct: 197 ENVLRVSRNYLSLEAPIKDGEDRAFIDLLE-SGGKSVEEEIFLNTLKANIEEIVDELNER 255 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 E ++++ RFG+ T TLEE+G+ ++RER+RQIEA+ Sbjct: 256 EAQIIKWRFGLEGETPKTLEEIGEILNISRERVRQIEAR 294 >gi|1621026|gb|AAB17121.1| RpoS [Yersinia enterocolitica] Length = 277 Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 73/185 (39%), Positives = 128/185 (69%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+ L++A EKFD G++FSTY+ WW Sbjct: 91 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLCLIRAVEKFDPEPGFRFSTYSHWW 150 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ TAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 151 IRQTIERAIMNQTRTIRLPIHIVKELNVYFGTARELSHKLDHEPSAEEIAEQLNKPVDDV 210 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L++ + S++TP+G + L D + D+N P D+ +++++ + L L + Sbjct: 211 SRMLRLNERITSVDTPLGGDSEKSLLDILSDENENGPEDTTQDDDMKQSIVKWLFELNAK 270 Query: 624 EERVL 628 + VL Sbjct: 271 QREVL 275 >gi|158340411|ref|YP_001521767.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310652|gb|ABW32266.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 84/239 (35%), Positives = 152/239 (63%), Gaps = 4/239 (1%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +++ R+ + AK+ M+E NLRLV+S+AKK+ NRGL LDLIQEGNIGL +A EKFD Sbjct: 27 INLARQVKAGNLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGNIGLSRAVEKFDL 86 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW+ Q ITR++ +++ IR+P+H+ K+ RT +++ + R+P+ + Sbjct: 87 NQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIHLNQLHSKIKRTYFQLNQEYGRQPSLD 146 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANL 609 E+A + + +++ L++++E ISL+ + + LG+ + +D ++ ++ + Sbjct: 147 EVAYAMDIDPTHIQEQLQLSQEVISLDKFVSENQGDTLGELVAKDHSSQKYFENLMN--- 203 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ ++++ L+ R++ ++ RFG+ TL E+ K ++RE IR+IE KA ++LK Sbjct: 204 KDELSKLMGHLSERQQFIIGQRFGLEDGQPKTLVEIAKLLDMSREGIRRIEKKAFQQLK 262 >gi|55274892|gb|AAV49248.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 190 Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 75/182 (41%), Positives = 125/182 (68%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GI 634 G+ Sbjct: 181 GL 182 >gi|55274903|gb|AAV49253.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 192 Score = 164 bits (416), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 76/192 (39%), Positives = 129/192 (67%) Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ Sbjct: 1 VKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQT 60 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S+ Sbjct: 61 RTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSV 120 Query: 577 ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 +TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 DTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLG 180 Query: 637 NTDHTLEEVGKQ 648 TLE+VG++ Sbjct: 181 YEAATLEDVGRE 192 >gi|55274965|gb|AAV49282.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 193 Score = 164 bits (416), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 78/193 (40%), Positives = 129/193 (66%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EE A++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEESAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLEEV 645 G+ TLE+V Sbjct: 181 GLLGYEAATLEDV 193 >gi|87303841|ref|ZP_01086550.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] gi|87281651|gb|EAQ73647.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. WH 5701] Length = 215 Score = 164 bits (416), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 85/185 (45%), Positives = 125/185 (67%), Gaps = 1/185 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ M++ANLRLV+SVAKKY +GL+ LDLIQEG++GL +A EKFD GYKFSTYA WW Sbjct: 31 AKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAFWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++TR+IA QS TIR+PVH+ +++ + + + +++K+ P EIA+ + +PVE + Sbjct: 91 IRQSMTRAIACQSRTIRLPVHLSERLTTIRKVSLDLAHKLGAMPNRLEIAEAMDIPVEEL 150 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +L+ SL+ P+ G+E S LGD I D +A PLD Q E R L+ L+ Sbjct: 151 DSLLRQALTTSSLDAPVNGEEGRSFLGDLIADSSADEPLDIVEQRIHHEQLGRWLSHLSE 210 Query: 623 REERV 627 +E+ V Sbjct: 211 QEQNV 215 >gi|169837518|ref|ZP_02870706.1| RNA polymerase sigma factor rpoD [candidate division TM7 single-cell isolate TM7a] Length = 149 Score = 164 bits (416), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 74/118 (62%), Positives = 100/118 (84%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E+NLRLV+S+AKK+TNRGL+ LDLIQEGN+GLMKA EKF++ G+KFSTYA WW Sbjct: 31 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++QAITR+IADQ TIRIPVHM + I+K+ + +R + + +EPT EE+AKKL +PVE Sbjct: 91 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAKKLELPVE 148 >gi|225849654|ref|YP_002729888.1| RNA polymerase sigma-70 factor [Persephonella marina EX-H1] gi|225646208|gb|ACO04394.1| RNA polymerase sigma-70 factor [Persephonella marina EX-H1] Length = 281 Score = 164 bits (416), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 92/260 (35%), Positives = 153/260 (58%), Gaps = 4/260 (1%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E + + +KG+ EA K++VE NLR V++VAK + G+ DLI GN+GL Sbjct: 24 LTPEEEKELAKRAKKGDKEAL---KKLVEGNLRFVVNVAKNFMGWGVPLTDLIAAGNLGL 80 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AA++FD KF +YA+WW++QAI ++I Q+ +RIPV I KV T ++ Sbjct: 81 IEAAKRFDPERDVKFISYAVWWIRQAIMQTIFQQTGAVRIPVKESLFISKVKETYEKLKE 140 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSP 600 ++KREPT EEIA+K+ + V+ L++ + P SL+ P+G+E + L D + K Sbjct: 141 ELKREPTIEEIAEKVGASPKKVKNALQVVRMPYSLDKPLGEEGEDLTLLDVLSKKGTEDV 200 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ +L + +L L RE ++ RFG+ TL EVG+ ++RER+RQ+E Sbjct: 201 EKEIVEESLHKELNTLLNVLDERERAIIEHRFGLNGEEPKTLTEVGEILGISRERVRQLE 260 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 +A++KL+ + + L+ FL Sbjct: 261 QRALKKLRALAMKRHLKDFL 280 >gi|237653675|ref|YP_002889989.1| RNA polymerase sigma factor RpoS [Thauera sp. MZ1T] gi|237624922|gb|ACR01612.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thauera sp. MZ1T] Length = 312 Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 95/235 (40%), Positives = 149/235 (63%), Gaps = 5/235 (2%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I VR G+ +A ++ M+E NLRLV+++AK Y NRG+ LDL++EGN+GLM A EKFD Sbjct: 63 IARRVRMGDFDA---RQTMIERNLRLVVNIAKHYLNRGIPLLDLVEEGNLGLMHALEKFD 119 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G++FSTYA WW++Q I R+I +QS TIR+PVH+ ++++V+R R + E + Sbjct: 120 PERGFRFSTYATWWIRQNIERAIMNQSRTIRLPVHVVKELNQVLRAQRHIEADCNGESSL 179 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E+IA +L +E VR +L + + SL+ P+ + + +G+ + D+ +S D IQ + Sbjct: 180 EQIANRLGKTIEEVRSILALGEHTASLDAPLDIDPSLSIGESLADEQHISA-DLRIQCSE 238 Query: 610 RETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 E R LA L ++ V+R R+GI TLEE+ ++ +TRER+RQI+ +A Sbjct: 239 VEQLVREWLAILNDKQRMVIRHRYGIDECELLTLEELAERLELTRERVRQIQLEA 293 >gi|281423630|ref|ZP_06254543.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|299141293|ref|ZP_07034430.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|281402182|gb|EFB33013.1| RNA polymerase sigma-70 factor [Prevotella oris F0302] gi|298577253|gb|EFI49122.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 290 Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 95/262 (36%), Positives = 155/262 (59%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + ++KG + AK+++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIKKGGRDGERAKEKLVTANLRFVVSVAKQYQHQGLSLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ R + Sbjct: 91 VKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINREINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R+P+ E++ + E + + L +S++ P + + + + D + ED Sbjct: 151 EFQRKPSLAELSSATKIEEEKIDQSLMADSHHVSIDAPFQEGEDNSMVDVMAGGEDSRTD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D A E+ R + L RE ++R FGIG + + LEE+G Q +TRER+RQ Sbjct: 211 KQVDHESMALELESVLRKV--LKDREITIIRECFGIGCH-EKGLEEIGDQLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ +K L +L Sbjct: 268 IREKSIAKLRDSGYAKILMKYL 289 >gi|332526107|ref|ZP_08402245.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] gi|332109950|gb|EGJ10578.1| RNA polymerase sigma S (sigma-38) factor transcription regulator protein [Rubrivivax benzoatilyticus JA2] Length = 320 Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 92/229 (40%), Positives = 143/229 (62%), Gaps = 4/229 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLV+S+AK Y RG+ +DLI+EGN+GLM A KF+ G++FSTYA WW Sbjct: 78 ARQTMIERNLRLVVSIAKHYVGRGMPMIDLIEEGNLGLMHATGKFEPERGFRFSTYASWW 137 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN----KIKREPTPEEIAKKLAMP 559 ++Q+I R+I Q+ IR+PVH+ ++++V++ R + + + +R + +E+A L P Sbjct: 138 IRQSIERAIMHQARLIRLPVHVVRELNQVLKARRALESSRHGEAERPVSVDEVAAALGRP 197 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 V+ V ++LK+ ++P SL+ P+ E + D + D +AV PL + LA Sbjct: 198 VDEVAELLKLAEQPTSLDMPLEREGGESMLDTVADDDAVDPLGLTLSREAVHLLDHGLAE 257 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE VL RFG+ TLEE+ + +TRERIRQI+ +A+ KLK Sbjct: 258 LNEREREVLAGRFGLHDREPETLEELAVRLGLTRERIRQIQQEALLKLK 306 >gi|188997117|ref|YP_001931368.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] gi|188932184|gb|ACD66814.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] Length = 281 Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 100/282 (35%), Positives = 165/282 (58%), Gaps = 5/282 (1%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 E D + ++ ++ + +S E + + ++G+ EA K++VE NLR V+S+A Sbjct: 2 AEQDELTTLQLYMQQMGKHPMLSPEEEKELAIRAKQGDKEAL---KKLVEGNLRFVVSIA 58 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 K + G+ DLI GN+GL++AA++FD KF +YA+WW++QAI ++I Q+ +R Sbjct: 59 KNFMGWGVPLTDLIAAGNLGLIEAAKRFDPDKNVKFISYAVWWIRQAIMQTIFQQTGAVR 118 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 IPV I KV T ++ ++ REPT EEIAK+L V+ V+ L I + PISL+ P+ Sbjct: 119 IPVKESLFIAKVKETYEKLKEELGREPTEEEIAKRLNTSVKKVKNALSIVRLPISLDMPL 178 Query: 581 GD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 G+ E+ L D + K I+ + + +L L RE+ +++MR+G+ Sbjct: 179 GEGGEEDFTLLDVLSKKGTEDIEKELIEETIHKELESMLDVLDEREKEIIKMRYGLDGEE 238 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TLEEVG++ ++RER+RQ+E +A++KLK + K L+ FL Sbjct: 239 PKTLEEVGEKLGISRERVRQLEQRALKKLKAVALKKHLKDFL 280 >gi|261879259|ref|ZP_06005686.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270334090|gb|EFA44876.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 291 Score = 164 bits (415), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 88/270 (32%), Positives = 157/270 (58%), Gaps = 3/270 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I+ E +S E + + KG E A+ +V NLR V+SVAK+Y ++G+ +D Sbjct: 22 LSEIAREPMLSPDEEAMLAQAIHKGGPEGDRARDRLVSGNLRFVVSVAKQYQHQGISLID 81 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAAEKFD G+KF +YA+WW++Q+I ++A +S +R+P++ KV Sbjct: 82 LINEGNMGLVKAAEKFDETRGFKFISYAVWWIRQSIMEALAVKSRIVRMPLNQVGIYGKV 141 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +RT + R P+ E+A+ L + + + S++ P+G+++ + D + Sbjct: 142 IRTTESFLQEHGRVPSNHELAEILQVEEAQITAAMSAGARATSIDAPLGNDEDGSMADML 201 Query: 593 EDKNAVSPLDSAI-QANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 ++ DS++ + ++ + +L L+ RE+R+++ FGIG+ + +LEE+ Sbjct: 202 ASDDSGMKSDSSLDKESMNQFINDLLREVLSAREQRIIKESFGIGV-MEKSLEEIADSMG 260 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRERIRQ+ KA+RK++ + LR +L Sbjct: 261 MTRERIRQVREKALRKIRFSKYASTLRQYL 290 >gi|57996878|emb|CAI45887.1| negative response regulator [Escherichia coli] Length = 191 Score = 164 bits (415), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 78/191 (40%), Positives = 127/191 (66%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL +A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLNRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLE 643 G+ TLE Sbjct: 181 GLLGYEAATLE 191 >gi|260911629|ref|ZP_05918210.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] gi|260634235|gb|EEX52344.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella sp. oral taxon 472 str. F0295] Length = 290 Score = 164 bits (415), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 94/260 (36%), Positives = 150/260 (57%), Gaps = 2/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + +RKG E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIRKGGPEGEKAKDKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ + Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +R P+ E++ + E + + L +S++ P D + + + D + + Sbjct: 151 ENQRHPSVSELSDATNLDEEKIGQSLMADGHHVSIDAPFQDGEDNCMLDVMASGDDSRTD 210 Query: 602 DSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A ++ VLA L RE ++R FGIG + + LEE+G Q +TRER+RQI Sbjct: 211 KQADHESMALELNSVLAKVLKDREITIIRECFGIGCH-EKGLEEIGDQLGLTRERVRQIR 269 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K+I KL+ +K L +L Sbjct: 270 EKSIAKLRDSGNAKILMKYL 289 >gi|3249729|gb|AAC26667.1| RNA polymerase sigma-like factor [Streptomyces bluensis] Length = 161 Score = 164 bits (415), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 83/161 (51%), Positives = 111/161 (68%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R +R+M + REPTPEE+AK+L M Sbjct: 1 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVSRQMLQDLGREPTPEELAKELDM 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V +V K +EPISL TP+G++ + GD IED AV P D+ L+E VL Sbjct: 61 TPEKVIEVQKYGREPISLHTPLGEDGDTQFGDLIEDSEAVVPADAVSFTLLQEQLHSVLD 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +L+ RE V+ MRFG+ TL+E+GK + VTRERIRQI Sbjct: 121 TLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQI 161 >gi|55274934|gb|AAV49268.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 191 Score = 164 bits (415), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 77/191 (40%), Positives = 128/191 (67%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I + Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMN 60 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 QTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERIT 120 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 SVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 180 Query: 635 GMNTDHTLEEV 645 TLE+V Sbjct: 181 LGYEAATLEDV 191 >gi|148242910|ref|YP_001228067.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147851220|emb|CAK28714.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 293 Score = 164 bits (414), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 90/232 (38%), Positives = 149/232 (64%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V+ANLRLV+ +AKK RGL DL+QEG+IGL +AAEK+D GY+FSTYA WW Sbjct: 58 ARGRLVQANLRLVVHLAKKQHLRGLAMEDLVQEGSIGLQRAAEKYDPSTGYRFSTYAYWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQA+ R+I Q+ +R+P + +++ ++ T +R+S ++ R+P PEE+A+ + ++ + Sbjct: 118 IKQALHRAIQLQTPALRLPCRVSERLGRLRSTRQRLSQELGRQPRPEELAEAMGERIDQL 177 Query: 564 RKV--LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS- 619 +++ ++ SL+TP+G D D L D +ED + SP+D QA E +L+S Sbjct: 178 QELERAQVISRGCSLDTPMGSDPDHGSLVDLLED-DRTSPMDQLEQALRSEQLAELLSSA 236 Query: 620 -LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L+ RE V++ R + +H +++ +F ++RER RQ+E A+RKL+H Sbjct: 237 GLSEREATVVQARH----SEEHIPYQQLADRFGISRERTRQLEHNALRKLRH 284 >gi|261880495|ref|ZP_06006922.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] gi|270332834|gb|EFA43620.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella bergensis DSM 17361] Length = 290 Score = 164 bits (414), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 91/260 (35%), Positives = 152/260 (58%), Gaps = 2/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + +RKG E AK +++ +NLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELSQKIRKGGREGQRAKDKLITSNLRFVVSVAKQYQHQGLSLTDLINEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA EKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + Sbjct: 91 IKATEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGTLSKINKEINNFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +R P+ +EIA+ + + +R + +S++ P +++++ + D + + Sbjct: 151 RHERRPSTQEIAEAIDVEAGKIRMSMMADGHHVSIDAPFQEDESNSMADIMASGDDTRTD 210 Query: 602 DSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A ++ + VL S L RE ++R FGIG + + LEE+G + +TRER+RQI Sbjct: 211 KRADHESMAQELNTVLESVLKEREITIIRECFGIGCH-ELGLEEIGDRLGLTRERVRQIR 269 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K+I KL+ K L +L Sbjct: 270 EKSIAKLRESGNIKILMKYL 289 >gi|158833975|gb|ABW81793.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833979|gb|ABW81795.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 164 bits (414), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 74/202 (36%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTY WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYDTWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L+ L+ ++ VL RF Sbjct: 204 KSVVKWLSELSTKQREVLARRF 225 >gi|57996876|emb|CAI45886.1| negative response regulator [Escherichia coli] Length = 191 Score = 164 bits (414), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 77/191 (40%), Positives = 128/191 (67%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL L+LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLNLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLE 643 G+ TLE Sbjct: 181 GLLGYEAATLE 191 >gi|288927698|ref|ZP_06421545.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] gi|288330532|gb|EFC69116.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 317 str. F0108] Length = 290 Score = 164 bits (414), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 94/260 (36%), Positives = 150/260 (57%), Gaps = 2/260 (0%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + +RKG E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIRKGGPEGEKAKDKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ + Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + +R P+ E++ + E + + L +S++ P D + + + D + + Sbjct: 151 ENQRHPSVSELSDATNIDEEKIGQSLMADGHHVSIDAPFQDGEDNCMLDVMASGDDSRTD 210 Query: 602 DSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A ++ VLA L RE ++R FGIG + + LEE+G Q +TRER+RQI Sbjct: 211 KQADHESMALELNSVLAKVLKDREITIIRECFGIGCH-EKGLEEIGDQLGLTRERVRQIR 269 Query: 661 AKAIRKLKHPSRSKKLRSFL 680 K+I KL+ +K L +L Sbjct: 270 EKSIAKLRDSGNAKILMKYL 289 >gi|294674467|ref|YP_003575083.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294473044|gb|ADE82433.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 290 Score = 164 bits (414), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 91/263 (34%), Positives = 154/263 (58%), Gaps = 8/263 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I E + +R+G E AK+ +V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 VTIDEEIELAQAIRRGGPEGEKAKERLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + + Sbjct: 91 VKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQSGALSKINQEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R P+ E+A+ + + + K +S++ P G++D + + D + ED Sbjct: 151 QHQRRPSVTELAELTQIEESKIEQTAKADSHHMSIDAPFGEDDDNSMADMLSSGEDTRTD 210 Query: 599 SPLD-SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +D ++ ++L VL RE ++++ FGIG + LEE+G + +TRER+R Sbjct: 211 KLVDYESLTSDLDNVLRNVLKD---RELKIVKECFGIGCQ-ERGLEEIGAEMGLTRERVR 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QI K+I KL ++ L +L Sbjct: 267 QIREKSITKLHDSGYARILMKYL 289 >gi|149200222|ref|ZP_01877244.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149136664|gb|EDM25095.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 279 Score = 163 bits (413), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 95/261 (36%), Positives = 153/261 (58%), Gaps = 5/261 (1%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I++ ++SI+ +S+ + + ++ G +A +++++ ANL+LV+ +A Y + G+ Sbjct: 8 IKSYMQSIATLPLVSVEDEIELAKLIEAGSEDA---REKLIIANLKLVVKIAHDYKSLGV 64 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 DLI EGNIGLMKA EKF G KFS+Y WW+KQAI R++A+Q IRIPV K Sbjct: 65 PLADLISEGNIGLMKAVEKFRPGHGAKFSSYGAWWIKQAIRRAVAEQGRVIRIPVQSAVK 124 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSH 587 I K+ A ++ K+ R P+ EE+A+ V VR + + P +SL T + + Sbjct: 125 IRKIHHEAMLLAEKLGRVPSMEEVAEATGFSVRSVRGMSVASTAPAVSLNTTLKTGEEGV 184 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVG 646 L D I D P D+ + ++++ V+ S LT RE+ +++MR+G+ + TLEE+ Sbjct: 185 LEDVIPDTLLKLPGDNMNETDVKQVLLEVIDSKLTEREQMIIKMRYGLDGHQQKTLEELS 244 Query: 647 KQFCVTRERIRQIEAKAIRKL 667 TRER+RQI+ +A+RKL Sbjct: 245 DMVGRTRERVRQIQYQALRKL 265 >gi|1542976|gb|AAB08043.1| sigma factor [Thermoanaerobacterium thermosulfurigenes] Length = 261 Score = 163 bits (413), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 91/239 (38%), Positives = 143/239 (59%), Gaps = 4/239 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +VE N+RLV VA + G++F DL+QEG IGL+ A +KFD GYKFSTYA W+ Sbjct: 24 AKDVLVECNIRLVDKVAAGFLKSGVEFDDLVQEGLIGLLTAIDKFDHTKGYKFSTYATWY 83 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++ R I + IR+P+H+ +KI+++++ + K T EEI++ E + Sbjct: 84 IQQSMRRYIGNYGKIIRLPIHINEKINRILKARYLIEQKKGSLATTEEISRLTGYTEEEI 143 Query: 564 RKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L + ISL + DE + L +FI+D + + + AI+ +++ ++L SL Sbjct: 144 EGYLSYATDVISLNQYVNDERVDAELINFIQD-DTIDVEEMAIEKEIKKEIRKILDSLPE 202 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK-KLRSFL 680 RE +L+MRFG G N TL E+G F +TRERIRQI+ I++L+H + K +LR + Sbjct: 203 RERMILKMRFGFGCNL-KTLTEIGNIFGLTRERIRQIQNNTIKELRHNRKVKDRLREIM 260 >gi|317503800|ref|ZP_07961812.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] gi|315665097|gb|EFV04752.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella salivae DSM 15606] Length = 290 Score = 163 bits (412), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 94/262 (35%), Positives = 155/262 (59%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + ++KG + AK+++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIKKGGRDGERAKEKLVTANLRFVVSVAKQYQHQGLSLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ R + Sbjct: 91 VKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINREINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R+P+ E++ + E + + L +S++ P + + + + D + +D Sbjct: 151 EYQRKPSLSELSHATKIEEEKIDQSLMADSHHVSIDAPFQEGEDNSMVDVMAGGDDSRTD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D A E+ R + L RE ++R FGIG + + LEE+G Q +TRER+RQ Sbjct: 211 KQVDHESMALELESVLRKV--LKEREITIIRECFGIGCH-EKGLEEIGDQLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ +K L +L Sbjct: 268 IREKSIAKLRDSGYAKILMKYL 289 >gi|167949416|ref|ZP_02536490.1| RNA polymerase sigma factor RpoD [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 134 Score = 163 bits (412), Expect = 1e-37, Method: Composition-based stats. Identities = 81/113 (71%), Positives = 96/113 (84%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 4 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 63 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 STYA WW++QAITRSIADQ+ TIRIPVHM + I+K+ R +R+M ++ RE P Sbjct: 64 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMIQEMGREGYP 116 >gi|55274907|gb|AAV49255.1| RNA polymerase subunit sigma-38 [Escherichia albertii] Length = 189 Score = 163 bits (412), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 76/189 (40%), Positives = 127/189 (67%) Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TI Sbjct: 1 ARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTI 60 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 R+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++TP Sbjct: 61 RLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDTP 120 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 LGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEA 180 Query: 640 HTLEEVGKQ 648 TLE+VG++ Sbjct: 181 ATLEDVGRE 189 >gi|288919497|ref|ZP_06413828.1| RNA polymerase, sigma 32 subunit, RpoH [Frankia sp. EUN1f] gi|288349100|gb|EFC83346.1| RNA polymerase, sigma 32 subunit, RpoH [Frankia sp. EUN1f] Length = 936 Score = 163 bits (412), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 95/238 (39%), Positives = 137/238 (57%), Gaps = 8/238 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + A +V N RLV S+A KY +GL+ DL Q G IGL++A +KFD GYKFSTY Sbjct: 470 ERARAHDALVLHNQRLVHSIALKYEGQGLELEDLSQHGMIGLLRAVQKFDATKGYKFSTY 529 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 + WW++QAITR++AD+ IR+P H +K++KV R ++ + A Sbjct: 530 STWWIRQAITRALADEGRLIRLPAHFVEKVNKVRRVLGQLGMSVDGADVVTVAAAAGLSE 589 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFI-----EDKNAVSPLDSAIQANLRETTT 614 E R +L + + + L+TP+GD + LG+ + D + + LD + LR Sbjct: 590 QEVERCLLALHQRVVGLDTPVGDGGDTVLGELVGLPAPPDTDPDTVLD---RKWLRMAVA 646 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 R LA L+PR V+R+RFG TLE++G+ F VTRERIRQIE KA+ +L+ P R Sbjct: 647 RSLAELSPRNAEVVRLRFGFDDGEPRTLEQIGQVFGVTRERIRQIEKKALEQLREPLR 704 >gi|325973333|ref|YP_004250397.1| RNA polymerase sigma factor rpoD [Mycoplasma suis str. Illinois] gi|325989768|ref|YP_004249467.1| RNA polymerase sigma factor [Mycoplasma suis KI3806] gi|323574853|emb|CBZ40513.1| RNA polymerase sigma factor [Mycoplasma suis] gi|323651935|gb|ADX98017.1| RNA polymerase sigma factor rpoD [Mycoplasma suis str. Illinois] Length = 530 Score = 163 bits (412), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 142/240 (59%), Gaps = 12/240 (5%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S A+K+++ +NLRLVISVAKKY N G DLIQEG GL KA KFD+ G KFSTYA Sbjct: 234 SFAEKQLMTSNLRLVISVAKKYLNCGFNLGDLIQEGVFGLRKAITKFDYKFGNKFSTYAT 293 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA---- 557 WW++QAITRSIADQS IRIPVHM + I+K+ + + + K PT EE++ ++ Sbjct: 294 WWIRQAITRSIADQSKIIRIPVHMMEVINKMTKAEKELVLKTGNPPTLEELSSEMQKYGT 353 Query: 558 --MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTT 614 P++ + ++ KI + +SL+ PI + ++S+ DF+ ED + +P + N+ E Sbjct: 354 QFTPIK-ISEIKKINVDLVSLDKPILNNESSNFADFVREDGDEANP-EWIASKNIYEEKL 411 Query: 615 RVLA--SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI-EAKAIRKLKHPS 671 + L +L E +L + FG+ HT+E++ + F + I K I+KL P+ Sbjct: 412 KSLLQETLKKDEYLILALHFGLNNQESHTVEQISQLFAKNSDYFSGILTNKKIKKLLTPT 471 >gi|187251192|ref|YP_001875674.1| DNA-directed RNA polymerase sigma subunit RpoH [Elusimicrobium minutum Pei191] gi|186971352|gb|ACC98337.1| DNA-directed RNA polymerase, sigma subunit RpoH [Elusimicrobium minutum Pei191] Length = 380 Score = 162 bits (411), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 98/269 (36%), Positives = 156/269 (57%), Gaps = 8/269 (2%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 VDSI + +I +S + +S E + ++KG+ + AK+ M+E NLRLVI AK+ Sbjct: 5 VDSINQYFKKISEVSED--LSREEMEKLWKRIKKGD---TAAKQRMMELNLRLVIPAAKR 59 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 + + + LDLI+EGN+GL++A EKFD G++FSTYA++W+ QAI + I +QS I+IP Sbjct: 60 FMRKDIDLLDLIEEGNLGLLQAIEKFDPSKGFRFSTYAIYWIDQAIRKYIDEQSGAIKIP 119 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL---AMPVEGVRKVLKITKEPISLETP 579 H I K RT + + ++REP+ E++++L A ++ + + + K SL Sbjct: 120 SHAWGDIKKWTRTWNALKDSLEREPSLTEMSRELDWSARKIKSILETINAAKGIDSLALA 179 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IG+ED L D + D +P D +++ L L PR++ +L MR G+ N Sbjct: 180 IGEEDEVTLEDTLTDDGKGNPDDVFSRSSSNSALLAALEELNPRDKEILMMRNGLKTNEP 239 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL EV K ++RER+RQIE +AI ++ Sbjct: 240 MTLSEVSKIMGLSRERVRQIEERAISHIR 268 >gi|124025343|ref|YP_001014459.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. NATL1A] gi|123960411|gb|ABM75194.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. NATL1A] Length = 307 Score = 162 bits (411), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 89/231 (38%), Positives = 147/231 (63%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ R+ ++ P+ +IA ++ +P+E V Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTKLRAAKSRLMQELGVHPSTNQIAIQMKIPLEEV 184 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 ++L ++ +SL+ + + D S L D + + V P++ A A + +L + Sbjct: 185 EELLACELRSITVSLQGAVKSKADPSELVDILPSEE-VPPMELAELAERSASAWSLLDKS 243 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E +L +RFG+ G N TL EV +Q +RE RQ+ +A+RKL+ Sbjct: 244 NLTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLR 294 >gi|6010732|gb|AAF01232.1|AF184101_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 242 Score = 162 bits (411), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 69/152 (45%), Positives = 114/152 (75%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 ++L++ + S++TP+G + L D + D+ Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILADE 241 >gi|72381853|ref|YP_291208.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. NATL2A] gi|72001703|gb|AAZ57505.1| possible type II alternative RNA polymerase sigma factor [Prochlorococcus marinus str. NATL2A] Length = 307 Score = 162 bits (411), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 89/231 (38%), Positives = 147/231 (63%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ R+ ++ P+ +IA ++ +P+E V Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTKLRAAKSRLMQELGVHPSTNQIAIQMKIPLEEV 184 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 ++L ++ +SL+ + + D S L D + + V P++ A A + +L + Sbjct: 185 EELLACELRSITVSLQGAVKSKADPSELVDILPSEE-VPPMELAELAERSASAWSLLDKS 243 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E +L +RFG+ G N TL EV +Q +RE RQ+ +A+RKL+ Sbjct: 244 NLTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLR 294 >gi|57996884|emb|CAI45890.1| negative response regulator [Escherichia coli] Length = 191 Score = 162 bits (410), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 77/191 (40%), Positives = 127/191 (66%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L ++ VL RF Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWRFELNAKQREVLARRF 180 Query: 633 GIGMNTDHTLE 643 G+ TLE Sbjct: 181 GLLGYEAATLE 191 >gi|262273681|ref|ZP_06051494.1| RNA polymerase sigma factor RpoS [Grimontia hollisae CIP 101886] gi|262222096|gb|EEY73408.1| RNA polymerase sigma factor RpoS [Grimontia hollisae CIP 101886] Length = 246 Score = 162 bits (410), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 71/157 (45%), Positives = 113/157 (71%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDL++EGN+GL++A EKFD G++FSTYA WW Sbjct: 83 ARKRMIESNLRLVVKISRRYSNRGLALLDLVEEGNLGLIRAVEKFDPERGFRFSTYATWW 142 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR ++ K+ EPT E+IA +L PVE V Sbjct: 143 IRQTIERAIMNQTRTIRLPIHVVKELNVYLRTARELAQKLDHEPTAEDIAFQLDKPVEDV 202 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 ++L++ + S++ PIG + L D I D+ P Sbjct: 203 NRMLRLNERISSVDNPIGGDSEKALLDIIPDEKEGGP 239 >gi|134036998|gb|ABO47837.1| truncated sigma 38 factor [Escherichia coli] gi|134037001|gb|ABO47839.1| truncated sigma 38 factor [Escherichia coli] Length = 240 Score = 162 bits (410), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 69/151 (45%), Positives = 113/151 (74%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIED 594 ++L++ + S++TP+G + L D + D Sbjct: 210 SRMLRLNERITSVDTPLGGDSEKALLDILAD 240 >gi|158833959|gb|ABW81785.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 162 bits (410), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 73/202 (36%), Positives = 133/202 (65%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ M+E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRMIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTYA WW++Q I R+I +Q+ TI +P+H+ +++ +R AR +++K+ +P+PE Sbjct: 84 ERGFRFSTYATWWIRQTIERAIMNQTRTIHLPIHIVKELNVYLRAARELAHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L L+ ++ VL RF Sbjct: 204 KSVVKWLFELSTKQREVLARRF 225 >gi|33240031|ref|NP_874973.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|33237557|gb|AAP99625.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 310 Score = 162 bits (410), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 92/231 (39%), Positives = 144/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+ ANLRLV+++AKKY +GL LDLIQEG IGL +A EK+D G++FSTYA WW Sbjct: 65 AKNHMITANLRLVVNLAKKYQGKGLDLLDLIQEGTIGLTRAVEKYDPKRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ + + P+ E++AKKL++ + + Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTKLRAAKSELMQEYGTPPSAEQLAKKLSVSKQII 184 Query: 564 RKVLKITKEPI--SLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L+ I SL+ I + D S LGD + + + P++ A A ++ +L A Sbjct: 185 GDLLECEMRSITVSLQGVIQSKTDPSELGDVLPS-DEIPPMELAELAERNDSAWSLLNKA 243 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E ++ +RFG+ G N TL EV K +RE RQ+ +A+RKL+ Sbjct: 244 NLTPKERTIVSLRFGLDGTNEWRTLAEVAKHMNCSREYCRQVVQRALRKLR 294 >gi|158833967|gb|ABW81789.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833969|gb|ABW81790.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833971|gb|ABW81791.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833973|gb|ABW81792.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833977|gb|ABW81794.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] gi|158833987|gb|ABW81799.1| RNA polymerase sigma 38 [Candidatus Hamiltonella defensa] Length = 225 Score = 162 bits (409), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 73/202 (36%), Positives = 134/202 (66%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + R+ C +++ ++E+NLRLV+ ++++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 24 IYFARRVLCGDESSRRRVIESNLRLVVKISRRYINRGLPLLDLIEEGNLGLIRAVEKFDP 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++FSTY WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR +S+K+ +P+PE Sbjct: 84 ERGFRFSTYDTWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELSHKLDHDPSPE 143 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIA++L PV+ V ++L++ + S++T G+ L D + D+ P ++ +++ Sbjct: 144 EIAEQLNKPVDYVSRMLRLNERISSVDTSFGNAAEKGLLDVLSDETDNDPENTTQNDDMK 203 Query: 611 ETTTRVLASLTPREERVLRMRF 632 ++ + L+ L+ ++ VL RF Sbjct: 204 KSVVKWLSELSTKQREVLARRF 225 >gi|257126034|ref|YP_003164148.1| RNA polymerase, sigma 32 subunit, RpoH [Leptotrichia buccalis C-1013-b] gi|257049973|gb|ACV39157.1| RNA polymerase, sigma 32 subunit, RpoH [Leptotrichia buccalis C-1013-b] Length = 273 Score = 162 bits (409), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 95/229 (41%), Positives = 140/229 (61%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ +NLRLVIS AKK GL +DLI EGNIGL+KA KFD+ G++FSTYA+WW Sbjct: 42 ARQLLILSNLRLVISTAKKSLGNGLPLIDLISEGNIGLIKAINKFDYEKGHRFSTYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI ++I + IRIP + +++ KV + + + P+ E IAKK+ + + Sbjct: 102 IKQAIKKAIINIGRDIRIPSYKYEQLSKVNKAIKDYTAIHGEAPSTEYIAKKVDLKESKI 161 Query: 564 RKVLKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +L ++ +SL IGD ED D +EDK + D ++ +RE R+ Sbjct: 162 ILLLGEFQDIMSLNETIGDNIYLEDVIGKNDDVEDK--IIKEDQLLE--MRELLERI--- 214 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++L R+G+ N HTL+E+G+Q +TRER+RQIE KAI KLK Sbjct: 215 LNERERKILEYRYGLYDNKIHTLKEIGEQMGITRERVRQIEKKAITKLK 263 >gi|219124053|ref|XP_002182327.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406288|gb|EEC46228.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 317 Score = 161 bits (408), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 103/282 (36%), Positives = 156/282 (55%), Gaps = 33/282 (11%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---------TNRG---- 467 G+S E R ++ E A+ +V ANL LV ++AK+ RG Sbjct: 47 GVSAVELRRVLD-------EGQQARAALVAANLGLVTALAKRQLSTLQTATEAGRGVGTI 99 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 L DLIQEG +GLMKAAE+F+ G++FSTYA WWV+Q I +S++D S TIR+P H+ Sbjct: 100 LTLQDLIQEGTLGLMKAAERFEPERGWRFSTYATWWVRQRILKSVSDSSRTIRLPAHVHG 159 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI------G 581 + ++ + A+ E T +A+ L +PVE VR ++ +SLETP+ Sbjct: 160 TLQRIQK-AKAWFQAHGEEATLSSLAQYLELPVEKVRLYTDSSRNVMSLETPLKGRSAFK 218 Query: 582 DEDTSHLGDFIEDKNAVSPLD---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 DE+T LGD + D A++ +L T+V LT E+ VLR RFG+ T Sbjct: 219 DENTRTLGDTLASDEKTPEEDVEAQALRLDLEHVMTQV---LTDVEQNVLRRRFGLEDGT 275 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++EE +Q V+R+RIR +E +A+ KL+HP ++ KL+S++ Sbjct: 276 CWSVEETARQLGVSRDRIRLVETRALNKLRHPQQNYKLQSYV 317 >gi|300726043|ref|ZP_07059501.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299776650|gb|EFI73202.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 161 bits (408), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 94/263 (35%), Positives = 155/263 (58%), Gaps = 8/263 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + +++G E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIEEEIDLAQQIKRGGREGERAKSKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++QAI ++IA+QS +R+P++ + KV + + Sbjct: 91 IKAAEKFDETRGFKFISYAVWWIRQAILQAIAEQSRIVRLPLNQVGSLSKVNQEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 K +R PT +E++++ + E + + + + + +S++ P + + + + D + ED Sbjct: 151 KYQRVPTIQELSQRTDIDEEKIAQSMMASGKHVSIDAPFQEGEDNSMVDIMASGEDSRTD 210 Query: 599 SPLD-SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +D ++ +L + V L RE ++R FGIG + LEE+G +TRER+R Sbjct: 211 KEVDHESMSYDLNQVLETV---LNEREITIIRDCFGIGC-PEKGLEEIGDLLGLTRERVR 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QI K+I KL+ + L +L Sbjct: 267 QIREKSITKLRESGKIGVLMKYL 289 >gi|256372040|ref|YP_003109864.1| RNA polymerase, sigma 32 subunit, RpoH [Acidimicrobium ferrooxidans DSM 10331] gi|256008624|gb|ACU54191.1| RNA polymerase, sigma 32 subunit, RpoH [Acidimicrobium ferrooxidans DSM 10331] Length = 294 Score = 161 bits (407), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 84/239 (35%), Positives = 139/239 (58%), Gaps = 2/239 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ VE N+ LV+S+A++Y G+ DL+QEG IGL++A + +D G++FSTYA WW Sbjct: 56 ARERFVEGNMGLVVSIARRYVQPGISLDDLVQEGTIGLLRAIDLYDGRRGFRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++ + +P + ++ +V R + + R+P+ E+A + V Sbjct: 116 IRQAIAQALTRTRRDVVLPRGIAAELARVEVQRRELEQALGRQPSMAELAAASGIDELRV 175 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASLTP 622 R++ + +SL+ +G+E L D + D++A P++ I+ A+LR LA L P Sbjct: 176 RELQGYARSVLSLDQAVGEERDVTLADIVPDRDA-EPIEETIEHADLRTVIAGALAHLEP 234 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE VL RFG+ N H+LE+ F + RERIRQIEA+AI +L+ + LR L+ Sbjct: 235 REREVLAFRFGLEGNEPHSLEDAAAYFGIARERIRQIEARAIARLRRGDLAPVLRRVLE 293 >gi|300725901|ref|ZP_07059364.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299776838|gb|EFI73385.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 161 bits (407), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 97/268 (36%), Positives = 156/268 (58%), Gaps = 6/268 (2%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS E I+I + + +RKG AK ++V+ANLR V+SVAK+Y ++GL DLI Sbjct: 25 ISHEPMINIDQEIELAQAIRKGGRAGERAKDKLVKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ T Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGALSKINAT 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--- 592 + +R P+ +EI++ + E + + +K S++ P D + + + D + Sbjct: 145 ISKFEQDNQRRPSIQEISRLTGIEEEKIEQSIKADNHHTSIDAPFQDGEENSMVDIMASG 204 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 ED +D A +E + + L RE ++L +GIG + + LEE+G + +T Sbjct: 205 EDTRTDRQVDHDSMA--QELHSVLKNVLKDREIKILCECYGIGCH-EKGLEEIGDRMGLT 261 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI K+I KL+ SK L +L Sbjct: 262 RERVRQIREKSILKLREAGCSKVLMKYL 289 >gi|307592489|ref|YP_003900080.1| RNA polymerase sigma-32 factor RpoH [Cyanothece sp. PCC 7822] gi|306986134|gb|ADN18014.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7822] Length = 307 Score = 161 bits (407), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 84/226 (37%), Positives = 143/226 (63%), Gaps = 8/226 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ANL+ VI +A +Y RGL+ DLIQEG++GL++AAE+FD LGY+FSTYA WW Sbjct: 82 AADTLVRANLKFVIFIANRYVGRGLELSDLIQEGSLGLIRAAERFDPSLGYQFSTYANWW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+ +TR++A+QS TIR+P + DK++K+ +T ++ + R P+ E+A+ L + V + Sbjct: 142 VRAFMTRALANQSRTIRLPSQVNDKLNKIKKTRHNLAQLLGRSPSSSELAQALGISVLQL 201 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + ++ K+ ISL + ++ L D I + S LD ++ + E ++L +L+PR Sbjct: 202 HSLAQLDKKTISLSVWVDEQGRETLQDLIPSSDEPS-LDETLKPDEIE---QLLQTLSPR 257 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + ++R+R G TL E+G+ F ++RER+R+I +++ L+ Sbjct: 258 NQEIVRLRILEG----KTLSEIGQSFHLSRERVRKICLRSLTILRQ 299 >gi|288926119|ref|ZP_06420047.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315608396|ref|ZP_07883384.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|288337159|gb|EFC75517.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|315249856|gb|EFU29857.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 290 Score = 161 bits (407), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 92/263 (34%), Positives = 155/263 (58%), Gaps = 8/263 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++I E + +++G +A AK+++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 VTIEEEIELAQAIKRGGRDAERAKEKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++KV R Sbjct: 91 IKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKVNHEINRFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + R P+ +E++ + + E +++ + +S++ P + + + + D + +D Sbjct: 151 EHHRRPSVQELSDRTHIDEEKIQQSMMADGHHVSIDAPFQEGEDNSMVDVMAGSDDSRTD 210 Query: 599 SPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +D ++ L RV L RE+ ++R FGIG + LEE+G Q +TRER+R Sbjct: 211 RQVDHDSMAMELNSVLDRV---LKEREQIIIRECFGIGCQ-EKGLEEIGDQLGLTRERVR 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QI K+I KL+ K L +L Sbjct: 267 QIREKSITKLRESGNVKILMKYL 289 >gi|297736323|emb|CBI24961.3| unnamed protein product [Vitis vinifera] Length = 319 Score = 161 bits (407), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 83/242 (34%), Positives = 144/242 (59%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C +++ + ++ RLV+S+A +Y +GL DLIQEG+IGL++ AE+FD GYK ST Sbjct: 77 CNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLST 136 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 Y WW++QAI R+IA++S IR+P + + + K+ +S +++R PT +EIA+ + + Sbjct: 137 YVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFIDV 196 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V VR V + ++ PIS++ + + L + I + +P + +++ R L Sbjct: 197 NVSTVRLVSERSRTPISVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERALN 256 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE +LR+ FGI T + EE+G+ ++RER+RQI + A+ KL+ S L+ Sbjct: 257 TLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQTSVVDYLKL 316 Query: 679 FL 680 ++ Sbjct: 317 YM 318 >gi|289549268|ref|YP_003474256.1| RNA polymerase, sigma 70 family subunit [Thermocrinis albus DSM 14484] gi|289182885|gb|ADC90129.1| putative RNA polymerase, sigma 70 family subunit [Thermocrinis albus DSM 14484] Length = 310 Score = 160 bits (406), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 94/299 (31%), Positives = 164/299 (54%), Gaps = 34/299 (11%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K +S ++ E + + ++G+ EA +++VE+NLR VIS+AK+Y GL + Sbjct: 14 LKKVSKIPLLTPEEEKELARRAKEGDTEAL---RKLVESNLRFVISIAKQYQGYGLPLSE 70 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI GN GL++AA++FD G KF +YA+WW++QAI ++++ QS +RIP+ I+++ Sbjct: 71 LIAAGNYGLVEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQSGAVRIPLKQSHVINRI 130 Query: 533 VRTARRMSNKIKREPTPEEIA-------------KKLAMPV-----------EG------ 562 ++ + ++EPT EE+A ++L P EG Sbjct: 131 ASIYSKLYKEQEKEPTAEEVAYEYTKEILQKEMERELGRPPTEEEIERRIKKEGLKISPQ 190 Query: 563 -VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 V K L+I K P+SL+ PIG+++ + D + + + + L + +L L Sbjct: 191 EVEKCLQICKAPLSLDAPIGEDEDTFFVDLLSKHGSADVEEKVLTEFLEKEIEEMLDKLP 250 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +E RV+ +RFG+ TL E+G+ ++RER+RQ+E +A+RKL++ + K L+ FL Sbjct: 251 EKERRVIELRFGLRGEEPRTLREIGEILNISRERVRQLETRALRKLRNMAMKKHLKDFL 309 >gi|256370771|ref|YP_003108596.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri SMDSEM] gi|256009563|gb|ACU52923.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri SMDSEM] Length = 334 Score = 160 bits (406), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 87/240 (36%), Positives = 145/240 (60%), Gaps = 1/240 (0%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 S A ++++++NLR V+SVAK+Y N+GL DLI EGN+GL+K +FD G+K +Y Sbjct: 94 CSTALEQLIKSNLRFVVSVAKQYQNQGLSLSDLINEGNLGLIKGISRFDEKKGFKCISYC 153 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++QAI ++IADQ+ IR P + +KVV+T ++ K+K +PT +I L Sbjct: 154 VWWIRQAILQAIADQARCIRCPTNKLAFYNKVVKTYSKLEQKLKMQPTVNDIVVYLNSSE 213 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V + LK + +P SL+ PI + + ++L D ++ + + P + + + R+L +L Sbjct: 214 KEVEEALKNSIQPTSLDAPILEGEDTNLYDVLKSETSPEPDFKLEKESFFKDIKRLLETL 273 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + +E +V+ + +G G TLE+V +TRER RQIE I++L+ R K LR +L Sbjct: 274 SEKESQVISLHYGFGCK-PMTLEKVAFLLKLTRERCRQIEINGIKRLRISYRKKLLRPYL 332 >gi|149277811|ref|ZP_01883951.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|149231499|gb|EDM36878.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] Length = 288 Score = 160 bits (406), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 98/281 (34%), Positives = 167/281 (59%), Gaps = 11/281 (3%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 DS+ K +EI I + +++ E + S+VR+G+ A ++V ANLR V+SVAK Y Sbjct: 16 DSLEKYLSEISKIEL---LNVEEEVRLASIVREGD---RAALDKLVSANLRFVVSVAKNY 69 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 + GL+ DLI EGN+GL+KAA ++D G+KF ++A+WW++Q+IT +IADQ IR+P Sbjct: 70 QDMGLRLADLISEGNLGLIKAASRYDHTKGFKFISFAVWWIRQSITYAIADQHRMIRLPG 129 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--G 581 + I ++ RT+ + K++R P+ EE+A+ L +P V + SL+ PI G Sbjct: 130 NQIVGITRLNRTSDLLEQKLERRPSLEEVAEALDLPETKVVDYQMSALKTTSLDMPILLG 189 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 + T+ G I + + V D+ + + +L E R+L+ L PRE+++L + +G+G Sbjct: 190 EPGTT-FGHMIRN-SEVEAADAVLDRQSLAENVRRLLSILPPREQKILSLYYGLGGMPQT 247 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 LE++ F +++ER+RQ++ KA++ LK + F + Sbjct: 248 RLEDMVPVFHLSKERLRQLKDKAVKTLKACCSEVPMSGFFN 288 >gi|300727091|ref|ZP_07060510.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] gi|299775635|gb|EFI72226.1| RNA polymerase sigma-70 factor [Prevotella bryantii B14] Length = 290 Score = 160 bits (406), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 95/268 (35%), Positives = 158/268 (58%), Gaps = 6/268 (2%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS E +SI E + +RKG AK+++V+ANLR V+SVAK+Y ++GL DLI Sbjct: 25 ISREPMVSIDEETELAQQIRKGGRAGDRAKEKLVKANLRFVVSVAKQYQHQGLTLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ + K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSIMQAIAEQSRIVRLPLNQVGAVSKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--- 592 + + R P+ +E+A + + ++K L +S++ P D+D + + D + Sbjct: 145 TAKFVQEHNRRPSADELATLTGIDADKIQKSLNADSHQMSIDAPFSDDDDNSMSDMLSSG 204 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +D +D N E + + L RE ++++ FGIG + LEE+G++ +T Sbjct: 205 DDSRTDRQVDYESMQNDMEGVLK--SVLKDRELKIVKDCFGIG-GPEKGLEEIGEEMGLT 261 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RER+RQI K+I K++ +K L +L Sbjct: 262 RERVRQIREKSIMKIRQSGNAKLLMKYL 289 >gi|33862729|ref|NP_894289.1| RNA polymerase sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9313] gi|33634645|emb|CAE20631.1| Sigma-70 factor family [Prochlorococcus marinus str. MIT 9313] Length = 308 Score = 160 bits (406), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 92/244 (37%), Positives = 149/244 (61%), Gaps = 17/244 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+GE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G Sbjct: 60 IRRGE----KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRG 115 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ PT E++A Sbjct: 116 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKSRLMQNNGLPPTAEQLA 175 Query: 554 KKLAMPVEGVRKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLR 610 K + +P+ V +L ++ +SL+ + + D S L D + + + P++ +A + Sbjct: 176 KTMRLPMAEVEDLLACELRSVTVSLQGVVKSKSDPSELADVLPSEE-IPPME---RAEMS 231 Query: 611 ETTTRVL-----ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T V A+LTP+E V+ +RFG+ G + TL EV + +RE RQ+ +A+ Sbjct: 232 ERTASVWTLLNRANLTPKERMVVTLRFGLDGSHEWRTLAEVARHMSCSREYCRQVLQRAL 291 Query: 665 RKLK 668 RKL+ Sbjct: 292 RKLR 295 >gi|289758832|ref|ZP_06518210.1| predicted protein [Mycobacterium tuberculosis T85] gi|289714396|gb|EFD78408.1| predicted protein [Mycobacterium tuberculosis T85] Length = 170 Score = 160 bits (405), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 83/170 (48%), Positives = 117/170 (68%) Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 +ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + E V ++ + + Sbjct: 1 MADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAR 60 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 EPISL+ IGDE S LGDFIED AV +D+ L++ VL +L+ RE V+R+R Sbjct: 61 EPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLDTLSEREAGVVRLR 120 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 FG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ LR +LD Sbjct: 121 FGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 170 >gi|326523529|dbj|BAJ92935.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 506 Score = 160 bits (405), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 110/324 (33%), Positives = 172/324 (53%), Gaps = 25/324 (7%) Query: 369 VFLERHQGRELDPH--WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 ++L +EL H V +K +G W ++ IL K ++ IS E Sbjct: 193 IYLRGTVSKELLTHKQVVHLSKKIKDGIWLQQQRSKLTEILGNEPSYKQMAQSLRISTPE 252 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R S +R E+ +A++ + +N+RLVIS+A+KY G++ DLIQ G IGL++ E Sbjct: 253 LR---SRMR----ESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIE 305 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD G++ STY WW++Q ++R++AD S T R+P +M +++ +R A+ Sbjct: 306 KFDASRGFRISTYVYWWIRQGVSRALADNSKTFRLPTYMHERL-IAIRAAKYALEDQGVS 364 Query: 547 PTPEEIA-------KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAV 598 PT + IA KK+ E V K L + ++ SL GD L +IED+N Sbjct: 365 PTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPSLNGLPGDT----LHSYIEDQNVA 420 Query: 599 S-PLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 + P + L+E +L S LT RE ++R+ GIG HT E++ +QF ++RER+ Sbjct: 421 NDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQC-HTWEDISRQFGLSRERV 479 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQ+ A+ KLKH +R KKL + L Sbjct: 480 RQVGLIAMEKLKHAARRKKLDALL 503 >gi|225450015|ref|XP_002272444.1| PREDICTED: hypothetical protein [Vitis vinifera] Length = 426 Score = 160 bits (405), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 83/242 (34%), Positives = 144/242 (59%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C +++ + ++ RLV+S+A +Y +GL DLIQEG+IGL++ AE+FD GYK ST Sbjct: 184 CNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLST 243 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 Y WW++QAI R+IA++S IR+P + + + K+ +S +++R PT +EIA+ + + Sbjct: 244 YVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFIDV 303 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V VR V + ++ PIS++ + + L + I + +P + +++ R L Sbjct: 304 NVSTVRLVSERSRTPISVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERALN 363 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 +L RE +LR+ FGI T + EE+G+ ++RER+RQI + A+ KL+ S L+ Sbjct: 364 TLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQTSVVDYLKL 423 Query: 679 FL 680 ++ Sbjct: 424 YM 425 >gi|149197872|ref|ZP_01874921.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149139093|gb|EDM27497.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 274 Score = 160 bits (404), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 137/229 (59%), Gaps = 8/229 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++ NLRLV+ +A + + G+ DLI EGNIGLMKA EKF +G KFS+Y WW Sbjct: 40 AREQLIVGNLRLVVKIAHDFKSLGVPLADLISEGNIGLMKAVEKFKPGMGAKFSSYGAWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQAI R +A+QS IRIPV K++K+ R A ++ ++ R P+ +EIA+ M V Sbjct: 100 IKQAIRRCVAEQSRVIRIPVQSAVKMYKIQRVAMHLAEELGRVPSEKEIAEAADMSQRSV 159 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL----DSAIQANLRETTTRVLA 618 + + T ISL T + D + L D + D A P D +++ L++ + Sbjct: 160 HNLKVAATSPTISLSTSLKDGEDGVLEDMLPDLMAKMPGGEMDDRDVKSLLQDCVDQ--- 216 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LT RE+ ++ MR+G+ HTL+E+ + TRER+RQI+ KA++KL Sbjct: 217 HLTEREKLIINMRYGLNGGEQHTLDEISELIGRTRERVRQIQHKALKKL 265 >gi|326512474|dbj|BAJ99592.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 506 Score = 160 bits (404), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 110/324 (33%), Positives = 172/324 (53%), Gaps = 25/324 (7%) Query: 369 VFLERHQGRELDPH--WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISE 426 ++L +EL H V +K +G W ++ IL K ++ IS E Sbjct: 193 IYLRGTVSKELLTHKQVVHLSKKIKDGIWLQQQRSKLTEILGNEPSYKQMAQSLRISTPE 252 Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R S +R E+ +A++ + +N+RLVIS+A+KY G++ DLIQ G IGL++ E Sbjct: 253 LR---SRMR----ESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIE 305 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD G++ STY WW++Q ++R++AD S T R+P +M +++ +R A+ Sbjct: 306 KFDASRGFRISTYVYWWIRQGVSRALADNSRTFRLPTYMHERL-IAIRAAKYALEDQGVS 364 Query: 547 PTPEEIA-------KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAV 598 PT + IA KK+ E V K L + ++ SL GD L +IED+N Sbjct: 365 PTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPSLNGLPGDT----LHSYIEDQNVA 420 Query: 599 S-PLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 + P + L+E +L S LT RE ++R+ GIG HT E++ +QF ++RER+ Sbjct: 421 NDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQC-HTWEDISRQFGLSRERV 479 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFL 680 RQ+ A+ KLKH +R KKL + L Sbjct: 480 RQVGLIAMEKLKHAARRKKLDALL 503 >gi|149907981|ref|ZP_01896649.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factorduring stationary phase [Moritella sp. PE36] gi|149808987|gb|EDM68918.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factorduring stationary phase [Moritella sp. PE36] Length = 284 Score = 160 bits (404), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 83/227 (36%), Positives = 134/227 (59%), Gaps = 2/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+++NLRLVI++AK+Y + L +D+IQEGN GL+ A EKFD G++FSTYA+WW Sbjct: 43 ARQRMIQSNLRLVINIAKRYQHTSLSLVDIIQEGNTGLIHAVEKFDATKGFRFSTYAVWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I R I +QS TIR+P+H+ ++++ AR +K ++IA L + + V Sbjct: 103 IKNNIERFIMNQSRTIRVPIHIGKTYKRILKNAREKVLDLKCNNDLKKIAINLELEFDDV 162 Query: 564 RKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 VL SL+ I ++ S+ L D IED + P D + + VL L Sbjct: 163 VNVLSYYFTEASLDKTIATKNDSNTALVDLIEDSSICKPNDEIEKTDTSSYLITVLNHLC 222 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++ +RFG+G TL +G++ ++RER+RQI +++K+K Sbjct: 223 DRDREIIELRFGLGREEPQTLNAIGERLFMSRERVRQIITASLQKIK 269 >gi|257886121|ref|ZP_05665774.1| RNA polymerase sigma-70 factor [Enterococcus faecium 1,231,501] gi|257821977|gb|EEV49107.1| RNA polymerase sigma-70 factor [Enterococcus faecium 1,231,501] Length = 383 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 98/229 (42%), Positives = 137/229 (59%), Gaps = 12/229 (5%) Query: 448 MVEANLRLVISVAK---KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +V+AN RLV+ +A+ KY L DL Q G IGL+KAA+KFD Y FSTYA +W+ Sbjct: 133 LVKANRRLVLKIAQRYNKYLTSSLDIDDLEQFGMIGLLKAADKFDLSKEYAFSTYATYWI 192 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRT-ARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +Q+I+R I D S T+R+PVH+ +KI+K+ R AR M+N + + I K++ + E Sbjct: 193 RQSISRGIMDTSLTVRLPVHIFEKINKLNRLEARMMTNSSTTDISS--ILKEMDISEEQY 250 Query: 564 RKVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLAS 619 +L I + SL+TPIG + + +GD + D N ++ I LRE + + Sbjct: 251 YDLLAIRSTYLSLPSLDTPIGIDGDATIGDMLPDNNY--DIEEVIDLGFLREDIKKSMTY 308 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +E VL +RFG TLEE+G F VTRERIRQIEAKAIRK+K Sbjct: 309 LKEKEREVLYLRFGFDGEGRKTLEEIGNIFGVTRERIRQIEAKAIRKMK 357 >gi|255531277|ref|YP_003091649.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255344261|gb|ACU03587.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 92/265 (34%), Positives = 155/265 (58%), Gaps = 6/265 (2%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 DSI K +I I + +S+ E + +RKG+ A +V+ANLR V+SVAKKY Sbjct: 16 DSIEKYLYDIARIDL---LSVEEEIVLAQKIRKGDQSAL---DRLVKANLRFVVSVAKKY 69 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 N+G++ DLI EGN+GL+KAA++FD G+KF ++A+WW++Q+I +IA+Q +R+P Sbjct: 70 QNQGIRLSDLIAEGNLGLIKAAQRFDETKGFKFISFAVWWIRQSIMIAIAEQKRIVRLPA 129 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 + I K+ + + +++R P+ EE+ + + +P E V L SL+T I +E Sbjct: 130 NQIGGIMKINKAMADLEQQLERVPSLEEVCEFIELPEEKVVDYLHHAPMTTSLDTVIAEE 189 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 L + IED N + +Q ++ R++ L RE+ +L M +G+G L+ Sbjct: 190 SGFTLAETIEDTNVEKTDTTVLQHSVTVDVKRLMRGLPEREKEILSMFYGLGGYPAIGLD 249 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+G + + +ER+RQI+ KA++ L+ Sbjct: 250 EIGGKMNLGKERVRQIKDKALKTLR 274 >gi|219123705|ref|XP_002182160.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217406121|gb|EEC46061.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 319 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 101/279 (36%), Positives = 153/279 (54%), Gaps = 27/279 (9%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---------TNRG---- 467 G+S+ R ++ E A+ +V ANL LV ++AK+ RG Sbjct: 49 GVSVIVLRQVLD-------EGQQARAALVAANLGLVTALAKRQLSTLQTATEAGRGVGTI 101 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 L DLIQEG +GLMKAAE+F+ G++FSTYA WWV+Q I +S++D S TIR+P H+ Sbjct: 102 LTLQDLIQEGTLGLMKAAERFEPERGWRFSTYATWWVRQRILKSVSDSSRTIRLPAHVHG 161 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI------G 581 + + ++ A+ E T +A+ L +PVE VR ++ +SLETP+ Sbjct: 162 TLQR-IQKAKAWFRAHGEEATLSSLAQYLELPVEKVRLYTDSSRNVMSLETPLKGRSAFK 220 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 DE+T LGD + + QA + ++ LT E+ VLR RFG+ T + Sbjct: 221 DENTRTLGDTLASDEKTPEENVEAQALRLDLEHVMIKVLTDVEQNVLRRRFGLEDGTSWS 280 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEE KQ ++R+RIR +EA+A+ KL+ P ++ KLRS++ Sbjct: 281 LEETAKQLGMSRDRIRLVEARALNKLRRPQQNYKLRSYM 319 >gi|321309570|ref|YP_004191899.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801414|emb|CBY92060.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 524 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 103/283 (36%), Positives = 155/283 (54%), Gaps = 45/283 (15%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A K+++ +NLRLVIS+AKKY NRG DL+QEG GLMK+ +KFD+ G KFSTYA W Sbjct: 234 FAVKQLMTSNLRLVISIAKKYLNRGFSLGDLVQEGVFGLMKSIQKFDYKFGNKFSTYATW 293 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-----A 557 W++Q+ITR+IADQ+ IRIPVHM + I+K V+ + + K EPT E++A+++ Sbjct: 294 WIRQSITRAIADQARIIRIPVHMVEVINKFVKAEKDLILKNGEEPTIEQLAQEMQKYSPQ 353 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA--------IQANL 609 V+ V + K+ + +SL+ PI +TS+ DF++D+ A S + A +Q L Sbjct: 354 YTVQKVSDIKKLNIDLVSLDKPIAHNETSNFSDFVQDEEAASSEEVAASTHKSMVLQEFL 413 Query: 610 RET----------------------TTRVLAS---LTPREERVLR---MRFGI-GMNTDH 640 T T + S L P+ + +L+ + F I GM H Sbjct: 414 ESTLEDDELLMIHMHYGLMEYKSPHTIEQIVSERLLNPKYKGILKNKAINFVINGMLEKH 473 Query: 641 ---TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T EE K+ +R+ ++A+RKLK PS++ K R+ Sbjct: 474 KVLTPEEWKKEKAKVENFVRKKISQALRKLKKPSKNGKYRTIF 516 >gi|156975281|ref|YP_001446188.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116] gi|156526875|gb|ABU71961.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116] Length = 287 Score = 159 bits (403), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 139/230 (60%), Gaps = 1/230 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+ +NLRLV+++AK+Y RGL FLDLI EGNIGLM+A EKFD G++FSTYA W Sbjct: 50 ARTRMINSNLRLVVNIAKRYKGRGLTFLDLISEGNIGLMRAVEKFDPEKGFRFSTYATHW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I R + +Q+ T+R+PVH+ ++ + V+ + +S K + TP +IA L +PV V Sbjct: 110 IRQSIERELMNQARTVRLPVHINKELKRYVKATKELSQKTQ-TITPRDIADHLEIPVSSV 168 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 K L+ K ISL++ E+ L + + P + N + + L P Sbjct: 169 LKHLEFDKSTISLDSYQDKEEAKPLAETMACHRLRCPELELEEDNAFLMLLQWIEELEPD 228 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + +L R+G+ NT +L+ VG + +RERIR ++ + I+KL++ +++ Sbjct: 229 LKLILTRRYGLDGNTPTSLDTVGTELGYSRERIRHLQMQGIKKLQNLAKN 278 >gi|282881579|ref|ZP_06290248.1| sigma-70 region 2 [Prevotella timonensis CRIS 5C-B1] gi|281304565|gb|EFA96656.1| sigma-70 region 2 [Prevotella timonensis CRIS 5C-B1] Length = 290 Score = 159 bits (402), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 93/262 (35%), Positives = 151/262 (57%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + ++KG E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ R Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINRFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + R P+ E++ + E + + + +S++ P D + + + D + +D Sbjct: 151 EHHRRPSITELSDATNIDEEKIGQSMMADGHHVSIDAPFQDGEDNTMLDVMPSGDDSRTD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D A +E T + L RE +++ FGIG + + LEE+G Q +TRER+RQ Sbjct: 211 RQVDHESMA--QELNTVLNKVLKDREITIIKECFGIGCH-EKGLEEIGDQLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ +K L +L Sbjct: 268 IREKSIAKLRDSGNAKILMKYL 289 >gi|199601686|dbj|BAG70954.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens] Length = 153 Score = 159 bits (402), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 96/188 (51%), Positives = 118/188 (62%), Gaps = 36/188 (19%) Query: 108 KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQAL 167 K+K+ DR TDDPVRMYLREMGS+ELLSREGEIAIAKRIEAGR M+A LCESPLTFQAL Sbjct: 1 KKKEPTDR-TDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAL 59 Query: 168 IIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETE 227 IIWRDELN+GTTLLREIIDLE + G E + + + SS+ DD+ Sbjct: 60 IIWRDELNEGTTLLREIIDLETT---------YSGPEAKAAPQFQSSSE----DDITNVG 106 Query: 228 GDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEI 287 GD+ + +D+ S +L+AME +LRP+VM LD I Sbjct: 107 GDMPMPEEEEEDEDE----------------------SNLSLAAMEAELRPQVMETLDLI 144 Query: 288 AEVYRELR 295 A+ Y++LR Sbjct: 145 ADTYKKLR 152 >gi|148239078|ref|YP_001224465.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] gi|147847617|emb|CAK23168.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. WH 7803] Length = 308 Score = 159 bits (402), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 88/231 (38%), Positives = 145/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FS YA WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSNYAYWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ + R+ + P+ E++A L +P+ V Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEKLTKLRASKARLMQRNGLSPSTEQLADDLNLPISEV 185 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + + D S L D + + V P++ A A + ++L + Sbjct: 186 EDLLGCELRSVTVSLQGVVKSKSDPSELVDVLPSEE-VPPMERAEIAERTASAWKLLDKS 244 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E V+ +RFG+ G N TL EV +Q +RE RQ+ +A+RKL+ Sbjct: 245 NLTPKERTVVMLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLR 295 >gi|328947378|ref|YP_004364715.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328447702|gb|AEB13418.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 283 Score = 159 bits (401), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 87/228 (38%), Positives = 143/228 (62%), Gaps = 5/228 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ +N+R VI +A +Y N+GL++ DLI EG +GLMKA + FD GY F +YA+WW Sbjct: 44 ARDKLLTSNMRFVIKIASQYLNKGLEYEDLISEGYLGLMKALDHFDVSKGYHFISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE--PTPEEIAKKLAMPVE 561 ++Q+I ++I D IR+PV+ ++ ++ R ++ K+ EE+A KL M Sbjct: 104 IRQSIMKAIVDFGRPIRLPVNKDAELTEIKRACHSVNPHGKKSEEEELEEVALKLGMTKH 163 Query: 562 GVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +R++L I++E ISL++PI GD DT+ L D + +P D+AI A+L+ + L Sbjct: 164 HIREMLNISQEMISLDSPISGDSDTA-LVDTVS-AGTFTPEDAAIDASLKTEIDKAFVGL 221 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VL MR+G+ + TL+EVG++ ++RER+RQIE AI K++ Sbjct: 222 DKKSVEVLNMRYGLNGQGERTLKEVGEKMNLSRERVRQIEKHAIAKIR 269 >gi|269102892|ref|ZP_06155589.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] gi|268162790|gb|EEZ41286.1| RNA polymerase sigma factor RpoS [Photobacterium damselae subsp. damselae CIP 102761] Length = 282 Score = 159 bits (401), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 90/265 (33%), Positives = 150/265 (56%), Gaps = 11/265 (4%) Query: 420 TGISISEFRHIVSMVRKGECEASI--------AKKEMVEANLRLVISVAKKYTNRGLQFL 471 TGI + + R + ++ E E SI A+ +++E+NLRLV+S+AKK +RGL Sbjct: 7 TGIYLKQLRSRALLTKEEEIELSIKVQAGDQKARAKLIESNLRLVVSIAKKMQHRGLDLD 66 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGNIGL+ A EKF+ GY+FSTYA WW+KQA+ R+I + S +R+PVH+ ++ Sbjct: 67 DLINEGNIGLITAVEKFNPDYGYRFSTYATWWIKQAMDRAIHNHSREVRLPVHISKELCT 126 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + MS K + T ++++ P E + K+LK + SL+ ++ + + Sbjct: 127 IYSAFKEMSTK-SEQVTIDQVSALTGSPKEEIEKILKYERRYSSLDDQF--DEGAKFSEI 183 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 I D + + + + + E +LA L PR++ ++ RFG+ HTL+EV + Sbjct: 184 IPDHSKLDHTELLNEEDQTEVLAMLLAELKPRDQEIIARRFGLFGYEPHTLQEVATAVNL 243 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKL 676 TRER+RQ++ A ++L R + + Sbjct: 244 TRERVRQLQILAQQRLAAKMRDRNI 268 >gi|318041016|ref|ZP_07972972.1| type II alternative sigma-70 family RNA polymerase sigma factor [Synechococcus sp. CB0101] Length = 323 Score = 159 bits (401), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 138/230 (60%), Gaps = 4/230 (1%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A A ++MV ANLRLV+S+A++ ++R L DLIQEG +GL++A ++FD GYKFSTYA Sbjct: 85 AERASEQMVTANLRLVVSLARRISHRRLDLDDLIQEGTLGLIRAVQRFDPSRGYKFSTYA 144 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW+++ + R++ QS TIR+P HM+D++ ++ R + + REP EE+A+ + Sbjct: 145 TWWIREGMGRALQQQSRTIRLPAHMQDRLQRLRRCQMELRQMLGREPNLEELAEATELKP 204 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +R+ L +EP+SL++ G ED L D + A P D A+L+ +L L Sbjct: 205 LDIREALFRAQEPLSLDSGHGPEDDLRLLDTLR-CGAQLPSDQLTAAHLQTDLVALLDEL 263 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK---AIRKL 667 +E +LR+R+GI L V +Q ++R++ R +E + AIR+L Sbjct: 264 PEKEAELLRLRYGIDQPAPMNLSAVARQMGLSRDQARGMERRANAAIRRL 313 >gi|158340730|ref|YP_001521898.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158310971|gb|ABW32584.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 269 Score = 159 bits (401), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 83/237 (35%), Positives = 145/237 (61%), Gaps = 2/237 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ + + AK+ M+E NLRLV+S+AKK+ NRGL LDLIQEG+IGL A +KFD Sbjct: 28 IELARQAKAGSLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGSIGLSTAVDKFDL 87 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW++Q IT ++ ++S I +P + DK +K+ + R ++ + R+P+ Sbjct: 88 AQGCRFSTYAYWWIRQGITAALREKSRPIYLPHNHWDKANKIKKHYRELNQTLGRKPSLS 147 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+++ + + + + L++ ++ SL+ P+G E L D + + + ++Q L Sbjct: 148 ELSEATDIKPKTINRTLQLFQKVSSLDQPVGPEQKDSLLDLLAGDDQPTQYMESLQ--LD 205 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E ++V+A+L RE VL R+G+ N +++ +G+Q ++ E IR I K ++KL Sbjct: 206 EELSQVMANLDERERFVLSQRYGLEDNQPKSMKAIGQQIGLSHEAIRLILNKIMKKL 262 >gi|54401904|gb|AAV34637.1| RNA polymerase subunit sigma-38 [Escherichia coli] Length = 183 Score = 159 bits (401), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 72/180 (40%), Positives = 122/180 (67%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I + Sbjct: 1 LVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMN 60 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EE A++L PV+ V ++L++ + Sbjct: 61 QTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEESAEQLDKPVDDVSRMLRLNERIT 120 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 SVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 180 >gi|195953303|ref|YP_002121593.1| putative RNA polymerase, sigma 70 family subunit [Hydrogenobaculum sp. Y04AAS1] gi|195932915|gb|ACG57615.1| putative RNA polymerase, sigma 70 family subunit [Hydrogenobaculum sp. Y04AAS1] Length = 311 Score = 158 bits (400), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 144/269 (53%), Gaps = 32/269 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +VEANLR V+SVAK+Y G+ +LI GN+GL++AA +FD KF +YA+WW Sbjct: 42 ALKALVEANLRFVVSVAKQYMGYGIPLSELIAAGNLGLLEAATRFDPDKNVKFISYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA---------- 553 V+QAI ++++ Q+ +RIPV I V + +++REPT +EIA Sbjct: 102 VRQAIMQALSQQTGAVRIPVKHSHLISAVGLAYNELLKELEREPTYKEIADYINKKNIIR 161 Query: 554 ----------------------KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 K + E V+K L+I K P+SL+TP+GD + D Sbjct: 162 EFKKETGFAPTEEELEQSMTQEHKYTVTEEDVKKCLQICKTPLSLDTPVGDNPDTLFVDL 221 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + + + I+ L + +++ L +E +VL +R+G+ N TL E+G + Sbjct: 222 LSISDTDEIEEGVIKDVLEKELHDIISKLPEKERKVLELRYGLNGNEPLTLREIGDALGI 281 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +RER+RQ+E +AI+KL+ + + L+ FL Sbjct: 282 SRERVRQLETRAIKKLRSFALKRHLKDFL 310 >gi|255556952|ref|XP_002519509.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223541372|gb|EEF42923.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 548 Score = 158 bits (400), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 77/238 (32%), Positives = 141/238 (59%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++++++ ANLR+V+ +AK+Y RGL DL+QEG++GLMK+ EKF +G +F+TYA WW Sbjct: 308 SREKLINANLRMVVHIAKQYQGRGLSLQDLLQEGSMGLMKSIEKFKPQVGCRFATYAYWW 367 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + ++I S TIR+P ++ + KV R + PT EE+AK++ + + Sbjct: 368 IRQTVRKAIFQHSRTIRLPENVYHTLGKVSEAKRSYIMEGNHNPTKEELAKRIGITTVRL 427 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++L + + P+S++ + + + + D P + +R+ +L L PR Sbjct: 428 ERLLYMARMPLSMQQTVWADQETTFQEITADIEVEIPELCVAKQLMRKHVLSLLNILNPR 487 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +++R+R+GI +L E+G F +++ER+RQ+E++A+ KLK S L ++ D Sbjct: 488 ERKIIRLRYGIEDGKKKSLSEIGSVFGLSKERVRQLESRALYKLKQCLASHGLEAYAD 545 >gi|33866043|ref|NP_897602.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] gi|33639018|emb|CAE08024.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8102] Length = 308 Score = 158 bits (400), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 91/243 (37%), Positives = 149/243 (61%), Gaps = 11/243 (4%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 +++R+GE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D Sbjct: 58 AVIRRGE----RAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPT 113 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ + PT E+ Sbjct: 114 RGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARLMQRNGLTPTAEQ 173 Query: 552 IAKKLAMPVEGVRKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 +A + +P+ V +L ++ +SL+ + D S L D + + + P++ A A Sbjct: 174 LADFMEIPIAEVEDLLACELRSVTVSLQGVVKSKSDPSELVDVLPS-DELPPMERAEIAE 232 Query: 609 LRETTTRVL--ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + +L A+LTP+E V+ +RFG+ G N TL EV + +RE RQ+ +A+R Sbjct: 233 RSASVWTLLGKANLTPKERTVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQRALR 292 Query: 666 KLK 668 KL+ Sbjct: 293 KLR 295 >gi|288819153|ref|YP_003433501.1| RNA polymerase sigma factor RpoS [Hydrogenobacter thermophilus TK-6] gi|288788553|dbj|BAI70300.1| RNA polymerase sigma factor RpoS [Hydrogenobacter thermophilus TK-6] gi|308752737|gb|ADO46220.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hydrogenobacter thermophilus TK-6] Length = 310 Score = 158 bits (400), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 92/303 (30%), Positives = 163/303 (53%), Gaps = 34/303 (11%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I +K ++ ++ E + + ++G+ EA +++VE+NLR VI++AK+Y GL Sbjct: 10 INQYLKKVAKIPLLTPEEEKEVARRAKEGDQEAF---RKLVESNLRFVINIAKQYLGYGL 66 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 +LI GN GL++AA++FD G KF +YA+WW++QAI ++++ Q+ +RIP+ Sbjct: 67 PLSELIAAGNHGLIEAAKRFDPDRGVKFISYAVWWIRQAIMQALSQQTGAVRIPLKQAHV 126 Query: 529 IHKVVRTARRMSNKIKREPTPEEIA-----------------------------KKLAMP 559 I+++ R+ +++REPTPEE+A KK Sbjct: 127 INRIGSIYSRLFRELEREPTPEEVAIEYSKEILSRELERELGRKPTKDEVEQRFKKEGFK 186 Query: 560 V--EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + E V K L++ + P+SL+ P+G+ + + DF+ + I L + +L Sbjct: 187 ISPEEVEKCLQVCRIPLSLDAPVGENEDTFFVDFLSQHGTADVEERIINEVLEKEIGDML 246 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 L +E RV+ +RFG+ TL E+G ++RER+RQ+E +A+RKL++ + + L+ Sbjct: 247 DRLPEKERRVIELRFGLRGEEPRTLREIGDILNISRERVRQLETRALRKLRNMAMKRHLK 306 Query: 678 SFL 680 FL Sbjct: 307 DFL 309 >gi|213425678|ref|ZP_03358428.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] Length = 304 Score = 158 bits (400), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 74/201 (36%), Positives = 132/201 (65%) Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 E N+ L++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RT Sbjct: 96 ESNLRLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRT 155 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 AR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++TP+G + L D + D+ Sbjct: 156 ARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDTPLGGDSEKALLDILADE 215 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 P D+ +++++ + L L ++ VL RFG+ TLE+VG++ +TRER Sbjct: 216 KENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGLLGYEAATLEDVGREIGLTRER 275 Query: 656 IRQIEAKAIRKLKHPSRSKKL 676 +RQI+ + +R+L+ +++ L Sbjct: 276 VRQIQVEGLRRLREILQTQGL 296 >gi|149908704|ref|ZP_01897365.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70region 1.2 [Moritella sp. PE36] gi|149808246|gb|EDM68185.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70region 1.2 [Moritella sp. PE36] Length = 284 Score = 158 bits (399), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 85/227 (37%), Positives = 137/227 (60%), Gaps = 2/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+++NLRLVI++AK+Y + L +D+IQEGN GL+ A EKFD G++FSTYA+WW Sbjct: 43 ARQRMIQSNLRLVINIAKRYQHTSLPLVDIIQEGNTGLIHAVEKFDATKGFRFSTYAVWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I R I +QS TIR+P+H+ ++++TAR ++ +A+ L M V Sbjct: 103 IKNNIERFIMNQSRTIRVPIHIGKVYKRILKTAREQELDLQCNHDVMTLAEFLEMQYAQV 162 Query: 564 RKVLKITKEPISLE-TPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +VL SL+ T + D D+S L D +ED + P D A+ VL L+ Sbjct: 163 NEVLSYYFNEASLDKTIVTDRDSSTALVDMLEDYSICKPNDELEDADTLCYLNEVLGHLS 222 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ +++ +RFG+G TL +G++ ++RERIRQI +++K++ Sbjct: 223 ERDRKIIELRFGLGEEDPLTLHVIGERLSMSRERIRQIINLSLQKIQ 269 >gi|124023525|ref|YP_001017832.1| type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9303] gi|123963811|gb|ABM78567.1| Putative type II alternative sigma factor, sigma70 family protein [Prochlorococcus marinus str. MIT 9303] Length = 308 Score = 158 bits (399), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 90/241 (37%), Positives = 147/241 (60%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+GE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G Sbjct: 60 IRRGE----KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRG 115 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ PT E++ Sbjct: 116 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKSRLMQSNGLPPTAEQLV 175 Query: 554 KKLAMPVEGVRKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLR 610 K + +P+ V +L ++ +SL+ + + D S L D + + + P++ A A Sbjct: 176 KTMRLPMAEVEDLLACELRSVTVSLQGVVKSKSDPSELVDVLPSEE-IPPMERAEMAERT 234 Query: 611 ETTTRVL--ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + +L A+LTP+E V+ +RFG+ G + TL EV + +RE RQ+ +A+RKL Sbjct: 235 ASVWTLLNRANLTPKERMVVTLRFGLDGSHEWRTLAEVARHMSCSREYCRQVVQRALRKL 294 Query: 668 K 668 + Sbjct: 295 R 295 >gi|55274872|gb|AAV49239.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 179 Score = 158 bits (399), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 78/202 (38%), Positives = 128/202 (63%), Gaps = 25/202 (12%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q Sbjct: 2 MIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 61 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L Sbjct: 62 IERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRML 121 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 ++ + S++TP D +++++ + L L ++ V Sbjct: 122 RLNERITSVDTPQDD-------------------------DMKQSIVKWLFELNAKQREV 156 Query: 628 LRMRFGIGMNTDHTLEEVGKQF 649 L RFG+ TLE+VG++ Sbjct: 157 LARRFGLLGYEAATLEDVGREI 178 >gi|239934548|emb|CAR94588.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 231 Score = 158 bits (399), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 107/246 (43%), Positives = 154/246 (62%), Gaps = 33/246 (13%) Query: 133 LLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI- 191 LLSREGEIAIAKRIEAGR M++ LCESPL+FQA+IIWRDELN+G LLR+IIDLEA Sbjct: 1 LLSREGEIAIAKRIEAGREAMISGLCESPLSFQAIIIWRDELNEGKILLRDIIDLEATYA 60 Query: 192 GPESK----------GGFFHGTEGHSYQKREDSSQE-KERDDVQETEGDIESAAKVSKDD 240 GP++K KRE +++E + + + GD +S DD Sbjct: 61 GPDAKKVEAPTPEERERKEKEARKAEADKREKAAEEMRAKSRSRRGGGD----DVLSADD 116 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 E AE + + D++++++ +L+AME +L+P V+ D IA+ Y+ LR LQD Sbjct: 117 F-------EPAEQPDDDDDDEDEEANVSLAAMEAELKPHVLETFDRIAKTYKSLRKLQDQ 169 Query: 301 AVNGQKDEKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEG 354 V+ EK+++ + + L+E++++ V SLSLN +RI+ LVEQLYDI++R++ EG Sbjct: 170 EVS----EKTALSPSQGRRYRKLREEIIEDVKSLSLNAARIEALVEQLYDINRRLISLEG 225 Query: 355 ELLRLA 360 LLRLA Sbjct: 226 RLLRLA 231 >gi|288799880|ref|ZP_06405339.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] gi|288333128|gb|EFC71607.1| RNA polymerase sigma-70 factor [Prevotella sp. oral taxon 299 str. F0039] Length = 290 Score = 158 bits (399), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 92/262 (35%), Positives = 150/262 (57%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI + + ++KG E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDDEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ + Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R P+ E++ + E + + L +S++ P D + + + D + +D Sbjct: 151 ENQRHPSVSELSDATNIDEEKIGQSLMADGHHVSIDAPFQDGEDNCMLDVMPSSDDSRTD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D A E + L RE ++R FGIG + + LEE+G Q +TRER+RQ Sbjct: 211 RQVDHESMAQELEAVLNKV--LKDREITIIRECFGIGCH-EKGLEEIGDQLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ +K L +L Sbjct: 268 IREKSIAKLRDSGNAKILMKYL 289 >gi|6010722|gb|AAF01227.1|AF184096_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 228 Score = 157 bits (398), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 66/138 (47%), Positives = 107/138 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETPIG 581 ++L++ + S++TP G Sbjct: 210 SRMLRLNERITSVDTPAG 227 >gi|284030454|ref|YP_003380385.1| putative RNA polymerase, sigma 70 family subunit [Kribbella flavida DSM 17836] gi|283809747|gb|ADB31586.1| putative RNA polymerase, sigma 70 family subunit [Kribbella flavida DSM 17836] Length = 301 Score = 157 bits (398), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 83/224 (37%), Positives = 134/224 (59%), Gaps = 13/224 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ M+E NLRLV+S+AK+YT +GL LDLIQEGNIGLM+A E+FD+ LG++FSTYA+WW+ Sbjct: 80 RRRMIEGNLRLVVSLAKRYTGKGLSLLDLIQEGNIGLMRAVERFDYKLGHRFSTYAIWWI 139 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QA+ R+I+D+S +R+P +V R + +++REPT EE+A+ ++ V V Sbjct: 140 RQALGRAISDRSRLVRMPAQAYVDAGRVAVVQRELIQRLEREPTIEELARATSLTVARVE 199 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + L P P+ D+ + I+D+ + +A LR L L + Sbjct: 200 RALAWKLRP----EPLDGHDSDQV---IDDETLLQ------RAALRRDLHCQLEFLDDLK 246 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + VLR+R+G+ +LEE + + R+R +E +A+R L+ Sbjct: 247 QDVLRLRYGLHNTPQSSLEETAEYLSLPPARVRSLELEALRHLR 290 >gi|197336747|ref|YP_002158681.1| RNA polymerase sigma factor RpoS (Sigma-38) [Vibrio fischeri MJ11] gi|197313999|gb|ACH63448.1| RNA polymerase sigma factor RpoS (Sigma-38) [Vibrio fischeri MJ11] Length = 294 Score = 157 bits (398), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 83/247 (33%), Positives = 147/247 (59%), Gaps = 6/247 (2%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG---LQFLDLIQEGNIGLMKAAEKFD 489 + +KG+ A + ++E+NLRLV+ VA KY R L LD+I+EGN+GL+KA +KF+ Sbjct: 44 LYKKGDLSA---RNTLIESNLRLVVKVANKYRKRNQTDLAILDIIEEGNLGLIKAIDKFN 100 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 LGY+FSTYA+WW++++I ++ + S T+R+PVH+ +++ +R AR +S +KREP+ Sbjct: 101 PELGYRFSTYAVWWIRESIESALFNHSRTVRLPVHITKELNTYLRAARELSKSLKREPSI 160 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +I+ V K++ + ++ + DE + + + A+ P +S Q NL Sbjct: 161 RDISTYCEEEQIKVSKIISLIPNQLTCHSACSDELSPKFFELSSNNKALEPDNSLSQDNL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + + SL RE+ ++ R+G+ TLE++GK +++ER+RQI+++ + KL Sbjct: 221 EMNLSSWIDSLNYREKEIIINRYGLFGCKVKTLEDLGKDLDLSKERVRQIQSETLIKLNT 280 Query: 670 PSRSKKL 676 + KL Sbjct: 281 IFKKNKL 287 >gi|323704529|ref|ZP_08116107.1| RNA polymerase, sigma 32 subunit, RpoH [Thermoanaerobacterium xylanolyticum LX-11] gi|323535991|gb|EGB25764.1| RNA polymerase, sigma 32 subunit, RpoH [Thermoanaerobacterium xylanolyticum LX-11] Length = 339 Score = 157 bits (398), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 102/250 (40%), Positives = 143/250 (57%), Gaps = 19/250 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + +V+ N +LV+S A K R + DL+Q G GL+KAAE+FD KF TYA Sbjct: 94 ALEALVDRNKKLVMSRAYKCFKRYKLNIDEDDLVQYGYFGLIKAAERFDIKRETKFVTYA 153 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL---A 557 WW+ QAI RSI D IR+PVH D+I+KV+ I + + E I K L Sbjct: 154 TWWIDQAIKRSICDYGFIIRLPVHYFDEINKVLNIL-----SIHFDLSKEAIIKILEENG 208 Query: 558 MPVEGVRKVLKITKEPISLET-------PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + + ++ + + +S+++ GD DT L D I DK + + L+ Sbjct: 209 ISKDKYDDIMFVIENVLSIDSLNKYVNPNSGDGDTELL-DLIVDKTNPTVEEEIDLKLLK 267 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ET +L +L RE+ V+RMRFG+ + TLE +GK+F +TRERIRQIE KAI+KL+HP Sbjct: 268 ETINNILDTLKSREKEVIRMRFGLDGGDEMTLERIGKEFNITRERIRQIEEKAIKKLRHP 327 Query: 671 SRSKKLRSFL 680 SRSKKLR F+ Sbjct: 328 SRSKKLRDFI 337 >gi|260219679|emb|CBA26524.1| RNA polymerase sigma factor rpoS [Curvibacter putative symbiont of Hydra magnipapillata] Length = 340 Score = 157 bits (398), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 93/247 (37%), Positives = 147/247 (59%), Gaps = 12/247 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLVIS+AK Y RG+ DLI+EGN+GLM A +KF+ G++FSTYA WW Sbjct: 95 ARQSMIEHNLRLVISIAKGYAGRGVPMSDLIEEGNLGLMHAIDKFEPERGFRFSTYATWW 154 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK---IKREPTP---EEIAKKLA 557 ++Q++ R++ Q +R+PV++ ++ +V+R R + N + + P E+IA L Sbjct: 155 IRQSVDRALMYQGRAVRLPVNVVREVQQVLRARRLLENDAVLLAQRPEGIRVEDIAALLG 214 Query: 558 MPVEGVRKVLKITKEPISLET---PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 V +L + + P SL+ GDE + LGD + D A +P +A+ + Sbjct: 215 RDAVDVTDLLAMAEAPRSLDARNDAGGDEHS--LGDSLADTLAAAPDSTALAHEVDALLE 272 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRS 673 + +A+L PRE+ VL RFG+ TLE + ++ +TRER+RQI+ +A+ KLK + +R Sbjct: 273 QWIATLNPREQEVLEARFGLHDRDPETLETLSERLGLTRERVRQIQNEALFKLKRYLARR 332 Query: 674 KKLRSFL 680 R FL Sbjct: 333 GIKREFL 339 >gi|209809124|ref|YP_002264662.1| RNA polymerase sigma factor [Aliivibrio salmonicida LFI1238] gi|208010686|emb|CAQ81073.1| RNA polymerase sigma factor [Aliivibrio salmonicida LFI1238] Length = 293 Score = 157 bits (398), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 83/232 (35%), Positives = 141/232 (60%), Gaps = 3/232 (1%) Query: 448 MVEANLRLVISVAKKYTNRG---LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E+NLRLV+ +A KY +R L LD+I+EGN+GLMKA KFD LGY+FSTYA+WW+ Sbjct: 55 LIESNLRLVVKIANKYRHRNQRELAPLDIIEEGNLGLMKAVNKFDPELGYRFSTYAVWWI 114 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 K++I ++ + S T+R+PVH+ +++ +R AR +S +K+EP+ EI+ + V Sbjct: 115 KESIESALFNHSRTVRLPVHITKELNVYLRAARDLSRTLKKEPSISEISVHCNKDYKKVN 174 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 K+L + + + D+ +S+L + D + P S ++NL + L L RE Sbjct: 175 KILGLVPSSSTCHSASSDDMSSNLIELCADDHEQEPAQSLSKSNLESNLSSWLNLLQCRE 234 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 ++++ R+G+ TLEE+G+ +++ER+RQI+ + + KL + KL Sbjct: 235 KQIIINRYGLFGTDVKTLEELGQDLQLSKERVRQIQTETLTKLNTIFKKNKL 286 >gi|269120610|ref|YP_003308787.1| RNA polymerase, sigma 32 subunit, RpoH [Sebaldella termitidis ATCC 33386] gi|268614488|gb|ACZ08856.1| RNA polymerase, sigma 32 subunit, RpoH [Sebaldella termitidis ATCC 33386] Length = 270 Score = 157 bits (398), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 93/230 (40%), Positives = 138/230 (60%), Gaps = 13/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E++ +NLRLVIS+AKK GL +DLI EGNIGL+KA KFD+ G++FSTYA+WW Sbjct: 41 ARHELILSNLRLVISIAKKSLGNGLPLIDLISEGNIGLIKAINKFDYTKGHRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I ++I ++ IRIP + +++ KV + N P+ IA++L + V Sbjct: 101 IKQSIKKAIINKGRDIRIPSYKYEQLAKVNKVMVNYINDHGETPSVAYIAEQLEIKEYKV 160 Query: 564 RKVLKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVLA 618 ++ ++ ISL IGD ED D IE+K + Q N +RE + Sbjct: 161 SLLINEFQDIISLNDVIGDNIFLEDVIGNEDNIEEKIIKND-----QINKMRELLDNI-- 213 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ RE ++ +R+G+ N HTL+E+G + +TRER+RQIE KAI KLK Sbjct: 214 -LSEREREIIELRYGLYNNKMHTLKEIGDELNITRERVRQIEKKAITKLK 262 >gi|55274905|gb|AAV49254.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 182 Score = 157 bits (398), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 71/176 (40%), Positives = 120/176 (68%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ T Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++T Sbjct: 61 IRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDT 120 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 P+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 PLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 176 >gi|59714198|ref|YP_206973.1| sigma-Q factor RpoQ, quorum-sensing regulated RpoS-like sigma subunit [Vibrio fischeri ES114] gi|59482446|gb|AAW88085.1| sigma-Q factor RpoQ, quorum-sensing regulated RpoS-like sigma subunit [Vibrio fischeri ES114] Length = 294 Score = 157 bits (397), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 83/247 (33%), Positives = 146/247 (59%), Gaps = 6/247 (2%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG---LQFLDLIQEGNIGLMKAAEKFD 489 + +KG+ A + ++E+NLRLV+ VA KY R L LD+I+EGN+GL+KA +KF+ Sbjct: 44 LYKKGDVSA---RNTLIESNLRLVVKVANKYRKRNQTDLAILDIIEEGNLGLIKAIDKFN 100 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 LGY+FSTYA+WW++++I ++ + S T+R+PVH+ +++ +R AR +S +KREP+ Sbjct: 101 PELGYRFSTYAVWWIRESIESALFNHSRTVRLPVHITKELNTYLRAARELSKSLKREPSI 160 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +I+ V K++ + ++ + DE + + + A+ P S Q NL Sbjct: 161 RDISTYCEEEQIKVSKIISLIPNQLTCHSACSDELSPKFFELSSNNKALEPDSSLSQNNL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + + SL RE+ ++ R+G+ TLE++GK +++ER+RQI+++ + KL Sbjct: 221 EMNLSSWIDSLNYREKEIIINRYGLFGCKVKTLEDLGKDLDLSKERVRQIQSETLIKLNT 280 Query: 670 PSRSKKL 676 + KL Sbjct: 281 IFKKNKL 287 >gi|323345236|ref|ZP_08085459.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] gi|323093350|gb|EFZ35928.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella oralis ATCC 33269] Length = 290 Score = 157 bits (397), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 91/263 (34%), Positives = 153/263 (58%), Gaps = 8/263 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI + + ++KG E AK+ +V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIEDEIELAQKIKKGGPEGERAKERLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ + Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R P+ E++ + E + + + +S++ P D + + + D + +D Sbjct: 151 ENQRRPSISELSDATNIDEEKIGQSMMADGHHVSIDAPFQDGEDNTMLDVMPGGDDSRTD 210 Query: 599 SPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +D ++ L +RVL RE +++ FGIG + + LEE+G Q +TRER+R Sbjct: 211 RNVDHESMAMELNSVLSRVLKD---REITIIKECFGIGCH-EKGLEEIGDQLGLTRERVR 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 QI K+I KL+ +K L +L Sbjct: 267 QIREKSIAKLRDSGNAKILMKYL 289 >gi|168986243|dbj|BAG11803.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986245|dbj|BAG11804.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986247|dbj|BAG11805.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986249|dbj|BAG11806.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986251|dbj|BAG11807.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986253|dbj|BAG11808.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986255|dbj|BAG11809.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H7] gi|168986259|dbj|BAG11811.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] gi|168986261|dbj|BAG11812.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] gi|258642983|gb|ACV86055.1| RNA polymerase sigma factor [Shigella flexneri] Length = 177 Score = 157 bits (397), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 71/176 (40%), Positives = 120/176 (68%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ T Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++T Sbjct: 61 IRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDT 120 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 P+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 PLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 176 >gi|304383076|ref|ZP_07365551.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] gi|304335762|gb|EFM02017.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella marshii DSM 16973] Length = 290 Score = 157 bits (397), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 93/262 (35%), Positives = 151/262 (57%), Gaps = 6/262 (2%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ISI E + ++KG E AK ++V ANLR V+SVAK+Y ++GL DLI EGNIGL Sbjct: 31 ISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGLTLTDLIDEGNIGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ + Sbjct: 91 IKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKINHEINKFEQ 150 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI---EDKNAV 598 + +R P+ E++ + E + + L +S++ P + + + + D + ED Sbjct: 151 ENQRHPSVSELSDVTHIDEEKIGQSLMADGHHVSIDAPFQEGEENCMLDVMAGGEDSRTD 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +D A +E T + L RE ++R FGIG + + LEE+G + +TRER+RQ Sbjct: 211 RLVDHESMA--QELNTVLCKVLKDREITIIRECFGIGCH-EKGLEEIGDRLGLTRERVRQ 267 Query: 659 IEAKAIRKLKHPSRSKKLRSFL 680 I K+I KL+ K L +L Sbjct: 268 IREKSIAKLRDSGNVKVLMKYL 289 >gi|3249719|gb|AAC26662.1| RNA polymerase sigma-like factor [Streptomyces lividans TK24] Length = 162 Score = 157 bits (396), Expect = 7e-36, Method: Composition-based stats. Identities = 79/162 (48%), Positives = 116/162 (71%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA++R++ADQ+ TIR+PVH+ + I++VVR RRM + EPTP+E+A L + Sbjct: 1 YATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDL 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V +VL++ +EP+SL P+G+ED LGD IED +A SP++SA LR+ VL+ Sbjct: 61 APERVGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLS 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +L RE +V+++R+G+ TLEE+G+ F VTRERIRQIE Sbjct: 121 TLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIE 162 >gi|260889708|ref|ZP_05900971.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] gi|260860314|gb|EEX74814.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254] Length = 273 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 94/229 (41%), Positives = 139/229 (60%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ +NLRLVIS AKK GL +DLI EGNIGL+KA KFD+ G++FSTYA+WW Sbjct: 42 ARQLLILSNLRLVISTAKKSLGNGLPLIDLISEGNIGLIKAINKFDYEKGHRFSTYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I ++I + IRIP + +++ KV + + + P+ E IAK++ + V Sbjct: 102 IKQSIKKAIINIGRDIRIPSYKYEQLSKVNKVIKDYTAIHGEAPSTEYIAKEVDLKESKV 161 Query: 564 RKVLKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +L ++ +SL IGD ED D +EDK + D I+ +++ RV Sbjct: 162 ILLLGEFQDIMSLNETIGDNIYLEDIIGKNDDVEDK--IIKEDQLIE--MKDLLERV--- 214 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE +L R+G+ N HTL+E+G+Q +TRER+RQIE KAI KLK Sbjct: 215 LNERERAILEYRYGLYDNKIHTLKEIGEQMGITRERVRQIEKKAITKLK 263 >gi|256371989|ref|YP_003109813.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] gi|256008573|gb|ACU54140.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acidimicrobium ferrooxidans DSM 10331] Length = 302 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 96/284 (33%), Positives = 151/284 (53%), Gaps = 16/284 (5%) Query: 399 VACEVDSILK--------IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVE 450 V EVDS L+ IR + ++ S +E + VR+G+ +A K EMV Sbjct: 19 VQAEVDSALQAAGLGADSIRLFLDDLAKHPLPSAAEQVELAKRVREGDEDA---KAEMVA 75 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ANLRLV+ A++Y +RG++ DLIQEG GL++A EKFDW G+KFSTYA WWV+Q++ R Sbjct: 76 ANLRLVVHWARRYQDRGVELADLIQEGTFGLIRAVEKFDWRRGFKFSTYATWWVRQSLQR 135 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT 570 ++ + IR+P+ ++ +V R ++ + R PT EEIA + + V Sbjct: 136 AVHNHGQAIRLPMEAAERSRRVDNVTRELAADLGRAPTEEEIAMAANLSASQLADVRHAA 195 Query: 571 KEPISLETPIGDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 + SL+ +G E + LGD + +D + +D +I RE R + L E +V+ Sbjct: 196 RVVASLDQAVGPEGETSLGDLVVAQDTSFEEEVDESIS---REMLRRAVEELDELERQVV 252 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +RFG+ + +LE + + R R++EA A+ KL R Sbjct: 253 TLRFGLQGDRPASLEATARILGIGPRRARRLEASALAKLAENPR 296 >gi|290956130|ref|YP_003487312.1| sigma factor [Streptomyces scabiei 87.22] gi|260645656|emb|CBG68747.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 1033 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 87/221 (39%), Positives = 138/221 (62%), Gaps = 4/221 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V N RLV S+ + ++GL++ DL+Q G +GLM+AA KFD GYKFSTYA WW Sbjct: 250 ARDCLVLHNQRLVHSLIRSCLDQGLEYEDLVQHGVLGLMRAARKFDPAKGYKFSTYATWW 309 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+Q+++R+IAD+ IR+PVHM +++ KV R ++ + R ++A + M ++ V Sbjct: 310 VRQSVSRAIADEGALIRVPVHMHEQMRKVAAAERALAAQ-GRPAGNVDVAVQCDMTLDRV 368 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS-AIQANLRETTTRVLASLTP 622 ++ K+T+ SL+ IGD T LGDF+ + A+ +++ + L E V+ + + Sbjct: 369 EEIRKLTRRTDSLDRIIGDGAT--LGDFVGKRQALPSVENDVLHVLLMEDVMGVVGTFSE 426 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 R R+L R G+ TL+E+G++F VTRERIRQ+E KA Sbjct: 427 RSARILVRRLGLDGEEPSTLDELGREFGVTRERIRQLEGKA 467 >gi|260435993|ref|ZP_05789963.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] gi|260413867|gb|EEX07163.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 8109] Length = 309 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 95/271 (35%), Positives = 158/271 (58%), Gaps = 25/271 (9%) Query: 418 VETGISISEFRHIVS--------------MVRKGECEASIAKKEMVEANLRLVISVAKKY 463 V+ +SI+E H+ ++R+GE AK +M+ +NLRLV+++AK+Y Sbjct: 31 VQAMVSITERCHLAGGTGPACEYSDEEKGVIRRGE----RAKNQMITSNLRLVVNLAKRY 86 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 +GL LDLIQEG +GL +A EK+D G++FSTYA WW++Q + R+++ QS TIRIPV Sbjct: 87 QGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWWIRQGLNRALSTQSRTIRIPV 146 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL--KITKEPISLETPI- 580 ++ +K+ K+ R+ + P+ E++A+ + +P+ V +L ++ +SL+ + Sbjct: 147 NVNEKLTKLRAAKARLMQRNGLSPSGEQLAEFMEIPIAEVEDLLACELRSVTVSLQGVVK 206 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--ASLTPREERVLRMRFGI-GMN 637 D S L D + + + PL+ A A + +L A+LTP+E V+ +RFG+ G N Sbjct: 207 SKSDPSELVDVLPSEE-LPPLERAEIAERTASAWSLLAKANLTPKEHTVVTLRFGLDGTN 265 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL EV + +RE RQ+ +A+RKL+ Sbjct: 266 EWRTLAEVARHMNCSREYCRQVVQRALRKLR 296 >gi|148645064|gb|ABR01057.1| RpoD [uncultured Geobacter sp.] Length = 102 Score = 157 bits (396), Expect = 7e-36, Method: Composition-based stats. Identities = 73/102 (71%), Positives = 92/102 (90%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+S+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAITR+I Sbjct: 1 LRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ADQ+ TIRIPVHM + I+K++RT+R++ +I REP+PEEIA+ Sbjct: 61 ADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAE 102 >gi|282877365|ref|ZP_06286188.1| putative RNA polymerase sigma factor RpoD [Prevotella buccalis ATCC 35310] gi|281300417|gb|EFA92763.1| putative RNA polymerase sigma factor RpoD [Prevotella buccalis ATCC 35310] Length = 290 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 95/270 (35%), Positives = 153/270 (56%), Gaps = 10/270 (3%) Query: 418 VETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDL 473 VE G ISI E + ++KG E AK ++V ANLR V+SVAK+Y ++GL DL Sbjct: 23 VEIGRAPLISIDEEIELAQKIKKGGPEGERAKDKLVTANLRFVVSVAKQYQHQGLSLTDL 82 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 I EGNIGL+KAA+KFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ ++K+ Sbjct: 83 IDEGNIGLIKAAQKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKIN 142 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI- 592 R + R P+ E++ + + + + + +S++ P D + + + D + Sbjct: 143 HEINRFEQENHRRPSISELSDATNIDEDKISQSMMADGHHVSIDAPFQDGEDNTMLDVMP 202 Query: 593 --EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 ED +D A +E + L RE +++ FGIG + + LEE+G Q Sbjct: 203 SGEDSRTDRHVDHESMA--QELDAVLNKVLKEREIIIIKECFGIGRH-EKGLEEIGDQLG 259 Query: 651 VTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +TRER+RQI K+I KL+ +K L +L Sbjct: 260 LTRERVRQIREKSIAKLRDSGNAKILMKYL 289 >gi|254430393|ref|ZP_05044096.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] gi|197624846|gb|EDY37405.1| possible type II alternative RNA polymerase sigma factor [Cyanobium sp. PCC 7001] Length = 302 Score = 157 bits (396), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 87/231 (37%), Positives = 145/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y N+GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 62 AKNQMITANLRLVVNLAKRYQNKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 121 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ ++ R P+P+ +A ++ +P+ V Sbjct: 122 IRQGLNRALSTQSRTIRIPVNVNEKLTRLRAAKARYLQSHGVSPSPKALAGEMQLPLAEV 181 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS- 619 ++L ++ +SL+ + + D S L D + ++P++ A A + ++L S Sbjct: 182 EELLGCELRSITVSLQGVVKSKADPSELVDVLPSPE-LAPMERAELAERSASVWKLLESS 240 Query: 620 -LTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+E V+ +RFG+ G + TL EV +Q +RE RQ+ +A+RKL+ Sbjct: 241 NLTPKERTVVMLRFGLDGSHEWRTLAEVARQLDCSREYCRQVVQRALRKLR 291 >gi|55274887|gb|AAV49246.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 199 Score = 157 bits (396), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 80/199 (40%), Positives = 133/199 (66%), Gaps = 3/199 (1%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT---PEEIAKKLAMPVEGVRKVLKI 569 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEAEEIAEQLDKPVDDVSRMLRL 120 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 + S++TP+G + L D + D+ P D+ +++++ + L L ++ VL Sbjct: 121 NERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLA 180 Query: 630 MRFGIGMNTDHTLEEVGKQ 648 RFG+ TLE+VG++ Sbjct: 181 RRFGLLGYEAATLEDVGRE 199 >gi|158341157|ref|YP_001522480.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158311398|gb|ABW33009.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 274 Score = 157 bits (396), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 82/225 (36%), Positives = 139/225 (61%), Gaps = 2/225 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++E NLRLV+S+AKK+ NRGL DLIQEG+IGL A +KFD G +FSTYA WW Sbjct: 40 AKQRLIECNLRLVVSIAKKHQNRGLPLQDLIQEGSIGLSNAVDKFDLAQGCRFSTYAYWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q +T ++ +S I +P + + I K+ + R ++ ++ REP+ E+AK + + + Sbjct: 100 IRQGVTAALRAKSRPIYLPQYQWEMISKIKKHFRELNQQLGREPSLSELAKATNLKPKTI 159 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + L + ++ SL+ P+G + L D + ++ + ++Q L E ++V+A L R Sbjct: 160 SRTLHLFQKVSSLDQPVGHQQKDTLLDLMAGEDQPTLYLESLQ--LDEQLSQVMAHLDKR 217 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ VL RFG+ + ++ E+G+Q ++RE IR I K ++KL+ Sbjct: 218 EQFVLSQRFGLEDDQPKSMREIGEQIGLSREGIRLILNKIMKKLQ 262 >gi|90580452|ref|ZP_01236258.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] gi|90438361|gb|EAS63546.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Vibrio angustum S14] Length = 231 Score = 156 bits (395), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 83/213 (38%), Positives = 128/213 (60%), Gaps = 1/213 (0%) Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 +S+AKKY L D+I EGN+GL+ A EKFD G++FSTYA WW+KQ I R+I +Q+ Sbjct: 1 MSIAKKYRAAHLLLGDMIDEGNLGLITAVEKFDPEKGFRFSTYATWWIKQNIERAIHNQN 60 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 TIR+PVH+ +I+ ++RT R + K EPT E+IA++L + + ++ +SL Sbjct: 61 RTIRLPVHVSKEINGLLRTHRDLMKKQNHEPTHEDIAQQLNKETHDISILFSYEQKIVSL 120 Query: 577 ETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG 635 + IG DE+T + I D+ SP + ++ +L + PRE +L RFG+ Sbjct: 121 DQTIGDDENTGTIASLIVDEQIPSPSHIVEENSMVNLAEDILNKIKPREREILCRRFGVM 180 Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+EV +TRER+RQ++AK++ +LK Sbjct: 181 GYEPQTLQEVALALGITRERVRQLQAKSLERLK 213 >gi|310778262|ref|YP_003966595.1| RNA polymerase sigma factor, sigma-70 family [Ilyobacter polytropus DSM 2926] gi|309747585|gb|ADO82247.1| RNA polymerase sigma factor, sigma-70 family [Ilyobacter polytropus DSM 2926] Length = 263 Score = 156 bits (395), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 93/234 (39%), Positives = 131/234 (55%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V +NLRLV+S+AKKY N G+ LDLIQEGNIGL+KA KFD + +FSTYA +W Sbjct: 35 AHEKLVTSNLRLVVSIAKKYINIGIPVLDLIQEGNIGLIKAVSKFDTTMDKRFSTYATFW 94 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I R I+ IR P ++ D I K+ + R NK P+ E IA L + V Sbjct: 95 IKQSILRYISSNKGVIRYPTYIYDNISKINKFIRDYKNKYGSVPSIEVIATGLEFKKKDV 154 Query: 564 RKVLKITKEPI-SLETPIGDEDTSH----LGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 K L I ++ + SLE G+ H D E++ ++ + +NL+ Sbjct: 155 EKYLNIFEQSLNSLEESYGENGDLHSIIPSDDLFEEQIITDSVNEELISNLK-------- 206 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L +E V+ RFG+ TLEE+G +TRERIRQI+ KAI KL+ R Sbjct: 207 ILNSKERDVIIHRFGLFNKNVLTLEEIGNHLNLTRERIRQIQLKAIDKLRDKFR 260 >gi|3249725|gb|AAC26665.1| RNA polymerase sigma-like factor [Streptomyces glauceuces] Length = 162 Score = 156 bits (395), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 76/162 (46%), Positives = 113/162 (69%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QA++R++ADQ+ TIR+PVH+ + I++VVR RR+ + EPT E+I L + Sbjct: 1 YATWWIRQAMSRALADQADTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIGVDLDL 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V +L++ +EP+SL P+G+ED GD IED +A SP++SA+ LRE VL+ Sbjct: 61 TPERVTDILRLGQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAVFLLLREHLEAVLS 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +L RE +V+++R+G+ TLEE+G+ F VTRERIRQIE Sbjct: 121 TLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIE 162 >gi|3769432|gb|AAC78468.1| RNA polymerase sigma factor 2 [Zea mays] Length = 349 Score = 156 bits (395), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/252 (36%), Positives = 145/252 (57%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N+RLVIS+A KY N G+ DLIQ G IGL++ EKFD G++ STY Sbjct: 102 ESFLAREMLTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASRGFRISTY 161 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 WW++Q ++R++AD S T R+P ++ +++ +R A+ PT E IA+ L + Sbjct: 162 VYWWIRQGVSRALADNSKTFRLPTYLHERL-LAIRGAKYALEDQGIAPTIENIAESLNIS 220 Query: 560 V-------EGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 V E V KVL + ++ SL GD L +IED+N + P + L+ Sbjct: 221 VKKVHNATEAVHKVLSLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEEMYLK 276 Query: 611 ETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++ S L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 277 EEVNNLINSNLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVRLVAMEKLKH 335 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 336 AARRKHLNALLE 347 >gi|37806470|dbj|BAC99905.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 388 Score = 156 bits (394), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 141 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 200 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 201 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 259 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 260 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 315 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 316 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 374 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 375 AARRKNLEALLE 386 >gi|157833814|pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia Coli Rna Polymerase Length = 339 Score = 156 bits (394), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 91/200 (45%), Positives = 125/200 (62%), Gaps = 6/200 (3%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 142 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 201 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + V+ EV L+ +++ I ETG++I + + I + Sbjct: 202 TSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ---KLQQIEEETGLTIEQVKDINRRMSI 258 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKF Sbjct: 259 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 318 Query: 497 STYAMWWVKQAITRSIADQS 516 STYA WW++QAITRSIADQ+ Sbjct: 319 STYATWWIRQAITRSIADQA 338 >gi|167950928|ref|ZP_02538002.1| RNA polymerase sigma factor RpoS [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 216 Score = 156 bits (394), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 78/201 (38%), Positives = 123/201 (61%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 + LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 MALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVK 60 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 +I+ +R AR+++ + EPT EEIA L P+ V+++L + + S++TP G + Sbjct: 61 EINVYLRAARQLAQSLDHEPTSEEIADLLDKPISEVKRMLGLNERVTSVDTPFGKDADKP 120 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D I D+ P + L L L ++ V+ RFG+ + TLE+V Sbjct: 121 LLDTIPDERVQDPTVNIQNDGLNTNLDTWLLKLNDKQREVVERRFGLHGYENSTLEQVAN 180 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 + VTRER+RQI+ A+R+L+ Sbjct: 181 ELGVTRERVRQIQMDALRRLR 201 >gi|78212534|ref|YP_381313.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] gi|78196993|gb|ABB34758.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9605] Length = 309 Score = 156 bits (394), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 89/243 (36%), Positives = 149/243 (61%), Gaps = 11/243 (4%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++R+GE AK +M+ +NLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D Sbjct: 59 GVIRRGE----RAKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPT 114 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ + P+ E+ Sbjct: 115 RGHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARLMQRNGLSPSGEQ 174 Query: 552 IAKKLAMPVEGVRKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 +A+ + +P+ V +L ++ +SL+ + D S L D + + + P++ A A Sbjct: 175 LAEFMEIPIAEVEDLLACELRSVTVSLQGVVKSKSDPSELVDVLPS-DELPPMERAEIAE 233 Query: 609 LRETTTRVL--ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + +L A+LTP+E V+ +RFG+ G N TL EV + +RE RQ+ +A+R Sbjct: 234 RTASVWSLLAKANLTPKEHTVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQRALR 293 Query: 666 KLK 668 KL+ Sbjct: 294 KLR 296 >gi|125560253|gb|EAZ05701.1| hypothetical protein OsI_27933 [Oryza sativa Indica Group] Length = 372 Score = 155 bits (393), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 125 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 184 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 185 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 243 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 244 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 299 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 300 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 358 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 359 AARRKNLEALLE 370 >gi|33946401|gb|AAQ55816.1| truncated stationary phase specific sigma factor [Pseudomonas syringae] Length = 252 Score = 155 bits (393), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 73/188 (38%), Positives = 118/188 (62%), Gaps = 3/188 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I +S +E H + + G+ +K M+E+NLRLV+ +A++Y NRGL LD Sbjct: 67 LNEIGFSPLLSPAEEVHFARLSQSGD---PAGRKRMIESNLRLVVKIARRYVNRGLSLLD 123 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ Sbjct: 124 LIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVY 183 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ +G + L D + Sbjct: 184 LRAARELTQKLDHEPSPEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTL 243 Query: 593 EDKNAVSP 600 D P Sbjct: 244 TDDRPTDP 251 >gi|168986257|dbj|BAG11810.1| RNA polymerase, sigma S (sigma 38) factor [Escherichia coli O55:H6] Length = 177 Score = 155 bits (393), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 71/176 (40%), Positives = 119/176 (67%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A++Y NRGL LDLI+EGN+GL++A EKFD G+ FSTYA WW++Q I R+I +Q+ T Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFLFSTYATWWIRQTIERAIMNQTRT 60 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++T Sbjct: 61 IRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDT 120 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 P+G + L D + D+ P D+ +++++ + L L ++ VL RFG+ Sbjct: 121 PLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFGL 176 >gi|158339615|ref|YP_001521004.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] gi|158309856|gb|ABW31472.1| RNA polymerase sigma-70 factor, putative [Acaryochloris marina MBIC11017] Length = 268 Score = 155 bits (393), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 82/243 (33%), Positives = 148/243 (60%), Gaps = 2/243 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ + + AK+ M+E NLR V+S+AKKY NRGL LDLIQEG+IGL A +KFD Sbjct: 27 IQLARQAQAGSLRAKQRMIECNLRFVVSIAKKYQNRGLPLLDLIQEGSIGLSTAVDKFDL 86 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW++Q IT ++ +S I +P + D + K+ + R ++ ++ REP+ Sbjct: 87 AQGCRFSTYAYWWIRQGITAAVRAKSRPIYLPHYHWDTVGKIKKHFRVLTQQLGREPSLS 146 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+++ + + + + L++ ++ SL+ +G + L D + ++ + ++Q L Sbjct: 147 ELSEATNIKPKTISRTLQLFQQISSLDQLVGPQQKDTLLDMLAGEDQPTHYLESLQ--LD 204 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + ++V+ASL RE VL R+G+ + +++E+G+Q ++ E IR I K ++KL+ Sbjct: 205 DELSQVMASLDERERFVLSQRYGLEDDHPKSMKEIGQQIGLSHEGIRLILKKIMQKLERY 264 Query: 671 SRS 673 ++S Sbjct: 265 AQS 267 >gi|125602291|gb|EAZ41616.1| hypothetical protein OsJ_26150 [Oryza sativa Japonica Group] Length = 420 Score = 155 bits (392), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 173 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 232 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 233 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 291 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 292 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 347 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 348 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 406 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 407 AARRKNLEALLE 418 >gi|158339957|ref|YP_001521127.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] gi|158310198|gb|ABW31813.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017] Length = 268 Score = 155 bits (392), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 84/243 (34%), Positives = 144/243 (59%), Gaps = 2/243 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + + R+ + + AK+ M+E NLRLV+S+AKK+ NRGL LDLIQEG+IGL A +KF+ Sbjct: 27 IELARQAKAGSLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGSIGLSTAVDKFEI 86 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA WW++Q IT ++ +S I +P + + I+K+ + R ++ K+ REP+ Sbjct: 87 AQGCRFSTYAYWWIRQGITAALRAKSRPIYLPQYQWEMINKIKKHYRELNQKLGREPSLS 146 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E+++ + + + L++ ++ SL+ P+G E L D + N + ++Q + Sbjct: 147 ELSESTEIKPKTINLTLQLFQKISSLDQPVGPEQKDSLLDLLPGDNQPTLYMESLQRD-- 204 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E V+A L RE VL R+G+ + ++ E+G+Q ++ E IR I K ++KL+ Sbjct: 205 EQLFHVMAHLDERERLVLSQRYGLEDDQPKSMREIGEQIGLSHEGIRLILKKIMKKLERY 264 Query: 671 SRS 673 + S Sbjct: 265 AES 267 >gi|87302558|ref|ZP_01085375.1| Sigma-70 factor family protein [Synechococcus sp. WH 5701] gi|87282902|gb|EAQ74859.1| Sigma-70 factor family protein [Synechococcus sp. WH 5701] Length = 307 Score = 155 bits (392), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 144/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL++A EK+D G++FSTYA WW Sbjct: 66 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLVRAVEKYDPTRGHRFSTYAYWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ R+ +P+E+A + +P+ V Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARLLQANGLTASPQELAATMHLPLAEV 185 Query: 564 RKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + D + L D + + + P++ A + + R+L + Sbjct: 186 EDLLSCELRSITVSLQGVVKSKSDPTELVDVLAS-DEMPPMERAELSERSASVWRLLDVS 244 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTPRE V+ +RFG+ G + TL EV +Q +RE RQ+ +A+RKL+ Sbjct: 245 NLTPRERTVVMLRFGLDGGHEWRTLAEVARQLGCSREYCRQVVQRALRKLR 295 >gi|113953662|ref|YP_731106.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9311] gi|113881013|gb|ABI45971.1| Possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9311] Length = 307 Score = 155 bits (392), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 85/234 (36%), Positives = 146/234 (62%), Gaps = 7/234 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ ++ R+ P+ E++A+ + +P+ V Sbjct: 125 IRQGLNRALSTQSRTIRIPVNVNEKLTRLRAAKARLMQSNGLAPSAEQLAECMKLPISEV 184 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + + D S L D + + + P++ A A ++ +L + Sbjct: 185 EDLLGCELRSVTVSLQGVVKSKSDPSELVDVLPS-DEIPPMERAEIAERTDSAWNLLDNS 243 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +LTP+E ++ +RFG+ G + TL EV +Q +RE RQ+ +A+RKL+ S Sbjct: 244 NLTPKERTIVMLRFGLDGSHEWRTLAEVARQMNCSREYCRQVVQRALRKLRKTS 297 >gi|78184480|ref|YP_376915.1| type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] gi|78168774|gb|ABB25871.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. CC9902] Length = 309 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 11/242 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++R+GE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D Sbjct: 60 VIRRGE----RAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTR 115 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ + T E++ Sbjct: 116 GHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARIMQRNGLTATGEQL 175 Query: 553 AKKLAMPVEGVRKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 A+ + +P+ V +L ++ +SL+ + D S L D + + + P++ A A Sbjct: 176 AEFMNVPLTEVEDLLACELRSVTVSLQGIVKSKSDPSELVDILPS-DEIPPMERAEIAER 234 Query: 610 RETTTRVL--ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + +L A+LTP+E +V+ +RFG+ G N TL EV + +RE RQ+ +A+RK Sbjct: 235 SASVWALLSKANLTPKEHKVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQRALRK 294 Query: 667 LK 668 L+ Sbjct: 295 LR 296 >gi|2780746|dbj|BAA24364.1| plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 519 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 272 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 331 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 332 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 390 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 391 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 446 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 447 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 505 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 506 AARRKNLEALLE 517 >gi|317051905|ref|YP_004113021.1| sigma-70 family RNA polymerase sigma factor [Desulfurispirillum indicum S5] gi|316946989|gb|ADU66465.1| RNA polymerase sigma factor, sigma-70 family [Desulfurispirillum indicum S5] Length = 305 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 92/274 (33%), Positives = 163/274 (59%), Gaps = 6/274 (2%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R+ ++ IS T ++ E + + + G+ +A + +VE+NLR V+ +A KY + G+ Sbjct: 35 LRDYLRRISRITLLTAEEEKELARRISAGDEQAF---RVLVESNLRFVVKIAMKYRDIGI 91 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 LDLI EGNIGL++AA +FD G +F TYA+WW+KQ+I ++I S T+R+P + + Sbjct: 92 NLLDLINEGNIGLLEAARRFDPERGNRFITYAVWWIKQSIIQAIISSSNTVRLP-GKQAR 150 Query: 529 IHKVVRTARR--MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + +ARR + REPT +E+ + + + + +L+ T+ ISL+TPIG++D Sbjct: 151 FASKLNSARREFARDHDGREPTEQELRDEYGLDISNIEDILRATRSYISLDTPIGEDDER 210 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L D +E S + ++ + ++A L R+ V+ +RFGI TL+EVG Sbjct: 211 TLKDVLESPEESSTEEQYVRQKISTEIRSIIAELESRDALVVDLRFGISEGIPQTLDEVG 270 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + +++ER+RQIE +A+++L+ + ++KL +L Sbjct: 271 TRLGLSKERVRQIEERALKRLQRKAMNRKLSEYL 304 >gi|299473209|emb|CBN78785.1| RNA polymerase [Ectocarpus siliculosus] Length = 627 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 92/251 (36%), Positives = 141/251 (56%), Gaps = 19/251 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRG------LQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 A+ M+ NLRLV+ +A++ +G + D+IQ+G GL+KA E+FD G++FS Sbjct: 235 ARDRMISCNLRLVVHIARRKFYKGASGTLKVSLEDMIQDGTAGLVKAVERFDPEKGFRFS 294 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WWV Q I AD +R+P+ + + KV+R M +++ R+PT +E++ + Sbjct: 295 TYATWWVHQGIHCGFADCGRVVRLPMSLHTMVCKVMRLQTAMVDQLGRQPTVQELSLESG 354 Query: 558 MPVEGVRKVLKITK-EPISLETPIGDEDTSHL-----------GDFIEDKNAVSPLDSAI 605 + V K L++ + EPISL+ + HL GD ++ P+D A Sbjct: 355 LDERKVEKCLRVNQVEPISLDG-YRKSKSGHLNFENSFRRERVGDSVKSVQETEPVDGAD 413 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + L+ +L L+ RE VLRMRFGIG ++ TLE VG++ VTRER+RQI+ AI+ Sbjct: 414 VSLLKTDVDTILGDLSEREAYVLRMRFGIGGSSPSTLETVGQELQVTRERVRQIQIAAIQ 473 Query: 666 KLKHPSRSKKL 676 KL+ S S L Sbjct: 474 KLRGRSPSHDL 484 >gi|37806471|dbj|BAC99906.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 342 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 95 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 154 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 155 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 213 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 214 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 269 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 270 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 328 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 329 AARRKNLEALLE 340 >gi|297608012|ref|NP_001061065.2| Os08g0163400 [Oryza sativa Japonica Group] gi|255678168|dbj|BAF22979.2| Os08g0163400 [Oryza sativa Japonica Group] Length = 520 Score = 155 bits (391), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 148/252 (58%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +NLRLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 273 ESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 332 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++A+ S T R+P ++ +++ +R A+ PT E IA Sbjct: 333 VYWWIRQGVSRALAENSKTFRLPTYLHERL-IAIRGAKYELEDQGIAPTIENIAGSLNIS 391 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL G+ L +IED+N + P + L+ Sbjct: 392 EKKVLNATEAVNKVLSLDQQAFPSLNGLPGET----LHSYIEDQNVANDPWHGFEEWYLK 447 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 448 EEVNKLLNSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKH 506 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 507 AARRKNLEALLE 518 >gi|297811483|ref|XP_002873625.1| hypothetical protein ARALYDRAFT_909325 [Arabidopsis lyrata subsp. lyrata] gi|297319462|gb|EFH49884.1| hypothetical protein ARALYDRAFT_909325 [Arabidopsis lyrata subsp. lyrata] Length = 273 Score = 154 bits (390), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 77/207 (37%), Positives = 126/207 (60%) Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y +GL DLIQEG+IGL++ AE+FD GYK STY WW+KQAI R+IA +S +++P Sbjct: 52 YQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIKQAILRAIAHKSRLVKLP 111 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD 582 M + KV + ++ K++R+P+ EEIA+ L + V VR ++ ++ P+SL+ + Sbjct: 112 GSMWELTAKVAEASNVLTRKLRRQPSCEEIAEHLNLHVSAVRLAVERSRSPVSLDRVVSQ 171 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 L + + + P + + +++ ++L SLT RE RVL + FG+ T + Sbjct: 172 NGRMTLQEIVRGPDETRPEEMVKREHMKHEIEQLLGSLTARESRVLGLYFGLNGETPMSF 231 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKH 669 EE+GK ++RER+RQI A++KL++ Sbjct: 232 EEIGKSLKLSRERVRQINGIALKKLRN 258 >gi|119503379|ref|ZP_01625463.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] gi|119461025|gb|EAW42116.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] Length = 430 Score = 154 bits (390), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 82/225 (36%), Positives = 134/225 (59%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V NLRLV S+A +Y RG+ +LDL+QEG +GL++AAEKF++ G++FSTY W Sbjct: 188 ARDKLVMHNLRLVYSIAGRYKGRGVSYLDLVQEGTLGLIRAAEKFEFEKGFRFSTYCFNW 247 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + QA+ R + D IR+P H+++++ ++ + + EP E +A KL M +E Sbjct: 248 ITQAVRRYVGDVGTLIRLPTHVQEQMGRLYKEKAIEQLRTGVEPDEETLAAKLGMDIEKT 307 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L++ +SL+ P D+D L D + + DSA QA+L + + +L P Sbjct: 308 RQLLQMRNLGVSLDAPRFDDDEGTLLDTLSGEPYGGTEDSAEQASLHKFLGGAVDALEPS 367 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+RV+ R+G+ + EV V+RE +RQ+E A+RKLK Sbjct: 368 EQRVVVARWGLHDGPPLSRAEVADSLGVSREWVRQLERSALRKLK 412 >gi|87124019|ref|ZP_01079869.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] gi|86168588|gb|EAQ69845.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9917] Length = 308 Score = 154 bits (390), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 86/231 (37%), Positives = 144/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 66 AKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ K+ R+ + + PE++A+ + +P+ V Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARLMQQHGQPANPEQLAEAMKIPLSEV 185 Query: 564 RKVL--KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + + D S L D + + + P++ A A + +L A Sbjct: 186 EDLLACELRSVTVSLQGIVKSKADPSELVDVLPS-DELPPMERAEIAERTASAWTLLEKA 244 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E V+ +RFG+ G + TL EV + +RE RQ+ +A+RKL+ Sbjct: 245 NLTPKERTVVMLRFGLDGSHEWRTLAEVARHMSCSREYCRQVVQRALRKLR 295 >gi|330862243|emb|CBX72404.1| RNA polymerase sigma factor rpoD [Yersinia enterocolitica W22703] Length = 113 Score = 154 bits (390), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 77/103 (74%), Positives = 84/103 (81%) Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 PIGD++ SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNT Sbjct: 10 PIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRMRFGIDMNT 69 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 70 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 112 >gi|281355585|ref|ZP_06242079.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] gi|281318465|gb|EFB02485.1| RNA polymerase, sigma 32 subunit, RpoH [Victivallis vadensis ATCC BAA-548] Length = 248 Score = 154 bits (389), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 132/225 (58%), Gaps = 3/225 (1%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 K ++E NLRLV +A + RGL + DL+ EGN GLM AA ++D G +FSTY+ WW+K Sbjct: 16 KALIEENLRLVQKIANDFLGRGLPWEDLVSEGNRGLMTAARRYDPSRGARFSTYSAWWIK 75 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 QAI ++IA+Q+ +R+P+ + K+ R ++ + P+ EE+A+ +P+ V + Sbjct: 76 QAIRQAIAEQAQMVRVPIGTQTHWRKIRRIVNELTEALGHAPSDEEVAEAANLPLATVNR 135 Query: 566 VLKITKEPI-SLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + + + SL PI GD D DF +D +P I+ E +L +LT Sbjct: 136 LRGSRQIDVQSLNAPISDGDPDGGEFQDFFQDDTEPAPDQQLIKLEDVENLLSLLETLTE 195 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE++VLR+RFG+ TL+EVG + T ER+RQI+ +A+RKL Sbjct: 196 REQKVLRLRFGLDGEPIRTLDEVGTELNCTNERVRQIQNQALRKL 240 >gi|254526924|ref|ZP_05138976.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9202] gi|221538348|gb|EEE40801.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT 9202] Length = 307 Score = 154 bits (388), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 89/232 (38%), Positives = 146/232 (62%), Gaps = 9/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEEIAKKLAMPVEG 562 ++Q + R+++ QS TIRIPV++ +K+ K +R+A+ ++K PT +E+A+++ + E Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTK-LRSAKSKLMQLKGIPPTSDELAEEMKITKEE 183 Query: 563 VRKVLKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-- 617 + ++L I++ T D S L D + A P++ A A + ++L Sbjct: 184 IDELLSCELRSITVSLQGTVKSKSDPSELVDILPSDQA-PPMELAELAERTASAWKLLDK 242 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+LT +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 243 ANLTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|302554830|ref|ZP_07307172.1| RNA polymerase sigma factor rpoD [Streptomyces viridochromogenes DSM 40736] gi|302472448|gb|EFL35541.1| RNA polymerase sigma factor rpoD [Streptomyces viridochromogenes DSM 40736] Length = 481 Score = 154 bits (388), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 97/221 (43%), Positives = 129/221 (58%), Gaps = 12/221 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V N RLV +A Y RGL DL+Q G IGLM+A KFD G+KFSTYA WW+KQA Sbjct: 250 LVLHNQRLVWKIALGYQGRGLDTEDLVQHGTIGLMRAVRKFDATKGFKFSTYATWWIKQA 309 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR+IAD+ IR+P H+ +K+ KV R++ N+ R T + +A + V KV Sbjct: 310 ITRAIADEGTLIRLPAHVHEKVSKVAVAERKLLNE-GRPRTVDNVAYVSGLTFAEVEKVR 368 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-----QANLRETTTRVLASLTP 622 +I++ SL+ IGD DT+ LGD I + + D + QA LR V+ L+ Sbjct: 369 RISRSTDSLDRIIGD-DTA-LGDLIIGPSRLPGPDVVLIRKEFQARLRH----VVEHLSE 422 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 RE VL R G+ + TLE++G F VTRERIRQIE KA Sbjct: 423 RERHVLVRRTGLDGDEPDTLEDIGVVFGVTRERIRQIEPKA 463 >gi|123968168|ref|YP_001009026.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. AS9601] gi|123198278|gb|ABM69919.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. AS9601] Length = 307 Score = 153 bits (387), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 89/232 (38%), Positives = 146/232 (62%), Gaps = 9/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEEIAKKLAMPVEG 562 ++Q + R+++ QS TIRIPV++ +K+ K +R+A+ ++K PT +E+A+++ + E Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTK-LRSAKSKLMQLKGIPPTSDELAEEMKITKEE 183 Query: 563 VRKVLKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-- 617 V ++L I++ T D S L D + + P++ A A + ++L Sbjct: 184 VDELLSCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWKLLDK 242 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+LT +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 243 ANLTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|57996880|emb|CAI45888.1| negative response regulator [Escherichia coli] Length = 158 Score = 153 bits (387), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 68/152 (44%), Positives = 109/152 (71%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 60 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 61 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 120 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 S++TP+G + L D + D+ P D+ Sbjct: 121 ITSVDTPLGGDSEKALLDILADEKENGPEDTT 152 >gi|15022434|dbj|BAB62255.1| RNA polymerase sigma 70 factor [Treponema medium] Length = 155 Score = 153 bits (386), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 82/153 (53%), Positives = 107/153 (69%) Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 I+KV R +R++ K REPT EEIA +L VE V++V + +EPISLETPIG+E+ S L Sbjct: 2 INKVTRESRQLMQKFGREPTDEEIAAQLGWNVERVKQVKNVAREPISLETPIGEEEDSSL 61 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 GDFIEDK+ +P + L+E VL+ L RE+ VL+MRFG+ TLEEVG Sbjct: 62 GDFIEDKDVENPSNLTEYILLQEQLRGVLSCLPLREQEVLKMRFGLDEGYALTLEEVGLY 121 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 F VTRERIRQIEAKA+R+L+HP +S KL+ +LD Sbjct: 122 FNVTRERIRQIEAKALRRLRHPKQSCKLKDYLD 154 >gi|296125976|ref|YP_003633228.1| RNA polymerase, sigma 32 subunit, RpoH [Brachyspira murdochii DSM 12563] gi|296017792|gb|ADG71029.1| RNA polymerase, sigma 32 subunit, RpoH [Brachyspira murdochii DSM 12563] Length = 285 Score = 152 bits (385), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 91/248 (36%), Positives = 146/248 (58%), Gaps = 6/248 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA + +++ +NLR VI++AK+Y N GL DLI EGN+GL+ AA++FD G Sbjct: 42 LKEGDAEA---RSKLIRSNLRFVITIAKQYKNSGLLLEDLISEGNMGLIIAADRFDPDKG 98 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y F +YA++W++Q+I R+I ++S IR+P++ + + RT + K P E+A Sbjct: 99 YHFISYAVYWIRQSILRAINEKSRLIRLPLNKAMDLVDLERTVHQYYYKSGYTPDVNELA 158 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 L + ++ ++ E ISLE D L D IEDK + + ++AI L E Sbjct: 159 AILNKDPNDILHIMSMSTEHISLEGEYNYDGMKDRLIDTIEDKTSKNVEETAINKELMEE 218 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + SL+ E++++ R+GI TL+EVG+ F T+ERIRQIE KA+RK+ H + Sbjct: 219 LKTAIESLSDIEKQIINARYGIDQER-KTLKEVGEMFSFTKERIRQIEKKALRKM-HSQK 276 Query: 673 SKKLRSFL 680 L+ FL Sbjct: 277 YSSLKDFL 284 >gi|159903122|ref|YP_001550466.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9211] gi|159888298|gb|ABX08512.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9211] Length = 312 Score = 152 bits (385), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 92/241 (38%), Positives = 148/241 (61%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+GE AK +M+ +NLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G Sbjct: 59 IRQGER----AKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRG 114 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ ++ P+ E +A Sbjct: 115 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNINEKLTKLRAAKSQLMQANGLTPSSEMLA 174 Query: 554 KKLAMPVEGVRKVLKITKEPI--SLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 KK+ + E V ++L+ I SL+ + D S LGD + + + P++ A A Sbjct: 175 KKMHLSKEEVEELLECELRSITVSLQGVVQSKSDPSELGDVLPSEE-IPPMEVAELAERN 233 Query: 611 ETTTRVL--ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 ++ +L A+LTP+E ++ +RFG+ G N TL EV K +RE RQ+ +A+RKL Sbjct: 234 DSAWSLLNKANLTPKERTIVSLRFGLDGSNEWRTLAEVAKHMNCSREYCRQVVQRALRKL 293 Query: 668 K 668 + Sbjct: 294 R 294 >gi|293375845|ref|ZP_06622113.1| putative RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325844994|ref|ZP_08168319.1| RNA polymerase sigma factor RpoD family protein [Turicibacter sp. HGF1] gi|292645524|gb|EFF63566.1| putative RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909] gi|325488967|gb|EGC91357.1| RNA polymerase sigma factor RpoD family protein [Turicibacter sp. HGF1] Length = 331 Score = 152 bits (385), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 99/265 (37%), Positives = 150/265 (56%), Gaps = 25/265 (9%) Query: 425 SEFRHIVSMVRKGECEA-SIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIG 480 +E++H + ++K E A + ++ N LV + +YT + L + DL G G Sbjct: 59 NEYQHNLEYLKKYRLENDETALEWLIFNNTNLVHKIIGRYTKFYHHKLDYDDLFSVGLEG 118 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKA EKFD+ FSTYA +WVKQA+TR+IAD+ TIRIPVHM + I++V+R + Sbjct: 119 LMKAIEKFDFTFDNNFSTYATYWVKQAVTRTIADEGFTIRIPVHMFESINQVMRYEQ--- 175 Query: 541 NKIKREPTP---EEIAKKLAMPV---EGVRKVLKITKEPISLETPIGDEDT-SHLGDFIE 593 K +E P + + +L +P+ E V++V +P SL + ED + L D I Sbjct: 176 -KADQEDEPVDVDNLCGELKIPIEKYEAVKRVQTYMLKPTSLNGFVSKEDEDTELQDLIS 234 Query: 594 DKNAV----------SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 ++N + +P A+ +L+ +++ SL PRE+ V+ RFG+ TLE Sbjct: 235 NENEMLVEGMSRIYDNPEKQAMDEDLKAYMDKMILSLNPREQFVIIHRFGLNGEEKKTLE 294 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+G+ VTRERIRQIEAKA+RKL+ Sbjct: 295 EIGEIEGVTRERIRQIEAKAMRKLR 319 >gi|2624403|emb|CAA74653.1| plastid RNA polymerase sigma factor [Sorghum bicolor] Length = 500 Score = 152 bits (385), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/252 (36%), Positives = 145/252 (57%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N+RLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 253 ESFLAREMLTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 312 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++AD S R+P ++ +++ +R A+ PT E IA Sbjct: 313 VYWWIRQGVSRALADNSKAFRLPTYLHERL-IAIRGAKYALEDQGIAPTVENIAESLNIS 371 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL GD L +IED+N + P + L+ Sbjct: 372 EKKVHNATEAVNKVLSLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEERYLK 427 Query: 611 ETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++ S L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 428 EEVNNLINSNLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLVAMEKLKH 486 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 487 AARRKHLDALLE 498 >gi|168704138|ref|ZP_02736415.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 280 Score = 152 bits (385), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 93/254 (36%), Positives = 142/254 (55%), Gaps = 23/254 (9%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S +E R + + G+ A+ MV ANLRLV+++A+ YT RGL DL+ EGN+GL Sbjct: 34 LSATEERELGGRILDGD---PAARDRMVRANLRLVVNLARGYTGRGLSLDDLVAEGNMGL 90 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A E FD + +FSTYA +W+KQ+I R+I + + TIR+P +M + + R + + Sbjct: 91 LRAVEGFDPGMSTRFSTYASFWIKQSIQRAIVNTARTIRVPTYMAALVARWRRATAALGD 150 Query: 542 KIKREPTPEEIA-------KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED 594 ++ R P PEE+A +KLAM V+ LK+ D+ L I D Sbjct: 151 ELGRAPAPEEVAGHLGLSRRKLAM----VQLALKVAGAGTQ-----ADDAEGGLEGLIPD 201 Query: 595 -KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 +++ S D+A Q L L L PR+ VLR+RFG+ TL+EVG+ +T+ Sbjct: 202 TRDSGSDADAAEQLKL---VFEQLDRLNPRDADVLRLRFGLSGEEPKTLKEVGEALGLTK 258 Query: 654 ERIRQIEAKAIRKL 667 ER+RQIE+ A+ L Sbjct: 259 ERVRQIESAALSAL 272 >gi|242078297|ref|XP_002443917.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor] gi|241940267|gb|EES13412.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor] Length = 500 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 90/252 (35%), Positives = 146/252 (57%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N+RLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 253 ESFLAREMLTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTY 312 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++AD S R+P ++ +++ +R A+ PT E IA Sbjct: 313 VYWWIRQGVSRALADNSKAFRLPTYLHERL-IAIRGAKYALEDQGIAPTVENIAESLNIS 371 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KVL + ++ SL GD L +IED+N + P + L+ Sbjct: 372 EKKVHNATEAVNKVLSLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEERYLK 427 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++ ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 428 EEVNNLINSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLVAMEKLKH 486 Query: 670 PSRSKKLRSFLD 681 +R K L + L+ Sbjct: 487 AARRKHLDALLE 498 >gi|327399101|ref|YP_004339970.1| putative RNA polymerase, sigma 70 family subunit [Hippea maritima DSM 10411] gi|327181730|gb|AEA33911.1| putative RNA polymerase, sigma 70 family subunit [Hippea maritima DSM 10411] Length = 289 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 92/256 (35%), Positives = 144/256 (56%), Gaps = 4/256 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K IS +S E + + ++KG+ EA K++V+ NLR V+SVAKKY N G+ LD Sbjct: 30 LKEISKIPVLSAEEEKELGRRIKKGDKEAL---KKLVKHNLRFVVSVAKKYKNLGIPLLD 86 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL+KAA+KFD KF +YA WW+KQ+I + I +QS IRIP+ + +I K+ Sbjct: 87 LINEGNLGLIKAAKKFDPDRNTKFISYAAWWIKQSIMKYITEQSTPIRIPLKAKSRISKI 146 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 K EP EI++ + ++ SL+ + D+ GD I Sbjct: 147 DTIKEDYRQKFDEEPMNGEISEISDLSEREIKNAELARFYFDSLDDYVSDDKDILKGDLI 206 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 K S D IQ +L E + L+ L RE+ ++++R+G+ TL E+G+++ ++ Sbjct: 207 SLKEQ-SIEDEHIQKSLIEEVNKFLSELPEREQDIIKLRYGLYDGRPRTLREIGEKYGIS 265 Query: 653 RERIRQIEAKAIRKLK 668 +ER+RQ+E + KLK Sbjct: 266 KERVRQLENNILNKLK 281 >gi|149278736|ref|ZP_01884871.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] gi|149230355|gb|EDM35739.1| RNA polymerase sigma-70 factor [Pedobacter sp. BAL39] Length = 286 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 94/279 (33%), Positives = 160/279 (57%), Gaps = 6/279 (2%) Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E +SI K +I I + +S+ E + ++KG+ EA++ K +V+ NLR V+SVAK Sbjct: 14 ETNSIDKYLTDIGRIGL---LSVEEELGLARRIKKGD-EAALDK--LVKTNLRFVVSVAK 67 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 KY N+GLQ DLI EGN+GL+KAA++FD G+KF ++A+WW++Q+I +++ADQ IR+ Sbjct: 68 KYQNKGLQLADLISEGNLGLIKAAQRFDDTKGFKFISFAVWWIRQSIMQALADQKRMIRL 127 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 P + I K+ + A + ++R PT EE+A V L SL+ Sbjct: 128 PGNQVLGIIKINKAADELEQVLERAPTYEELAMATEFSEAKVADYLDSAPLSYSLDMTTH 187 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 +E L D + ++N + ++ ++ E R L+ L RE+ ++ FG+ +T T Sbjct: 188 EESDFSLMDTLVNENTPDTDELMMKESMSEDVRRSLSILPEREKWIIIFFFGLDNHTALT 247 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 L+++ F +++ERIRQ++ +A++ LK R L ++ Sbjct: 248 LDDMTDVFQLSKERIRQLKDRALKTLKTSCRKSFLAEYI 286 >gi|2338708|gb|AAC46374.1| sigma factor RpoS [Vibrio cholerae] Length = 168 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 65/134 (48%), Positives = 104/134 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K M+E+NLRLV+ ++++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 35 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 94 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R++ +Q+ TIR+P+H+ +++ +RTAR +S ++ EPTPEEIA +L PV+ V Sbjct: 95 IRQTIERALMNQTRTIRLPIHVVKELNIYLRTARELSQRLDHEPTPEEIALELDRPVDDV 154 Query: 564 RKVLKITKEPISLE 577 K+L++ + S++ Sbjct: 155 TKMLRLNERITSVD 168 >gi|313647807|gb|EFS12253.1| RNA polymerase sigma factor rpoS [Shigella flexneri 2a str. 2457T] Length = 254 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 65/136 (47%), Positives = 106/136 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLETP 579 ++L++ + S++TP Sbjct: 210 SRMLRLNERITSVDTP 225 >gi|302802267|ref|XP_002982889.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii] gi|302818650|ref|XP_002990998.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii] gi|300141329|gb|EFJ08042.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii] gi|300149479|gb|EFJ16134.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii] Length = 292 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 88/247 (35%), Positives = 137/247 (55%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+ A + MV +NL LVI VA+K+ +G DLIQEG GL+ EKFD G Sbjct: 37 LRRKLKHAKRCRTNMVSSNLGLVIKVARKFGLKGTTIEDLIQEGINGLLHGVEKFDTSRG 96 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++ STY +WW++ ++ R+ +S ++P+H+ D +V++T R+ + PT EE+A Sbjct: 97 FRLSTYVLWWIELSVRRASVKRSIMCQVPMHLFDTHTRVLKTRARIFEERGTFPTNEEVA 156 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + V + + P SL+ + D L + + D S L A +A L+E Sbjct: 157 TILGTTAQKVHLAANLMRHPKSLDDNVPGCDNVTLLEILPDPEVESSLLVAEKALLKEQL 216 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +VL L PRE+ VL +R+GIG D TLEE+ F ++RER+RQIE +A+ K+ Sbjct: 217 DKVLNLLKPREKEVLTLRYGIGDGRDRTLEELSHHFNLSRERVRQIEKRALAKIHELGGK 276 Query: 674 KKLRSFL 680 + L SF+ Sbjct: 277 ELLASFV 283 >gi|78778962|ref|YP_397074.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9312] gi|78712461|gb|ABB49638.1| putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9312] Length = 307 Score = 152 bits (384), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 88/232 (37%), Positives = 145/232 (62%), Gaps = 9/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEEIAKKLAMPVEG 562 ++Q + R+++ QS TIRIPV++ +K+ K +R+A+ ++K P +E+A++L + E Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTK-LRSAKSKLMQLKGITPNSDELAEELKITKEE 183 Query: 563 VRKVLKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-- 617 + ++L I++ T D S L D + + P++ A A + ++L Sbjct: 184 IDELLSCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWKLLDK 242 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+LT +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 243 ANLTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|300689719|ref|YP_003750714.1| RNA polymerase sigma factor [Ralstonia solanacearum PSI07] gi|299076779|emb|CBM09897.1| putative RNA polymerase sigma factor [Ralstonia solanacearum PSI07] Length = 907 Score = 151 bits (382), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 83/226 (36%), Positives = 128/226 (56%), Gaps = 7/226 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + M++ANLRLV+ +A+ + GL+ DLIQEGN+GL+KA ++FDW G++FST A+WW+ Sbjct: 550 RDHMMQANLRLVMDIARHRMHSGLRVEDLIQEGNLGLLKAVDRFDWRRGFRFSTMAIWWI 609 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQ I R I D + IR+PVH+ KI + R + + + E A M ++ Sbjct: 610 KQQIGRGIFDTALEIRLPVHIHQKISRGRRETESFEHVRGKPASLSERATICNMTLDKFE 669 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + EP+S+ E +G + + + + P + + VL L ++ Sbjct: 670 LAARALSEPLSI------EGAQQVG-YFKSEESDEPFARMSEDDDARLVEEVLTKLKTKD 722 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 VLR+RFGIG+ TLE++G+ VTRER+RQIEA A++KL P Sbjct: 723 AEVLRLRFGIGVLEALTLEQIGEILGVTRERVRQIEAAAMQKLSSP 768 >gi|296134902|ref|YP_003642144.1| RNA polymerase sigma factor RpoS [Thiomonas intermedia K12] gi|295795024|gb|ADG29814.1| RNA polymerase sigma factor RpoS [Thiomonas intermedia K12] Length = 351 Score = 151 bits (382), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 135/230 (58%), Gaps = 8/230 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ MVE NLRLV+S+AK Y RG DLI+EGN+GL+ A EKF+ G++FSTYA WW Sbjct: 111 ARQAMVEHNLRLVVSIAKAYVGRGAALGDLIEEGNLGLIHAIEKFEPERGFRFSTYASWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK--IKREPTPEEIAKKLAMPVE 561 ++Q+I R++ Q TIR+PVH+ ++++V+R + + + + + E++A L E Sbjct: 171 IRQSIERALMQQVRTIRLPVHVIRELNQVLRARKHLEQAADYRGQTSDEDVAALLGRSTE 230 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LA 618 V +L + ++P SL+ + D D+NA+S + Q RE V + Sbjct: 231 EVADLLALAEQPTSLDALRETQSGESYADQFADQNALSMEE---QTQTREVEALVDSWVG 287 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE V+ RFG+ TLE + ++ +TRER+RQI+ +++ KLK Sbjct: 288 ELAEREREVIEARFGLHGRELETLESLAQRLGLTRERVRQIQQESLLKLK 337 >gi|126695941|ref|YP_001090827.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9301] gi|126542984|gb|ABO17226.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9301] Length = 307 Score = 151 bits (382), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 87/232 (37%), Positives = 146/232 (62%), Gaps = 9/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEEIAKKLAMPVEG 562 ++Q + R+++ QS TIRIPV++ +K+ K +R+A+ ++K P+ +E+A+++ + E Sbjct: 125 IRQGLNRALSTQSRTIRIPVNINEKLTK-LRSAKSKLMQLKGIPPSTDELAEEMKITKEE 183 Query: 563 VRKVLKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-- 617 + ++L I++ T D S L D + + P++ A A + ++L Sbjct: 184 IDELLSCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWKLLDK 242 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+LT +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 243 ANLTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|258648463|ref|ZP_05735932.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] gi|260851219|gb|EEX71088.1| RNA polymerase sigma factor [Prevotella tannerae ATCC 51259] Length = 283 Score = 151 bits (382), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 87/263 (33%), Positives = 148/263 (56%), Gaps = 4/263 (1%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + IS E I++ E V + R+ + A + +V ANLR V+SVAK+Y +G+ +D Sbjct: 23 LSEISREPRITVEEE---VELGRRAKNGDEAAVERLVRANLRFVVSVAKQYQGQGISLID 79 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGN+GL++AA +FD G+KF +YA+WW++Q+I +I ++S IR+P + I K+ Sbjct: 80 LINEGNLGLIQAAHRFDDTRGFKFISYAVWWIRQSILLAITEKSRLIRLPQNQMSSIQKI 139 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 +R + +R P+ EEI +++ + E VR L++ +P+S++ P+ +++ L + + Sbjct: 140 LRFYNQYMQDYERPPSIEEICEQMQVTEERVRLALQLQNKPLSIDAPLTEDEARTLSERL 199 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 S ++ R R+L L P E V+ G +LEE+G + ++ Sbjct: 200 RSDKGSSADGPLLKEAERWKVERMLNLLPPLERSVIEYYLGFK-GQGISLEEIGNRIGLS 258 Query: 653 RERIRQIEAKAIRKLKHPSRSKK 675 RER+RQI+ KAI L+ S K Sbjct: 259 RERVRQIKVKAIMILRRHHESTK 281 >gi|318066969|emb|CBY89099.1| RNA polymerase sigma70 factor [Halomonas salina] Length = 366 Score = 151 bits (381), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 123/397 (30%), Positives = 188/397 (47%), Gaps = 55/397 (13%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILEAYDATQD 80 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 R + DL + GF EG D +E EG + + Sbjct: 81 EEAPGR-LSDLFS--------GFIDPDEGIPGVAEADVPEEP-----VVAEGASDEDDED 126 Query: 237 SKDDRSKVDSP-PENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELR 295 ++D+ P PE A + E + + + A + + L +AE++ + Sbjct: 127 AEDEDDSGGGPDPEEARARFEQIREQNESARQAIDA-NGRGSAQAQAELARLAELFSPI- 184 Query: 296 SLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGE 355 K++ + +LVG + ++ VEQ+ K +M Sbjct: 185 -------------------KLVPKHFERLVGQVRIS-------VEQIRAQEKAVMQ---- 214 Query: 356 LLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKS 415 + + R F++ G E W+ DF +I+ + Sbjct: 215 --LCVKKAKVPRKTFIKAFPGNESRQDWLD---DFMAXXXXXXXXXXXXLKGEIQRSQRK 269 Query: 416 ISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I++E +S+++ + + + G +A AKKEMVEA+LRLVIS+A+KY +RGL FLD Sbjct: 270 IALEEEMVPLSVTDLKEVNRWLSIGRAKARRAKKEMVEAHLRLVISIAQKYPHRGLPFLD 329 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 L QEG+IGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 330 LFQEGHIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 366 >gi|303235620|ref|ZP_07322227.1| RNA polymerase sigma factor RpoD family protein [Prevotella disiens FB035-09AN] gi|302484067|gb|EFL47055.1| RNA polymerase sigma factor RpoD family protein [Prevotella disiens FB035-09AN] Length = 290 Score = 151 bits (381), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 91/277 (32%), Positives = 151/277 (54%), Gaps = 24/277 (8%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP------------IGDE 583 + K R P+ E+A + +R+ +S++ P + Sbjct: 145 SNEFIQKHNRRPSIHELADLTGIDEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLASG 204 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D S ++ ++ L++ +Q L++ RE R++ FGIG + LE Sbjct: 205 DDSRTDKAVDFESMSDDLNAVLQNTLKD-----------RERRIVIECFGIGC-PEKGLE 252 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+G + +TRER+RQI KAI K++ +K L +L Sbjct: 253 EIGTEMALTRERVRQIREKAIEKIRLSGNAKVLMKYL 289 >gi|213610106|ref|ZP_03369932.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 103 Score = 151 bits (381), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 76/102 (74%), Positives = 83/102 (81%) Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 IGD++ SHLGDFIED PLDSA +LR T VLA LT RE +VLRMRFGI MNTD Sbjct: 1 IGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTD 60 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 HTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFLD Sbjct: 61 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 102 >gi|294338839|emb|CAZ87173.1| RNA polymerase sigma factor rpoS [Thiomonas sp. 3As] Length = 351 Score = 151 bits (381), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 85/230 (36%), Positives = 135/230 (58%), Gaps = 8/230 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ MVE NLRLV+S+AK Y RG DLI+EGN+GL+ A EKF+ G++FSTYA WW Sbjct: 111 ARQAMVEHNLRLVVSIAKAYVGRGAALGDLIEEGNLGLIHAIEKFEPERGFRFSTYASWW 170 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK--IKREPTPEEIAKKLAMPVE 561 ++Q+I R++ Q TIR+PVH+ ++++V+R + + + + + E++A L E Sbjct: 171 IRQSIERALMQQVRTIRLPVHVIRELNQVLRARKHLEQAADYRGQTSDEDVAALLGRSTE 230 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LA 618 V +L + ++P SL+ + D D+NA+S + Q RE V + Sbjct: 231 EVTDLLALAEQPTSLDALRETQSGESYADQFADQNALSMEE---QTQTREVEALVDSWVG 287 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE V+ RFG+ TLE + ++ +TRER+RQI+ +++ KLK Sbjct: 288 ELAEREREVIEARFGLHGRELETLESLAQRLGLTRERVRQIQQESLLKLK 337 >gi|157412994|ref|YP_001483860.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9215] gi|157387569|gb|ABV50274.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9215] Length = 307 Score = 151 bits (381), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 86/232 (37%), Positives = 146/232 (62%), Gaps = 9/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK EM+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 65 AKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWW 124 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPEEIAKKLAMPVEG 562 ++Q + ++++ QS TIRIPV++ +K+ K +R+A+ ++K PT +E+++++ + E Sbjct: 125 IRQGLNKALSTQSRTIRIPVNINEKLTK-LRSAKSKLMQLKGIPPTSDELSEEMKITKEE 183 Query: 563 VRKVLKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-- 617 + ++L I++ T D S L D + + P++ A A + ++L Sbjct: 184 IEELLSCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWKLLDK 242 Query: 618 ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+LT +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 243 ANLTEKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|3077740|dbj|BAA25788.1| SigC [Cyanidium caldarium] Length = 424 Score = 151 bits (381), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 102/311 (32%), Positives = 167/311 (53%), Gaps = 57/311 (18%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--------- 467 S G+S E R+ + R+ A+ +V +NLRLV+++A +Y +R Sbjct: 123 STTVGVSEEEVRNEIERGRR-------ARARLVASNLRLVLAIANRYKSRAVVRSAWKSR 175 Query: 468 --------------LQ-----FL-DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 LQ FL DLIQEG +GL++AAEKFD G+KFSTYA WW++QA Sbjct: 176 SKGGMDMPSHEKVRLQRQHNIFLGDLIQEGALGLIRAAEKFDPSKGFKFSTYATWWIRQA 235 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R +++ S TIR+P H+ + + ++ R R+ + +KR PT EE+A+ M ++ ++K+ Sbjct: 236 IQRCVSEHSRTIRLPNHVTESLRQIYRMRARLQHVLKRPPTDEEVAEACNMTLKRLKKIT 295 Query: 568 KIT--KEPISLETPIGDEDTSHLGDFIEDKNAVSPLD-------------SAIQAN-LRE 611 + + +SLE P +E S + + +PL A++ N +RE Sbjct: 296 QHAWKTQTLSLEGPPNNEAHS----LYKSQQGEAPLSIGSIIEATEETPEEALERNCMRE 351 Query: 612 TTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 VL +L +E +LR+R+GI + H+ EE+ +F + IR IE++A+RKL+HP Sbjct: 352 DVECVLRTLPFQEREILRLRYGISDDERPHSTEELSARFQLPVHTIRLIESRALRKLRHP 411 Query: 671 SRSKKLRSFLD 681 S + LR +++ Sbjct: 412 SLAAMLREYVN 422 >gi|318041996|ref|ZP_07973952.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 318 Score = 150 bits (380), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 81/231 (35%), Positives = 145/231 (62%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 75 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 134 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ ++ R+ + +P+ +++++ + +PV+ V Sbjct: 135 IRQGLNRALSTQSRTIRIPVNVNEKLTRLRAAKARLLQRHGSQPSAQQLSEAMDLPVQEV 194 Query: 564 RKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + D + L D + ++ + P++ A ++L + Sbjct: 195 EDLLGCELRSVTVSLQGVVKSKSDPTELVDVLPSED-LPPMERCELAERNAAVWKLLDQS 253 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E V+ +RFG+ G + TL EV + +RE RQ+ +A+RKL+ Sbjct: 254 NLTPKERTVVMLRFGLDGSHEWRTLAEVARLLGCSREYCRQVVQRALRKLR 304 >gi|116070855|ref|ZP_01468124.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] gi|116066260|gb|EAU72017.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. BL107] Length = 239 Score = 150 bits (380), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 85/227 (37%), Positives = 141/227 (62%), Gaps = 7/227 (3%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW++Q Sbjct: 1 MITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWWIRQG 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + R+++ QS TIRIPV++ +K+ K+ R+ + T E++A+ + +P+ V +L Sbjct: 61 LNRALSTQSRTIRIPVNVNEKLTKLRAAKARVMQRNGLTATAEQLAEFMNLPLTEVEDLL 120 Query: 568 --KITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--ASLTP 622 ++ +SL+ + + D S L D + + + P++ A A + +L A+LTP Sbjct: 121 ACELRSVTVSLQGIVKSKSDPSELVDILPSEE-IPPMERAEIAERSASVWALLSKANLTP 179 Query: 623 REERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +V+ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 180 KEHKVVTLRFGLDGTNEWRTLAEVARHMNCSREYCRQVVQRALRKLR 226 >gi|225620189|ref|YP_002721446.1| DNA-directed RNA polymerase sigma-70/sigma-32 subunit RpoD [Brachyspira hyodysenteriae WA1] gi|225215008|gb|ACN83742.1| RpoD, DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Brachyspira hyodysenteriae WA1] Length = 287 Score = 150 bits (380), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 90/248 (36%), Positives = 145/248 (58%), Gaps = 6/248 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA + +++ +NLR VI++AK+Y N GL DLI EGN+GL+ AA++FD G Sbjct: 44 LKEGDAEA---RSKLIRSNLRFVITIAKQYKNSGLLLEDLISEGNLGLIIAADRFDPDKG 100 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y F +YA++W++Q+I R+I ++S IR+P++ + + R + K P E+A Sbjct: 101 YHFISYAVYWIRQSILRAINEKSRLIRLPLNKAMDLVDLERAVHQYYYKSGYTPDVNELA 160 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 L + ++ ++ E ISLE D L D IEDK + + ++AI L E Sbjct: 161 TILNKDPNDILHIMSMSTEHISLEGEYNYDGMKDRLIDTIEDKTSKNVEETAINKELMEE 220 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + SL+ E++++ R+GI TL+EVG+ F T+ERIRQIE KA+RK+ H + Sbjct: 221 LKTAIESLSDIEKQIINARYGIDQER-KTLKEVGEMFSFTKERIRQIEKKALRKM-HSQK 278 Query: 673 SKKLRSFL 680 L+ FL Sbjct: 279 YSSLKDFL 286 >gi|194699556|gb|ACF83862.1| unknown [Zea mays] gi|223944677|gb|ACN26422.1| unknown [Zea mays] Length = 496 Score = 150 bits (379), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 88/252 (34%), Positives = 146/252 (57%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N RLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 249 ESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTY 308 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++AD S + R+P ++ +++ +R A+ PT E IA Sbjct: 309 VYWWIRQGVSRALADNSRSFRLPTYLHERL-VAIRGAKYALEDQGIAPTVENIAESLNIS 367 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KV+ + ++ SL GD L +IED+N + P + L+ Sbjct: 368 EKKVHNATEAVHKVISLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEERYLK 423 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++ ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 424 EEVNSLINSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLVAMEKLKH 482 Query: 670 PSRSKKLRSFLD 681 +R + L + L+ Sbjct: 483 AARREHLDALLE 494 >gi|307718430|ref|YP_003873962.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] gi|306532155|gb|ADN01689.1| RNA polymerase sigma factor [Spirochaeta thermophila DSM 6192] Length = 281 Score = 150 bits (379), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 89/248 (35%), Positives = 148/248 (59%), Gaps = 8/248 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + +R+G+ EA ++ ++ ANLRLV+ +A +++ + LDLIQEGNIGL Sbjct: 28 LSPEEERELGKRIRRGDPEA---RERLITANLRLVVKIALQFSVPDIPLLDLIQEGNIGL 84 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++AAEKFD+ +FSTYA WW++QAI R++ ++ IR+P D + K+ + + + Sbjct: 85 IRAAEKFDYRRNIRFSTYAAWWIRQAIHRALMNKRRPIRLPNRKEDVLRKIEKAKQLLEQ 144 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REP+ EEIA+ L M E V +++ + +E +SLET I D + L D SP Sbjct: 145 RLMREPSTEEIAELLGMETEEVEELINLGQEVVSLETQIND-GSMDLHDVC--PGGASPE 201 Query: 602 DSAIQANLRE-TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + RE T T + +L RE V+ R+ + +TL+ + + ++ E +RQIE Sbjct: 202 EEVCRKACREDTLTLIQRTLDSRESEVVLHRYAL-TGPRYTLKTLSEHLGISPETVRQIE 260 Query: 661 AKAIRKLK 668 +A+RKL+ Sbjct: 261 IRALRKLR 268 >gi|94502401|ref|ZP_01308854.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] gi|94451042|gb|EAT14014.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] Length = 341 Score = 150 bits (379), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 82/233 (35%), Positives = 142/233 (60%), Gaps = 1/233 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V+ANLR VIS+AK+Y N+GL DLI EGN GL+K +FD G+K +Y +WW++Q+ Sbjct: 108 LVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWWIRQS 167 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I ++I+D++ +R P + +KV +T ++ K+K P+ + I+ L + + V + L Sbjct: 168 ILQAISDKARCVRYPTNKLAFYNKVNKTYSKLEQKLKMPPSIKYISDYLNVSEKDVEEAL 227 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + + SL+ P+G+ D S+L D I+ + S + +L++ +L +L+ RE ++ Sbjct: 228 INSIKHTSLDAPLGEGDNSNLYDVIKIDESPKTDHSLEKESLQQDIKILLETLSERESQI 287 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + + +G+G + LE++ +TRER RQIE AI++LK SR + L S+L Sbjct: 288 ITLHYGLGCFS-MNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKEILLSYL 339 >gi|94499982|ref|ZP_01306517.1| RNA polymerase sigma-A factor [Oceanobacter sp. RED65] gi|94427840|gb|EAT12815.1| RNA polymerase sigma-A factor [Oceanobacter sp. RED65] Length = 368 Score = 150 bits (379), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 74/224 (33%), Positives = 135/224 (60%), Gaps = 1/224 (0%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++V+ANLRL + VA++YT +G++ +LIQEG +GL+K AE+++ GY+F+TYA WW+ Sbjct: 139 RNQLVQANLRLAMHVARQYTGKGMELEELIQEGTLGLIKGAERYNINKGYRFTTYAYWWI 198 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +QAI +++++ +RIP ++ D+I KV R R P +EI+ L M V+ +R Sbjct: 199 QQAIKGALSEKRGIVRIPTNVTDRIVKVERCKYEFFKANGRYPNAKEISSILGMDVDHIR 258 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 L +T S++ PI DE + + + + ++ +P + + +++ L R+ Sbjct: 259 STLAVTNVGDSIDEPIYDEGLT-MQESMASESIATPSSQLDEEDGEAFLEKLIGELPKRQ 317 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R+ GIG+ + +E+ Q VT ER RQ+ ++IR+LK Sbjct: 318 QFIVRLYHGIGIGQTYPFKEIAPQIGVTLERTRQLYHESIRQLK 361 >gi|161833810|ref|YP_001598006.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri GWSS] gi|152206300|gb|ABS30610.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri GWSS] Length = 351 Score = 150 bits (379), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 82/233 (35%), Positives = 142/233 (60%), Gaps = 1/233 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V+ANLR VIS+AK+Y N+GL DLI EGN GL+K +FD G+K +Y +WW++Q+ Sbjct: 118 LVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWWIRQS 177 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I ++I+D++ +R P + +KV +T ++ K+K P+ + I+ L + + V + L Sbjct: 178 ILQAISDKARCVRYPTNKLAFYNKVNKTYSKLEQKLKMPPSIKYISDYLNVSEKDVEEAL 237 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + + SL+ P+G+ D S+L D I+ + S + +L++ +L +L+ RE ++ Sbjct: 238 INSIKHTSLDAPLGEGDNSNLYDVIKIDESPKTDHSLEKESLQQDIKILLETLSERESQI 297 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + + +G+G + LE++ +TRER RQIE AI++LK SR + L S+L Sbjct: 298 ITLHYGLGCFS-MNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKEILLSYL 349 >gi|317969234|ref|ZP_07970624.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0205] Length = 311 Score = 150 bits (379), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 81/231 (35%), Positives = 142/231 (61%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW Sbjct: 66 AKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSTYAYWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q + R+++ QS TIRIPV++ +K+ ++ R+ + P +++A L +P++ + Sbjct: 126 IRQGLNRALSTQSRTIRIPVNVNEKLTRLRAAKARLMQRNGMAPNSQQLATALGLPLDEI 185 Query: 564 RKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--A 618 +L ++ +SL+ + D + L D + ++ + P++ A ++L + Sbjct: 186 EDLLGCELRSVTVSLQGIVKSKSDPTELVDVLPSED-LPPMERCELAERNAAVWKLLDQS 244 Query: 619 SLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LTP+E V+ +RFG+ G + TL EV + +RE RQ+ +A+RKL+ Sbjct: 245 NLTPKERTVVMLRFGLDGSHEWRTLAEVARLLGCSREYCRQVVQRALRKLR 295 >gi|282859310|ref|ZP_06268422.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282587890|gb|EFB93083.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 290 Score = 150 bits (379), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 93/280 (33%), Positives = 152/280 (54%), Gaps = 30/280 (10%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--------------G 581 K R P+ E+A+ + +R+ +S++ P G Sbjct: 145 TNEFIQKHNRRPSIHELAEMTGIDEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSG 204 Query: 582 DEDTSHLG-DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D+ + G DF ++ L + +Q L+E RE +++ FGIG + Sbjct: 205 DDSRTDKGVDF---ESMSDDLRAVLQNTLKE-----------REIKIVTECFGIGCQ-EK 249 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEE+G + +TRER+RQI KAI K++ ++ L +L Sbjct: 250 GLEEIGTEMALTRERVRQIREKAIEKIRESGNARVLMKYL 289 >gi|315185550|gb|EFU19319.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta thermophila DSM 6578] Length = 281 Score = 150 bits (379), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 89/248 (35%), Positives = 147/248 (59%), Gaps = 8/248 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + +R+G+ +A++ ++ ANLRLV+ +A +++ + LDLIQEGNIGL Sbjct: 28 LSPEEERELGKRIRRGD---PVARERLITANLRLVVKIALQFSVPDIPLLDLIQEGNIGL 84 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A EKFD+ +FSTYA WW++QAI R++ ++ IR+P D + K+ + R + Sbjct: 85 IRAVEKFDYRRNIRFSTYAAWWIRQAIHRALMNKRRPIRLPNRKEDVLRKIEKARRLLEQ 144 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ REP+ EEIA L M E V +++ + +E +SLET I D + L D SP Sbjct: 145 RLMREPSTEEIADLLGMESEEVEELINLGQEVVSLETQIND-GSMDLHDVC--PGGASPE 201 Query: 602 DSAIQANLRE-TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + RE T T + +L RE V+ R+ + +TL+ + +Q ++ E +RQIE Sbjct: 202 EEVCRKACREDTLTLIQRTLDSRESEVVLHRYAL-TGPRYTLKTLSEQMGISPETVRQIE 260 Query: 661 AKAIRKLK 668 +A+RKL+ Sbjct: 261 IRALRKLR 268 >gi|3893860|gb|AAC78467.1| RNA polymerase sigma factor 1 [Zea mays] Length = 398 Score = 150 bits (379), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 88/252 (34%), Positives = 146/252 (57%), Gaps = 16/252 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N RLVIS+A+KY N G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 151 ESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTY 210 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++AD S + R+P ++ +++ +R A+ PT E IA Sbjct: 211 VYWWIRQGVSRALADNSRSFRLPTYLHERL-VAIRGAKYALEDQGIAPTVENIAESLNIS 269 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 KK+ E V KV+ + ++ SL GD L +IED+N + P + L+ Sbjct: 270 EKKVHNATEAVHKVISLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEERYLK 325 Query: 611 ETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++ ++L RE ++R+ GIG HT E++ +QF ++RER+RQ+ A+ KLKH Sbjct: 326 EEVNSLINSTLNERERDIIRLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLVAMEKLKH 384 Query: 670 PSRSKKLRSFLD 681 +R + L + L+ Sbjct: 385 AARREHLDALLE 396 >gi|3451022|gb|AAC32644.1| RNA polymerase sigma factor [Escherichia coli RS218] Length = 220 Score = 150 bits (378), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 62/128 (48%), Positives = 101/128 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITK 571 ++L++ + Sbjct: 210 SRMLRLNE 217 >gi|320103352|ref|YP_004178943.1| RNA polymerase sigma-38 subunit RpoS [Isosphaera pallida ATCC 43644] gi|319750634|gb|ADV62394.1| RNA polymerase, sigma 38 subunit, RpoS [Isosphaera pallida ATCC 43644] Length = 287 Score = 150 bits (378), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 92/262 (35%), Positives = 153/262 (58%), Gaps = 14/262 (5%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K I+ +S +E R + V +G+ A+ +V+ANLRLV+S+A+ Y +GL D Sbjct: 20 LKQINETPLLSAAEERELGRRVSEGDY---FARDHLVKANLRLVVSIARGYNGKGLGLDD 76 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+E N+GL++A E FD+ +FSTYA +W+KQ+I R++ + IR+P +M + K Sbjct: 77 LIEERNLGLIRAVETFDYSQNIRFSTYASYWIKQSIRRAVMNNGKPIRLPAYMVTLLAKW 136 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMP---VEGVRKVLKITK-EPISLETPIGDEDTS-H 587 + +++ ++ R PTPEE+ K+L + + V K ++++K +P S GDEDT Sbjct: 137 RQATTKLTARLGRPPTPEEVGKELRLSPRKIPIVSKAMEVSKLQPYS----EGDEDTGVP 192 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI--GMNTDHTLEEV 645 L D + D N SP + + + +L L RE V+R+RFG+ + TL ++ Sbjct: 193 LDDVLIDGNNRSPDELMAHDDDQARMKILLDELDERESAVIRLRFGLDESVPEAMTLRQI 252 Query: 646 GKQFCVTRERIRQIEAKAIRKL 667 G++ +TRER+RQ+E A+ KL Sbjct: 253 GERLGLTRERVRQLEQAALTKL 274 >gi|294673146|ref|YP_003573762.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294474130|gb|ADE83519.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 290 Score = 150 bits (378), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 82/244 (33%), Positives = 142/244 (58%), Gaps = 2/244 (0%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RKG + AK+++V ANLR V+SVAK+Y ++G+ +DLI EGN+GL+ AA+KFD G Sbjct: 43 IRKGGRTGAKAKEKLVNANLRFVVSVAKQYQHQGIPLIDLISEGNVGLITAADKFDETRG 102 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I ++IAD S +R P +K+ K +R P+ EE++ Sbjct: 103 FKFISYAIWWIRQSILQAIADYSGMVRRPQSQIAISNKIKNATNAFMLKNQRNPSAEELS 162 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + +++ +E + K ++ S++ PI D+DT+ + D I + ++ Sbjct: 163 EIISLEIEKIEKAIQSEAHVASIDAPISDDDTTTMADSIASTAEYASDRKVDYESMCSDV 222 Query: 614 TRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 VL A L+ RE ++ FGIG + L+++G ++RER+RQI + + K++ + Sbjct: 223 MLVLGAVLSERERAIVVQSFGIGC-PERGLDDIGSSMGLSRERVRQIRERGLDKIRKSNM 281 Query: 673 SKKL 676 S L Sbjct: 282 SYIL 285 >gi|262038022|ref|ZP_06011434.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] gi|261747975|gb|EEY35402.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264] Length = 258 Score = 150 bits (378), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 86/221 (38%), Positives = 130/221 (58%), Gaps = 7/221 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ +NLRLVIS AKK GL +DLI EGNIGL+KA KFD+ G++FSTYA+WW Sbjct: 42 ARQLLILSNLRLVISTAKKLLGNGLPLIDLISEGNIGLIKAINKFDYEKGHRFSTYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I ++I + IRIP + +++ KV + K P E IAK++ + V Sbjct: 102 IKQSIKKAIINTGRDIRIPSYKYEQLSKVNKVITDYVAKYGESPPTEYIAKEVDLKESKV 161 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP--LDSAIQANLRETTTRVLASLT 621 +L ++ ISL IG D +L D + + + V + + +RE + LT Sbjct: 162 ILLLNEFQDVISLNETIG--DNIYLEDIVGNTDDVEEKIIKEDQLSEMRELLENI---LT 216 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 RE +L +R+G+ N HTL+E+G + +TRER+RQIE K Sbjct: 217 DREREILELRYGLYNNKIHTLKEIGAKLNITRERVRQIEKK 257 >gi|307565781|ref|ZP_07628247.1| sigma-70 region 2 [Prevotella amnii CRIS 21A-A] gi|307345508|gb|EFN90879.1| sigma-70 region 2 [Prevotella amnii CRIS 21A-A] Length = 290 Score = 150 bits (378), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 93/269 (34%), Positives = 154/269 (57%), Gaps = 8/269 (2%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGLKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--- 592 K R P+ E+A+ + +R+ +S++ P D+D + + D + Sbjct: 145 TNEFIQKHNRRPSIHELAEITGIDEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSG 204 Query: 593 EDKNAVSPLD-SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 ED +D ++ +LR +L RE +++ FGIG + LEE+G + + Sbjct: 205 EDSRTDKGVDFESMSDDLRAVLQN---TLKEREIKIVTECFGIGCQ-EKGLEEIGTEMAL 260 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TRER+RQI KAI K++ ++ L +L Sbjct: 261 TRERVRQIREKAIEKIRESGNARVLMKYL 289 >gi|4218586|emb|CAA10725.1| chloroplast sigma factor [Triticum aestivum] Length = 461 Score = 149 bits (377), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 90/251 (35%), Positives = 145/251 (57%), Gaps = 16/251 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E+ +A++ + +N+RLVIS+A+KY G++ DLIQ G IGL++ EKFD G++ STY Sbjct: 214 ESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTY 273 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++AD S T R+P ++ +++ +R A+ PT + IAK L + Sbjct: 274 VYWWIRQGVSRALADNSKTFRLPTYLHERL-IAIRGAKYALEDQGVSPTTQNIAKLLNIS 332 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS-PLDSAIQANLR 610 E V K L + ++ SL GD L +IED+N + P + L+ Sbjct: 333 EKKVHNATEAVNKALSLDQQAFPSLNGLPGDT----LHSYIEDQNVANDPWHGFEEWYLK 388 Query: 611 ETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E ++L S LT RE ++++ GIG HT E++ +QF ++RER+RQ+ A+ KLK Sbjct: 389 EEVNKLLNSNLTERERDIIQLYHGIGKQC-HTWEDISRQFGLSRERVRQVGLIAMEKLKQ 447 Query: 670 PSRSKKLRSFL 680 +R KKL + L Sbjct: 448 RARRKKLDALL 458 >gi|293977922|ref|YP_003543352.1| sigma-70 family RNA polymerase sigma factor [Candidatus Sulcia muelleri DMIN] gi|292667853|gb|ADE35488.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Sulcia muelleri DMIN] Length = 342 Score = 149 bits (377), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 82/233 (35%), Positives = 142/233 (60%), Gaps = 1/233 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V+ANLR VIS+AK+Y N+GL DLI EGN GL+K +FD G+K +Y +WW++Q+ Sbjct: 109 LVKANLRFVISIAKQYQNQGLSLSDLINEGNFGLIKGINRFDERKGFKCISYCVWWIRQS 168 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I ++I+D++ +R P + +KV +T ++ K+K P+ + I+ L + + V + L Sbjct: 169 ILQAISDKARCVRYPTNKLAFYNKVNKTYSKLEQKLKMPPSIKYISDYLNVSEKDVEEAL 228 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + + SL+ P+G+ D S+L D I+ + S + +L++ +L +L+ RE ++ Sbjct: 229 INSIKHTSLDAPLGEGDNSNLYDVIKIDESPKTDHSLEKESLQQDIKILLETLSERESQI 288 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + + +G+G + LE++ +TRER RQIE AI++LK SR + L S+L Sbjct: 289 ITLHYGLGCFS-MNLEKIAYLLKLTRERCRQIEMHAIKRLKKSSRKEILLSYL 340 >gi|3249723|gb|AAC26664.1| RNA polymerase sigma-like factor [Micromonospora olivasterospora] Length = 162 Score = 149 bits (377), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 80/162 (49%), Positives = 113/162 (69%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + REPTPEE+AK++ + Sbjct: 1 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQREFFQDLGREPTPEELAKEMDI 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V ++ + +EPISL+ IGDE S LGDFIED AV +D+ + L++ +VL Sbjct: 61 TPEKVLEIQQYAREPISLDQTIGDEGDSSLGDFIEDSEAVVAVDAVSFSLLQDQLQQVLQ 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE Sbjct: 121 TLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIE 162 >gi|6010720|gb|AAF01226.1|AF184095_1 mutant RpoS [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] Length = 254 Score = 149 bits (377), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 64/135 (47%), Positives = 105/135 (77%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V Sbjct: 150 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDV 209 Query: 564 RKVLKITKEPISLET 578 ++L++ + S++T Sbjct: 210 SRMLRLNERITSVDT 224 >gi|116075407|ref|ZP_01472667.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] gi|116067604|gb|EAU73358.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. RS9916] Length = 310 Score = 149 bits (376), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 89/244 (36%), Positives = 146/244 (59%), Gaps = 17/244 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KGE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D G Sbjct: 60 IKKGE----KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRG 115 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ R+ + + TP ++A Sbjct: 116 HRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRAAKARLMQRNGQAATPAQLA 175 Query: 554 KKLAMPVEGVRKVL--KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + + + V +L ++ +SL+ + D S L D + + + P++ QA + Sbjct: 176 EAMQISRAEVDDLLGCELRSVTVSLQGIVKSKSDPSELVDVLPSEE-LPPME---QAEID 231 Query: 611 ETTTRVL-----ASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T ++LTP+E V+ +RFG+ G N TL EV + +RE RQ+ +A+ Sbjct: 232 ERTASAWTLLDRSNLTPKERTVVMLRFGLDGSNEWRTLAEVARHMGCSREYCRQVVQRAL 291 Query: 665 RKLK 668 RKL+ Sbjct: 292 RKLR 295 >gi|325269444|ref|ZP_08136061.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|325855020|ref|ZP_08171736.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|327313288|ref|YP_004328725.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola F0289] gi|324988365|gb|EGC20331.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella multiformis DSM 16608] gi|325483998|gb|EGC86938.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|326946004|gb|AEA21889.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola F0289] Length = 290 Score = 149 bits (376), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 93/280 (33%), Positives = 151/280 (53%), Gaps = 30/280 (10%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--------------G 581 K R P+ E+A+ + +R+ +S++ P G Sbjct: 145 TNEFVQKHNRRPSIHELAELTGIDEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSG 204 Query: 582 DEDTSHLG-DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D+ + G DF + ++A L+ T L RE +++ FGIG + Sbjct: 205 DDSRTDRGVDF-------ESMSDDLRAVLQNT-------LKDREIKIVTECFGIGCQ-EK 249 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEE+G + +TRER+RQI KAI K++ ++ L +L Sbjct: 250 GLEEIGTEMGLTRERVRQIREKAIEKIRESGNARVLMKYL 289 >gi|89094249|ref|ZP_01167191.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89081504|gb|EAR60734.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 411 Score = 149 bits (376), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 135/228 (59%), Gaps = 6/228 (2%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +++E NLRLV VA ++ + G+ DLIQEGNIGL+KAA++F++ GY+FSTYA W + Sbjct: 176 RSKLIEKNLRLVYVVALRFKSSGVSLDDLIQEGNIGLLKAADRFNFVHGYRFSTYAFWCI 235 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + + ++ TI P ++++K+ + R + R N+ R P E+++ ++P + Sbjct: 236 QNVLKTALQKNYHTISRPSYLQEKLSVIKRESVRFLNQYGRYPGTTELSELTSIPEAMLE 295 Query: 565 KVLKITKEPISLETPIG----DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 K+ EP+SL P+ ED + + +ED NA++ A R R+ L Sbjct: 296 KIKSFPAEPLSLSQPVSRSQEGEDLT-VESTLED-NAMAAEKETDIALKRRMLERMSLRL 353 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +VL+MRFGI +T+HTLEE+ Q V+ ER+RQ++ A+ KL+ Sbjct: 354 NEREYKVLKMRFGIDCHTEHTLEEISHQLNVSVERVRQLQKIALEKLQ 401 >gi|260590675|ref|ZP_05856133.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] gi|260537416|gb|EEX20033.1| RNA polymerase sigma-70 factor [Prevotella veroralis F0319] Length = 290 Score = 149 bits (376), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 93/280 (33%), Positives = 151/280 (53%), Gaps = 30/280 (10%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--------------G 581 K R P+ E+A+ + +R+ +S++ P G Sbjct: 145 TNEFVQKHNRRPSIHELAELTGIEESRIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSG 204 Query: 582 DEDTSHLG-DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D+ + G DF + ++A L+ T L RE +++ FGIG + Sbjct: 205 DDSRTDKGVDF-------ESMSDDLRAVLQNT-------LKDREIKIVTECFGIGCQ-EK 249 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEE+G + +TRER+RQI KAI K++ ++ L +L Sbjct: 250 GLEEIGTEMGLTRERVRQIREKAIEKIRESGNARVLMKYL 289 >gi|198283622|ref|YP_002219943.1| RpoD family RNA polymerase sigma-70 subunit [Acidithiobacillus ferrooxidans ATCC 53993] gi|218667581|ref|YP_002426250.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248143|gb|ACH83736.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519794|gb|ACK80380.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] Length = 316 Score = 149 bits (375), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 131/227 (57%), Gaps = 1/227 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNR-GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A+ +VE NLRLV+ +A++Y + L LDLI+EGN+GL++AAE FD G++FSTYA W Sbjct: 85 ARNRLVECNLRLVVRIARRYQRQHTLPLLDLIEEGNLGLIRAAELFDPTRGFRFSTYATW 144 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++Q I R I QS +R+P H+ + V+R++R+++ ++ +P E++A+ + V Sbjct: 145 WIRQNIDRGIMQQSRVVRLPTHIIKNLSAVLRSSRQIAQTMQGDPRVEDVAQVMGKSVAY 204 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 V L+ + +SL+ P E + L + D + S + +L+ R L L Sbjct: 205 VEDCLQQDRRVVSLDAPSRWEGSPSLAQTLVDADQADLGASLEEQDLQRQIHRALLGLDV 264 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R +L RFGI +L +GK+ V+ ER+RQ++ +A+ L+ Sbjct: 265 RHRTILIRRFGIDGQDGASLSAIGKELGVSHERVRQLQEEALDLLRQ 311 >gi|255532556|ref|YP_003092928.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255345540|gb|ACU04866.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 289 Score = 149 bits (375), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 87/242 (35%), Positives = 141/242 (58%), Gaps = 4/242 (1%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR +VS +R G+ EA +++ NLR V+SVAKKY ++GL+ DLI EGNIGL+KAA Sbjct: 36 EFR-LVSAIRNGDQEAL---HRLIKGNLRFVVSVAKKYQDKGLKLGDLINEGNIGLIKAA 91 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +FD G+KF T+A+WWV+QAI ++IA+Q IR+P + I ++ + ++ +++R Sbjct: 92 HRFDATRGFKFITFAVWWVRQAILQAIAEQRRLIRLPGNQLLGISRLNQAVLKLEQQLER 151 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 PT EE+A V+ V SL+ I +E S L + I D+ + Sbjct: 152 MPTVEELAVYTGFTVDKVMDYTANAAFTYSLDDVIKEESGSTLMEVIADEATHQTDHFTL 211 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 A+L R L L+ RE++++ + +G+ +E++ K +++ERIRQ++ KA + Sbjct: 212 AASLSTDLNRALDILSKREQKIIILFYGLNGYPQTAIEDMQKILKLSKERIRQLKDKAHK 271 Query: 666 KL 667 L Sbjct: 272 TL 273 >gi|149908225|ref|ZP_01896889.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] gi|149808767|gb|EDM68700.1| hypothetical DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] Length = 284 Score = 148 bits (374), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 87/228 (38%), Positives = 134/228 (58%), Gaps = 4/228 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK M+EANLRLVISVAK+Y + +D+IQEGN GL++A EKFD G++FSTYA+WW Sbjct: 43 AKNRMIEANLRLVISVAKRYQYSVIPLVDIIQEGNTGLIRAVEKFDPNKGFRFSTYAVWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHK-VVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I RSI + TIRIP+H+ K+HK + + A+ + + + IAK L V+ Sbjct: 103 IKNNIERSIMNSDRTIRIPIHV-GKMHKSIAKVAKELGLDVGSDNDLVVIAKVLETDVDE 161 Query: 563 VRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 V VL +SL+ I +E + L D IED++ +P + R+ +L +L Sbjct: 162 VMDVLSYYFSELSLDKGIVTDNESVTTLVDIIEDQSIRTPSAEIEGGSTRDYLLALLENL 221 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E +V+ +RFG+ +L +G++ ++RE++R I +R+LK Sbjct: 222 PAYERQVVELRFGLTGEEPLSLSRIGERLSMSREKVRIIIRTTLRRLK 269 >gi|168704590|ref|ZP_02736867.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 278 Score = 148 bits (374), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 87/257 (33%), Positives = 152/257 (59%), Gaps = 7/257 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 ++ I+ ++ + + + + +G+ EA + +MV ANLRLV+++A+ YT +GL D Sbjct: 20 LREINETALLTADQEKSLARAIAQGDTEA---RDQMVRANLRLVVNIARGYTGKGLALQD 76 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI+EGN+GL++A E FD + +FSTYA +W+KQ+I R++ + + TIRIP +M + + K Sbjct: 77 LIEEGNLGLLRAVEGFDPTMNTRFSTYASYWIKQSIKRALVNTAKTIRIPAYMVELLAKW 136 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGD 590 R ++S+++ R PT EE+ K L +P + + + K + + P D+ + + Sbjct: 137 RRATNKLSDELGRPPTHEEVGKLLGLPKKKLAIIKKAIR--VYNAAPQADQGDQGWSIEE 194 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + D A +P ++ + + +L + RE VLRMRFG+ TL+E+G+ Sbjct: 195 MLMDNRAKTPDTEMVETDDLKQVLILLEKMDQREATVLRMRFGLNDEEPKTLKEIGECLG 254 Query: 651 VTRERIRQIEAKAIRKL 667 +TRER+RQIE +A+ KL Sbjct: 255 LTRERVRQIEGEALAKL 271 >gi|254282580|ref|ZP_04957548.1| RNA polymerase principal sigma factor SigA [gamma proteobacterium NOR51-B] gi|219678783|gb|EED35132.1| RNA polymerase principal sigma factor SigA [gamma proteobacterium NOR51-B] Length = 429 Score = 148 bits (373), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 78/244 (31%), Positives = 136/244 (55%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +R + + A+ +V NLRLV S+A +Y RG+ +LDL+QEG +GL++AAEK Sbjct: 172 RDSLKALRSALNDYTKARDALVMHNLRLVYSIAARYKGRGVNYLDLVQEGTLGLIRAAEK 231 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F++ GY+FSTY W+ Q++ R + D IR P H+++++ ++ R + + EP Sbjct: 232 FEFEKGYRFSTYCFNWITQSVRRYVGDVGSLIRFPTHVQEQMGRLYREKALETARTGIEP 291 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 E +AK L M ++ R++L++ +SL+ P D+D + D + D+A Q Sbjct: 292 DEETLAKNLGMDLDKTRELLQLRNLGVSLDAPRFDDDEGTMVDSMTGDTFGDTEDTAEQD 351 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +L T + +L P E V+ R+G+ + E+ + V+RE +RQ+E ++KL Sbjct: 352 SLNRFLTNAIDTLEPAERDVVTARWGLHSGPPLSRAEIADKLGVSREWVRQLERSGLKKL 411 Query: 668 KHPS 671 + S Sbjct: 412 RGQS 415 >gi|3249721|gb|AAC26663.1| RNA polymerase sigma-like factor [Micromonospora echinospora] Length = 161 Score = 148 bits (373), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 78/162 (48%), Positives = 109/162 (67%), Gaps = 1/162 (0%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + Sbjct: 1 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDI 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V ++ + +EPISL+ IGDE S LGDFIED AV +D A+ +L + + + Sbjct: 61 TPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVD-AVSFSLLQDQLQQVL 119 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +P RV MRFG+ TL+E+G+ + VTRERIRQIE Sbjct: 120 QGSPSVRRVWSMRFGLTDGQPRTLDEIGQVYGVTRERIRQIE 161 >gi|300870272|ref|YP_003785143.1| DNA directed RNA polymerase sigma subunit [Brachyspira pilosicoli 95/1000] gi|300687971|gb|ADK30642.1| DNA directed RNA polymerase sigma subunit [Brachyspira pilosicoli 95/1000] Length = 284 Score = 148 bits (373), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 86/249 (34%), Positives = 143/249 (57%), Gaps = 6/249 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ +A + +++ +NLR VIS+AK+Y N GL DLI EGN+GL+ A ++FD G Sbjct: 41 LKKGDSQA---RAKLIRSNLRFVISIAKQYKNSGLLLEDLIGEGNLGLIIATDRFDPDKG 97 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 Y F +YA++W++Q+I R+I ++S IR+P++ + + R + K P E++A Sbjct: 98 YHFISYAVYWIRQSILRAINEKSRLIRLPLNKAMDLVDLERAVHQCYYKTGHMPDVEDLA 157 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 L +R ++ + E +SLE D L D +EDKN+ + D L E Sbjct: 158 AILKKEPREIRNIMSMNNEYVSLEKDFNMDGVKDRLADVVEDKNSKTVEDILSDKELTEE 217 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L+ E+ ++ R+G+ TL+EVG+++ T+ERIRQIE KA++K+ H R Sbjct: 218 LKIAMEELSDIEKEIINARYGLDQEK-KTLKEVGEKYSFTKERIRQIEKKALKKM-HSKR 275 Query: 673 SKKLRSFLD 681 L+ FL+ Sbjct: 276 YSSLKDFLN 284 >gi|288801981|ref|ZP_06407422.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|302347072|ref|YP_003815370.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|288335416|gb|EFC73850.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|302150546|gb|ADK96807.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 290 Score = 148 bits (373), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 92/280 (32%), Positives = 151/280 (53%), Gaps = 30/280 (10%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E I++ E + + KG + AK+++++ANLR V+SVAK+Y ++GL DLI Sbjct: 25 IGREPMITVDEEIELAQEIHKGGRKGERAKEKLIKANLRFVVSVAKQYQHQGLSLTDLID 84 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGNIGL+KAAEKFD G+KF +YA+WW++Q+I ++IA+QS +R+P++ I K+ + Sbjct: 85 EGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGAISKINQV 144 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--------------G 581 + R P+ E+A+ + +R+ +S++ P G Sbjct: 145 TNEFVQQHNRRPSIHELAELTGIDEARIRQSQSADNHHMSIDAPFSDDDDNSMSDMLSSG 204 Query: 582 DEDTSHLG-DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D+ + G DF + ++A L+ T L RE +++ FGIG + Sbjct: 205 DDSRTDRGVDF-------ESMSDDLRAVLQNT-------LKDREIKIVTECFGIGCQ-EK 249 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 LEE+G + +TRER+RQI KAI K++ ++ L +L Sbjct: 250 GLEEIGTEMGLTRERVRQIREKAIEKIRESGNARVLMKYL 289 >gi|318066931|emb|CBY89080.1| RNA polymerase sigma70 factor [Halomonas campaniensis] Length = 368 Score = 147 bits (372), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 84/199 (42%), Positives = 120/199 (60%), Gaps = 18/199 (9%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L +L + L + LV Q+ +++ E +++L + I R F++ G E Sbjct: 179 RLAELFSPIKLVPKHFERLVNQVRISVEQVRAQEKAVMQLCVKKARIPRKTFIKAFPGSE 238 Query: 379 LDPHWVS-YAKDFPEGEWKNFVACEVDSILKIRNEI----KSISVE---TGISISEFRHI 430 DP W++ +A D P+ D + +R +I + I+ E + ++E + + Sbjct: 239 SDPEWLTRFAADHPK---------YADRLEPLRADIARAQRKIAFEEEMVRLPVTEIKEV 289 Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 290 NRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 349 Query: 491 CLGYKFSTYAMWWVKQAIT 509 GYKFSTYA WW++QAIT Sbjct: 350 RRGYKFSTYATWWIRQAIT 368 >gi|225849737|ref|YP_002729971.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Persephonella marina EX-H1] gi|225645950|gb|ACO04136.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Persephonella marina EX-H1] Length = 285 Score = 147 bits (372), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 85/274 (31%), Positives = 155/274 (56%), Gaps = 9/274 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + SIS +S E + I ++G+ EA ++++++NLR V++VAK YT G+ F + Sbjct: 14 LNSISKIPLLSPEEEKEIAKKAKEGDKEAL---EKLIKSNLRFVVNVAKNYTGYGIPFQE 70 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI GNIGL++AA++FD G +F +YA+WW+KQ+I ++I Q I+IP ++ K+ Sbjct: 71 LISAGNIGLIEAAKRFDPERGVRFISYAIWWIKQSILQTIQSQKDIIKIPQKTQNLSMKI 130 Query: 533 VRTARRMSNKIKREPTPEEIAKKLA------MPVEGVRKVLKITKEPISLETPIGDEDTS 586 + ++ REP EI + L + E + L I + +SL+TP+ ++ + Sbjct: 131 DTAYLELKERLNREPKYSEIKEYLKEHENIDIDEETIENYLLIKRHSVSLDTPVDMDEGT 190 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 D I + ++ ++ ++ + +L+ L+ RE ++ RFG+ TL E+G Sbjct: 191 FFIDLISKHSTKDIEENIVRESIEKEIEYILSHLSERERFIIVNRFGLNGEEPKTLREIG 250 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 K+ ++RER+RQIE +A++K++ + K L+ L Sbjct: 251 KELGISRERVRQIEIRALKKIRALATKKHLKDLL 284 >gi|115475493|ref|NP_001061343.1| Os08g0242800 [Oryza sativa Japonica Group] gi|30698490|dbj|BAC76602.1| Sig6 [Oryza sativa Japonica Group] gi|40253642|dbj|BAD05586.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] gi|40253689|dbj|BAD05631.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica Group] gi|113623312|dbj|BAF23257.1| Os08g0242800 [Oryza sativa Japonica Group] gi|215712228|dbj|BAG94355.1| unnamed protein product [Oryza sativa Japonica Group] Length = 572 Score = 147 bits (372), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 94/286 (32%), Positives = 157/286 (54%), Gaps = 14/286 (4%) Query: 402 EVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASI-----AKKEMVEANLR 454 ++ ++KI + + V+ G +++E+ V M K E ++SI +++M +N R Sbjct: 285 KIQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMSSK-ELQSSIRTGRRCREKMARSNFR 343 Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LVI VA+KY GL DL+Q+G GLMK EKF+ G +F TYA WW++Q+I +SI Sbjct: 344 LVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQSIKKSIFK 403 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE-PTPEEIAKKLAMPVEGVRKVLKITKEP 573 S IR+P + + KV + RM ++ E PT +A++ + +E + K+ T++P Sbjct: 404 NSRLIRLPESVYALLRKVGKA--RMECIMEGEQPTNANVARRAGITIEKLAKLRAKTRKP 461 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 S++ + ++ + ED N P S + +R+ L L+PRE+ ++ RFG Sbjct: 462 RSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMRQQVRDFLGILSPREKEIIEHRFG 521 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 I TL +G F +++ERIRQ++ +A+ KLK RS L+ F Sbjct: 522 IHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLK---RSASLQGF 564 >gi|3077738|dbj|BAA25787.1| SigB [Cyanidium caldarium] Length = 424 Score = 147 bits (372), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 103/311 (33%), Positives = 165/311 (53%), Gaps = 57/311 (18%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--------- 467 S G+S E R + R+ A++ +V +NLRLV+++A +Y R Sbjct: 123 STTVGVSEEEVRKRIERGRR-------ARERLVASNLRLVLAIANRYKLRAVVCSAWKSR 175 Query: 468 --------------LQ-----FL-DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 LQ FL DLIQEG +GL++AAEKFD G+KFSTYA WW++QA Sbjct: 176 SKGGMDMPSHEKVRLQRQHNIFLGDLIQEGALGLIRAAEKFDPSKGFKFSTYATWWIRQA 235 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R +++ S TIR+P H+ + + ++ R R+ + +KR PT EE+A+ M ++ ++K+ Sbjct: 236 IQRCVSEHSRTIRLPNHVTESLRQIYRMRARLQHVLKRPPTDEEVAEACNMTLKRLKKIT 295 Query: 568 KITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLD-------------SAIQAN-LRE 611 + E +SLE P E S + + +PL A++ N +RE Sbjct: 296 QHAWETQTLSLEGPPNSEAHS----LYKSQQGEAPLSIGSIIEATEETPEEALERNCMRE 351 Query: 612 TTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 VL +L +E +LR+R+GI + H+ EE+ +F + IR IE++A+RKL+HP Sbjct: 352 DVECVLRTLPFQEREILRLRYGISDDERPHSTEELSARFQLPVHTIRLIESRALRKLRHP 411 Query: 671 SRSKKLRSFLD 681 S + LR +++ Sbjct: 412 SLAAMLREYVN 422 >gi|218200736|gb|EEC83163.1| hypothetical protein OsI_28384 [Oryza sativa Indica Group] Length = 537 Score = 147 bits (372), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 95/290 (32%), Positives = 157/290 (54%), Gaps = 14/290 (4%) Query: 398 FVACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASI-----AKKEMVE 450 F+ ++KI + + V+ G +++E+ V M K E ++SI +++M Sbjct: 246 FIFRTAQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMSSK-ELQSSIRTGRRCREKMAR 304 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +N RLVI VA+KY GL DL+Q+G GLMK EKF+ G +F TYA WW++Q+I + Sbjct: 305 SNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQSIKK 364 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE-PTPEEIAKKLAMPVEGVRKVLKI 569 SI S IR+P + + KV + RM ++ E PT +A++ + +E + K+ Sbjct: 365 SIFKNSRLIRLPESVYALLRKVGKA--RMECIMEGEQPTNANVARRAGITIEKLAKLRAK 422 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 T++P S++ + ++ + ED N P S + +R+ L L+PRE+ ++ Sbjct: 423 TRKPRSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMRQQVRDFLGILSPREKEIIE 482 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RFGI TL +G F +++ERIRQ++ +A+ KLK RS L+ F Sbjct: 483 HRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLK---RSASLQGF 529 >gi|326801849|ref|YP_004319668.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] gi|326552613|gb|ADZ80998.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphingobacterium sp. 21] Length = 285 Score = 147 bits (371), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 83/243 (34%), Positives = 141/243 (58%), Gaps = 4/243 (1%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A + + +ANLR VISVAK+Y ++GL DLI EGN GL+KAA +FD G Sbjct: 43 IREGD---QLALERLTKANLRFVISVAKQYQHQGLVLEDLINEGNAGLVKAARRFDETKG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +KF +YA+WW++Q+I +I+ QS +R+P + + K+ R+ M +++REP+ EE+A Sbjct: 100 FKFISYAVWWIRQSIMSAISIQSRAVRLPGNQISNLIKLRRSQAEMEQRLEREPSVEELA 159 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 +L + + + +S++ P + L D + + + IQ +L Sbjct: 160 VELGTTTDRIIASFTNAERQLSIDAPSVFSEEERLLDSLASSDPATD-QQLIQDSLFLRI 218 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VL L+ RE ++L M +G+ + TL+E+ Q +T ERIRQ++ KA+ +K+ S Sbjct: 219 DLVLKKLSSRERQILTMFYGLSNSEPQTLDEIAYQLKLTPERIRQLKTKALLHIKNSSSG 278 Query: 674 KKL 676 + L Sbjct: 279 RDL 281 >gi|168700059|ref|ZP_02732336.1| RNA polymerase sigma factor rpoS [Gemmata obscuriglobus UQM 2246] Length = 272 Score = 147 bits (371), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 90/250 (36%), Positives = 145/250 (58%), Gaps = 11/250 (4%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S +E R + + V G+ +A + MV ANLRLV+++A+ YT +GL DL+ EGN+GL Sbjct: 24 LSAAEERDLGARVLTGDPQA---RDRMVRANLRLVVNIARGYTGKGLALDDLVSEGNMGL 80 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A E F+ + +FSTYA +W+KQ+I R+I + + TIRIP +M + + K R ++S+ Sbjct: 81 LRAVEGFEPSMNTRFSTYASYWIKQSIKRAIVNTAKTIRIPAYMAELLTKWRRATNQLSD 140 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE----DKNA 597 ++ R PT +EIAK L + + + + K + + D S G IE D Sbjct: 141 ELGRPPTHDEIAKFLGLSKKKLAIIKKAIR----VANAGTQSDQSDAGWSIEETLMDSRG 196 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P +++ + +L + RE VLRMRFG+ TL+E+G+ +TRER+R Sbjct: 197 DAPDTELGKSDDLKQVLHLLDRMDQREATVLRMRFGLNDEEPRTLKEIGECLGLTRERVR 256 Query: 658 QIEAKAIRKL 667 QIE +A+ KL Sbjct: 257 QIENEALAKL 266 >gi|318066919|emb|CBY89074.1| RNA polymerase sigma70 factor [Halomonas alimentaria] Length = 362 Score = 147 bits (370), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 81/192 (42%), Positives = 118/192 (61%), Gaps = 4/192 (2%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L +L + L + LV Q+ +++ E +++L + I R F++ G E Sbjct: 173 RLAELFSPIKLVPKHFERLVNQVRISVEQVRAQEKAVMQLCVKKARIPRKTFIKAFPGSE 232 Query: 379 LDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKG 437 DP W+ ++A + P+ + + +A I + + +I + + E + + + G Sbjct: 233 SDPEWLDAFAGEHPK--YADRLAPLRTDIQRAQRKIAFEEAMVRLPVQEIKEVNRRLSIG 290 Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFS Sbjct: 291 EAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 350 Query: 498 TYAMWWVKQAIT 509 TYA WW++QAIT Sbjct: 351 TYATWWIRQAIT 362 Score = 63.2 bits (152), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 31/60 (51%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVDSILDAYDATQD 80 >gi|125602683|gb|EAZ42008.1| hypothetical protein OsJ_26557 [Oryza sativa Japonica Group] Length = 497 Score = 146 bits (369), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 95/290 (32%), Positives = 157/290 (54%), Gaps = 14/290 (4%) Query: 398 FVACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASI-----AKKEMVE 450 F+ ++KI + + V+ G +++E+ V M K E ++SI +++M Sbjct: 206 FIFRTAQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMSSK-ELQSSIRTGRRCREKMAR 264 Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +N RLVI VA+KY GL DL+Q+G GLMK EKF+ G +F TYA WW++Q+I + Sbjct: 265 SNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQSIKK 324 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE-PTPEEIAKKLAMPVEGVRKVLKI 569 SI S IR+P + + KV + RM ++ E PT +A++ + +E + K+ Sbjct: 325 SIFKNSRLIRLPESVYALLRKVGKA--RMECIMEGEQPTNANVARRAGITIEKLAKLRAK 382 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 T++P S++ + ++ + ED N P S + +R+ L L+PRE+ ++ Sbjct: 383 TRKPRSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMRQQVRDFLGILSPREKEIIE 442 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 RFGI TL +G F +++ERIRQ++ +A+ KLK RS L+ F Sbjct: 443 HRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLK---RSASLQGF 489 >gi|258592807|emb|CBE69116.1| RNA polymerase sigma factor RpoS [NC10 bacterium 'Dutch sediment'] Length = 286 Score = 146 bits (369), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 85/239 (35%), Positives = 138/239 (57%), Gaps = 3/239 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++VEANLR V+ VA +Y GL DLI EGNIGL++AA ++ KF TYA+WW Sbjct: 50 ALKQLVEANLRFVVKVALRYRGCGLSLPDLINEGNIGLLEAARRYSPDYNVKFITYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI +++A +R+P+ ++ +S +++ EPT E+ ++L + + Sbjct: 110 IRQAIMQALAISGGAVRLPLRKARLASQLDDVRADLSQQLQAEPTDSEVTEELDLSASDL 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD-SAIQANLRETTTRVLASLTP 622 L + L IG E +G + + + P D I+ +LRE R+L SL Sbjct: 170 EGALHRAGQLAFLSDEIGLE--QRIGMELYESKQLPPADYELIRRSLREEVERMLRSLND 227 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RE ++ +RFG+G TL+EVGK+ ++RER+RQIE +A +KL ++S+ L+ +L+ Sbjct: 228 RERLIVELRFGLGKEEAMTLKEVGKRLKLSRERVRQIEERAKQKLCVWAKSRHLKDYLN 286 >gi|294856621|gb|ADF45248.1| RNA polymerase sigma S factor [Escherichia sp. B827] gi|294856623|gb|ADF45249.1| RNA polymerase sigma S factor [Escherichia sp. E1492] gi|294856625|gb|ADF45250.1| RNA polymerase sigma S factor [Escherichia sp. E807] gi|294856627|gb|ADF45251.1| RNA polymerase sigma S factor [Escherichia sp. H442] gi|294856629|gb|ADF45252.1| RNA polymerase sigma S factor [Escherichia sp. M863] gi|294856631|gb|ADF45253.1| RNA polymerase sigma S factor [Escherichia sp. TW10509] gi|294856633|gb|ADF45254.1| RNA polymerase sigma S factor [Escherichia sp. TW11930] gi|294856635|gb|ADF45255.1| RNA polymerase sigma S factor [Escherichia sp. TW11966] gi|294856639|gb|ADF45257.1| RNA polymerase sigma S factor [Escherichia sp. TW09231] gi|294856641|gb|ADF45258.1| RNA polymerase sigma S factor [Escherichia sp. TW09276] gi|294856643|gb|ADF45259.1| RNA polymerase sigma S factor [Escherichia sp. TW09254] gi|294856645|gb|ADF45260.1| RNA polymerase sigma S factor [Escherichia sp. TW09266] gi|294856647|gb|ADF45261.1| RNA polymerase sigma S factor [Escherichia sp. TA04] gi|294856649|gb|ADF45262.1| RNA polymerase sigma S factor [Escherichia sp. B685] gi|294856651|gb|ADF45263.1| RNA polymerase sigma S factor [Escherichia sp. TW14182] gi|294856653|gb|ADF45264.1| RNA polymerase sigma S factor [Escherichia albertii TW11588] gi|294856655|gb|ADF45265.1| RNA polymerase sigma S factor [Escherichia sp. H605] gi|294856657|gb|ADF45266.1| RNA polymerase sigma S factor [Escherichia sp. B49] gi|294856659|gb|ADF45267.1| RNA polymerase sigma S factor [Escherichia sp. TW09308] gi|294856661|gb|ADF45268.1| RNA polymerase sigma S factor [Escherichia sp. B1225] gi|294856663|gb|ADF45269.1| RNA polymerase sigma S factor [Escherichia sp. B646] gi|294856665|gb|ADF45270.1| RNA polymerase sigma S factor [Escherichia sp. E1118] gi|294856667|gb|ADF45271.1| RNA polymerase sigma S factor [Escherichia sp. E1195] gi|294856669|gb|ADF45272.1| RNA polymerase sigma S factor [Escherichia sp. E1196] gi|294856671|gb|ADF45273.1| RNA polymerase sigma S factor [Escherichia sp. E471] gi|294856673|gb|ADF45274.1| RNA polymerase sigma S factor [Escherichia sp. E472] gi|294856675|gb|ADF45275.1| RNA polymerase sigma S factor [Escherichia sp. E620] gi|294856677|gb|ADF45276.1| RNA polymerase sigma S factor [Escherichia sp. M1108] gi|294856679|gb|ADF45277.1| RNA polymerase sigma S factor [Escherichia sp. TA290] gi|294856681|gb|ADF45278.1| RNA polymerase sigma S factor [Escherichia sp. TW14263] gi|294856683|gb|ADF45279.1| RNA polymerase sigma S factor [Escherichia sp. TW14264] gi|294856685|gb|ADF45280.1| RNA polymerase sigma S factor [Escherichia sp. TW14265] gi|294856687|gb|ADF45281.1| RNA polymerase sigma S factor [Escherichia sp. TW14266] gi|294856689|gb|ADF45282.1| RNA polymerase sigma S factor [Escherichia sp. TW14267] gi|294856691|gb|ADF45283.1| RNA polymerase sigma S factor [Escherichia sp. RL325/96] gi|294856693|gb|ADF45284.1| RNA polymerase sigma S factor [Escherichia sp. Z205] gi|294856695|gb|ADF45285.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856697|gb|ADF45286.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856699|gb|ADF45287.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856701|gb|ADF45288.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856703|gb|ADF45289.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856705|gb|ADF45290.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856707|gb|ADF45291.1| RNA polymerase sigma S factor [Escherichia albertii] gi|294856709|gb|ADF45292.1| RNA polymerase sigma S factor [Escherichia coli] gi|294856711|gb|ADF45293.1| RNA polymerase sigma S factor [Escherichia coli] gi|294856713|gb|ADF45294.1| RNA polymerase sigma S factor [Escherichia fergusonii] gi|294856715|gb|ADF45295.1| RNA polymerase sigma S factor [Escherichia fergusonii] gi|294856717|gb|ADF45296.1| RNA polymerase sigma S factor [Escherichia fergusonii] Length = 157 Score = 146 bits (368), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 64/157 (40%), Positives = 110/157 (70%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ T Sbjct: 1 IARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++T Sbjct: 61 IRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDT 120 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 P+G + L D + D+ P D+ +++++ + Sbjct: 121 PLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVK 157 >gi|294856637|gb|ADF45256.1| RNA polymerase sigma S factor [Escherichia sp. B1147] Length = 157 Score = 145 bits (367), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 64/157 (40%), Positives = 110/157 (70%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ T Sbjct: 1 IARRYGNRGLALLDLIKEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRT 60 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 IR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++T Sbjct: 61 IRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVDT 120 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 P+G + L D + D+ P D+ +++++ + Sbjct: 121 PLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVK 157 >gi|260906263|ref|ZP_05914585.1| RNA polymerase, sigma 32 subunit, RpoH [Brevibacterium linens BL2] Length = 903 Score = 145 bits (366), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 124/230 (53%), Gaps = 22/230 (9%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + + + A +EMV +NLRLV+S+AK++ L LDLIQEGN+GL++A +KFD+ G KFS Sbjct: 632 KADGAAAYEEMVTSNLRLVVSIAKRFNRSKLDLLDLIQEGNLGLVRAVQKFDYTKGNKFS 691 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA WW++Q I R I D + TIR+P+H+ +K + R ++ + ++ + L Sbjct: 692 TYATWWIRQGIDRGIGDTAKTIRLPIHLFEKASEFWNCMRDDESRAACDHDHSKVEQALR 751 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLG-------DFIEDKNAVS--PLDSAIQAN 608 M +P+SLE + + H D I D + + P + Sbjct: 752 M-------------QPVSLEGYLELQWDGHYAESLMSFDDRIADPDVFTDNPETKIVDGE 798 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L ET V+ SL RE ++R RFG TL+ +G +F VTRERIRQ Sbjct: 799 LLETVNSVVDSLPAREAEIIRRRFGWNGEPPQTLDAIGNRFAVTRERIRQ 848 Score = 39.7 bits (91), Expect = 1.7, Method: Compositional matrix adjust. Identities = 18/33 (54%), Positives = 25/33 (75%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 TDD + +YL+++G LLS E+A+AKRIEAG Sbjct: 575 TDDLLGVYLKQIGQYPLLSAAEEVAVAKRIEAG 607 >gi|33861134|ref|NP_892695.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33639866|emb|CAE19036.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 307 Score = 145 bits (365), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 83/228 (36%), Positives = 135/228 (59%), Gaps = 7/228 (3%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 EM+ ANLRLV++++K+Y +GL LDLIQEG +GL +A EK+D G++FSTYA WW++Q Sbjct: 68 EMITANLRLVVNLSKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQ 127 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 + R+++ QS TIRIPV++ +K+ K+ ++ PT E+A +L + E + ++ Sbjct: 128 GLNRALSTQSRTIRIPVNINEKLTKLRAAKSKLMQLKGFPPTSIELANELKITKEEIDEL 187 Query: 567 LKITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--ASLT 621 L I++ T D S L D + + P++ A A + +L A+LT Sbjct: 188 LSCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWTLLDKANLT 246 Query: 622 PREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 247 EKERKIVSLRFGLDGSNEWRTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|318066901|emb|CBY89065.1| RNA polymerase sigma70 factor [Carnimonas nigrificans] Length = 371 Score = 145 bits (365), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 83/207 (40%), Positives = 121/207 (58%), Gaps = 6/207 (2%) Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYG 364 K+ + + V +E+L +L + L + L+ Q+ +++ NE ++++ + Sbjct: 168 KNGRDAPDVIVAQERLAELFSPIKLVPKHFERLILQVRITIEQVRANEKRIMQIFVKRAR 227 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEV--DSILKIRNEIKSISVETGI 422 + R F+ E + W+ +F K E+ IL+ + I E + Sbjct: 228 VPRKTFISSFPANESNQQWLD---EFIAKHPKYAEGLEIYRPDILRAQRRIAEEQEEVSL 284 Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S++E + I + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLM Sbjct: 285 SVAELKEINRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 344 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAIT 509 KA +KF++ GYKFSTYA WW++QAIT Sbjct: 345 KAVDKFEYRRGYKFSTYATWWIRQAIT 371 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 29/45 (64%), Positives = 36/45 (80%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAFLP 65 >gi|323456432|gb|EGB12299.1| hypothetical protein AURANDRAFT_12561 [Aureococcus anophagefferens] Length = 233 Score = 144 bits (364), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 86/228 (37%), Positives = 130/228 (57%), Gaps = 13/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +V N+RLV+SVAK+YT GL DL+QEG++GLM+AA KFD G KFSTYA WW Sbjct: 7 ARQALVATNMRLVVSVAKRYTGLGLGLSDLVQEGSLGLMRAATKFDPARGCKFSTYACWW 66 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R++A QS IR+P+H+ + K+ R R + REP+ E+A+ L M + Sbjct: 67 IQQAILRAVAFQSRLIRLPMHVHQDLAKLKRGTRDFTAAHGREPSDGELAELLEMTPAKL 126 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASLTP 622 RKV ++ DT L D + K ++A++ A L E + L Sbjct: 127 RKVRAAARQ----------GDTLKLEDTLASKEPTG--ETAVELALLHEDLHAAMDDLDA 174 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E+RV+ +R+G+ T +V ++E +R+ E +AIRKL+ P Sbjct: 175 DEKRVISLRYGLEDGVPCTPAQVAASCAESKEWVRRCEMRAIRKLRKP 222 >gi|196047982|ref|ZP_03115160.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Bacillus cereus 03BB108] gi|196021238|gb|EDX59967.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43) [Bacillus cereus 03BB108] Length = 289 Score = 144 bits (364), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 134/230 (58%), Gaps = 4/230 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A++ ++E NLRLV+SV Y G + +D+IQ GN+GL++ E F+ K +TY W Sbjct: 43 ARRILIECNLRLVVSVVNSYPRVGNCEKMDMIQVGNVGLIRGIEAFEISKNCKLATYVTW 102 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++ I+R I IR V +++K+ K+ + + K KR+ E+IA++L VE Sbjct: 103 WIRHEISRFITFNKNDIRCSVTIQNKMDKLKKYFSNENGKAKRKLNIEQIAEELGYSVET 162 Query: 563 VRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLAS 619 V +++ + KE +SL+ P DED+ + + +++ A +P++ + L + + Sbjct: 163 VLQIMDTLMLKESVSLDAPSSDEDSRPVMNSVKNAKAPNPVELITSEEQLYQIEELLFTV 222 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L +EE V+R RFG D TLEEV + F +TRERI+QIE KAI KLK+ Sbjct: 223 LNEKEESVIRYRFGFDTEKDLTLEEVARIFGITRERIQQIEKKAIGKLKN 272 >gi|226226008|ref|YP_002760114.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] gi|226089199|dbj|BAH37644.1| RNA polymerase sigma factor [Gemmatimonas aurantiaca T-27] Length = 302 Score = 144 bits (364), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 96/259 (37%), Positives = 146/259 (56%), Gaps = 7/259 (2%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E R + + +KG+ A+ + +V ANLR VIS KKY GL +L+ GN GL+KA Sbjct: 43 AEERRLARLAQKGDEAAA---ERLVTANLRFVISYVKKYQGHGLDLSELVAIGNEGLLKA 99 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 KFD G KF +YA+WWV+QA+ +++A+Q+ ++RIP++ ++ ++ R +S + Sbjct: 100 VRKFDPDQGVKFISYAVWWVRQAVLKALAEQTRSVRIPLNQNSQLIRMARGEMILSQVLN 159 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 REPT E++K L PVE VR +I+ +SL+ PI D + S LG+ + D Sbjct: 160 REPTDAELSKLLEEPVEQVRNARQISSTEVSLDAPIDRQDREASTLGERFAGETHADIED 219 Query: 603 SAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIE 660 +RE RV LTPRE ++L + +G+ + TLE +G VTRERIRQI Sbjct: 220 GTDFRLMREFIDRVFRKYLTPRERKILYLYYGLDEGAEAMTLERIGALMGVTRERIRQIR 279 Query: 661 AKAIRKLKHPSRSKKLRSF 679 +A KL+ + L F Sbjct: 280 ERAFEKLRESPDGRALSGF 298 >gi|123965877|ref|YP_001010958.1| type II alternative sigma-70 family RNA polymerase sigma factor [Prochlorococcus marinus str. MIT 9515] gi|123200243|gb|ABM71851.1| Putative type II alternative sigma factor, sigma70 family [Prochlorococcus marinus str. MIT 9515] Length = 307 Score = 144 bits (364), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 136/227 (59%), Gaps = 7/227 (3%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+ ANLRLV+++AK+Y +GL+ LDLIQEG +GL +A EK+D G++FSTYA WW++Q Sbjct: 69 MITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYWWIRQG 128 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + R+++ QS TIRIPV++ +K+ K+ ++ PT E+A+++ + E + ++L Sbjct: 129 LNRALSTQSRTIRIPVNINEKLTKLRAAKSKLMQLKGFPPTSFELAEEMKITKEEIDELL 188 Query: 568 KITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--ASLTP 622 I++ T D S L D + + P++ A A + +L A+LT Sbjct: 189 SCELRSITVSLQGTVKSKSDPSELVDILPS-DQTPPMELAELAERTASAWTLLDKANLTE 247 Query: 623 REERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ +RFG+ G N TL EV + +RE RQ+ +A+RKL+ Sbjct: 248 KERKIVSLRFGLDGSNEWKTLAEVARHMSCSREYCRQVVQRALRKLR 294 >gi|311696748|gb|ADP99621.1| RNA polymerase, sigma 70 subunit, RpoD family [marine bacterium HP15] Length = 332 Score = 144 bits (363), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 138/237 (58%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 S R+ A+ +++++++NLRL + +A++Y G+ DLIQ+ N+GL+KA E+FD Sbjct: 84 SRCRRAFHLATACRRKLIQSNLRLAVHIARRYGQHGIPMSDLIQDANVGLIKAVERFDPT 143 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G++FSTYA WW+ + + R + + + P ++ D+I ++ + + RM + R P+ E Sbjct: 144 KGFRFSTYAYWWISEEVKRCLQRGTRLVHTPENVVDEIRQLHKVSLRMHQSLGRTPSQSE 203 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A+++ + ++ + IS + P+ ++ + LGD ++ + ++P + + Sbjct: 204 LAREMEASPSRIGELRALATREISTDVPLVEDGSVTLGDSLDAGDQMAPDHPMSDRDRQR 263 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T +L+ L RE+ +L R+G+G+ TL+ + ++RER+RQIE A++KL+ Sbjct: 264 TLKSMLSELNDREKDILSRRYGLGLPEPETLQVISDDLGISRERVRQIEKTALKKLQ 320 >gi|318066961|emb|CBY89095.1| RNA polymerase sigma70 factor [Halomonas muralis] Length = 367 Score = 144 bits (362), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 86/211 (40%), Positives = 120/211 (56%), Gaps = 22/211 (10%) Query: 310 SSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRD 368 +SV+ K K +L +L + L + LV Q+ ++I E +L++ G + R Sbjct: 168 ASVEAKTEKARLAELFSPIKLVPKHFERLVGQVRISVEQIRIQEKTILQVFVKKGKVPRK 227 Query: 369 VFLERHQGRELDPHWVSYAKDFPEGEWKNFVACE---VDSILKIRNEI----KSISVETG 421 F++ E +P W+ F+A D + R +I + I+ E Sbjct: 228 TFIKAFPSNESNPQWLDV-----------FLANNAKYTDKLEPFRTDIARAQRKIAFEEA 276 Query: 422 I---SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 + + E + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGN Sbjct: 277 LIQLPVGEIKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN 336 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 IGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 337 IGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 367 Score = 67.4 bits (163), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 43/60 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G +M++L P ++++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGTREVMSALAYLPGAVESILDAYDATQD 80 >gi|312885799|ref|ZP_07745431.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] gi|311301606|gb|EFQ78643.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mucilaginibacter paludis DSM 18603] Length = 285 Score = 144 bits (362), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 76/221 (34%), Positives = 129/221 (58%), Gaps = 1/221 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 + + NLR V+SVAKKY ++GL DLI EGN+GLMKAA+KFD G+KF +YA+WW++Q Sbjct: 54 LTKTNLRFVVSVAKKYQHQGLPLSDLISEGNVGLMKAAKKFDETKGFKFISYAVWWIRQC 113 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I +IA+ S IR+P++ I K+ + + +++R+PT E+A+ L + V L Sbjct: 114 ILSAIAEHSRMIRLPMNQVGDITKMNKALALLEQQMERQPTTNELAEYLETSEDKVSDAL 173 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 S + P ED ++L D + + + + +N +E ++L++LT R++ V Sbjct: 174 YFATRTASYDAPFRTEDENNLLDVLPGNEQATDHELMVLSNQQE-VRQLLSTLTSRDQEV 232 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +R FG+ T ++ ++ ER+RQI +A++ L+ Sbjct: 233 IRWTFGLDGKTALPPIDIAPLLGISAERVRQIRNQALQTLR 273 >gi|254384440|ref|ZP_04999781.1| hypothetical protein SSAG_04083 [Streptomyces sp. Mg1] gi|194343326|gb|EDX24292.1| hypothetical protein SSAG_04083 [Streptomyces sp. Mg1] Length = 1094 Score = 144 bits (362), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 86/230 (37%), Positives = 132/230 (57%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ V N L +A ++ +GL DL+Q G +GL++AA KFD GYKFSTYA WW Sbjct: 261 ARNCFVVHNQGLAHGIALRHAGQGLDHEDLLQHGALGLIRAAVKFDPVKGYKFSTYATWW 320 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+++R++AD+ IRIPVH ++I KV RR+ ++ R + +A + V+ V Sbjct: 321 IRQSMSRAVADEGAVIRIPVHFHEQIRKVAAAERRLQSE-GRPWSAVHVAVACDLSVQRV 379 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIE-DKNAVSPLDSAIQANLRETTTRVLASLT- 621 ++ ++++ SL+ IG D HLGD + D+ PL SA + E + L SL Sbjct: 380 EEIRRVSRRTDSLDRVIG--DGVHLGDLVALDR----PLPSAEHLAMEEMGHKHLLSLLT 433 Query: 622 ---PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ R+L R G+ TL+++GK+F VTRERIRQ+E KA + Sbjct: 434 RFDARDARILLRRTGLDGGDRSTLDDLGKEFGVTRERIRQVEVKAFAAFR 483 >gi|307102796|gb|EFN51063.1| hypothetical protein CHLNCDRAFT_33233 [Chlorella variabilis] Length = 288 Score = 144 bits (362), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 83/256 (32%), Positives = 144/256 (56%), Gaps = 31/256 (12%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 ++ N+RLVI++AK+Y G+ +DLI EG +GL K+ ++FD G+KFSTYA WW++Q+I Sbjct: 1 MQYNVRLVINIAKRYVGNGIDIVDLIPEGLVGLSKSLDRFDASKGFKFSTYAHWWIRQSI 60 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 +R++ DQ+ +R+P H+ + ++++ R M+ + P+ EEIA + +PV V L+ Sbjct: 61 SRAVCDQARVVRLPSHVCETLYRINRAITSMTEQRDEMPSYEEIAAAVDLPVRRVIHYLR 120 Query: 569 ITKEPISLETPIGDEDTSHLG---------DFIED------KNAVSPLDSAIQANLRETT 613 ++K P + D T +L + +ED + A ++R+ T Sbjct: 121 LSKLPGGAASA-RDRPTQYLSGSSLKEVTYEALEDCAEDEDPGEEGEEEEAQHESIRQMT 179 Query: 614 TRVLASLTPREERVLRMRFGI--------GMNTD-------HTLEEVGKQFCVTRERIRQ 658 +L++L RE +LR+R+G+ G++ D +L EV + +++ERIRQ Sbjct: 180 DLLLSTLEKRERNILRLRYGLLGWGPAAGGLSWDDNVDGGSMSLGEVASAYGLSKERIRQ 239 Query: 659 IEAKAIRKLKHPSRSK 674 IE KA+R L+ P R + Sbjct: 240 IEDKAMRALRKPWRQQ 255 >gi|149377551|ref|ZP_01895291.1| group 2 sigma 70-type sigma factor F [Marinobacter algicola DG893] gi|149358164|gb|EDM46646.1| group 2 sigma 70-type sigma factor F [Marinobacter algicola DG893] Length = 332 Score = 144 bits (362), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 136/234 (58%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+ A+ +++ ++ +NLRL + +A++Y NRG+ D+IQ+ N+GL+KA E+FD G+ Sbjct: 87 RRAYHLATSSRQRLIRSNLRLAVHIARRYANRGIPMSDVIQDANVGLIKAVERFDPTKGF 146 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+ + + R + + + P ++ D+I + RT+ + + R P+ E+A+ Sbjct: 147 RFSTYAYWWISEEVKRCMKRGTRLVHTPENVVDEIRLLQRTSLALYQTLGRTPSQTELAR 206 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ + + ++ + +S++ P+ E LG+ + + +P Q + + T Sbjct: 207 EIEVSPSRIGELRALASMEVSVDLPVSTEGNITLGESLSADDQSAPDHDMAQRDRKRTLA 266 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA L+ RE+ VL R+G+ + TL+ + ++RER+RQIE A++KL+ Sbjct: 267 TLLAELSSREKDVLARRYGLDLPEPETLQVISDDLGISRERVRQIEKSALKKLQ 320 >gi|55274889|gb|AAV49247.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 180 Score = 144 bits (362), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 69/182 (37%), Positives = 117/182 (64%), Gaps = 8/182 (4%) Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LRLV+ +A++Y NRGL L GL++A EKFD G++FSTYA WW++Q I R+I Sbjct: 1 LRLVVKIARRYGNRGLALL--------GLIRAVEKFDPERGFRFSTYATWWIRQTIERAI 52 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 53 MNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNER 112 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RF Sbjct: 113 ITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRF 172 Query: 633 GI 634 G+ Sbjct: 173 GL 174 >gi|323450165|gb|EGB06048.1| hypothetical protein AURANDRAFT_11909 [Aureococcus anophagefferens] Length = 325 Score = 143 bits (361), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 96/301 (31%), Positives = 160/301 (53%), Gaps = 27/301 (8%) Query: 399 VACEVDSILKIRNEIKSISVETG--ISISEFRHIVSMVRKGECEASIA-----KKEMVEA 451 +A EV +++ +R + + G S E+ + G + ++E+++ Sbjct: 26 LATEVQALVALRAKRSELKAALGREPSGGEWANATGYANYGALRTRMGHMKACREELIQR 85 Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLRLV+SVAK+Y + GL F DL QEGN GL KA ++FD G++FSTYA+WW++QA+ + Sbjct: 86 NLRLVLSVAKRYGDCGLAFTDLCQEGNFGLAKACDRFDPSKGFRFSTYAVWWIRQAVAHA 145 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 +A QS TIR+P H+ +K+ ++ + + + R+ T +EIA+++++ + +R++ + + Sbjct: 146 VAHQSRTIRLPTHVHEKLRRMKKHKVALEKQTGRDATDDEIAREMSLDADKLRRLRRAAR 205 Query: 572 EPISLETPI-------------GDEDTSH-----LGDFIEDKNAVSPLDSAIQANLRETT 613 +S + G S+ L D + D P A ++ L++ Sbjct: 206 GTVSTDVDAENLGSRRGAAPGNGRRGASYASGAQLADLLHDATQ-HPERDAAESLLKDEV 264 Query: 614 TRV-LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 R+ L REE VL FG+ TL E+ +F +TRERIRQIE A KL+ P R Sbjct: 265 RRMLDDDLEDREEDVLNRHFGLDGRRPETLAEIAVRFDLTRERIRQIEKSAFAKLRQPHR 324 Query: 673 S 673 S Sbjct: 325 S 325 >gi|225848935|ref|YP_002729099.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium azorense Az-Fu1] gi|225644026|gb|ACN99076.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium azorense Az-Fu1] Length = 285 Score = 143 bits (361), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 83/255 (32%), Positives = 144/255 (56%), Gaps = 9/255 (3%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + I+ ++ G+ EA ++++ +NLR VI++AK+Y G+ DLI GNIGL++AA++ Sbjct: 29 KEILEKIKLGDKEAF---QKLILSNLRFVINIAKRYAGYGIPLQDLISAGNIGLIEAAKR 85 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD G KF +YA+WW+KQ+I +++ + IR P ++ K+ + + + REP Sbjct: 86 FDPSKGVKFISYAIWWIKQSIINTLSQEGDIIRKPTKIQSLFQKISNAYFYLKDSLNREP 145 Query: 548 TPEEIAKKL---AMPVE--GVRKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPL 601 + +EI L + VE + L + ISL+ PI +D HL D I + Sbjct: 146 SVDEIHSFLLREGLEVEKDTIENYLFFNQHFISLDEPILSQDEDIHLSDTISNSGTEDIE 205 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 I ++ + +L +L+PRE+++L RFG+ TL+EVG ++RER+RQIE Sbjct: 206 RKLIDEDILKFIDELLDTLSPREKQILIHRFGLYGEEPKTLKEVGNIVGISRERVRQIEI 265 Query: 662 KAIRKLKHPSRSKKL 676 + ++KL+ + +K+ Sbjct: 266 RLLKKLRKLATKRKI 280 >gi|188996015|ref|YP_001930266.1| RNA polymerase, sigma 32 subunit, RpoH [Sulfurihydrogenibium sp. YO3AOP1] gi|188931082|gb|ACD65712.1| RNA polymerase, sigma 32 subunit, RpoH [Sulfurihydrogenibium sp. YO3AOP1] Length = 285 Score = 143 bits (361), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 90/274 (32%), Positives = 151/274 (55%), Gaps = 9/274 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KSI +S E ++ V++G+ EA ++++ +NLR VI++AK+Y G+ F D Sbjct: 14 LKSIYKIPLLSKEEEESLLKKVKEGDKEAL---QKLIISNLRFVINIAKRYAGYGIPFSD 70 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI GNIGL++AA+KFD G +F +YA+WW++Q+I +I +S I+ P M K+ Sbjct: 71 LISAGNIGLIEAAKKFDTSRGVRFISYAVWWIRQSIINTIQHESEIIKKPNRMYAYASKI 130 Query: 533 VRTARRMSNKIKREPTPEEI-----AKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTS 586 + + + REP+ +EI + + + E V +SL+TPI G ++ Sbjct: 131 NNAYSYLKDTLNREPSIDEIISFLKTQGIKVEKEMVENYFLFKSVFLSLDTPIEGTDNDL 190 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L D I N + + +L+ +L +L+PRE +L RFG+ TL EVG Sbjct: 191 VLEDTISVYNTLDIEKDINEEDLKRAIEALLDTLSPRERTILIHRFGLNGEEPKTLNEVG 250 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + ++RER+RQIE + ++KL+ ++ KKL + Sbjct: 251 EMVGLSRERVRQIENRILKKLRKIAKIKKLEDLI 284 >gi|119384818|ref|YP_915874.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] gi|119374585|gb|ABL70178.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] Length = 728 Score = 143 bits (360), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 85/237 (35%), Positives = 129/237 (54%), Gaps = 9/237 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ +L V A + G D+ Q +GL ++ +FD GY+F YA +W Sbjct: 499 ATEHLIREHLPYVRRFASRNVEEGEDPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATYW 558 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR +D+ IRIPVH +KI K+ R R+ ++ + E+AK+L ++ V Sbjct: 559 MRQAITRWRSDEGAAIRIPVHRNEKITKLDRALERLDVRVGGAVSDLELAKELEWTIDEV 618 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + I +E E P E D + + + V D +A T LA L R Sbjct: 619 TQFRSIPREA---EYP---ESLDDWDDLLPEPSGVDVFD---EAETERIVTDALADLPER 669 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + V+RMRFGIG ++D TLEE+G+ + VTRERIRQIEAK + +L HP R ++L+ L Sbjct: 670 QADVIRMRFGIGRDSDMTLEEIGQIYGVTRERIRQIEAKGLDRLSHPGRKRRLQELL 726 >gi|261416342|ref|YP_003250025.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261372798|gb|ACX75543.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326200|gb|ADL25401.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 282 Score = 142 bits (359), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 90/262 (34%), Positives = 146/262 (55%), Gaps = 19/262 (7%) Query: 430 IVSMVRKGECEA--SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 ++ +++ GE E A + ++ NLR V+SVA+KY RGL LDLI EGN+GL KAA++ Sbjct: 27 LLKIIKNGETEEIRKSALQRLIRGNLRFVVSVARKYQGRGLSLLDLINEGNLGLFKAAKR 86 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD KF +YA+WW++Q+I +++ +Q +RIP + +++ R + + Sbjct: 87 FDMDKDVKFISYAVWWIRQSIQKALFEQVGAVRIPPNKLALVNRFKRALMQNGGDYDKTI 146 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD-------EDTSHLGDFI-EDKNAVS 599 + EE A VE + K++ ISL+ PIGD + S L D + D N Sbjct: 147 SMEEFAPYERDIVEVMEKIVD-----ISLDAPIGDDAGVSSADSVSTLMDVLGSDGNQDE 201 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ + L + T L+SL REE +LRM +G+ D TL+++G+ ++RER+RQI Sbjct: 202 DMEREERKKLIQET---LSSLPQREEEILRMFYGLDTVEDTTLKDIGEDLKLSRERVRQI 258 Query: 660 EAKAIRKLKHPSRSK-KLRSFL 680 + K +R+L+ K KL +L Sbjct: 259 KNKTLRRLQKSKEHKEKLADYL 280 >gi|306410397|gb|ADM85820.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410399|gb|ADM85821.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410401|gb|ADM85822.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410403|gb|ADM85823.1| RNA polymerase essential primary sigma 70 factor [Frankia alni] gi|306410405|gb|ADM85824.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. CcI3] gi|306410407|gb|ADM85825.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. CpI1] gi|306410409|gb|ADM85826.1| RNA polymerase essential primary sigma 70 factor [Frankia sp. Cj1-82] Length = 106 Score = 142 bits (358), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 61/106 (57%), Positives = 89/106 (83%) Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++A EKFD+ GYKFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K++R R+ Sbjct: 1 LGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQ 60 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED 584 + + REP+PEEIAK++ + + VR++LK+++EP+SLETPIG+E+ Sbjct: 61 LLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEE 106 >gi|3249727|gb|AAC26666.1| RNA polymerase sigma-like factor [Pseudonocardia autotrophica] Length = 152 Score = 142 bits (358), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 70/151 (46%), Positives = 100/151 (66%) Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA WW++QAITR++ADQ+ TIRIPVHM + I+K+ R R + + REPTPEE+AK++ + Sbjct: 1 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDI 60 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E V + + +EPISL+ IGDE S LGDFIED A SP D+ L++ L Sbjct: 61 TPEKVLETQQYAREPISLDQTIGDEGDSQLGDFIEDSEAASPSDAVSFTLLQDQLQSTLG 120 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 +L+ RE V+R+RFG+ TL+E+G+ + Sbjct: 121 TLSEREAGVVRLRFGLTDGRPRTLDEIGQVY 151 >gi|217968787|ref|YP_002354021.1| sigma-70 region 2 domain protein [Thauera sp. MZ1T] gi|217506114|gb|ACK53125.1| sigma-70 region 2 domain protein [Thauera sp. MZ1T] Length = 590 Score = 142 bits (357), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 61/102 (59%), Positives = 79/102 (77%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + M+++NLRLVIS+AKKYT+ G FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW+ Sbjct: 476 RNRMIKSNLRLVISIAKKYTHTGFPFLDLIQEGNLGLMKAVEKFDYRRGFKFSTYATWWI 535 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +QAITR IADQ +R+PVHM + I+KV R R + + R+ Sbjct: 536 RQAITRGIADQQRLVRVPVHMVESINKVSRVLRELEGRAPRK 577 >gi|330948232|gb|EGH48492.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 95 Score = 141 bits (356), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 69/95 (72%), Positives = 78/95 (82%) Query: 571 KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 KEPIS+ETPIGD++ SHLGDFIED SP+D A +L+E T VL+ LT RE +VLRM Sbjct: 1 KEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREVLSGLTAREAKVLRM 60 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 RFGI MNTDHTLEEVGKQF VTRERIRQIEAKA+R Sbjct: 61 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 95 >gi|307128696|ref|YP_003880726.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri CARI] gi|306483158|gb|ADM90028.1| RNA polymerase sigma factor rpoD [Candidatus Sulcia muelleri CARI] Length = 288 Score = 141 bits (355), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 91/288 (31%), Positives = 159/288 (55%), Gaps = 12/288 (4%) Query: 396 KNFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 K CE +S+ K EI I + E I ++F ++ A +++AN Sbjct: 8 KQVTNCESESLDKYLYEIGKIPLLNNEEEIQFAKFARKTYNIK--------AINFLIKAN 59 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LR V+SVAK+Y N+GL DLI EGN+GL+K +FD G+K +Y++WW++Q+I ++I Sbjct: 60 LRFVVSVAKQYQNQGLNLSDLINEGNLGLIKGIFRFDERKGFKCISYSVWWIRQSILQAI 119 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKE 572 AD+S +R P + +KV + + + P+ ++I + L + + + LK + + Sbjct: 120 ADKSRCVRCPTNKLAFYNKVNKKYSELEQIYQIPPSIKQIGEYLNSNEKEIEEALKNSVK 179 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 SL+ PI + + S+L D I+ + P + +L++ R+L +L+ +E +++ + + Sbjct: 180 HTSLDAPIIEGENSNLYDIIKYDESPHPDLDLEKESLKKDIKRLLDTLSEKEAQIITLHY 239 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 G+ +T + LEE+ +TRER RQIE +R+LK SR LR +L Sbjct: 240 GLESSTIN-LEEISFLLNLTRERCRQIEIYGLRRLKQSSRKNILRFYL 286 >gi|284053375|ref|ZP_06383585.1| RNA polymerase sigma factor SigC [Arthrospira platensis str. Paraca] Length = 183 Score = 141 bits (355), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 69/180 (38%), Positives = 120/180 (66%), Gaps = 1/180 (0%) Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++Q ITR+IA QS TIR+PVH+ +K++K+ + R++S + R T ++IA +L M + Sbjct: 2 WWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKSRTATIDDIATELKMTPD 61 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +R+VL +SLET +G + + LGD +E + + +P + ++ +L +LA L+ Sbjct: 62 QIREVLLRVPRSVSLETKVGTDKDTELGDLLETEES-TPEELLMRESLYRELQHILADLS 120 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 +E V++MR+G+G ++L E+G+ ++RER+RQIEAKA++KL+ P R ++R +LD Sbjct: 121 GKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRDYLD 180 >gi|310815187|ref|YP_003963151.1| RNA polymerase, sigma 32 subunit, RpoH [Ketogulonicigenium vulgare Y25] gi|308753922|gb|ADO41851.1| RNA polymerase, sigma 32 subunit, RpoH [Ketogulonicigenium vulgare Y25] Length = 809 Score = 141 bits (355), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 87/237 (36%), Positives = 130/237 (54%), Gaps = 9/237 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ +L V A + + G D+ Q +GL ++ +FD GY+F YA +W Sbjct: 580 ATEHLIREHLPYVRRFASRNVDEGEDPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATYW 639 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAITR AD+ IRIPVH +KI K+ R R+ ++ + E+A++L ++ V Sbjct: 640 MRQAITRWRADEGAAIRIPVHRNEKITKLDRALERLDVRVGGAVSDLELAEELEWTIDEV 699 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ I +E E P +D +L + + + D Q LA L R Sbjct: 700 KQFRGIPREA---EYPASLDDWDNL---LPEPSEADVFD---QTETERILADALAELPER 750 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + VLRMRFGIG TD TLEEVG+ + VTRERIRQIEAKA+ L HP R ++L++ L Sbjct: 751 QADVLRMRFGIGRETDMTLEEVGQIYGVTRERIRQIEAKALDHLSHPGRKRRLQALL 807 >gi|291060369|gb|ADD73104.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum str. Chicago] Length = 296 Score = 140 bits (354), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 81/251 (32%), Positives = 136/251 (54%), Gaps = 14/251 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +V AN+R VISVA+ Y GL DLI EGNIGL+ AAE+F+ G +F +YA W Sbjct: 45 AKNALVRANVRFVISVARHYRTCGLPLADLISEGNIGLLTAAERFNPARGCRFISYAACW 104 Query: 504 VKQAITRSIADQSCTIRIPV---HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++Q+I +++ +++ IR+PV ++ + ++ I + K+ A Sbjct: 105 IRQSILKALNEKARIIRLPVSRIRAAKSTYEYIPPVTSVNVGISKTQGGNRYGKRRATMC 164 Query: 561 EGVRKV--LKITKEPISLETPI---------GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 V V + I P+SL+ P+ GD D +GD + D P + + L Sbjct: 165 RAVPTVEEVHIWHTPLSLDAPLGASGSRGESGDVDGLRIGDCVPDDLYAQPEEHMLACAL 224 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + ++L L R+ +V+R RFG+G +L+E+G+ F +T+ER+RQIE KA+ +++ Sbjct: 225 QADIAKILRLLPARDAQVIRYRFGLGGYERRSLQEIGEIFQITKERVRQIEKKALLRIRS 284 Query: 670 PSRSKKLRSFL 680 +R +L S++ Sbjct: 285 CARQHRLDSYI 295 >gi|325002338|ref|ZP_08123450.1| RpoD family RNA polymerase sigma factor [Pseudonocardia sp. P1] Length = 425 Score = 140 bits (354), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 88/226 (38%), Positives = 124/226 (54%), Gaps = 24/226 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + V ANLRLV+S+A Y GL LDL+QEG +GL++A +KFD G KFSTYA WW Sbjct: 208 AYERFVTANLRLVLSIASGYGAPGLDALDLVQEGTLGLIRAVQKFDIAQGTKFSTYATWW 267 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK-KLAMPVEG 562 ++QAITR+IADQS TIR PVH+ ++++ R A + T E +A +P E Sbjct: 268 IRQAITRAIADQSRTIRYPVHLVERLNAFSRRALPDDDSA----TAELVATLPTTVPFES 323 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 R VL G+E + D D A ++ E L+ L+ Sbjct: 324 ARDVL-------------GEEVLQDVADRYLDPPAPD-----LRGFTVEDVAAALSILSE 365 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ RFG + TL+ +G + VTRERIRQI++KA+ +L+ Sbjct: 366 RERTIVDRRFGF-VGDAATLDVIGGELGVTRERIRQIQSKALGRLE 410 >gi|297580650|ref|ZP_06942576.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC385] gi|297535066|gb|EFH73901.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC385] Length = 477 Score = 140 bits (354), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 97/243 (39%), Positives = 131/243 (53%), Gaps = 29/243 (11%) Query: 289 EVYRELRSLQDN---AVN------GQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLV 339 E + ELR N AVN Q E S + + +E L + D LV Sbjct: 248 EKFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFRE--------FRLTPKQFDHLV 299 Query: 340 EQLYDISKRIMHNEGELLR-LAQSYGIKRDVFLERHQGRELDPHWVS--YAKDFPEGEWK 396 E L R+ E +++ + + + + F+ G E + W+ A D K Sbjct: 300 ETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASD------K 353 Query: 397 NFVACEVDSILKIRNEIKSISV---ETGISISEFRHIVSMVRKGECEASIAKKEMVEANL 453 +VA + +IR I+ + + ET +S+ + + + GE +A A KEMVEANL Sbjct: 354 TYVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDLSRRMSIGEAKARRANKEMVEANL 413 Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 LVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +K ++ GY FSTYA WW++QAITRSIA Sbjct: 414 PLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKSEYRRGYNFSTYATWWIRQAITRSIA 473 Query: 514 DQS 516 DQS Sbjct: 474 DQS 476 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 27 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 86 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 87 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 145 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 146 INQVQSAIAEYPGTIPYIL 164 >gi|15639996|ref|NP_219449.1| RNA polymerase sigma-43 factor (sigA) [Treponema pallidum subsp. pallidum str. Nichols] gi|189026235|ref|YP_001934007.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum SS14] gi|3323340|gb|AAC65963.1| RNA polymerase sigma-43 factor (sigA) [Treponema pallidum subsp. pallidum str. Nichols] gi|189018810|gb|ACD71428.1| RNA polymerase sigma-43 factor [Treponema pallidum subsp. pallidum SS14] Length = 311 Score = 140 bits (354), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 81/251 (32%), Positives = 136/251 (54%), Gaps = 14/251 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +V AN+R VISVA+ Y GL DLI EGNIGL+ AAE+F+ G +F +YA W Sbjct: 60 AKNALVRANVRFVISVARHYRTCGLPLADLISEGNIGLLTAAERFNPARGCRFISYAACW 119 Query: 504 VKQAITRSIADQSCTIRIPV---HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++Q+I +++ +++ IR+PV ++ + ++ I + K+ A Sbjct: 120 IRQSILKALNEKARIIRLPVSRIRAAKSTYEYIPPVTSVNVGISKTQGGNRYGKRRATMC 179 Query: 561 EGVRKV--LKITKEPISLETPI---------GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 V V + I P+SL+ P+ GD D +GD + D P + + L Sbjct: 180 RAVPTVEEVHIWHTPLSLDAPLGASGSRGESGDVDGLRIGDCVPDDLYAQPEEHMLACAL 239 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + ++L L R+ +V+R RFG+G +L+E+G+ F +T+ER+RQIE KA+ +++ Sbjct: 240 QADIAKILRLLPARDAQVIRYRFGLGGYERRSLQEIGEIFQITKERVRQIEKKALLRIRS 299 Query: 670 PSRSKKLRSFL 680 +R +L S++ Sbjct: 300 CARQHRLDSYI 310 >gi|293392779|ref|ZP_06637097.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] gi|291424638|gb|EFE97849.1| DNA-directed RNA polymerase sigma subunit RpoS [Serratia odorifera DSM 4582] Length = 202 Score = 140 bits (354), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 57/111 (51%), Positives = 90/111 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 +++ M+E+NLRLV+ +A++Y+NRGL LDLI+EGN+GL++A EKFD G++FSTYA WW Sbjct: 92 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA+ Sbjct: 152 IRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAE 202 >gi|318066947|emb|CBY89088.1| RNA polymerase sigma70 factor [Halomonas halodenitrificans] Length = 360 Score = 140 bits (353), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 80/199 (40%), Positives = 118/199 (59%), Gaps = 18/199 (9%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L +L + L + LV Q+ +++ E +++L + I R F++ G E Sbjct: 171 RLAELFSPIKLVPKHFERLVNQVRISVEQVRAQEKAVMQLCVKKARIPRKTFIKAFPGSE 230 Query: 379 LDPHWV-SYAKDFPEGEWKNFVACEVDSILKIRNEI----KSISVETG---ISISEFRHI 430 +P W+ ++ + P+ + + +R +I + I+ E + + E + + Sbjct: 231 SNPEWLDGFSDEHPK---------YAERLRPLRTDIQRAQRKIAFEEAMVRLPVKEIKEV 281 Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 282 NRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 341 Query: 491 CLGYKFSTYAMWWVKQAIT 509 GYKFSTYA WW++QAIT Sbjct: 342 RRGYKFSTYATWWIRQAIT 360 Score = 63.5 bits (153), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 31/60 (51%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M++L P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSALAYLPGAVGSILEAYDATQD 80 >gi|119476594|ref|ZP_01616904.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119449850|gb|EAW31086.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 194 Score = 140 bits (353), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 65/176 (36%), Positives = 115/176 (65%) Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ EPTPEEI Sbjct: 4 GFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPTPEEI 63 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A+ L PV V+++L++ + S++TP+G + L D I D + P + +++ + Sbjct: 64 AELLDRPVADVKRMLRLNERVASVDTPLGADSDKSLLDTIPDTHVSDPAEMLQDDDMKAS 123 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + LT ++ V+ RFG+ TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 124 ISEWIGELTEKQREVVARRFGLRGYETSTLEEVGREIGLTRERVRQIQVEALKRLR 179 >gi|318066975|emb|CBY89102.1| RNA polymerase sigma70 factor [Halomonas variabilis] Length = 368 Score = 140 bits (353), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 85/212 (40%), Positives = 122/212 (57%), Gaps = 16/212 (7%) Query: 306 KDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYG 364 K + S + K + +L L + L + LV Q+ +++ E +++L + Sbjct: 165 KHGRGSAELKAEQARLAVLFSPIKLVPKHFERLVGQVRISVEQVRAQEKAVMQLCVKKAK 224 Query: 365 IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEI----KSISVE- 419 + R F++ G E W+ DF + K D + +R +I + I+ E Sbjct: 225 VPRKTFIKSFPGNESRKTWLD---DFQAAQSKY-----ADRLEPLRADIARAQRKIAFEE 276 Query: 420 --TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 +S+S+ + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEG Sbjct: 277 DMVQLSVSDLKEVNRKLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 336 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 NIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 337 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 368 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSSLAYLPGAVASILNAYDATQD 80 >gi|323144152|ref|ZP_08078788.1| RNA polymerase sigma factor [Succinatimonas hippei YIT 12066] gi|322416060|gb|EFY06758.1| RNA polymerase sigma factor [Succinatimonas hippei YIT 12066] Length = 311 Score = 139 bits (351), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/241 (33%), Positives = 143/241 (59%), Gaps = 9/241 (3%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +V++G+ +A + M+ +NLRLVI VA+ Y RG+ LDLI+EGN+GL+ A KFD Sbjct: 67 LVQQGDVKA---RNSMITSNLRLVIKVARDYRTRGVPMLDLIEEGNLGLIHAVNKFDPER 123 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-EE 551 G++FSTYA WW++Q I ++ +QS +R+P H+ +++V++ +++ K + ++ Sbjct: 124 GFRFSTYATWWIRQGIEHAVMNQSRLVRLPFHVIKDLNQVLKVKKKLQEKAHGQAVAVKD 183 Query: 552 IAKKLAMPVEGVRKVLKITKEPISL-ETPIGDEDTSH---LGDFIEDKNAVSPLDSAIQA 607 IAK+L + + VR +L + E IS+ + + ++D+ L D + D+ + + Sbjct: 184 IAKELDIDEDKVRSML-VVAEGISISDLNVKNKDSEKNVSLLDLLADEKTPTLEEQFGNT 242 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + + SL R++ ++ RFGI N TLEE+G+ +TRER+RQ++ + L Sbjct: 243 EIEKLLRSWIDSLNERQKIIVIHRFGINDNDIKTLEEIGEMLHLTRERVRQLQKTVLISL 302 Query: 668 K 668 K Sbjct: 303 K 303 >gi|307824191|ref|ZP_07654417.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307734571|gb|EFO05422.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 391 Score = 139 bits (351), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 132/228 (57%), Gaps = 4/228 (1%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++M+ N+RL VA K+ L F DL+QEG +GL+KA ++FD GY+FSTYA+ W+ Sbjct: 149 RQQMIAGNVRLAAFVAHKHKTTVLSFDDLLQEGVVGLIKAVDRFDPYRGYQFSTYAIPWI 208 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 KQAI+R I Q +R+PV + ++ V R + +R P+ E++ + + ++ Sbjct: 209 KQAISRLIVKQEKIVRLPVALAERACAVFEAMRNAYLQTERWPSIEQLKSLCDLSEDEIK 268 Query: 565 KVLKITKEPISLETPIGD---EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + SL+ +GD ++ L ++ + PLD I NL +V+A+L Sbjct: 269 TIRNYYQATHSLDA-VGDAEEDEGQALMARMKQRQFALPLDELIDRNLGRYLDQVVATLP 327 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +E +L MRFG+ +T+ TL+ + Q V+RER+RQI+ A++KLK+ Sbjct: 328 DKEAAILNMRFGLKNHTEMTLQAIADQLQVSRERVRQIQNDALKKLKN 375 >gi|253583872|ref|ZP_04861070.1| RpoD family RNA polymerase sigma factor [Fusobacterium varium ATCC 27725] gi|251834444|gb|EES63007.1| RpoD family RNA polymerase sigma factor [Fusobacterium varium ATCC 27725] Length = 260 Score = 139 bits (351), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 89/263 (33%), Positives = 143/263 (54%), Gaps = 6/263 (2%) Query: 406 ILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +L I IK IS ++ E R I R G+ EA ++++V +NLRLVIS+A+KYTN Sbjct: 1 MLDISEYIKDISTYPLLTPKEEREIAVKARSGDREA---QEKLVTSNLRLVISIARKYTN 57 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 G+ LDLIQEGN+GL++A EK++ +FSTY+ +W+KQ+I R I IR P ++ Sbjct: 58 MGIPILDLIQEGNMGLIRAVEKYEPDKNIRFSTYSTFWIKQSILRYITSSRGLIRFPSYV 117 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 D I ++ + + NK P+ +EI + L M + + + + ++ + + E Sbjct: 118 YDGISRMKKYVQDYKNKNSHCPSIDEICRSLDMKKKEAERYIDVLEKGNGIGNEMYGEMV 177 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 + I D D I + + + L PRE VL R+G+ TL E+ Sbjct: 178 EYCSSIIYDDTFE---DEVIAKSSNIDLMKKVNKLPPREREVLIYRYGLLDEKVLTLGEI 234 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G++ +T+ERIRQI+ +AI +L+ Sbjct: 235 GQRMNLTKERIRQIQLEAIDRLR 257 >gi|255566078|ref|XP_002524027.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223536754|gb|EEF38395.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 508 Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 144/248 (58%), Gaps = 14/248 (5%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S+A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 263 SLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFRISTYVY 322 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA-------K 554 WW++Q ++R++ + S T+R+P H+ +++ ++R A+ + P+ + IA K Sbjct: 323 WWIRQGVSRALVENSRTLRLPNHLHERL-GLIRNAKIRLEEKGVTPSIDRIAESLNISQK 381 Query: 555 KLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+ E V KV + +E SL G+ S++ D + N P L++ Sbjct: 382 KVRNATEAVSKVFSLDREAFPSLNGLPGETHHSYIADNCLENN---PWHGVDDWALKDEV 438 Query: 614 TRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +++ +L RE+ ++R+ +G+ N T E++ K+ ++RER+RQ+ A+ KLKH +R Sbjct: 439 NKLINLTLQEREQEIIRLYYGLD-NESLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497 Query: 673 SKKLRSFL 680 KKL + L Sbjct: 498 KKKLEAML 505 >gi|85706634|ref|ZP_01037726.1| RNA polymerase sigma subunit [Roseovarius sp. 217] gi|85668692|gb|EAQ23561.1| RNA polymerase sigma subunit [Roseovarius sp. 217] Length = 830 Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 84/237 (35%), Positives = 131/237 (55%), Gaps = 9/237 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ +L V A + G + D+ Q +GL ++ +FD GY+F YA +W Sbjct: 499 ATEHLIREHLPYVRRFASRNVEEGEEPEDVFQVAFMGLQRSTRRFDPERGYRFLIYATYW 558 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QAI R AD+ IRIPVH +K+ K+ R R+ ++ + ++A++L ++ V Sbjct: 559 MRQAIMRWRADEGAAIRIPVHRNEKVTKLDRALDRLDVRVGGAVSDLDLAEELEWAIDEV 618 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R+ I P E P +D +L + + + V LD QA T LA L R Sbjct: 619 RQFRCI---PRKAEYPASLDDWDNL---LPEPSEVDVLD---QAETERIVTEALADLPER 669 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + V+RMRFGIG +++ TLEE+G+ + VTRERIRQIEAK + L HP R ++L+ L Sbjct: 670 QADVIRMRFGIGHDSEMTLEEIGQIYGVTRERIRQIEAKGLDLLSHPGRKRRLQELL 726 >gi|237757189|ref|ZP_04585608.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium yellowstonense SS-5] gi|237690651|gb|EEP59840.1| RNA polymerase sigma-70 factor [Sulfurihydrogenibium yellowstonense SS-5] Length = 285 Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 88/274 (32%), Positives = 150/274 (54%), Gaps = 9/274 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KSI +S E ++ V++G+ EA ++++ +NLR VI++AK+Y G+ F D Sbjct: 14 LKSIYKIPLLSKEEEESLLKKVKEGDKEAL---QKLIISNLRFVINIAKRYAGYGIPFSD 70 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI GN+GL++AA+KFD G +F +YA+WW++Q+I +I +S I+ P M K+ Sbjct: 71 LISAGNVGLIEAAKKFDTSKGVRFISYAVWWIRQSIINTIQHESEIIKKPNRMYAYASKI 130 Query: 533 VRTARRMSNKIKREPTPEEI-----AKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTS 586 + + + REP+ +EI + + + E V +SL+TPI G ++ Sbjct: 131 NNAYSYLKDTLNREPSIDEIISFLKTQGIKVEKEMVENYFLFKSVFLSLDTPIEGTDNDL 190 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L D I N + + +L+ +L +L+ RE +L RFG+ TL EVG Sbjct: 191 VLEDTISVYNTLDIEKDINEEDLKRAIETLLDTLSQRERTILIHRFGLNGEEPKTLNEVG 250 Query: 647 KQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + ++RER+RQIE + ++KL+ ++ KKL + Sbjct: 251 EIVGLSRERVRQIENRVLKKLRKIAKIKKLEDLI 284 >gi|239814806|ref|YP_002943716.1| RNA polymerase, sigma 70 family subunit [Variovorax paradoxus S110] gi|239801383|gb|ACS18450.1| putative RNA polymerase, sigma 70 family subunit [Variovorax paradoxus S110] Length = 331 Score = 139 bits (349), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 82/235 (34%), Positives = 136/235 (57%), Gaps = 12/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLV+++AK Y RG+ DLI+EGN+GLM A KF+ G++FSTYA WW Sbjct: 85 ARQSMIEHNLRLVVNIAKAYLGRGVPLSDLIEEGNLGLMHAITKFEPERGFRFSTYATWW 144 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK---IKREPTP---EEIAKKLA 557 ++Q++ R++ Q+ IR+PVH+ ++ +V+R R + + P E++A L Sbjct: 145 IRQSVERAVLTQARAIRLPVHVVRELQQVLRARRTLEGDAEFLAHRPDGVRVEDVAAFLG 204 Query: 558 MPVEGVRKVLKITKEPISLET--PIGDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETT 613 + V+ V ++L + + P SL+ GDE + L D + ED+ P D + Sbjct: 205 LEVQAVAELLALAEAPRSLDAGDAHGDEGFT-LADTVASEDEQG-DPTDVTHTHEVARLL 262 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + +L RE VL R+G+ TLE + + +TRER+RQI+ +A+ K++ Sbjct: 263 DQWVHALDAREREVLEGRYGLHDREPETLEVLSVRLGLTRERVRQIQNEALAKMR 317 >gi|11762220|gb|AAG40388.1|AF325036_1 At1g64860 [Arabidopsis thaliana] Length = 502 Score = 138 bits (348), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 145/250 (58%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 255 ECHLAREKLAMSNVRLVMSIAQRYNNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 314 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 315 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 373 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 374 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 430 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE+ ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 431 EVSKLISATLGEREKEIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 489 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 490 ARKRKMEAMI 499 >gi|164690667|dbj|BAF98617.1| putative DNA helicase [Streptomyces argenteolus] Length = 1064 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 79/222 (35%), Positives = 129/222 (58%), Gaps = 4/222 (1%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V N+RLV + Y +G+ DL+Q G +G+M+AAEKFD G +FSTYA WW++QA Sbjct: 156 LVLHNIRLVHAAVAPYLGQGVDREDLVQHGVLGVMRAAEKFDPRAGTRFSTYATWWIRQA 215 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ++R++AD+ TIRIP H+RD + KV RR + R P P+++A +L +P + V L Sbjct: 216 VSRAVADEGSTIRIPAHVRDVVLKVAVACRRSRERGLR-PRPQDLAAELDLPPDTVNLAL 274 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-RETTTRVLASLTPREER 626 ++++ SL+ + L I ++A+ + ++A R+ +L L R Sbjct: 275 RVSRPADSLDRVADGVRPAELA--ISLRDAIPGPEETLRAAFGRQWVDWLLEPLPARNAD 332 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++R R G+ TL+++G + VTRERIRQ E +A+ L+ Sbjct: 333 IVRRRNGVIKGEPQTLKDIGVLYGVTRERIRQNEKRALAVLR 374 >gi|318066929|emb|CBY89079.1| RNA polymerase sigma70 factor [Halomonas boliviensis] Length = 368 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 129/229 (56%), Gaps = 18/229 (7%) Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 E RE +L + A K + S + K + +L L + L + LV Q+ ++ Sbjct: 150 EQIREQNALVEAAFA--KHGRGSAELKSEQARLAVLFSPIKLVPKHFERLVGQVRISVEQ 207 Query: 349 IMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 + E +++L + + R F++ G E W+ DF + K D + Sbjct: 208 VRAQEKAVMQLCVKKAKVPRKTFIKSFPGNESRKTWLD---DFQAAQSKY-----ADRLE 259 Query: 408 KIRNEI----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 +R +I + I+ E +S+++ + + + GE +A AKKEMVEANLRLVIS+A Sbjct: 260 PLRADIARAQRKIAFEEDMVQLSVADLKEVNRKLSIGEAKARRAKKEMVEANLRLVISIA 319 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 320 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 368 Score = 65.1 bits (157), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSSLAYLPGAVASILDAYDATQD 80 >gi|325475291|gb|EGC78476.1| region 2 family RNA polymerase sigma-70 factor [Treponema denticola F0402] Length = 275 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 84/237 (35%), Positives = 134/237 (56%), Gaps = 6/237 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V+KG EA + +V +NLRLVI +AKK+++ Q L+LIQEGN+GLMKAA KF Sbjct: 31 VKKGNTEAI---EVLVTSNLRLVIKMAKKFSSNENQILELIQEGNMGLMKAASKFSKSFK 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FS+YA WW+KQ+ R + I++PV I +V + K P+ ++A Sbjct: 88 VRFSSYAAWWIKQSFIRYLNSADKVIKLPVRKEALIRQVNKEEENYKIKYGILPSYSQLA 147 Query: 554 KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + + V+ + +V I SL+ P+ +E +++L DFI N +P + I +E Sbjct: 148 EIMKEKVDIIAQVKSFNYTDICSLDDPVDNERSANLYDFIPC-NTYNPEEEFIDNEFKEK 206 Query: 613 TTRVLASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L RE+ VLR R+G+ G T T +GK++ ++ E IRQ + +A++KL+ Sbjct: 207 LNKCLEILNDREKDVLRNRYGLDGTMTSTTFAVLGKKYSISAESIRQTQLRALKKLR 263 >gi|319792729|ref|YP_004154369.1| RNA polymerase, sigma 70 family subunit [Variovorax paradoxus EPS] gi|315595192|gb|ADU36258.1| putative RNA polymerase, sigma 70 family subunit [Variovorax paradoxus EPS] Length = 340 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 131/233 (56%), Gaps = 8/233 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLV+++AK Y RG+ DLI+EGN+GLM A KF+ G++FSTYA WW Sbjct: 94 ARQSMIEHNLRLVVNIAKGYLGRGVPLSDLIEEGNLGLMHAITKFEPERGFRFSTYATWW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK---IKREPTP---EEIAKKLA 557 ++Q++ R++ Q+ IR+PVH+ ++ +V+R R + + R P E+IA L Sbjct: 154 IRQSVERAVMTQARAIRLPVHVVRELQQVLRARRALEGDAEFVARRPDGVRVEDIAALLG 213 Query: 558 MPVEGVRKVLKITKEPISLET--PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 V+ V +L +++ P SL+ GDE + D +P + + Sbjct: 214 RDVQEVADLLALSEAPRSLDAGDARGDEGFTLADTVASDDEQGNPSGVTQAHEVERLLDQ 273 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L RE VL R+G+ TLE + + +TRER+RQI+ +A+ K++ Sbjct: 274 WIHALDAREREVLEGRYGLHDREPETLEVLSVRLGLTRERVRQIQNEALAKMR 326 >gi|318066965|emb|CBY89097.1| RNA polymerase sigma70 factor [Halomonas pacifica] Length = 362 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 88/229 (38%), Positives = 126/229 (55%), Gaps = 18/229 (7%) Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 E RE +L AV +K S + + + +L +L + L + LV Q+ ++ Sbjct: 144 EQIREQNALVKAAV--EKHGYGSAEAQAEQARLAELFSPIKLVPKHFERLVGQVRISVEQ 201 Query: 349 IMHNEGELLRLAQSYG-IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 + E ++++ G + R F++ G E W+ E+ A D + Sbjct: 202 VRAQEKAIMQVFVKRGKVPRKAFIKSFPGNESRAEWMD--------EFLADNAKYADRLE 253 Query: 408 KIRNEI----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 R ++ + IS E + + E + + + GE +A AKKEMVEANLRLVIS+A Sbjct: 254 PFRGDVQRAQRKISFEEDMVQLPVGELKEVNRRLSIGEAKARRAKKEMVEANLRLVISIA 313 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 314 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 362 >gi|239934550|emb|CAR94589.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 225 Score = 138 bits (348), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 95/240 (39%), Positives = 142/240 (59%), Gaps = 32/240 (13%) Query: 131 IELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEAC 190 + L++R G IAIAKRIEAGR M++ LCESPL+FQA+IIWRDELN+G LLR+IIDLEA Sbjct: 1 LTLVAR-GRIAIAKRIEAGREAMISGLCESPLSFQAIIIWRDELNEGKILLRDIIDLEAT 59 Query: 191 I-GPESK----------GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKD 239 GP++K KRE +++E G S +S D Sbjct: 60 YAGPDAKKVEAPTPEERERKEKEARKAEADKREKAAEEMRAKSGSRRGG---SDDVLSAD 116 Query: 240 DRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQD 299 D V+ P ++ ++++ + +L+AME +L+P V+ D IA+ Y+ LR LQD Sbjct: 117 DFEPVEQPDDDDDDEDEEAN-------VSLAAMEAELKPHVLETFDRIAKTYKSLRKLQD 169 Query: 300 NAVNGQKDEKSSV------KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNE 353 V+ EK+++ + + L+E++++ V SLSLN +RI+ LVEQLYDI++R++ E Sbjct: 170 QEVS----EKTALSPSQGRRYRKLREEIIEDVKSLSLNAARIEALVEQLYDINRRLISLE 225 >gi|2385344|emb|CAA74896.1| sigma factorB [Arabidopsis thaliana] Length = 500 Score = 138 bits (347), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 145/250 (58%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 253 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 312 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 313 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 371 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 372 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 428 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE+ ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 429 EVSKLISATLGEREKEIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 487 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 488 ARKRKMEAMI 497 >gi|295133351|ref|YP_003584027.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] gi|294981366|gb|ADF51831.1| RNA polymerase sigma-70 factor [Zunongwangia profunda SM-A87] Length = 284 Score = 138 bits (347), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 77/252 (30%), Positives = 143/252 (56%), Gaps = 8/252 (3%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + RK + A +V +NLR V+SVAK+Y +GL DLI EGN+GL+KAA +FD Sbjct: 37 VELTRKIKAGDKKALHTLVTSNLRFVVSVAKQYQFKGLSLSDLIAEGNLGLIKAANRFDE 96 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G+KF +YA+WW++QA+ +SI++ + +R+P++ I+K+ + + ++RE + E Sbjct: 97 TRGFKFISYAVWWIRQAMVQSISENARVVRLPLNKLTLINKIRKANSALQQLLQREASLE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E++ L +P+ + + K +SL+ P+ +++ DF ++ S ++ Q L Sbjct: 157 EVSNFLNLPLTEIEEAGKSNATYLSLDKPLSNDN----DDFTLNQLITSKIEDPDQGLLN 212 Query: 611 ETTT----RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +T+ +++ L RE+ V+ + FG+ +L ++ +T ER+RQI+ + K Sbjct: 213 VSTSHEINQLMTILEKREKEVIILLFGLNGGEAKSLRDISTLLGLTSERVRQIKEMGLIK 272 Query: 667 LKHPSRSKKLRS 678 L+ ++ L S Sbjct: 273 LRRSPKAAILFS 284 >gi|15217767|ref|NP_176666.1| SIGA (SIGMA FACTOR A); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|5042421|gb|AAD38260.1|AC006193_16 RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|2353171|gb|AAB69384.1| sigma factor 1 [Arabidopsis thaliana] gi|2443408|dbj|BAA22421.1| SigA [Arabidopsis thaliana] gi|2558514|emb|CAA74640.1| plastid RNA polymerase sigma factor [Arabidopsis thaliana] gi|5478439|dbj|BAA82448.1| sigma factor SigA [Arabidopsis thaliana] gi|17064900|gb|AAL32604.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|20259916|gb|AAM13305.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] gi|222423019|dbj|BAH19492.1| AT1G64860 [Arabidopsis thaliana] gi|332196177|gb|AEE34298.1| sigma factor A [Arabidopsis thaliana] Length = 502 Score = 138 bits (347), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 145/250 (58%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 255 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 314 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 315 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 373 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 374 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 430 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE+ ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 431 EVSKLISATLGEREKEIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 489 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 490 ARKRKMEAMI 499 >gi|2398851|dbj|BAA22214.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] Length = 502 Score = 138 bits (347), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 145/250 (58%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 255 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 314 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 315 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 373 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 374 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 430 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE+ ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 431 EVSKLISATLGEREKEIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 489 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 490 ARKRKMEAMI 499 >gi|2565297|gb|AAB81958.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana] Length = 502 Score = 137 bits (346), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 145/250 (58%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 255 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 314 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 315 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 373 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 374 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 430 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE+ ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 431 EVSKLISATLGEREKEIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 489 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 490 ARKRKMEAMI 499 >gi|42525589|ref|NP_970687.1| sigma-70 family RNA polymerase sigma factor [Treponema denticola ATCC 35405] gi|41815600|gb|AAS10568.1| RNA polymerase sigma-70 factor, region 2 family [Treponema denticola ATCC 35405] Length = 275 Score = 137 bits (346), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 83/237 (35%), Positives = 134/237 (56%), Gaps = 6/237 (2%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V+KG EA + +V +NLRLVI +AKK+++ Q L+LIQEGN+GLMKAA KF Sbjct: 31 VKKGNTEAI---EVLVTSNLRLVIKMAKKFSSNENQILELIQEGNMGLMKAASKFSKSFK 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FS+YA WW+KQ+ R + I++PV I +V + K P+ ++A Sbjct: 88 VRFSSYAAWWIKQSFIRYLNSADKVIKLPVRKEALIRQVHKEEENYKIKYGILPSYSQLA 147 Query: 554 KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + + V+ + ++ I SL+ P+ +E +++L DFI N +P + I +E Sbjct: 148 EIMKEKVDIIAQIKSFNYTDICSLDDPVDNERSANLYDFIPC-NTYNPEEEFIDNEFKEK 206 Query: 613 TTRVLASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L RE+ VLR R+G+ G T T +GK++ ++ E IRQ + +A++KL+ Sbjct: 207 LNKCLEILNDREKDVLRNRYGLDGTMTSTTFAVLGKKYSISAESIRQTQLRALKKLR 263 >gi|218961053|ref|YP_001740828.1| putative RNA polymerase, sigma S (sigma 38) factor [Candidatus Cloacamonas acidaminovorans] gi|167729710|emb|CAO80622.1| putative RNA polymerase, sigma S (sigma 38) factor [Candidatus Cloacamonas acidaminovorans] Length = 292 Score = 137 bits (346), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 143/264 (54%), Gaps = 10/264 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++N + IS +S E + + G+ +A ++++ANL+ V+ +A +Y NRGL Sbjct: 13 LQNYLNEISKFKTLSREEEHDLAIKAKNGDMDAM---NKLIQANLKFVVKIASRYQNRGL 69 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 +LI EGNIGL+KA EKFD K +YA+WW+KQ I +++++S IR+P+ Sbjct: 70 SLSELISEGNIGLIKAIEKFDPDKDIKLISYAIWWIKQRIMLAVSEKSSLIRVPMGKSSA 129 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 H+V T R + + TP+E+++K+ + + + ++ E S + I D+ Sbjct: 130 AHRVKLTQDRYFTETGKIATPDELSEKMNIAEKTIEQLQNKLPETSSFDDIITTSDSQDF 189 Query: 589 G--DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH---TLE 643 D +EDK+ + P Q ++E ++ L RE ++R F G+N H Sbjct: 190 TAKDLLEDKDTLDPQSLYYQERMQEKIQNAISKLDAREAEIIRNYF--GLNESHESRNFA 247 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 ++ ++ ++RER+RQI+ +A++K+ Sbjct: 248 QIAEKLGLSRERVRQIQKEALKKI 271 >gi|318066971|emb|CBY89100.1| RNA polymerase sigma70 factor [Halomonas sulfidaeris] Length = 368 Score = 137 bits (346), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 87/229 (37%), Positives = 129/229 (56%), Gaps = 18/229 (7%) Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 E RE +L + A K + S + K + +L L + L + LV Q+ ++ Sbjct: 150 EQIREQNALVEAAFA--KHGRGSPELKAEQARLAVLFSPIKLVPKHFERLVGQVRISVEQ 207 Query: 349 IMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 + E +++L + + R F++ G E W+ E++ + D + Sbjct: 208 VRAQEKAVMQLCVKKAKVPRKTFIKSFPGNESSKTWLD--------EFQAAQSKYADRLE 259 Query: 408 KIRNEI----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 +R +I + I+ E +S+++ + + + GE +A AKKEMVEANLRLVIS+A Sbjct: 260 PLRADIARAQRKIAFEEDMVQLSVADLKEVNRKLSIGEAKARRAKKEMVEANLRLVISIA 319 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 320 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 368 Score = 64.7 bits (156), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSSLAYLPGAVASILDAYDATQD 80 >gi|224088962|ref|XP_002308586.1| predicted protein [Populus trichocarpa] gi|222854562|gb|EEE92109.1| predicted protein [Populus trichocarpa] Length = 559 Score = 137 bits (346), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 133/234 (56%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+++ LV+ +A+ Y G+ DLIQ GN+GL++ AE+FD GY+FSTY +W+++ Sbjct: 324 ELIKNTHSLVLYIARNYRGMGIAMEDLIQAGNLGLLQGAERFDPTRGYRFSTYVQYWIRK 383 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 ++ + + + I+IP + I+K+ + + +SN R P E+AK + + + Sbjct: 384 SMLKIVERHARGIQIPYALSRSINKIQKARKALSNSHGRYPDDWEVAKFTGLSLAKIESA 443 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 K + SL+ IG+ + +FI D + +P ++ ++ ++RE +L L RE++ Sbjct: 444 QKCLRVVASLDQKIGEGHYAKYSEFIPDMSIQNPEEAVMRQHMREEIYDLLRGLDSREKQ 503 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 V+ +R+G N +L E+G+ F V++ER+R+IE K + KL+ + L ++ Sbjct: 504 VMVLRYGFKDNQPKSLAEIGRLFRVSKERVRKIEKKIMIKLRDEGIRRNLSRYM 557 >gi|318066963|emb|CBY89096.1| RNA polymerase sigma70 factor [Halomonas neptunia] Length = 368 Score = 137 bits (346), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 87/229 (37%), Positives = 129/229 (56%), Gaps = 18/229 (7%) Query: 289 EVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKR 348 E RE +L + A K + S + K + +L L + L + LV Q+ ++ Sbjct: 150 EQIREQNALVEAAFA--KHGRGSPELKAEQARLAVLFSPIKLVPKHFERLVGQVRISVEQ 207 Query: 349 IMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSIL 407 + E +++L + + R F++ G E W+ E++ + D + Sbjct: 208 VRAQEKAVMQLCVKKAKVPRKTFIKSFPGNESSKTWLD--------EFQAAQSKYADRLE 259 Query: 408 KIRNEI----KSISVE---TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 +R +I + I+ E +S+++ + + + GE +A AKKEMVEANLRLVIS+A Sbjct: 260 PLRADIARAQRKIAFEEDMVQLSVADLKEVNRKLSIGEAKARRAKKEMVEANLRLVISIA 319 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 KKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 320 KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 368 Score = 64.7 bits (156), Expect = 4e-08, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 41/60 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGTREVMSSLAYLPGAVASILDAYDATQD 80 >gi|326773499|ref|ZP_08232782.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] gi|326636729|gb|EGE37632.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] Length = 147 Score = 137 bits (345), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 73/145 (50%), Positives = 96/145 (66%) Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 R+M + REPTPEE+A +L M E V +V K +EPISL TP+G++ S GD IED Sbjct: 3 RQMLQDLGREPTPEELAVELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSE 62 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 AV P D+ L+E VL +L+ RE V+ MRFG+ TL+E+GK + VTRERI Sbjct: 63 AVVPADAVSFTLLQEQLHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERI 122 Query: 657 RQIEAKAIRKLKHPSRSKKLRSFLD 681 RQIE+K + KL+HPSRS+ LR +LD Sbjct: 123 RQIESKTMSKLRHPSRSQVLRDYLD 147 >gi|224146103|ref|XP_002325882.1| predicted protein [Populus trichocarpa] gi|222862757|gb|EEF00264.1| predicted protein [Populus trichocarpa] Length = 509 Score = 137 bits (345), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 78/250 (31%), Positives = 143/250 (57%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + S+A++++ +N+RLV+S+A+KY N G + DL+Q G IGL++ EKFD G+K STY Sbjct: 262 QCSLAREKLAMSNVRLVMSIAQKYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTY 321 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 322 VYWWIRQGVSRALVDNSRTLRLPNHLHERL-GLIRNAKIRLEEKGVTPSIDRIAESLNMS 380 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E + KV + +E SL G+ S++ D + N P + L+E Sbjct: 381 QRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADNRPENN---PWHGVDEWALKE 437 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +++ ++L RE+ ++R+ G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 438 EVNKLIDSTLQEREKEIIRLYHGLDQEC-LTWEDISKRMGLSRERVRQVGLVALEKLKHA 496 Query: 671 SRSKKLRSFL 680 +R + + L Sbjct: 497 ARKRNTEAML 506 >gi|120553093|ref|YP_957444.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] gi|120322942|gb|ABM17257.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] Length = 330 Score = 137 bits (345), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 136/235 (57%), Gaps = 2/235 (0%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+ A + ++++NLRL + +A++Y + G+ DLIQ+ N+GL+KA E++D G+ Sbjct: 87 RRAYHLALACRHRLIQSNLRLAVHIARRYGHHGIAMSDLIQDANVGLIKAVERYDPGKGF 146 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA WW+ + + R + + P ++ ++I ++ + + R+ + REPT E+A+ Sbjct: 147 RFSTYAYWWISEEVRRCLQRGVRVVHTPENVVEEIRQLQKVSMRLHQSLGREPTQSELAR 206 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 ++ + ++ + +S + P+ ++ + L D + D A + D +A R Sbjct: 207 EMEATPSRIGELRALAAREVSTDVPLVEDGSVTLADSL-DAGADTRPDQPFRARDRMIRL 265 Query: 615 -RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R++ +L+ RE +L R+G+G+ TL+ + +Q ++RER+RQIE A+RKL+ Sbjct: 266 ERMMGALSDRERDILTRRYGLGLIEPETLQTISEQLGLSRERVRQIEKGALRKLQ 320 >gi|297837779|ref|XP_002886771.1| RNA polymerase sigma subunit 1 [Arabidopsis lyrata subsp. lyrata] gi|297332612|gb|EFH63030.1| RNA polymerase sigma subunit 1 [Arabidopsis lyrata subsp. lyrata] Length = 503 Score = 137 bits (344), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 144/250 (57%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 256 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 315 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 316 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 374 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V K+ + ++ SL G+ S++ D + N P L+E Sbjct: 375 QKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSYIADNRVENN---PWHGYDDLALKE 431 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 ++++ A+L RE ++R+ +G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 432 EVSKLISATLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 490 Query: 671 SRSKKLRSFL 680 +R +K+ + + Sbjct: 491 ARKRKMEAMI 500 >gi|194696078|gb|ACF82123.1| unknown [Zea mays] gi|323388703|gb|ADX60156.1| SIGMA70-like transcription factor [Zea mays] Length = 541 Score = 137 bits (344), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 84/255 (32%), Positives = 137/255 (53%), Gaps = 6/255 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + S VR G +++M +N RLVI VA+KY GL DL+Q+G GLMK EK Sbjct: 289 RELQSCVRTGR----RCREKMARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEK 344 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F+ G +F TYA WW++Q+I +SI S IR+P + + KV + AR +P Sbjct: 345 FNPSKGCRFPTYAYWWIRQSIKKSIFKNSRLIRLPESVYALLRKVGK-ARMECIMDGEQP 403 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E +A++ + +E + K+ T++ S++ + +D + ED N P S + Sbjct: 404 TNEVVARRAGITIEKLAKLRAKTRKVRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRL 463 Query: 608 NLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +R+ L L+PRE+ ++ RFGI TL +G + +++ERIRQ++ KA+ K Sbjct: 464 MMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDK 523 Query: 667 LKHPSRSKKLRSFLD 681 L++ ++ + D Sbjct: 524 LRNSISAQGFHVYFD 538 >gi|291529642|emb|CBK95228.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium rectale M104/1] Length = 340 Score = 137 bits (344), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 89/258 (34%), Positives = 140/258 (54%), Gaps = 23/258 (8%) Query: 445 KKEMVEANLRLVISVAKKYTN--RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 K E+ N+RLV+ VAK+Y + ++ +DLI E ++GL+KA +++D+ GYKFSTYA W Sbjct: 82 KDEIFSRNIRLVVYVAKRYYKNLKHMEPIDLIDEASLGLLKAIDRYDYTTGYKFSTYAYW 141 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W+ QA TRSIA+ + IR PVH+ + I KV + R+ + IAK+L + E Sbjct: 142 WINQACTRSIANDNDLIRQPVHIHEFIIKVKKAQRKWGQTHDNNAPVDYIAKELNVSEEK 201 Query: 563 VRKVLKIT---KEPISLETPI-------GDEDTSHL-----GDFIEDKNAVSPLDSAIQA 607 VR +L I ISL+ + GD + + G+ +K V+ + I Sbjct: 202 VRNILIIIDCQSNYISLDCTMSKGSEEPGDTEVGEIVLDPKGNVDFEKVEVNQFQNRIIE 261 Query: 608 NLRETTTRVLAS------LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 L + + A T R V++ RFG TLEE+ + + V+RERIRQIEA Sbjct: 262 ILSKANNKTSAKSNRSVEQTKRMIDVIKRRFGFDNCRIETLEEIAQSYGVSRERIRQIEA 321 Query: 662 KAIRKLKHPSRSKKLRSF 679 +A++ L++P ++L ++ Sbjct: 322 QALKILRNPKYKRELATW 339 >gi|291448259|ref|ZP_06587649.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Streptomyces roseosporus NRRL 15998] gi|291351206|gb|EFE78110.1| LOW QUALITY PROTEIN: RNA polymerase sigma factor RpoD [Streptomyces roseosporus NRRL 15998] Length = 360 Score = 137 bits (344), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 57/81 (70%), Positives = 72/81 (88%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 278 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 337 Query: 504 VKQAITRSIADQSCTIRIPVH 524 ++QAITR++ADQ+ TIRIPVH Sbjct: 338 IRQAITRAMADQARTIRIPVH 358 Score = 42.4 bits (98), Expect = 0.27, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 214 ATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 247 >gi|149190801|ref|ZP_01869066.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Vibrio shilonii AK1] gi|148835363|gb|EDL52335.1| sigma S (sigma 38) factor of RNA polymerase, major sigma factor during stationary phase [Vibrio shilonii AK1] Length = 289 Score = 137 bits (344), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 80/263 (30%), Positives = 145/263 (55%), Gaps = 44/263 (16%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ---FLDLIQEGNIGLMKAA 485 H ++ R+G+ A+ ++E+NLRLV+ +A+ YT RGL LDLI+EGN+GL+KA Sbjct: 40 HYATLARRGD---KAARDVLIESNLRLVVKIARNYTKRGLSNHTILDLIEEGNLGLIKAI 96 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF+ G++FSTYA+WW++++I S+ + T+R+PVH+ +I+++ + + ++R Sbjct: 97 DKFEPEKGFRFSTYAVWWIRESIESSLMNTGRTVRLPVHVIKEINRLSKQTNEIIADLQR 156 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 P+ +EIA+K A ++ IS D H+ FIE ++V +D Sbjct: 157 PPSVKEIAEKTAK-----------SQAQIS--------DLIHMSGFIESSSSVDTIDKEF 197 Query: 606 QA-------------------NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 Q+ L ++ V+ SL + ++ RFG+ TL+ +G Sbjct: 198 QSLETCKSEAIPEPYDICHNEKLSQSLESVVLSLPEKYRDIVIHRFGLFGKEVLTLDNLG 257 Query: 647 KQFCVTRERIRQIEAKAIRKLKH 669 + F +++ER+RQ++ + I KL++ Sbjct: 258 EMFGLSKERVRQLQQEGISKLQN 280 >gi|162458769|ref|NP_001105507.1| sigma-like factor6 [Zea mays] gi|4336610|gb|AAD17856.1| sigma factor SIG6 [Zea mays] Length = 541 Score = 136 bits (343), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 84/255 (32%), Positives = 137/255 (53%), Gaps = 6/255 (2%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + S VR G +++M +N RLVI VA+KY GL DL+Q+G GLMK EK Sbjct: 289 RELQSCVRTGR----RCREKMARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEK 344 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F+ G +F TYA WW++Q+I +SI S IR+P + + KV + AR +P Sbjct: 345 FNPSKGCRFPTYAYWWIRQSIKKSIFKNSRLIRLPESVYALLRKVGK-ARMECIMDGEQP 403 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E +A++ + +E + K+ T++ S++ + +D + ED N P S + Sbjct: 404 TNEVVARRAGITIEKLAKLRAKTRKVRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRL 463 Query: 608 NLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +R+ L L+PRE+ ++ RFGI TL +G + +++ERIRQ++ KA+ K Sbjct: 464 MMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDK 523 Query: 667 LKHPSRSKKLRSFLD 681 L++ ++ + D Sbjct: 524 LRNSISAQGFHVYFD 538 >gi|20808499|ref|NP_623670.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] gi|20517120|gb|AAM25274.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 265 Score = 136 bits (343), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 83/239 (34%), Positives = 142/239 (59%), Gaps = 7/239 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTN-RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A+ E+VE N+ LV+S+A ++ G++ DLIQEG IGL+ A E FD GY+FSTYA++ Sbjct: 26 ARDEIVEKNIGLVVSIAANFSKAYGVELDDLIQEGFIGLLAAIEGFDHTKGYRFSTYAVF 85 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++KQ I R I +S TI +PV K+++V+ ++ ++K E PEEIA++ + E Sbjct: 86 YIKQKIQRYIWGRSRTIHLPVKTYQKLNQVLSAQLKLE-QVKGEAFPEEIAEETGIKTEE 144 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLT 621 V +L + +SL + + D + L D I D+ + + +D LR+ L L Sbjct: 145 VVNLLSLKNPTVSLNQQLYENDNTELIDVILDEQSENEIDRNYSLEELRKILKECLEVLP 204 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 +E VL MR+G+ T TL+++ + ++++R QIE +A+++L++ S+K+R+ L Sbjct: 205 EKERSVLEMRYGLN-GTPMTLKQIAEILNISKQRAGQIEKRALQRLRN---SRKIRNAL 259 >gi|323454681|gb|EGB10551.1| hypothetical protein AURANDRAFT_23034 [Aureococcus anophagefferens] Length = 388 Score = 136 bits (342), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 81/248 (32%), Positives = 138/248 (55%), Gaps = 16/248 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + ANLRLV+S+AK+Y GL DL+QEG GL +A E+FD G++FSTYA +W Sbjct: 133 ARSTLTSANLRLVVSIAKRYRFCGLAQEDLLQEGAFGLSRAVERFDPERGFRFSTYATFW 192 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++QA+ R+ A+QS IR+P H+ D++ + + + +S ++ R+ T +E+A L + Sbjct: 193 IRQAVLRACAEQSRVIRLPAHVHDQLASMRKASAELSRRLGRDATDDELADHLELEKPEK 252 Query: 564 RKVLK--ITKEPISLE-------------TPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 L+ ++P SL+ G + + + + D + P + +A Sbjct: 253 LAFLRRCAAQDPSSLDEKHAIHAGRGSSVGGGGAAGATTIAESLSDDTILVPDEFVAEAA 312 Query: 609 LRETTTRVLASLTP-REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE +LA++ RE VL MRFG+ N + ++ ++ V+RER+RQIE +A+ KL Sbjct: 313 SREYVGDLLATVCNDRERDVLGMRFGLYGNAPISKTKIAERLAVSRERVRQIEVRALTKL 372 Query: 668 KHPSRSKK 675 + R+ + Sbjct: 373 RQTHRANR 380 >gi|318066995|emb|CBY89112.1| RNA polymerase sigma70 factor [Salinicola salarius] Length = 368 Score = 135 bits (341), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 81/213 (38%), Positives = 118/213 (55%), Gaps = 16/213 (7%) Query: 305 QKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG 364 +K + S + + + +L +L + L+ + LV Q+ ++ E ++++ G Sbjct: 164 EKHGRGSEEADIEQARLAELFSPIKLSPKHFERLVGQVRISVDQVRSQEKAIMQVFVKQG 223 Query: 365 -IKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETG-- 421 + R F+ G E W F E KN D + R +++ + G Sbjct: 224 KVPRKTFISSFLGNETAEGW------FDEFIAKN--GKYADRLEPFRGDVQRAQRKIGFE 275 Query: 422 -----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 + + + + + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQE Sbjct: 276 QEMVLLDVGQLKEVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQE 335 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 GNIGLMKA +KF++ GYKFSTYA WW++QAIT Sbjct: 336 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 368 Score = 65.5 bits (158), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 42/60 (70%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ D+ D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEILIAKRIEEGLREVMSSLAYLPGAVDSILDVYDQTQD 80 >gi|6682871|dbj|BAA88922.1| sigma factor [Nicotiana tabacum] Length = 502 Score = 135 bits (341), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 80/256 (31%), Positives = 149/256 (58%), Gaps = 14/256 (5%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E S+A++++ +N+RLV+S+A++Y G + DLIQ G IGL++ EKFD G Sbjct: 249 LRSTLIECSLAREKLAMSNVRLVMSIAQRYDTNGTEMADLIQGGLIGLLRGIEKFDHSRG 308 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +K STY WW++Q ++R++ + S T+R+P+H+ +++ ++R A+ + P+ E+IA Sbjct: 309 FKISTYVYWWIRQGVSRALVENSRTLRLPIHLHERL-SLIRNAKIKLKENGITPSIEKIA 367 Query: 554 KKLAMPVEGVR-------KVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 + L M + VR KV + +E SL G+ S++ D ++ P Sbjct: 368 ECLNMSQKKVRNATEASSKVFSLDREAFPSLNGLPGETLHSYIAD---NRLENIPWHGVD 424 Query: 606 QANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + L++ +++S L RE ++R+ +G+ N T E++ ++ ++RER+RQ+ A+ Sbjct: 425 EWMLKDEVNNLISSTLREREREIVRLYYGLD-NECLTWEDISRRIGLSRERVRQVGLVAL 483 Query: 665 RKLKHPSRSKKLRSFL 680 KLKH +R ++L + L Sbjct: 484 EKLKHAARKRRLDAML 499 >gi|89901551|ref|YP_524022.1| sigma-70 region 2 [Rhodoferax ferrireducens T118] gi|89346288|gb|ABD70491.1| sigma-70 region 2 [Rhodoferax ferrireducens T118] Length = 350 Score = 135 bits (340), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 132/232 (56%), Gaps = 7/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ M+E NLRLV+S+AK Y RG+ LDLI+EGN+GLM A +KF+ G++FSTYA WW Sbjct: 105 ARQSMIEHNLRLVVSIAKAYMGRGVPLLDLIEEGNLGLMHAIDKFEPERGFRFSTYATWW 164 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK---IKREPTP---EEIAKKLA 557 ++Q++ R++ Q +R+PV++ ++ +V+R R + + + P E++A L Sbjct: 165 IRQSVDRALMCQGRVVRLPVNVVRELQQVLRARRALESDAAFVVSRPDGIRVEDVAALLG 224 Query: 558 MPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 V +L + + P SL+ + +T GD + D+ P + Sbjct: 225 RDPVHVADLLGLAEAPRSLDAALDRSGETQTFGDSLVDEITADPSGVTQVHEVERLLEEW 284 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L+ RE+ VL RFG+ TL+ + + +TRER+RQ++ +A+ KLK Sbjct: 285 VGTLSEREKEVLEGRFGLHDREPETLDVLSARLDLTRERVRQVQNEALAKLK 336 >gi|330375231|gb|AEC12842.1| RNA polymerase sigma factor RpoS [Pseudomonas fluorescens] Length = 200 Score = 135 bits (340), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 66/185 (35%), Positives = 115/185 (62%) Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +R AR ++ K+ Sbjct: 1 AVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKL 60 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 EP+PEEIA L PV V+++L + + S++ +G + L D + D P + Sbjct: 61 DHEPSPEEIANLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCEL 120 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +L ++ + L+ LT ++ V+ RFG+ + TLE+VG + +TRER+RQI+ + Sbjct: 121 LQDDDLSQSIDQWLSELTEKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEG 180 Query: 664 IRKLK 668 +++L+ Sbjct: 181 LKRLR 185 >gi|6682869|dbj|BAA88921.1| sigma factor [Nicotiana tabacum] Length = 508 Score = 135 bits (340), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 79/249 (31%), Positives = 142/249 (57%), Gaps = 12/249 (4%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E S+A++ + +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD GYK STY Sbjct: 261 ECSLARERLAMSNVRLVMSIAQRYDNVGAEMADLVQGGLIGLLRGIEKFDPSKGYKISTY 320 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 WW++Q ++R++ + S T+R+P ++ +++ ++R A+ + P+ IA L M Sbjct: 321 VYWWIRQGVSRALVENSRTLRLPTYLHERL-SLIRNAKARLEEKGITPSVNNIAASLNMS 379 Query: 560 VEGVR-------KVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + VR K+ + +E SL G+ S++ D + N +D + A E Sbjct: 380 QKKVRNATEASSKMYSLDREAFPSLNGLPGETLHSYIADNHLENNPWHGVD--VWALKDE 437 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + ++L RE ++R+ +G+ N T E++ K+ ++RER+RQ+ A+ KLKH + Sbjct: 438 VNNLISSTLRDREREIIRLYYGLD-NECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496 Query: 672 RSKKLRSFL 680 R ++L + L Sbjct: 497 RKRQLDAML 505 >gi|320537570|ref|ZP_08037508.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] gi|320145572|gb|EFW37250.1| RNA polymerase sigma factor RpoD family protein [Treponema phagedenis F0421] Length = 274 Score = 134 bits (338), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 131/226 (57%), Gaps = 2/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ +NLRLV+ +AK T +DLIQEGN+GLM AAEKF +FS+YA WW Sbjct: 38 ALQQLINSNLRLVVKMAKDRTPSENLLMDLIQEGNMGLMIAAEKFSSSFNARFSSYACWW 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q++ R + + TIR+P D + K+ +T K +R P+ EEIA+ + +P++ V Sbjct: 98 IRQSLNRYLNGKHETIRLPFRKADLLRKIEKTIDLFKEKYRRTPSYEEIAEIIQVPLKSV 157 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA-SLTP 622 ++ T++PIS ++P+ +++L D E+ N +P + E + L +L Sbjct: 158 IQICVFTEKPISFDSPLQIHFSANLYDLTEN-NDYNPEKEYFRKVQIEAFRKFLQNTLKS 216 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++ R I +L +G ++ ++ E +RQ E +A++KL+ Sbjct: 217 REKDIIEERLPITDKNPKSLRSLGIKYGISAESVRQTEIRALKKLR 262 >gi|318066993|emb|CBY89111.1| RNA polymerase sigma70 factor [Salinicola halophilus] Length = 368 Score = 134 bits (338), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 79/201 (39%), Positives = 113/201 (56%), Gaps = 22/201 (10%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGRE 378 +L L + L+ + LV Q+ +++ E ++++ G + R F+ G E Sbjct: 179 RLAVLFSPIKLSPKHFERLVGQVRISVEQVREQEKSIMQVFVKQGKVPRKTFISEFLGSE 238 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEV---DSILKIRNEI----KSISVE---TGISISEFR 428 W + +FVA D + R ++ + I E +++ + + Sbjct: 239 TTESW-----------FDDFVAKHTKYADRLAPFRGDVQRAQRKIDFEQEMVQLNVGQLK 287 Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF Sbjct: 288 EVNRRLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 347 Query: 489 DWCLGYKFSTYAMWWVKQAIT 509 ++ GYKFSTYA WW++QAIT Sbjct: 348 EYRRGYKFSTYATWWIRQAIT 368 Score = 68.2 bits (165), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 32/60 (53%), Positives = 43/60 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G +M+SL P +++ + D+ D Sbjct: 21 TTDPVRMYMREMGTVELLTREGEIEIAKRIEEGLREVMSSLAYLPGAVDSVLAFYDQTQD 80 >gi|300728464|ref|ZP_07061824.1| RNA polymerase sigma-43 factor [Prevotella bryantii B14] gi|299774265|gb|EFI70897.1| RNA polymerase sigma-43 factor [Prevotella bryantii B14] Length = 251 Score = 134 bits (337), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 92/273 (33%), Positives = 140/273 (51%), Gaps = 41/273 (15%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 ++ + I E +S E + + + ++ G+ E++I K + ANLR V+S+AK+Y +RGL Sbjct: 18 LQTYLSEIGKENLLSEQEEQELSAKIQNGD-ESAIEK--LTTANLRFVVSIAKRYQDRGL 74 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 DLI EGN GL+KAA KFD G +F YA+ +++QAI +I +QS +P M D Sbjct: 75 GINDLISEGNFGLIKAARKFDAAKGQRFVQYAVHFIRQAIENAIQEQSGIYTLPHSMDD- 133 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 PVE LK +K S++ P+ T+ L Sbjct: 134 ------------------------------PVE-----LKQSK-AFSVDAPLVQGKTASL 157 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIG-MNTDHTLEEVGK 647 + D NAV P + LR+ R L+ L RE RV+ M +G+ N T EE+G Sbjct: 158 LHVLSDPNAVIPDKPYLDDVLRQGLIRSLSVLNDRERRVVSMFYGLNDQNAGLTYEEIGT 217 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 Q + RER+R I KA RK+K +++ +L+S+L Sbjct: 218 QLGLKRERVRDIRKKAERKMKKYTKNDQLKSYL 250 >gi|302876248|ref|YP_003844881.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|307686980|ref|ZP_07629426.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] gi|302579105|gb|ADL53117.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium cellulovorans 743B] Length = 281 Score = 134 bits (336), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 96/258 (37%), Positives = 140/258 (54%), Gaps = 29/258 (11%) Query: 444 AKKEMVEANLRLVISVA--KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A+ ++ N RLV A KK T+ L + DL+QEG IGLM EKF+ KFSTY Sbjct: 28 ARDYLIINNKRLVYKAASLKKDTSL-LAYDDLVQEGLIGLMIGIEKFNADYNSKFSTYIY 86 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVV-----RTARRMSNKIKREPTPEEIAKKL 556 +W+KQ I R+I + +IR+P+H+ +KI+KV+ + + N T +I K Sbjct: 87 YWIKQRIDRAIYNTGTSIRLPIHLINKINKVMYVENKNNVKSLDNDSTDLCTDLDITDK- 145 Query: 557 AMPVEGVRKVLKITKEPISLETPI------GDEDTSHLGDFIEDK--NAVSP------LD 602 + + ++K K ISL + + GDE+ L DFI++ N P +D Sbjct: 146 --QYDYYKFLVKQFKNIISLNSALLSDNSEGDEE---LIDFIDENSSNFGDPGSKNYSID 200 Query: 603 S-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 S I+ L VL +L RE+ VLRMRFG+ TLE++G F VTRERIRQIE+ Sbjct: 201 SNIIKEELSHDLNEVLKTLNEREQHVLRMRFGLDDGEMKTLEQIGNHFNVTRERIRQIES 260 Query: 662 KAIRKLKHPSRSKKLRSF 679 KA++KL++P +L + Sbjct: 261 KALKKLRNPKILMRLEGY 278 >gi|320105081|ref|YP_004180672.1| RNA polymerase sigma-32 subunit RpoH [Isosphaera pallida ATCC 43644] gi|319752363|gb|ADV64123.1| RNA polymerase, sigma 32 subunit, RpoH [Isosphaera pallida ATCC 43644] Length = 322 Score = 134 bits (336), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 132/225 (58%), Gaps = 10/225 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++ AN+RLV VAK++ +RG+ + DL+QEG GL++A ++FD G K +TYA WW+ Sbjct: 92 RSKLALANMRLVAHVAKRFRDRGVSYSDLLQEGFCGLLEAIDRFDLAHGTKLATYATWWI 151 Query: 505 KQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +QA+ R++A + +R+ P H+R R + +++ + EE ++ E + Sbjct: 152 RQAMQRAVAATAYPVRLSPRHLRQLARNQEEIERGGQPRTRKKASDEE-----SVSPEMI 206 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++ T+ +SL+ + + + L + D D + ++ ET +++ +L PR Sbjct: 207 QRIHAATRPTVSLDATVDSDSSFSLLHTMSDPEG----DRTGEVDMDETIVKLMENLRPR 262 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E +VL +RFG+ T H+L +VGK V++ER+RQI+ +A+ KL+ Sbjct: 263 EIQVLSLRFGLNGATRHSLSQVGKVLDVSKERVRQIQDRALEKLR 307 >gi|218848158|ref|YP_002454701.1| RNA polymerase sigma factor, sigma-70 family [Bacillus cereus G9842] gi|218546289|gb|ACK98682.1| RNA polymerase sigma factor, sigma-70 family [Bacillus cereus G9842] Length = 295 Score = 134 bits (336), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 92/262 (35%), Positives = 140/262 (53%), Gaps = 16/262 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEK 487 HI+ KG+ ++ ++ ++ +NLRLV+SVAK + G +++IQEG IGLMK E Sbjct: 32 HIIKYKEKGDIDS---RELLICSNLRLVVSVAKSFPCYGNCDLMEMIQEGTIGLMKGLED 88 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 +D+ G K STY WW++Q I++ ++ +R+ M+ KI +V + Sbjct: 89 YDYTKGNKLSTYITWWIRQRISKYLSINRSDVRVATTMQKKITEVKNCYYENMGEKGTNL 148 Query: 548 TPEEIAKKLAMPVEGVRKVL---KITKEPISLETPIGDEDT------SHLGDFIEDKNAV 598 T E+A++L V L +IT IS+E + +E T S L + +KNA Sbjct: 149 TTMEVAERLGYKESIVIDALVTDRITN-TISIEDDVQNEKTLLDRQQSTLA-ILANKNAP 206 Query: 599 SPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P + A + E + +L PREE VLR RFG + TLE+ + VTRER++ Sbjct: 207 NPSEVMATEEEKFEFDELMFVTLNPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQ 266 Query: 658 QIEAKAIRKLKHPSRSKKLRSF 679 QIE KAI K+K SKK+ SF Sbjct: 267 QIEKKAIEKMKQRLSSKKINSF 288 >gi|318066903|emb|CBY89066.1| RNA polymerase sigma70 factor [Chromohalobacter beijerinckii] Length = 367 Score = 133 bits (335), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 77/191 (40%), Positives = 110/191 (57%), Gaps = 2/191 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRE 378 +L +L + L + LV Q+ ++I E ++++ + + R F+ G E Sbjct: 178 RLAELFSPIKLVPKHFERLVGQVRISIEQIRGQEKAIMQIFVKQAKVPRKTFIGSFPGAE 237 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 D W+ + + D IL+ + +I + ++ + + + GE Sbjct: 238 SDLEWLDRFQTKHSKYAERLEPFRAD-ILRAQRKIGFEEEMVRLPVTNIKEVNRRLSIGE 296 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFST Sbjct: 297 AKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 356 Query: 499 YAMWWVKQAIT 509 YA WW++QAIT Sbjct: 357 YATWWIRQAIT 367 Score = 62.0 bits (149), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 29/45 (64%), Positives = 35/45 (77%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 T DPVRMY+REMG++ LL+REGEI IAKRIE G +M+SL P Sbjct: 21 TTDPVRMYMREMGTVGLLTREGEIEIAKRIEEGTREVMSSLAYLP 65 >gi|168029696|ref|XP_001767361.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens] gi|56603661|dbj|BAD80742.1| plastid sigma factor PpSIG5 [Physcomitrella patens] gi|162681425|gb|EDQ67852.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens] Length = 632 Score = 133 bits (335), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 81/243 (33%), Positives = 134/243 (55%), Gaps = 9/243 (3%) Query: 444 AKKEMVEANLRLVISVAKKYT--NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A+ ++++ NLRLV+S A KY + L DL QEG IGLM+A +KFD GY+FSTY + Sbjct: 394 ARTKLIQRNLRLVLSQAYKYHKDSMSLSIQDLCQEGVIGLMQAVDKFDPGKGYRFSTYGI 453 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +W++ +I R+ +R P ++ + R + +++ R+PT +EI K L + + Sbjct: 454 YWIRNSILRAQTKSGHMLRSPHNVSTHRVNIQRAKVELFSELGRQPTNDEIRKHLGITAD 513 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL---DSAIQANLRETTTRVLA 618 R +L+ SL + + + +++A+ L S +Q L + VL Sbjct: 514 RFRDILRTNMRTSSLHEHDRITGREKVENLVSEEDALDTLAGGTSMVQYGLDD----VLD 569 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SL P+E VLR RFG+ +L EVG ++RE +R+ E + I KL+HP+R + LR+ Sbjct: 570 SLRPKENLVLRQRFGLDGKGQRSLSEVGLILNLSREMVRRYELRGILKLQHPTRVEYLRN 629 Query: 679 FLD 681 +L+ Sbjct: 630 YLN 632 >gi|2706544|emb|CAA75859.1| Sig1 [Sinapis alba] Length = 481 Score = 133 bits (334), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 141/249 (56%), Gaps = 12/249 (4%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 234 ECHLAREKLAMSNVRLVMSIAQRYDNMGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 293 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 294 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 352 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V K+ + ++ SL G+ S++ D + N D+ + E Sbjct: 353 QKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSYIADNRLENNPWHGYDALALKD--E 410 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + + +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ A+ KLKH + Sbjct: 411 VSKLISVTLGEREREIIRLYYGLDKEC-LTWEDISQRIGLSRERVRQVGLVALEKLKHAA 469 Query: 672 RSKKLRSFL 680 R +K+ + + Sbjct: 470 RKRKMEAMI 478 >gi|228949811|ref|ZP_04112021.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228809869|gb|EEM56280.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] Length = 295 Score = 132 bits (333), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 92/261 (35%), Positives = 139/261 (53%), Gaps = 16/261 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEK 487 HI+ KG+ ++ + ++ +NLRLV+SVAK + G +++IQEG IGLMK E Sbjct: 32 HIIKYKEKGDIDS---RDLLICSNLRLVVSVAKSFPCYGNCDLMEMIQEGTIGLMKGLED 88 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 +D+ G K STY WW++Q I++ ++ +R+ M+ KI +V + Sbjct: 89 YDYTKGNKLSTYITWWIRQRISKYLSINRSDVRVATTMQKKITEVKNCYYENMGEKGTNL 148 Query: 548 TPEEIAKKLAMPVEGVRKVL---KITKEPISLETPIGDEDT------SHLGDFIEDKNAV 598 T +E+A+KL V L +IT IS+E + +E T S L + +KNA Sbjct: 149 TTKEVAEKLGYKESIVIDALVTDRITN-TISIEDDVQNEKTLLDKQQSTLA-ILANKNAP 206 Query: 599 SPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P + A + E + +L PREE VLR RFG + TLE+ + VTRER++ Sbjct: 207 NPSEVIATEEEKFEFDELMFVTLNPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQ 266 Query: 658 QIEAKAIRKLKHPSRSKKLRS 678 QIE KAI K+K SKK+ S Sbjct: 267 QIEKKAIEKMKQRLSSKKINS 287 >gi|218197356|gb|EEC79783.1| hypothetical protein OsI_21197 [Oryza sativa Indica Group] Length = 557 Score = 132 bits (333), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 77/225 (34%), Positives = 119/225 (52%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV +AK Y G F DL+Q G +G++ AEKFD G KFSTY +W+++A+ +A+ Sbjct: 330 LVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRKAMLALLAE 389 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 S I++P M I KV R + R P EIA + + V VR K ++ + Sbjct: 390 NSGVIQLPARMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVANVRLARKCSRRVV 449 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 SL T IG + + D + +P ++ + LRE VL L PRE VL++R G+ Sbjct: 450 SLYTEIGVGQNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGL 509 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 +LE++G + V++E IR+IE A+ KL++ +L+ F Sbjct: 510 EDGKCRSLEQIGSIYHVSKEWIRKIEKSAMSKLRNDDVHNELKDF 554 >gi|168700394|ref|ZP_02732671.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Gemmata obscuriglobus UQM 2246] Length = 335 Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 128/226 (56%), Gaps = 7/226 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K + AN+RL VAK++ + L + DL+QE GLM+A ++FD G + +TYA WW+ Sbjct: 100 KHRLASANIRLAAHVAKRFRHHSLAYSDLLQEAVCGLMQAIDRFDVSHGTRLATYATWWI 159 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +Q + ++A QS + + H ++ + + + +++ K P+P+E+A + +E + Sbjct: 160 RQTLQIAVARQSHLVSLSPHHLQELGLLQQESEALAHGGKHLPSPQELASRTGSSLEHLT 219 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLTP 622 + T+ P+SL + D+ L + + D + +Q N +E + ++ +L P Sbjct: 220 HLQTATRTPVSLNAVLDDDSDFKLTEAMPDTGTL-----VMQENNERQEALSFLMENLRP 274 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +VL +RFG+ N H+L ++G +++ER+RQI+ +A+ KLK Sbjct: 275 RERKVLDLRFGLTGNGTHSLRQIGHLLRISKERVRQIQNRALEKLK 320 >gi|303282119|ref|XP_003060351.1| predicted protein [Micromonas pusilla CCMP1545] gi|226457822|gb|EEH55120.1| predicted protein [Micromonas pusilla CCMP1545] Length = 425 Score = 132 bits (332), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 89/278 (32%), Positives = 141/278 (50%), Gaps = 33/278 (11%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAK------KYTNRGL-QFLDLIQEGNIGLM 482 IV+ + G+ A++++V N+ L S+A+ + +RGL DL QEG GL Sbjct: 55 IVTAIDAGQN----ARRQLVVKNVGLAYSIARDVFEKLNHADRGLLSVSDLAQEGCAGLA 110 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 +AA+KFD GYKFSTYA W ++ + +I + TIR+P+HM + + + + R ++ K Sbjct: 111 QAADKFDPSRGYKFSTYAYNWTRKYVVNAIQNNGRTIRLPIHMHEIMQRAKKATRELTQK 170 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET---------------PIGDEDTSH 587 R PT EE+++ L +PV V+++ + +SL+ + D Sbjct: 171 HGRAPTDEEMSRTLGVPVSRVQEINDWARSTLSLDVGGGGRSSDDGDGGAEGMMDGIVFA 230 Query: 588 LGDFIEDKNAVSPLDSA---IQAN-LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 LG +SP ++A ++A+ LR A+L PRE VLR RFG+ L Sbjct: 231 LGSKDGKDGMLSPHEAAEADMEADLLRRDLEEAFATLLPREAFVLRHRFGLAAAASTAL- 289 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 G V+ E IR E +A+ KLK PSR+ + +LD Sbjct: 290 --GTLLGVSHETIRTYERRALEKLKQPSRAARFVRYLD 325 >gi|49328110|gb|AAT58808.1| hypothetical protein [Oryza sativa Japonica Group] Length = 799 Score = 132 bits (331), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 139/276 (50%), Gaps = 5/276 (1%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 +++LK +E+ S I E +++R E ++ ++ LV +AK Y Sbjct: 526 ENLLKDGSEVSHASWAKAAGIDE-----ALLRSRLQEGYCCRERLLVTTEWLVKYIAKTY 580 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 G F DL+Q G +G++ AEKFD G KFSTY +W+++A+ +A+ S I++P Sbjct: 581 AGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRKAMLALLAENSGVIQLPA 640 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 M I KV R + R P EIA + + V VR K ++ +SL T IG Sbjct: 641 RMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVANVRLARKCSRRVVSLYTEIGVG 700 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + + D + +P ++ + LRE VL L PRE VL++R G+ +LE Sbjct: 701 QNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLE 760 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++G + V++E IR+IE A+ KL++ +L+ F Sbjct: 761 QIGSIYHVSKEWIRKIEKSAMSKLRNDDVHNELKDF 796 >gi|58698251|ref|ZP_00373170.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] gi|58535223|gb|EAL59303.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] Length = 379 Score = 132 bits (331), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 111/376 (29%), Positives = 197/376 (52%), Gaps = 45/376 (11%) Query: 36 KLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDL 95 K ++ G++T +++N L + SS+ ++D +++L + GINV+ E SED D+ Sbjct: 21 KSIKKGGFITFDDINDKLSDENFSSDFIDDAISLLQDSGINVL--------ESSEDEEDI 72 Query: 96 ASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAM 152 S++ +S + + + DDPVR+YL++M S++LLSR EI IAK+IE+ + Sbjct: 73 PSNSDDSKLDDDDTSPNVTATLVQNDDPVRIYLQDMSSVKLLSRADEIEIAKKIESEKHN 132 Query: 153 MMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKRE 212 M+ ++ E+ +T + + +WRD+L++G LLREIIDL+A + ++ + K E Sbjct: 133 MLRAIIETSVTLKVIKVWRDDLSNGALLLREIIDLDAI----------YNSDFNVVPKEE 182 Query: 213 DSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA- 271 E+ +DV+++E E A S D++ DS + E D N ED S+ L+ Sbjct: 183 SEESEESAEDVEDSEDVSEDAEYCSDDEK---DSKKSDDEKDGNN----EDISSVNLNVS 235 Query: 272 ---MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSL 328 ME L PKV+ ALDEI + E L+ N+ N S + + L ++ + + Sbjct: 236 ILEMESDLLPKVIVALDEIITLTNEALILRKNSKNF------SNELENLYNQIWSIALQI 289 Query: 329 SLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF-------LERHQGRELDP 381 L+ + + + ++LY I++ I E L+ A+ Y I R+ F L +H+ +++ Sbjct: 290 KLSDAAVARITQELYKINRSITLEEANLIAEARKYDIDRESFYKVYDDVLLKHELKKISL 349 Query: 382 HWVSYAKDFPEGEWKN 397 ++ + GE KN Sbjct: 350 LKINENQSSFTGELKN 365 >gi|228988887|ref|ZP_04148936.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228770801|gb|EEM19317.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 295 Score = 131 bits (330), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 91/261 (34%), Positives = 139/261 (53%), Gaps = 16/261 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEK 487 HI+ KG+ ++ + ++ +NLRLV+SVAK + G +++IQEG IGLMK E Sbjct: 32 HIIKYKEKGDIDS---RDLLICSNLRLVVSVAKSFPCYGNCDLMEMIQEGTIGLMKGLED 88 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 +D+ G K STY WW++Q I++ ++ +R+ M+ KI +V + Sbjct: 89 YDYTKGNKLSTYITWWIRQRISKYLSINRSDVRVATTMQKKITEVKNCYYENMGEKGTNL 148 Query: 548 TPEEIAKKLAMPVEGVRKVL---KITKEPISLETPIGDEDT------SHLGDFIEDKNAV 598 T +E+A++L V L +IT IS+E + +E T S L + +KNA Sbjct: 149 TTKEVAERLGYKESIVIDALVTDRITN-TISIEDDVQNEKTLLDKQQSTLA-ILANKNAP 206 Query: 599 SPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P + A + E + +L PREE VLR RFG + TLE+ + VTRER++ Sbjct: 207 NPSEVIATEEEKFEFDELMFVTLNPREESVLRYRFGFDDGIELTLEDTARILGVTRERVQ 266 Query: 658 QIEAKAIRKLKHPSRSKKLRS 678 QIE KAI K+K SKK+ S Sbjct: 267 QIEKKAIEKMKQRLSSKKINS 287 >gi|47777365|gb|AAT37999.1| putative RNA polymerase sigma factor [Oryza sativa Japonica Group] Length = 882 Score = 131 bits (330), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 139/276 (50%), Gaps = 5/276 (1%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 +++LK +E+ S I E +++R E ++ ++ LV +AK Y Sbjct: 609 ENLLKDGSEVSHASWAKAAGIDE-----ALLRSRLQEGYCCRERLLVTTEWLVKYIAKTY 663 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 G F DL+Q G +G++ AEKFD G KFSTY +W+++A+ +A+ S I++P Sbjct: 664 AGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRKAMLALLAENSGVIQLPA 723 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 M I KV R + R P EIA + + V VR K ++ +SL T IG Sbjct: 724 RMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVANVRLARKCSRRVVSLYTEIGVG 783 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + + D + +P ++ + LRE VL L PRE VL++R G+ +LE Sbjct: 784 QNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLE 843 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++G + V++E IR+IE A+ KL++ +L+ F Sbjct: 844 QIGSIYHVSKEWIRKIEKSAMSKLRNDDVHNELKDF 879 >gi|222632746|gb|EEE64878.1| hypothetical protein OsJ_19735 [Oryza sativa Japonica Group] Length = 1012 Score = 131 bits (330), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 139/276 (50%), Gaps = 5/276 (1%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 +++LK +E+ S I E +++R E ++ ++ LV +AK Y Sbjct: 739 ENLLKDGSEVSHASWAKAAGIDE-----ALLRSRLQEGYCCRERLLVTTEWLVKYIAKTY 793 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 G F DL+Q G +G++ AEKFD G KFSTY +W+++A+ +A+ S I++P Sbjct: 794 AGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRKAMLALLAENSGVIQLPA 853 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 M I KV R + R P EIA + + V VR K ++ +SL T IG Sbjct: 854 RMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVANVRLARKCSRRVVSLYTEIGVG 913 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + + D + +P ++ + LRE VL L PRE VL++R G+ +LE Sbjct: 914 QNAKFVEVTPDTSLEAPDEAMFRMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLE 973 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++G + V++E IR+IE A+ KL++ +L+ F Sbjct: 974 QIGSIYHVSKEWIRKIEKSAMSKLRNDDVHNELKDF 1009 >gi|284044896|ref|YP_003395236.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] gi|283949117|gb|ADB51861.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Conexibacter woesei DSM 14684] Length = 300 Score = 131 bits (330), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 80/228 (35%), Positives = 136/228 (59%), Gaps = 7/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRG-LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 AK+ +V NLRLV+S+A+++ L LDL+QEG +GL++AAEKFDW G++FSTYA Sbjct: 63 AKERLVNHNLRLVVSIARRFQGVSELTLLDLVQEGVVGLIRAAEKFDWRRGFRFSTYATL 122 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++QAI R IA TIR+PV++ + KV ARR+ ++ R PT EEI+ +P + Sbjct: 123 WIRQAIQRGIATHGRTIRLPVNVAQRERKVAAAARRLEAELGRAPTVEEISSASDLPPDQ 182 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLASL 620 V + ++++ SL+ + + + LG+ + E +D+ +QA ET R + L Sbjct: 183 VADLREVSRTLASLDQVVTADTDTTLGELLPSEAPEVEEQVDALLQA---ETVRRTVEHL 239 Query: 621 TPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + V+++RFG+ + T ++G++ + ++R IE +A+ +L Sbjct: 240 PSPQRDVIKLRFGLEEDRTPLPHAQIGRRLALATAQVRAIEREALARL 287 >gi|257470234|ref|ZP_05634325.1| RpoD family RNA polymerase sigma factor [Fusobacterium ulcerans ATCC 49185] gi|317064448|ref|ZP_07928933.1| RNA polymerase sigma-A factor [Fusobacterium ulcerans ATCC 49185] gi|313690124|gb|EFS26959.1| RNA polymerase sigma-A factor [Fusobacterium ulcerans ATCC 49185] Length = 260 Score = 131 bits (329), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 78/225 (34%), Positives = 126/225 (56%), Gaps = 3/225 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V +NLRLVIS+A+KYTN G+ LDLIQEGN+GL++A EK++ +FSTY+ +W Sbjct: 36 AQEKLVTSNLRLVISIARKYTNMGIPLLDLIQEGNMGLIRAVEKYEPEKNIRFSTYSTFW 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ+I R I IR P ++ D I ++ + + NK P+ EEI L M + Sbjct: 96 IKQSILRYITSSRGLIRFPSYVYDGISRMKKYVQDYKNKNSHLPSIEEICSSLDMRKKEA 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + +++ ++ + + E + I D D I N + + L + Sbjct: 156 ERYIEVLEKGSCIGNEMYGEIAEYCSSIIFDDTFE---DKVIAKNSTIDLMKKVNKLPSK 212 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E VL R+G+ TL E+G++ +T+ERIRQI+ +AI KL+ Sbjct: 213 EREVLIYRYGLLDEKVLTLGEIGERMNLTKERIRQIQLEAIDKLR 257 >gi|317505016|ref|ZP_07962964.1| RNA polymerase sigma factor rpoD [Prevotella salivae DSM 15606] gi|315663898|gb|EFV03617.1| RNA polymerase sigma factor rpoD [Prevotella salivae DSM 15606] Length = 260 Score = 131 bits (329), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 79/247 (31%), Positives = 125/247 (50%), Gaps = 38/247 (15%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G + A ++ ANLR V+++AK+YT+RG+ LDLI EGNIGLMKAA FD G Sbjct: 52 IQQGGASSERAINKLTSANLRFVVAIAKQYTDRGVAILDLISEGNIGLMKAAMSFDGSRG 111 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F YA +V++AI ++ +QS R+P H E +PEE A Sbjct: 112 LRFVGYAEPFVRRAIEAAVNEQSGIFRLPKH---------------------ENSPEEKA 150 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 A S++ P+ + L + D NA P ++A+++E Sbjct: 151 NSRA----------------FSVDAPLENGKNMSLLSVLSDPNAARPDQEVLEASVKEEL 194 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + + L RE+ V+ +GIG T E+ ++ + RER+RQI KA+RKL + S Sbjct: 195 MQAMNILNQREKNVVEAFYGIG-QPHLTFAEIAEKMGLKRERVRQIRNKAVRKLNRNTTS 253 Query: 674 KKLRSFL 680 L+++L Sbjct: 254 DMLKAYL 260 >gi|225454599|ref|XP_002264964.1| PREDICTED: hypothetical protein isoform 2 [Vitis vinifera] Length = 496 Score = 131 bits (329), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 144/250 (57%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E S+A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G+K STY Sbjct: 249 ECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTY 308 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++ + S T+R+P H+ +++ ++R A+ + P+ + IA Sbjct: 309 VYWWIRQGVSRALVENSRTLRLPSHLHERL-SLIRNAKIRLEEKGITPSIDRIAECLNMS 367 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 KK+ E + KV + +E SL G+ S++ D + N P + L++ Sbjct: 368 QKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSYIADVRLENN---PWHGVDEWALKD 424 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +++ +L RE ++R+ +G+ N T E++ K+ ++RER+RQ+ A+ KLK+ Sbjct: 425 EVNKLINTTLGERERDIIRLYYGLD-NECLTWEDISKRIGLSRERVRQVGLVALEKLKNA 483 Query: 671 SRSKKLRSFL 680 +R ++ + L Sbjct: 484 ARKGRMEAML 493 >gi|255531368|ref|YP_003091740.1| sigma-70 family RNA polymerase sigma factor [Pedobacter heparinus DSM 2366] gi|255344352|gb|ACU03678.1| RNA polymerase sigma factor, sigma-70 family [Pedobacter heparinus DSM 2366] Length = 286 Score = 131 bits (329), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 132/237 (55%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V +NLR V++VAKKY + L DLI +GNIGL+KAAE+FD G+KF +YA+WW Sbjct: 50 ALQRLVSSNLRFVVTVAKKYESPDLSLADLISDGNIGLIKAAERFDEKRGFKFISYAVWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q+I + + + +P+ I +V R+ ++ +++R P EE+A + E V Sbjct: 110 IRQSILQGMNTSKRMVHLPMSQISGIRQVKRSEIKLEQELQRIPCREELAGFMKTAEEVV 169 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L I+ +SL+ P +D + ++ +P S + +L + R++ L+PR Sbjct: 170 YDYLYISGSQVSLDAPTEGQDGVLIPCIVQYDKGPAPDASLERESLEKDVQRMMDILSPR 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E +L + +G+G N +++ ++ E IR+ + KA+ +L+ K +R +L Sbjct: 230 ERSILFLAYGMGNNRPLQNDDISTLLGLSTETIRRSKNKALDRLRGLKEIKMMRRYL 286 >gi|284053747|ref|ZP_06383957.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca] Length = 179 Score = 130 bits (328), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 67/180 (37%), Positives = 113/180 (62%), Gaps = 5/180 (2%) Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WW++QAITR+IA S TIR+P+H+ +K++K+ R R + + R TP EIAK L + Sbjct: 2 WWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELFQQYGRNATPTEIAKALDLEPS 61 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLASL 620 +R L ++ P+SL+ +GD + L D +ED++A + DS + Q LR+ ++A L Sbjct: 62 QIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASA--DSYVTQQLLRQDLKDMMADL 119 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 TP++ VL +R+G+ + +L +VG Q ++RER+RQ+E +A+ L+ R ++R +L Sbjct: 120 TPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLRR--RKAQVREYL 177 >gi|147865632|emb|CAN83254.1| hypothetical protein VITISV_036980 [Vitis vinifera] Length = 611 Score = 130 bits (328), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 129/238 (54%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E++ + LV+ +A+ Y G+ F D++Q GN+G+++ AE+FD GY+FSTY +W Sbjct: 373 CRDELLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFSTYVQYW 432 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++++++ +A + ++IP + I ++ + + + R P EIAK + + + Sbjct: 433 IRKSMSTLVARHARGVKIPFTLNRAIGQIQKARKALYKSHGRYPDDNEIAKFTGLSLAKI 492 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + S + D + + +F D + SP + +Q R+ +L L PR Sbjct: 493 RSAGNCLRVVGSTDQSFQDCWGATILEFTPDTSIKSPEEGFMQQCKRKDIHNLLKGLDPR 552 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L +R+G G +LEE+G++F V++E IR++E A+ L+ + LR ++D Sbjct: 553 ERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKTALANLRDEEICQNLRHYVD 610 >gi|225454597|ref|XP_002264928.1| PREDICTED: hypothetical protein isoform 1 [Vitis vinifera] Length = 507 Score = 130 bits (328), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 144/250 (57%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E S+A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G+K STY Sbjct: 260 ECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTY 319 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA------ 553 WW++Q ++R++ + S T+R+P H+ +++ ++R A+ + P+ + IA Sbjct: 320 VYWWIRQGVSRALVENSRTLRLPSHLHERL-SLIRNAKIRLEEKGITPSIDRIAECLNMS 378 Query: 554 -KKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 KK+ E + KV + +E SL G+ S++ D + N P + L++ Sbjct: 379 QKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSYIADVRLENN---PWHGVDEWALKD 435 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +++ +L RE ++R+ +G+ N T E++ K+ ++RER+RQ+ A+ KLK+ Sbjct: 436 EVNKLINTTLGERERDIIRLYYGLD-NECLTWEDISKRIGLSRERVRQVGLVALEKLKNA 494 Query: 671 SRSKKLRSFL 680 +R ++ + L Sbjct: 495 ARKGRMEAML 504 >gi|224124068|ref|XP_002319237.1| predicted protein [Populus trichocarpa] gi|222857613|gb|EEE95160.1| predicted protein [Populus trichocarpa] Length = 499 Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 141/250 (56%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + S+A++++ +N+RLV+S+A+K N G + DL+Q G IGL++ EKFD G+K STY Sbjct: 252 QCSLAREKLAMSNVRLVMSIAQKNDNMGAEMADLVQAGLIGLLRGIEKFDSSKGFKISTY 311 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ + T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 312 VYWWIRQGVSRALVENPRTLRLPNHLHERL-GLIRNAKIRLEEKGVTPSIDRIAESLNMS 370 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E + KV + +E SL G+ S++ D + N P + L+E Sbjct: 371 QRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADNRLENN---PWHGVDEWALKE 427 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +++ ++L RE ++R+ G+ T E++ K+ ++RER+RQ+ A+ KLKH Sbjct: 428 EVNKLIDSALQEREREIIRLYHGLDKEC-LTWEDISKRMGLSRERVRQVGLVALEKLKHA 486 Query: 671 SRSKKLRSFL 680 +R KL + L Sbjct: 487 ARKGKLEAML 496 >gi|329895346|ref|ZP_08270971.1| RNA polymerase sigma factor [gamma proteobacterium IMCC3088] gi|328922359|gb|EGG29703.1| RNA polymerase sigma factor [gamma proteobacterium IMCC3088] Length = 424 Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 130/226 (57%), Gaps = 2/226 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V N+RLV +A++ NRG+ DL+QEG IGL++AAEKFD+ LG++FSTYA W Sbjct: 186 ARDKLVMHNVRLVYKLAREKQNRGIAVRDLVQEGIIGLVRAAEKFDYRLGFRFSTYAYNW 245 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 Q I R + P H+ +++ + R ++ EP+ E+A+ +E V Sbjct: 246 TNQHIQRVCEGNGSLVTYPTHVTQEVNALYRVRNEWMDRRGEEPSLAELAEHSGFTLERV 305 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGD-FIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 R++ ++T +S+++ DEDT+ L + + D+ A L+ A +L+ + L L Sbjct: 306 RELTQLTNLTVSIQSD-DDEDTNALPESALVDEAANPALEQAQSRSLKRLLEQQLKQLDR 364 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++ R+G+ TL ++ Q V+RE +RQ+E A+RKL+ Sbjct: 365 REQMIVTARWGLDGRPSRTLAQLADQLEVSRELVRQLEKSALRKLQ 410 >gi|32453269|gb|AAP82767.1| sigma 70 [Hydrogenothermus marinus] Length = 369 Score = 130 bits (328), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 78/192 (40%), Positives = 109/192 (56%), Gaps = 8/192 (4%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISK----RIMHNEGELLRLAQSYG-IKRDVFLER 373 +KL L+ L+ +EQ+ DI + ++ +E ++ L G + RD FL+ Sbjct: 179 QKLRDLIAHELLHIRFTARYIEQVCDIVRGFIEQVRQHERQIQNLCTQIGTMPRDHFLKT 238 Query: 374 HQGRELDPHWVSYAKDFPEGE-WKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVS 432 E + W+ + G W + S+L + I I + + E + I Sbjct: 239 FPPNETNLDWIK--NEIEAGHPWSESLVRVFPSVLDEQQRIIEIVERARVPLDELKDIFK 296 Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + +GE + AK+EMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 297 RMSQGEAKMRAAKREMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR 356 Query: 493 GYKFSTYAMWWV 504 GYKFSTYA WW+ Sbjct: 357 GYKFSTYATWWI 368 >gi|239934544|emb|CAR94586.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 241 Score = 130 bits (327), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 93/258 (36%), Positives = 147/258 (56%), Gaps = 29/258 (11%) Query: 138 GEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKG 197 GEIAIAKRIEAGR +M+ +CESPL +++I W L DG LLRE+IDL+A E Sbjct: 6 GEIAIAKRIEAGRELMIGGICESPLAIESIIAWYKALQDGDILLREVIDLDATYSGE--- 62 Query: 198 GFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERN 257 +ED +Q D +E E ES + +D K E+ E+++ N Sbjct: 63 -------------QEDFTQVSREDKEEEEEDSEESEDEEGEDGEEKGGESSEDDEDEDDN 109 Query: 258 LDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAV----NGQK-DEKSSV 312 A +LSAME++L P+V +I + Y++++ +Q+ + G+K DEK+ Sbjct: 110 --------AMSLSAMEEELAPQVFEIFGKIQKTYKKMQKVQNERLELLQKGRKADEKADK 161 Query: 313 KCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLE 372 K + LK +V+L+ + LN SRI+ L+++LY +++ ++ EG++LR+A +KR+ FLE Sbjct: 162 KYEKLKHDMVELMNEVRLNNSRIEQLIDRLYTMNRELVSLEGKMLRMAVDCKVKREDFLE 221 Query: 373 RHQGRELDPHWVSYAKDF 390 + G ELDP W++ K Sbjct: 222 HYYGAELDPRWLTKVKKL 239 >gi|148241530|ref|YP_001226687.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] gi|147849840|emb|CAK27334.1| Alternative RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. RCC307] Length = 280 Score = 130 bits (327), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 77/216 (35%), Positives = 125/216 (57%), Gaps = 11/216 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M++ANLRLV++VAK Y RGL +DL+QEG++GL++A EKFD LGY+FSTYA W++QA Sbjct: 60 MIQANLRLVVTVAKTYQGRGLDLMDLVQEGSLGLIRAVEKFDPTLGYRFSTYAWNWIRQA 119 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEGVR 564 I+R + + T+R+P+H+ ++ R RR ++ ++ + +A + + ++ Sbjct: 120 ISRGLETKGRTLRLPIHVTQQL----RALRRAHERLWQQGLSTDLVAVAAEAGVDLKAAS 175 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 L++ +SL+TP ++ L + SPLD A + + E R L L R+ Sbjct: 176 LALRMAPGTLSLDTPAAGSESDLLQLLPSAEP--SPLDEAERHDGWERMGRQLRHLPERD 233 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++VL+ R+ L VG+Q +RER RQIE Sbjct: 234 QQVLQWRYLT--PERQKLSVVGEQLGCSRERARQIE 267 >gi|255553456|ref|XP_002517769.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223543041|gb|EEF44576.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 389 Score = 130 bits (327), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 119/217 (54%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C+ +++ + RLV+S+A +Y +GL DLIQEG+IGL++ AE+FD G K ST Sbjct: 171 CKGRQSRERITGNYRRLVLSIANRYRGKGLSLQDLIQEGSIGLLRGAERFDPKRGNKLST 230 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 Y WW+K+AI SI+ S +R P + D+ K+ ++ ++ R P+ EIAK+L + Sbjct: 231 YVYWWIKEAIITSISINSRIVRQPRSLWDRTTKIAEAKISLTERLGRLPSYREIAKELNV 290 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V VR V ++ +SL+ + D+ L + I + P + + L++ ++ Sbjct: 291 HVSTVRLVFSRSRSTVSLDQAVSDQGGMTLQEIIPGPEEMMPENMVKKQLLKKELEELIQ 350 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +L RE LR+ FG+ T + +E+G+ + RER Sbjct: 351 TLGKREAHTLRLIFGLNGQTPQSCDEIGRSLKLCRER 387 >gi|302765387|ref|XP_002966114.1| hypothetical protein SELMODRAFT_266972 [Selaginella moellendorffii] gi|300165534|gb|EFJ32141.1| hypothetical protein SELMODRAFT_266972 [Selaginella moellendorffii] Length = 249 Score = 130 bits (327), Expect = 8e-28, Method: Compositional matrix adjust. Identities = 82/230 (35%), Positives = 132/230 (57%), Gaps = 11/230 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+ +NLRLV+++A++Y N G++ DLIQEG +GL+ EKFD G+KFSTYA WW+ QA Sbjct: 1 MILSNLRLVVAIARRYENMGVEIGDLIQEGTLGLIHGLEKFDVSRGFKFSTYAYWWIFQA 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + RS+ + +R P H+ + I K+ + R + R + E + + L +P + L Sbjct: 61 MIRSLDKRGKCVRYPFHLCEAIRKINQLRNRQVD--DRPVSVETMMQVLKLPRARIEIAL 118 Query: 568 KITKEPI-SLETPIGD----EDTSHLGDFIEDKNAVS-PLDSAIQANLRETTTRVLAS-L 620 + + + SL+ + + E+ L DFI D+N + P A + ++E R+L S L Sbjct: 119 QASNYRLTSLDRHVANKRCFEEGDPLEDFIVDQNVENQPWLMAERDAVKEELDRLLESKL 178 Query: 621 TPREERVLRMRFGIGMNTDHTL--EEVGKQFCVTRERIRQIEAKAIRKLK 668 RE V+R RFG+ N L E+G+ ++RER+RQ+E A+ KL+ Sbjct: 179 DAREREVIRKRFGLHPNQTSPLSRHEIGRSCGISRERVRQLENDAMAKLR 228 >gi|225429414|ref|XP_002275831.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|296081598|emb|CBI20603.3| unnamed protein product [Vitis vinifera] Length = 561 Score = 130 bits (326), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 129/238 (54%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E++ + LV+ +A+ Y G+ F D++Q GN+G+++ AE+FD GY+FSTY +W Sbjct: 323 CRDELLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFSTYVQYW 382 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++++++ +A + ++IP + I ++ + + + R P EIAK + + + Sbjct: 383 IRKSMSTLVARHARGVKIPFTLNRAIGQIQKARKALYKSHGRYPDDNEIAKFTGLSLAKI 442 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + S + D + + +F D + SP + +Q R+ +L L PR Sbjct: 443 RSAGNCLRVVGSTDQSFQDCWGATILEFTPDTSIKSPEEGFMQQCKRKDIHNLLKGLDPR 502 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E ++L +R+G G +LEE+G++F V++E IR++E A+ L+ + LR ++D Sbjct: 503 ERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKTALANLRDEEICQNLRHYVD 560 >gi|328948870|ref|YP_004366207.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] gi|328449194|gb|AEB14910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema succinifaciens DSM 2489] Length = 272 Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 82/228 (35%), Positives = 124/228 (54%), Gaps = 3/228 (1%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +NLRLV+SVA ++ +DLIQEGN+GLM AA+KFD G +FSTYA W+ Q Sbjct: 42 LVNSNLRLVVSVAGRFNKGAFCIMDLIQEGNLGLMVAAKKFDPAFGTRFSTYAYRWIVQR 101 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + I+ S I +PVH + ++ + + RE +E+A + E + VL Sbjct: 102 IMKFISANSSPILLPVHRETLLRRIQKFQNIFFQQNGREAAVKELALFAGISEERLNDVL 161 Query: 568 KITKEPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + + SL+T + DE T LGD I D A SP + AI+ + + + SLT E+ Sbjct: 162 ETSYTVASLDTEVADEGKTVSLGDIIPD-TAFSPEELAIREDSKSCVNFFMDSLTGIEKS 220 Query: 627 VLRMRFGIGMNT-DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 VLR R+ + +L EVG+ +++E +RQ E +A + LK S Sbjct: 221 VLRHRYNFDYDLHSKSLREVGRIVGLSQEAVRQAELRAKKHLKSAMES 268 >gi|255550882|ref|XP_002516489.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223544309|gb|EEF45830.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 560 Score = 130 bits (326), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 137/238 (57%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E++++ LV+ A+ Y G+ DL+Q GN+G+++ AE+FD GY+FSTY +W Sbjct: 322 CRDELIKSTRSLVLYFARNYRGTGIALEDLLQAGNLGVLEGAERFDHTRGYRFSTYVQYW 381 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++++++ ++ + I+IP + I+++ + + ++ + P +EIAK + + + Sbjct: 382 IRKSMSKIVSRLARGIQIPCTLSRAIYQIQKARKALTTSNGKYPDDDEIAKYTGLSLAKI 441 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + S++ IG+ + +F+ D + SP + ++ ++ + +L SL R Sbjct: 442 ESASRCLRVVGSIDQKIGESLNAKYLEFLPDTSVQSPEEVVMRQHMIQDMHNLLRSLDSR 501 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E +VL +RFG+ +LEE+G+ F V++E +R++E + + +L++ + LR +++ Sbjct: 502 ERQVLILRFGLNDYQPKSLEEIGRHFHVSKEWVRRLEKRVMTRLRNEETCRNLRHYIN 559 >gi|318066939|emb|CBY89084.1| RNA polymerase sigma70 factor [Halomonas elongata] Length = 367 Score = 129 bits (325), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 69/140 (49%), Positives = 92/140 (65%), Gaps = 15/140 (10%) Query: 385 SYAKDFPEGE----WKNFVACE----VDSILKIRNEI----KSISVE---TGISISEFRH 429 ++ K FP E W + E D + ++ +I + I+ E + +++ + Sbjct: 228 TFIKSFPGNESRQTWLDKFMAENAKYADRLAPLKGDIQRAQRKIAFEEEMVALVVTDLKE 287 Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + + GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF+ Sbjct: 288 VNRKLSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 347 Query: 490 WCLGYKFSTYAMWWVKQAIT 509 + GYKFSTYA WW++QAIT Sbjct: 348 YRRGYKFSTYATWWIRQAIT 367 Score = 63.2 bits (152), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 29/45 (64%), Positives = 36/45 (80%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 T DPVRMY+REMG+++LL+REGEI IAKRIE G +M+SL P Sbjct: 21 TTDPVRMYMREMGTVKLLTREGEIQIAKRIEEGTREVMSSLAYLP 65 >gi|223994539|ref|XP_002286953.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] gi|220978268|gb|EED96594.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana CCMP1335] Length = 298 Score = 129 bits (325), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 131/240 (54%), Gaps = 6/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 ++ +++ N+ LV +AK+Y N +LIQEG +G+M+AAE++D G++FSTY W Sbjct: 62 SRTKLITGNVGLVTLIAKRYYN---MLRNLIQEGYMGIMEAAERYDPSKGFRFSTYGTHW 118 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R+IA+ S IR+PVH++ I + + I R P+ E+A ++ + ++ + Sbjct: 119 IRQRIVRAIAESSRMIRLPVHVQATIRNINKKHEEFEATIGRSPSLPELAHEMGVSLDKL 178 Query: 564 RKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +++ ISLE + ED LGD I +P + A+ LR +L +L Sbjct: 179 HLYQHLSRNVISLERAVDQHSPEDNRTLGDRIACTELPTPDEDAMSEALRGEVHSMLDAL 238 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E VL RFG+ TL+E ++ + +R +EAKA+ +L+ P + +++ ++ Sbjct: 239 RDNERIVLTHRFGLDDGRPKTLKETAYGMGISIDSVRAVEAKALNRLRQPQLNYRVKDYV 298 >gi|297737220|emb|CBI26421.3| unnamed protein product [Vitis vinifera] Length = 555 Score = 129 bits (325), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 144/250 (57%), Gaps = 14/250 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E S+A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G+K STY Sbjct: 308 ECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLIGLLRGIEKFDSSKGFKISTY 367 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ + S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 368 VYWWIRQGVSRALVENSRTLRLPSHLHERL-SLIRNAKIRLEEKGITPSIDRIAECLNMS 426 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E + KV + +E SL G+ S++ D + N P + L++ Sbjct: 427 QKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSYIADVRLENN---PWHGVDEWALKD 483 Query: 612 TTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +++ +L RE ++R+ +G+ N T E++ K+ ++RER+RQ+ A+ KLK+ Sbjct: 484 EVNKLINTTLGERERDIIRLYYGLD-NECLTWEDISKRIGLSRERVRQVGLVALEKLKNA 542 Query: 671 SRSKKLRSFL 680 +R ++ + L Sbjct: 543 ARKGRMEAML 552 >gi|331028036|ref|YP_004421751.1| group 2 RNA polymerase sigma factor [Synechococcus phage S-CBS3] gi|294805649|gb|ADF42487.1| group 2 RNA polymerase sigma factor [Synechococcus phage S-CBS3] Length = 299 Score = 129 bits (325), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 81/239 (33%), Positives = 132/239 (55%), Gaps = 9/239 (3%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNR--GLQFLDLIQEGNIGLMKAAEKFDW 490 ++R+G+ AK+ M+ NLRLV+++AKKY R L+ LDL+Q+GN+GL +A E FD Sbjct: 52 IIRRGQR----AKERMIVRNLRLVVTIAKKYVKRCTSLEMLDLVQDGNMGLARATELFDP 107 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GYKFSTYA WW++Q+I+R + D+ IR+P+H +K+ K + PT Sbjct: 108 SRGYKFSTYAYWWIRQSISRGLQDRDRMIRLPIHRHEKVIKARAYMNHQLAMTGKMPTIA 167 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 E A + ++ L + ++ SL+ G +D S + D I D ++ D + Sbjct: 168 ECAAAVDADPHELQASLVMAQDVCSLDAKASGRDDLSPILDLIPDPASLHKDDEYLIE-- 225 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE + L+ E+ ++R G+G TL ++G++ V+RE IRQ KA+ K++ Sbjct: 226 REILHDAINMLSEDEQDIVRRHNGLGGAPKVTLGQLGQERGVSREAIRQKHTKAMNKVR 284 >gi|281425346|ref|ZP_06256259.1| RNA polymerase sigma-43 factor [Prevotella oris F0302] gi|281400509|gb|EFB31340.1| RNA polymerase sigma-43 factor [Prevotella oris F0302] Length = 252 Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 83/269 (30%), Positives = 130/269 (48%), Gaps = 38/269 (14%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I ET +S E + + + G A A ++ ANLR V+S+AK+Y +RG+ LD Sbjct: 22 LNEIGKETILSDDEEKQLSQQIMAGGAAAEQAIGKLTSANLRFVVSIAKQYVDRGVAILD 81 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIGLMKAA FD G +F YA +V++A+ ++ +QS R+P H Sbjct: 82 LISEGNIGLMKAARSFDGSRGLRFVGYAEPFVRKAVEAAVNEQSGIFRLPKH-------- 133 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 E + EE A A S++ P+ + +L + Sbjct: 134 -------------EHSAEEKANSRAF----------------SVDAPLQNGKNVNLLSIL 164 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D A P A++ +++E + L RE V+ +GIG T E+G++ + Sbjct: 165 SDPTAARPDQEALETSVKEELLEAMNILDNRERNVVEAFYGIG-QPHLTFAEIGEKMGLK 223 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RER+RQI KA+RKL + S L+++L+ Sbjct: 224 RERVRQIRNKAVRKLNRNTTSDMLKAYLE 252 >gi|321309572|ref|YP_004191901.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801416|emb|CBY92062.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 461 Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 75/223 (33%), Positives = 130/223 (58%), Gaps = 13/223 (5%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S A K++ +NLRLV SVAKKY N G DL+QEG GLMKA +KF++ LG KFSTYA Sbjct: 173 SFAIKQLTISNLRLVQSVAKKYLNYGFPMEDLVQEGFFGLMKAVQKFNYNLGNKFSTYAT 232 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA---- 557 WW++QAI RSIA++ IR+PVH+++ I + + + + + K EP+ ++I ++ Sbjct: 233 WWIRQAIVRSIAEKYRVIRVPVHLQEIIKRFNKVSMTLMAE-KGEPSLQDILVEMQKYYP 291 Query: 558 -MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +E + + +++K+ +SL+ + E+ L I D++ + + + +A E + Sbjct: 292 NFDLEKITNIKQLSKDLLSLDGVLDSEEFFPLSGAIRDEDMMDAEELSFKAYRVEMLNDM 351 Query: 617 LAS-LTPREERVLRMRFGIGMNTDHTLEEVGK------QFCVT 652 L + L P E ++++R+G H++ E+ + +FC + Sbjct: 352 LENELKPDEISLVKLRYGFLEYGKHSVREIVEEKLLDPEFCFS 394 >gi|299141532|ref|ZP_07034668.1| RNA polymerase sigma-70 factor [Prevotella oris C735] gi|298576868|gb|EFI48738.1| RNA polymerase sigma-70 factor [Prevotella oris C735] Length = 252 Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 83/269 (30%), Positives = 130/269 (48%), Gaps = 38/269 (14%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 + I ET +S E + + + G A A ++ ANLR V+S+AK+Y +RG+ LD Sbjct: 22 LNEIGKETILSDDEEKQLSQQIMAGGAAAERAIGKLTSANLRFVVSIAKQYVDRGVAILD 81 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIGLMKAA FD G +F YA +V++A+ ++ +QS R+P H Sbjct: 82 LISEGNIGLMKAARSFDGSRGLRFVGYAEPFVRKAVEAAVNEQSGIFRLPKH-------- 133 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 E + EE A A S++ P+ + +L + Sbjct: 134 -------------EHSAEEKANSRAF----------------SVDAPLQNGKNVNLLSIL 164 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D A P A++ +++E + L RE V+ +GIG T E+G++ + Sbjct: 165 SDPTAARPDQEALETSVKEELLEAMNILDNRERNVVEAFYGIG-QPHLTFAEIGEKMGLK 223 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 RER+RQI KA+RKL + S L+++L+ Sbjct: 224 RERVRQIRNKAVRKLNRNTTSDMLKAYLE 252 >gi|207743452|ref|YP_002259844.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum IPO1609] gi|206594849|emb|CAQ61776.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum IPO1609] Length = 203 Score = 129 bits (323), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 72/198 (36%), Positives = 115/198 (58%), Gaps = 2/198 (1%) Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM-- 539 M A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ ++++V+R R + Sbjct: 1 MHAIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEK 60 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 S R+ + E+IA L E V+ VL + + SL+TP + + L DF+ D++ S Sbjct: 61 SGIDGRDASIEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDSGTSLLDFLSDEHGAS 120 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 P L + LA L+ + V+ RFG+ TLEE+ + +TRER+RQI Sbjct: 121 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELAAEMGLTRERVRQI 180 Query: 660 EAKAIRKLKHPSRSKKLR 677 + +A+ KLK S+ +R Sbjct: 181 QQEALVKLKRHFASQGVR 198 >gi|317132579|ref|YP_004091893.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] gi|315470558|gb|ADU27162.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] Length = 256 Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 132/227 (58%), Gaps = 13/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E++ NLRLV+SV +++TNRG DL Q G IGLMK+ + FD +FSTYA+ Sbjct: 38 AREELISGNLRLVLSVIQRFTNRGENLDDLFQVGCIGLMKSIDNFDISQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ N +REPT EE+AK++ MP E + Sbjct: 98 IIGEIRRYLRDNN-PIRVSRSLRDIAYKAMQCKERLMNANQREPTIEEMAKEMDMPKEEI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L+ EP+SL P+ + DT ++ D I DK S D + L+E + +L+ Sbjct: 157 VMALESVVEPVSLYEPVYSDGGDTIYVMDQIGDKTVDS--DWLDEITLKEA----VGALS 210 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+R+L +RF G HT EV + +++ ++ ++E A+ K+K Sbjct: 211 EREKRILYLRFFEG----HTQMEVASEIGISQAQVSRLEKGALSKIK 253 >gi|119474993|ref|ZP_01615346.1| RNA polymerase sigma-70 factor family protein [marine gamma proteobacterium HTCC2143] gi|119451196|gb|EAW32429.1| RNA polymerase sigma-70 factor family protein [marine gamma proteobacterium HTCC2143] Length = 491 Score = 128 bits (322), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 78/223 (34%), Positives = 123/223 (55%), Gaps = 5/223 (2%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV NLRLV +AK+Y + L L+LIQEG GL++A EKF G +FSTYA W++ Sbjct: 253 MVNHNLRLVYHIAKRYNSGTLPMLELIQEGVFGLVRAVEKFQPASGNRFSTYAYLWIEAK 312 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + + + +R+P + K+ R+ + + +R T +A KL M V +L Sbjct: 313 VRLTHEKLNSLVRLPSSNFQDVIKLRRSMEQSRSTGERFST-RNVAAKLDMTQAHVELLL 371 Query: 568 KITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + +P+SL+ P+G D D S G ++ VS L + ++++ T +L+ LT RE Sbjct: 372 RTKSQPLSLDQPVGGEDNDLSLSGTLQLEQPPVSSL--VLNSDMQRQVTELLSELTSREA 429 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L+ RFG+G + E +GK ++RER+RQIE A+ LK Sbjct: 430 YILQHRFGLGDMEPMSRESIGKNIGLSRERVRQIEKAALISLK 472 >gi|2398853|dbj|BAA22215.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana] Length = 571 Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 136/240 (56%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E+V++ LV+ +A+ Y G+ DLIQ G +G+++ AE+FD GYKFSTY +W Sbjct: 332 CRDELVKSTRSLVLFLARNYRGMGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYW 391 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKV--VRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++++++ ++ + + IP + I+ + R + S+ IK EEIAK V+ Sbjct: 392 IRKSMSTMVSRHARGVHIPSSIIRTINHIQKARKTLKTSHGIKYA-ADEEIAKLTGHSVK 450 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +R + K S++ +GD T+ +F D SP ++ ++ + R +L L Sbjct: 451 KIRAANQCLKVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHDLLEGLE 510 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE++V+ +R+G+ +LEE+GK F V++E IR+IE +A+ KL+ ++ LR +L+ Sbjct: 511 PREKQVMVLRYGLQDYRPKSLEEIGKLFKVSKEWIRKIERRAMAKLRDQPNAEDLRYYLN 570 >gi|218676616|ref|YP_002395435.1| RpoS-like sigma factor [Vibrio splendidus LGP32] gi|218324884|emb|CAV26646.1| RpoS-like sigma factor [Vibrio splendidus LGP32] Length = 298 Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 72/230 (31%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+ M+E+NLRLV+ +AK Y R LDLI+EGNIGL+KA +K+D GY+FSTYA Sbjct: 61 ARDIMIESNLRLVVKIAKSYLKRKGNNFTLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYA 120 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW+++ I ++ ++ T+R+P H+ +I+ + +S K+++E + E++ + Sbjct: 121 VWWIRENIEAALMNKGRTVRLPAHVCKEINSLASKKLDVSKKMRKEISISELSNSSGVKA 180 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E V +++ ++ I + T +G + D E + P + +++ +L Sbjct: 181 ERVDQLVALSGF-IDVTTTVGISHAPLVLDQCESEYIPDPQQDCEDQSFTHALEQIINTL 239 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQF--CVTRERIRQIEAKAIRKLK 668 P+ ++VL RFG N TL EVG+ V+ ER+RQ++ +A+ +++ Sbjct: 240 PPKLQKVLIHRFGFFDNKVKTLSEVGQMLDVNVSNERVRQMQKEAVERIQ 289 >gi|108762657|ref|YP_634340.1| RNA polymerase sigma-C factor [Myxococcus xanthus DK 1622] gi|585929|sp|Q07083|RPSC_MYXXA RecName: Full=RNA polymerase sigma-C factor gi|293866|gb|AAA25408.1| sigma factor [Myxococcus xanthus] gi|108466537|gb|ABF91722.1| RNA polymerase sigma-C factor [Myxococcus xanthus DK 1622] Length = 295 Score = 128 bits (321), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 89/236 (37%), Positives = 130/236 (55%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ANLR V+ VA +Y + GL+ DLIQE NIGLMKA +KFD G + +YA+WW Sbjct: 45 AGHQLVTANLRFVVKVAYEYRSYGLKMSDLIQEANIGLMKAVQKFDPDKGIRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTAR---RMSNKIKREPTPEEIAKKLAM 558 ++ I I +++ R + RT R +M EEIA+KL + Sbjct: 105 IRAYIQNCILKNWSLVKLGTTQAQRRLFFSLARTRRELEKMGAGDANVVNAEEIARKLNV 164 Query: 559 PVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAI---QANL-RET 612 VR++ ++ +SL+ P+G D D +HL DF+E + +VS +D QANL RE Sbjct: 165 KASEVREMEQRMGGRDLSLDAPMGEDGDATHL-DFVESE-SVSAVDEVADRQQANLTREL 222 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L L PRE ++ R + + + TL E+G+ F +RER RQ+E +A KLK Sbjct: 223 VQRALRRLDPRERFIIEQR--VMGDAEMTLSELGEHFGFSRERARQLEIRAKDKLK 276 >gi|213028661|ref|ZP_03343108.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 88 Score = 127 bits (320), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 64/82 (78%), Positives = 69/82 (84%) Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PLDSA +LR T VLA LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQI Sbjct: 6 PLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI 65 Query: 660 EAKAIRKLKHPSRSKKLRSFLD 681 EAKA+RKL+HPSRS+ LRSFLD Sbjct: 66 EAKALRKLRHPSRSEVLRSFLD 87 >gi|7363220|emb|CAB83107.1| sigma factor 3 [Sinapis alba] Length = 567 Score = 127 bits (320), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 136/240 (56%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E+V++ LV+ +A+ Y G+ DLIQ G +G+++ AE+FD GYKFSTY +W Sbjct: 328 CRDELVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVRYW 387 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKV--VRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++++++ ++ + + IP + + ++ R + S IK P EEI+K ++ Sbjct: 388 IRKSMSTMVSRHARGVHIPASIIRTMSQIQKARKTLKTSQGIK-YPADEEISKLTGYSLK 446 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +R + K S++ +GD T+ +F D SP ++ ++ + R +L L Sbjct: 447 KIRAANQCLKVVGSIDKKVGDCFTTRFLEFTPDPTMESPEEAVMRQSARGEVHNLLEGLE 506 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE++V+ +R+G+ + +LEE+GK V++E IR+IE +A+ KL+ ++ LR +L+ Sbjct: 507 PREKQVMVLRYGLQDYSPKSLEEIGKILRVSKEGIRKIERRAMAKLRDQPKADNLRYYLN 566 >gi|297820128|ref|XP_002877947.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297323785|gb|EFH54206.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Length = 568 Score = 127 bits (319), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 139/240 (57%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E++++ LV+ +A+ Y G+ DLIQ G +G+++ AE+FD GYKFSTY +W Sbjct: 329 CRDELLKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYW 388 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKV--VRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++++++ ++ + + IP + I+++ R + S+ IK P E+I+K ++ V+ Sbjct: 389 IRKSMSMMVSRHARGVHIPSSIIRTINQIQKARKTLKTSHGIK-YPADEDISKLTSLSVK 447 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +R + K S+E +GD ++ +F D SP ++ ++ + R +L L Sbjct: 448 KIRAANQCLKVVGSIEKKVGDCFSTKFLEFTPDTTMESPEEAVMRQSARRDIHDLLEGLE 507 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE++V+ +R+G+ +LEE+GK V++E IR+IE +A+ KL+ ++ LR +L+ Sbjct: 508 PREKQVMVLRYGLQNYRPKSLEEIGKLLRVSKEWIRKIERRAMAKLRDQPNAEDLRYYLN 567 >gi|261415258|ref|YP_003248941.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371714|gb|ACX74459.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302327293|gb|ADL26494.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 283 Score = 127 bits (318), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 131/227 (57%), Gaps = 10/227 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +NLR V+++A Y RGL ++LI EGN+GL++AA +FD L KF +YA+WW++Q Sbjct: 49 LVNSNLRFVVNIANLYKGRGLDIMELINEGNMGLIEAARRFDRSLKIKFISYAVWWIRQN 108 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----EEIAKKLAMPVEG 562 ITR+I+++ IRI + + R A+ + I T E ++K A +E Sbjct: 109 ITRAISEKGRMIRISAEKELMLRRFNRHAKDVQQVIGGTFTINTQSLEGLSKYKASEIE- 167 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLT 621 K+L + SL+ P+ ++ + LGD I D + + + A N E +VL +L+ Sbjct: 168 --KILMMGNSTSSLDAPVNEDGDATLGDTISDSQSRTD-ELADNNNRAEVFDKVLDKNLS 224 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+ ++++ +G M++D L+E+ +++ER+RQ++ A+ KL+ Sbjct: 225 NQEKEIIKLYYGFKMDSDLNLKEIAPMVGLSKERVRQLKENALNKLR 271 >gi|84385871|ref|ZP_00988901.1| RNA polymerase sigma factor RpoS [Vibrio splendidus 12B01] gi|84379187|gb|EAP96040.1| RNA polymerase sigma factor RpoS [Vibrio splendidus 12B01] Length = 262 Score = 126 bits (317), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 132/230 (57%), Gaps = 6/230 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+ M+E+NLRLV+ +AK Y R LDLI+EGNIGL+KA +K+D GY+FSTYA Sbjct: 25 ARDIMIESNLRLVVKIAKSYLKRKGNNFTLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYA 84 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW+++ I ++ ++ T+R+P H+ +I+ + +S K+ +E + E++ + Sbjct: 85 VWWIRENIEAALMNKGRTVRLPAHVCKEINSLASKKLDVSKKMSKEISISELSDSSGVKA 144 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + V +++ ++ I + T +G + D E + P + + +++++L Sbjct: 145 KRVDQLVALSGF-IDVTTTVGTNHAPMVLDQCESEYIPDPQRDCEDQSFTQALEQIISTL 203 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQF--CVTRERIRQIEAKAIRKLK 668 P+ ++VL RFG N TL EVG+ V+ ER+RQ++ +A+ +++ Sbjct: 204 PPKLQKVLIHRFGFFDNKVKTLSEVGQMLDVNVSSERVRQMQKEAVERIQ 253 >gi|22135904|gb|AAM91534.1| sigma factor SigC [Arabidopsis thaliana] Length = 291 Score = 126 bits (316), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 134/237 (56%), Gaps = 3/237 (1%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+V++ LV+ +A+ Y G+ DLIQ G +G+++ AE+FD GYKFSTY +W+++ Sbjct: 55 ELVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRK 114 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKV--VRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 +++ ++ + + IP + I+ + R + S+ IK EEIAK V+ +R Sbjct: 115 SMSTMVSRHARGVHIPSSIIRTINHIQKARKTLKTSHGIK-YAADEEIAKLTGHSVKKIR 173 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + K S++ +GD T+ +F D SP ++ ++ + R +L L PRE Sbjct: 174 AANQCLKVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHDLLEGLEPRE 233 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++V+ +R+G+ +LEE+GK V++E IR+IE +A+ KL+ ++ LR +L+ Sbjct: 234 KQVMVLRYGLQDYRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRDQPNAEDLRYYLN 290 >gi|88799025|ref|ZP_01114606.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88778252|gb|EAR09446.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 339 Score = 126 bits (316), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 70/221 (31%), Positives = 120/221 (54%), Gaps = 1/221 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ +N+RLV VA ++T RGL LDL QEG GL++A E+F +FSTYA W+ Q Sbjct: 112 LIASNIRLVFKVAHRHTERGLSLLDLAQEGQFGLVRALERFRCDKELRFSTYATHWITQY 171 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I +I Q+ T+ IP +++D + + R R + R + E A+ + ++ Sbjct: 172 IRLAIKKQTRTVPIPTNVQDDLARTNRALARAQQQQGRPVSVTEFARLSNQSTDAAEHLM 231 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + SL+ + D+ D + D + P +++ +E +LA LT RE+++ Sbjct: 232 SLNAPVQSLDERLSDDSEVSALDLL-DSDLARPESEHERSDNQERVQALLAHLTSREQQI 290 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L MR+GIGM ++ E+ Q ++RER+RQ+E +A+ L+ Sbjct: 291 LAMRYGIGMGAEYGYREIADQLNLSRERVRQLEKQALGFLR 331 >gi|207723156|ref|YP_002253555.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum MolK2] gi|206588350|emb|CAQ35313.1| sigma factor, ecf;peptidase aspartic, active site;;; protein [Ralstonia solanacearum MolK2] Length = 229 Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 71/196 (36%), Positives = 114/196 (58%), Gaps = 2/196 (1%) Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM--SN 541 A EKFD G++FSTYA WW++Q+I R+I +Q+ T+R+PVH+ ++++V+R R + S Sbjct: 29 AIEKFDPERGFRFSTYATWWIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSG 88 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 R+ + E+IA L E V+ VL + + SL+TP + + L DF+ D++ SP Sbjct: 89 IDGRDASIEDIAHLLGKTTEEVQDVLSLNEHTTSLDTPFDLDPGTSLLDFLSDEHGASPD 148 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 L + LA L+ + V+ RFG+ TLEE+ + +TRER+RQI+ Sbjct: 149 QEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELAAEMGLTRERVRQIQQ 208 Query: 662 KAIRKLKHPSRSKKLR 677 +A+ KLK S+ +R Sbjct: 209 EALVKLKRHFASQGVR 224 >gi|302810520|ref|XP_002986951.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii] gi|300145356|gb|EFJ12033.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii] Length = 326 Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 88/255 (34%), Positives = 136/255 (53%), Gaps = 9/255 (3%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKF 488 V +R+ A+ +M++ NLRLV A+KY L LDL QEG GLM A +KF Sbjct: 75 VQTLRRLLQSGQAARNKMIKHNLRLVAHQARKYFKEELSLSLLDLCQEGVPGLMSAVDKF 134 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D GY+FSTYA++WVK +I R+ +R+P ++ + + R ++S ++ REPT Sbjct: 135 DPKKGYRFSTYAVYWVKNSILRAQTRLGHIVRVPYNVAAQKMTIQRKRAQLSLELDREPT 194 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLET---PIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EE+ +L M +VL+ SL G+E + D D+N ++ Sbjct: 195 HEEVITELKMDSRRYFEVLRTGAPRRSLNARSKVTGEELIHSISD--PDENEAQYYNAG- 251 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 A LR VL SL P+E ++R R+G+ + + E+G+ ++RE +R+ E + + Sbjct: 252 -AQLRLGMDDVLDSLKPKESLIIRQRYGLDGKGERSFTEIGRNLNLSREMVRKYEIRGMM 310 Query: 666 KLKHPSRSKKLRSFL 680 KLKHP+R K LR FL Sbjct: 311 KLKHPTRVKYLREFL 325 >gi|302792318|ref|XP_002977925.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii] gi|300154628|gb|EFJ21263.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii] Length = 326 Score = 125 bits (315), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/242 (35%), Positives = 132/242 (54%), Gaps = 9/242 (3%) Query: 444 AKKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A+ +M++ NLRLV A+KY L LDL QEG GLM A +KFD GY+FSTYA+ Sbjct: 88 ARNKMIKHNLRLVAHQARKYFKEELSLSLLDLCQEGVPGLMSAVDKFDPKKGYRFSTYAV 147 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +WVK +I R+ +R+P ++ + + R ++S ++ REPT EE+ +L M Sbjct: 148 YWVKNSILRAQTRLGHIVRVPYNVAAQKMTIQRKRAQLSLELDREPTHEEVITELKMDSR 207 Query: 562 GVRKVLKITKEPISLET---PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +VL+ SL G+E + D D+N ++ A LR VL Sbjct: 208 RYFEVLRTGAPRRSLNARSKVTGEELIHSISD--PDENEAQYFNAG--AQLRLGMDDVLD 263 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 SL P+E ++R R+G+ + + E+G+ ++RE +R+ E + + KLKHP+R K LR Sbjct: 264 SLKPKESLIIRQRYGLDGKGERSFTEIGRNLNLSREMVRKYEIRGMMKLKHPTRVKYLRE 323 Query: 679 FL 680 FL Sbjct: 324 FL 325 >gi|326773494|ref|ZP_08232777.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] gi|326636724|gb|EGE37627.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] Length = 164 Score = 125 bits (314), Expect = 2e-26, Method: Composition-based stats. Identities = 56/81 (69%), Positives = 72/81 (88%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 84 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 143 Query: 504 VKQAITRSIADQSCTIRIPVH 524 ++QAITR++ADQ+ TIRIPVH Sbjct: 144 IRQAITRAMADQARTIRIPVH 164 Score = 42.0 bits (97), Expect = 0.39, Method: Composition-based stats. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 19 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 52 >gi|312281919|dbj|BAJ33825.1| unnamed protein product [Thellungiella halophila] Length = 562 Score = 125 bits (314), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 138/238 (57%), Gaps = 5/238 (2%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E++++ LV+ +++ Y G+ DLIQ GN+G+++ AE+FD GYKFSTY +W+++ Sbjct: 326 ELLKSTRSLVLFLSRNYRGLGIAHEDLIQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 385 Query: 507 AITRSIADQSCTIRIP---VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++ ++ + + IP + +I K +T + S+ IK P EEI+K+ ++ + Sbjct: 386 SMSMMVSRHARGVYIPSSVIRTMSQIQKARKTLK-TSHGIK-YPADEEISKETGYSLKKI 443 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R + K S++ +GD T+ +F D SP ++ ++ + +L L PR Sbjct: 444 RAANQCLKVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSAWRDVHDLLQGLEPR 503 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E++V+ +R+G+ +LEE+GK V++E IR+IE +A+ KL+ + ++ LR +L+ Sbjct: 504 EKQVMVLRYGLQGFRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRDQANAENLRFYLN 561 >gi|149911320|ref|ZP_01899941.1| DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] gi|149805635|gb|EDM65637.1| DNA-directed RNA polymerase, sigma subunit [Moritella sp. PE36] Length = 294 Score = 125 bits (313), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 71/218 (32%), Positives = 118/218 (54%), Gaps = 2/218 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ M+++NLRLV+ VAKKY N L + ++IQEGN GLM A +KFD G +FSTYA+WW Sbjct: 42 ARDTMIQSNLRLVLMVAKKYQNYSLDWAEIIQEGNTGLMHAVDKFDPERGCRFSTYAVWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + I + S TIRIP+H+ ++++ + + + +IA++L + V Sbjct: 102 IRNNIEQYIMNHSRTIRIPIHVTRVYKQILKASSELGLDVDTNEGITKIAQELKISPRKV 161 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +L SL+ I GD + L D + + P + + E +L L Sbjct: 162 LNILGHYFNEGSLDKEIHSGDNLLATLKDLVAAEVDCQPDIRYEKCDYYEYMDALLEYLP 221 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 R + ++R+RFG +L+ + + ++RER+RQI Sbjct: 222 VRSQNIIRLRFGFKGQDPMSLQAIAQLMDISRERVRQI 259 >gi|15232364|ref|NP_190960.1| SIGC (RNA POLYMERASE SIGMA-SUBUNIT C); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|2353175|gb|AAB69386.1| sigma factor 3 [Arabidopsis thaliana] gi|2463554|dbj|BAA22530.1| SigC [Arabidopsis thaliana] gi|5478585|dbj|BAA82450.1| sigma factor SigC [Arabidopsis thaliana] gi|7630012|emb|CAB88354.1| sigma factor SigC [Arabidopsis thaliana] gi|133778870|gb|ABO38775.1| At3g53920 [Arabidopsis thaliana] gi|332645638|gb|AEE79159.1| RNApolymerase sigma-subunit C [Arabidopsis thaliana] Length = 571 Score = 125 bits (313), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 135/240 (56%), Gaps = 3/240 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E+V++ LV+ +A+ Y G+ DLIQ G +G+++ AE+FD GYKFSTY +W Sbjct: 332 CRDELVKSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYW 391 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKV--VRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++++++ ++ + + IP + I+ + R + S+ IK EEIAK V+ Sbjct: 392 IRKSMSTMVSRHARGVHIPSSIIRTINHIQKARKTLKTSHGIKYA-ADEEIAKLTGHSVK 450 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 +R + K S++ +GD T+ +F D SP ++ ++ + R +L L Sbjct: 451 KIRAANQCLKVVGSIDKKVGDCFTTKFLEFTPDTTMESPEEAVMRQSARRDIHDLLEGLE 510 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 PRE++V+ +R+G+ +LEE+GK V++E IR+IE +A+ KL+ ++ LR +L+ Sbjct: 511 PREKQVMVLRYGLQDYRPKSLEEIGKLLKVSKEWIRKIERRAMAKLRDQPNAEDLRYYLN 570 >gi|86145220|ref|ZP_01063551.1| RpoS-like sigma factor [Vibrio sp. MED222] gi|85836797|gb|EAQ54917.1| RpoS-like sigma factor [Vibrio sp. MED222] Length = 298 Score = 125 bits (313), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 71/230 (30%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+ M+E+NLRLV+ +AK Y R LDLI+EGNIGL+KA +K+D GY+FSTYA Sbjct: 61 ARDIMIESNLRLVVKIAKSYLKRKGNNFTLLDLIEEGNIGLIKAIDKYDPEPGYRFSTYA 120 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW+++ I ++ ++ T+R+P H+ +I+ + +S K+++E + E++ + Sbjct: 121 VWWIRENIEAALMNKGRTVRLPAHVCKEINSLASKKLDVSKKMRKEISISELSNISGVKA 180 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E V +++ ++ I + T +G + + E + P + +++ +L Sbjct: 181 ERVDQLVALSGF-IDVTTTVGISHAPLVLEQCESEYIPDPQQDCEDQSFTHALEQIINTL 239 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQF--CVTRERIRQIEAKAIRKLK 668 P+ ++VL RFG N TL EVG+ V+ ER+RQ++ +A+ +++ Sbjct: 240 PPKLQKVLIHRFGFFDNKVKTLSEVGQMLDVNVSNERVRQMQKEAVERIQ 289 >gi|320103437|ref|YP_004179028.1| RpoD subfamily RNA polymerase sigma-70 factor [Isosphaera pallida ATCC 43644] gi|319750719|gb|ADV62479.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Isosphaera pallida ATCC 43644] Length = 286 Score = 125 bits (313), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 87/259 (33%), Positives = 128/259 (49%), Gaps = 25/259 (9%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ E R + V +G+ A ++ M+EANLRLV VA +Y GL + DL+ EGN+GL Sbjct: 33 LTAEEERELARRVLRGDASA---RRRMIEANLRLVAMVAARYRGLGLDWEDLVGEGNLGL 89 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 ++A +D G +FSTYA W++Q I ++ + TIR+P HM K+ R R++ Sbjct: 90 IRAVSSYDPDRGVRFSTYAAHWIRQTIRVALTTTAATIRLPAHMVTKLALWRRAEARLTR 149 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEP--ISLETPIGDEDTSHLGDFIEDKNAVS 599 + R PT EE+A +L R +K E + E P E G E + Sbjct: 150 NLGRSPTFEEVADELGWS-SSTRLSMKRAMESGRVHHEEPGATE-----GRGSESRR--- 200 Query: 600 PLDSAIQANLRET-----------TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 P+D A+ R L L RE VL +R+G+G L EV Sbjct: 201 PIDQAVDPRPEPAWEIERRDELLELRRSLQRLGERERLVLALRYGLGDIAPKPLREVATT 260 Query: 649 FCVTRERIRQIEAKAIRKL 667 VTRE +R+IEA+A+R+L Sbjct: 261 LGVTREWVRRIEARALRQL 279 >gi|325520258|gb|EGC99421.1| RpoD family RNA polymerase sigma factor [Burkholderia sp. TJI49] Length = 167 Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 66/165 (40%), Positives = 99/165 (60%), Gaps = 1/165 (0%) Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 TIR+PVH+ D+ +V R A R + R+PTP E+A + + +R VL + EP+SL+ Sbjct: 4 TIRVPVHVGDQQQRVRRHALRFHQRTGRQPTPAELAAETGLDETRLRAVLALPAEPVSLD 63 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 TP+ D DT L D IED+++ SP + +RE T +L S+TP E VLR RFG+G Sbjct: 64 TPLPDADTG-LVDLIEDQSSASPFERLADTRMRECVTSLLRSVTPAEADVLRRRFGLGGT 122 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 T + + K ++RER+RQIE +A+ L+ + ++ SFLD Sbjct: 123 EPDTYDAIAKDAGMSRERVRQIEKRALAALRTIAEAEDAHSFLDA 167 >gi|88809561|ref|ZP_01125068.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] gi|88786311|gb|EAR17471.1| possible type II alternative RNA polymerase sigma factor [Synechococcus sp. WH 7805] Length = 211 Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 55/135 (40%), Positives = 93/135 (68%), Gaps = 4/135 (2%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++++GE AK +M+ ANLRLV+++AK+Y +GL LDLIQEG +GL +A EK+D Sbjct: 59 IIKRGE----KAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTR 114 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q + R+++ QS TIRIPV++ +K+ K+ + R+ + P+ E++ Sbjct: 115 GHRFSTYAYWWIRQGLNRALSTQSRTIRIPVNVNEKLTKLRASKARLMQRNGLSPSTEQL 174 Query: 553 AKKLAMPVEGVRKVL 567 + + +P+ V +L Sbjct: 175 SDDMNLPISEVEDLL 189 >gi|149198541|ref|ZP_01875585.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] gi|149138256|gb|EDM26665.1| RNA polymerase sigma factor RpoD [Lentisphaera araneosa HTCC2155] Length = 282 Score = 123 bits (309), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 125/228 (54%), Gaps = 3/228 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+ ANLRLV+++AK++ NRG+ +LI EGN GL+KAA++F G KF++YA WW Sbjct: 38 AIQELTLANLRLVVTIAKQFMNRGVALGELIAEGNHGLVKAAQRFRPGHGAKFASYAAWW 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ I R+I D +R+PV ++ K+ ++ + + +AK++ + V Sbjct: 98 IKQNIRRAIRDDKRIVRVPVQSLLRMQKIKNARLKIQQETGDASNDKAVAKEVGISPRLV 157 Query: 564 RKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASL 620 R L + S+ I D + G+ I D A +P + + +T ++ L Sbjct: 158 RTTSLHVDTSSFSINEQISQDGKATEKGELIPDSQAQTPGEVMEFHDGYKTLMEIVRQEL 217 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE ++L RFG+ TL E + +T ER+RQ++ +A+R+L+ Sbjct: 218 TEREYKILSARFGLDDGEAKTLAETSELVGLTSERVRQLQQEALRRLR 265 >gi|222632729|gb|EEE64861.1| hypothetical protein OsJ_19718 [Oryza sativa Japonica Group] Length = 457 Score = 123 bits (308), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 148/277 (53%), Gaps = 10/277 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TN 465 + NE++S + ++ + ++ M R E A+ ++++ NLRLV+ KY + Sbjct: 186 LENEVQSEPNDAQLAEAMNMSVLQMRRHLEV-GRAARNKLIKHNLRLVLYTINKYYPDMS 244 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 +F D+ Q G GL+ A ++F+ G++ STYA++W++ +I R+I + T R P M Sbjct: 245 NDERFDDICQAGANGLITAIDRFEPKRGFRISTYALFWIRHSIVRAITLSNFT-RFPFAM 303 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDE 583 + ++ R ++ ++ R PT EE+ KK+ + R V+++T+ SL + E Sbjct: 304 ESERQEIHRAREELAFELGRAPTEEEVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQE 363 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + L + + D +A+ S+ LR +L SL P+E V+R RFG+ TL Sbjct: 364 E---LINEVTDDDAIGVDTSSHNTLLRLAIDDLLDSLKPKESVVIRQRFGLDGRGKRTLS 420 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ ++RE +R+ E KA+ KLKHP+R + LR ++ Sbjct: 421 EIAGNLNISREMVRKYELKALMKLKHPTRVEYLRRYM 457 >gi|332703233|ref|ZP_08423321.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio africanus str. Walvis Bay] gi|332553382|gb|EGJ50426.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio africanus str. Walvis Bay] Length = 398 Score = 122 bits (307), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 77/230 (33%), Positives = 134/230 (58%), Gaps = 14/230 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +V ++LRLV+ +A + R +Q LDL+QEGN+GLM+A +KFD G KFS YA +W+K Sbjct: 155 LVTSHLRLVVKIAMDFQRRWMQNVLDLVQEGNVGLMRAVQKFDPEKGIKFSYYAAFWIKA 214 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 I + I D ++I + K+ + R+ +PT ++K L + VE + + Sbjct: 215 YILKFIMDNWRMVKIGTTQTQRKLFYNLNKERQRLQSQGFDPTSSTLSKSLGVSVEDIEE 274 Query: 566 V-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP------LDSAIQANLRETTTRVLA 618 + ++++ +SL+ IGD+ T+ DF+ A+ P +S I A LRE ++ Sbjct: 275 MDQRLSRSDMSLDITIGDDTTATRMDFLP---ALGPGIEETLANSEISALLREHLASIVP 331 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ +E+ +L+ R + ++ TL E+G Q+ +TRER+RQIEA+ ++K++ Sbjct: 332 MLSDKEQDILQKR--LLSDSPVTLREIGDQYGITRERVRQIEARLLQKIR 379 >gi|310777993|ref|YP_003966326.1| RNA polymerase, sigma 32 subunit, RpoH [Ilyobacter polytropus DSM 2926] gi|309747316|gb|ADO81978.1| RNA polymerase, sigma 32 subunit, RpoH [Ilyobacter polytropus DSM 2926] Length = 329 Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 145/256 (56%), Gaps = 15/256 (5%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 IS+ T I + + IV + G+ EA ++ +V +NL+LV +A KY+ G+ ++DLIQ Sbjct: 78 ISLYTPIPKEKEKDIVKKAQDGDEEA---REMLVTSNLKLVAKIAMKYSKSGVNYIDLIQ 134 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 +G IGL+ A +K+D G+ F++Y++WW+K+ I SIA++ I+IP ++ K+ Sbjct: 135 DGTIGLIAAIDKYDLSKGHSFTSYSVWWIKREIINSIANRINAIKIPSYVYLMNKKIRIF 194 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + ++P+ +EI++ L + +E V K+ + ++ + D + LGDF Sbjct: 195 EDDFMERNNKKPSYQEISEALNLSLEEVEKMKEASEIGVG---GFADGNEPDLGDF---- 247 Query: 596 NAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 N V +D + NL E +++ + ++P E++V+ M +G+ N +E+ K V+ Sbjct: 248 NTVDQIDKEL--NLLEERSKISNLMRKISPEEQKVVEMYYGLDDNKRLGFKEISKIMGVS 305 Query: 653 RERIRQIEAKAIRKLK 668 E+++ ++ +AI KLK Sbjct: 306 VEKVKFLKERAILKLK 321 >gi|203288197|ref|YP_002223212.1| RNA polymerase sigma factor [Borrelia recurrentis A1] gi|201085417|gb|ACH94991.1| RNA polymerase sigma factor [Borrelia recurrentis A1] Length = 267 Score = 122 bits (307), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 134/229 (58%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+ + K+Y +GL+ DLIQEGN+GL++AAEK+D KFSTYA +W Sbjct: 41 AKNQMINANLRLVLKIIKRYAGKGLKIEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ++ R++ ++ +++P + I ++ + ++ P E+I ++ + Sbjct: 101 IKQSLQRALNTKTRLVKVPYRKENLILQINKYLMEE----EKSPKKEDIMERFNLTTAQY 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLT 621 K++ ++ SL+ I + S L + ED N+++P +S ++ N L+ + L Sbjct: 157 VKIIPYLEKEYSLDKKIEGSENSTLLNLYED-NSLNP-ESTLEQNSTLKHLNYILETKLN 214 Query: 622 PREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ R+ + N+D TL+++ + ++ E +RQIE + ++KL+ Sbjct: 215 EKERYIIKKRYNLD-NSDKKSTLKDISTELGISSETVRQIEKRVLKKLR 262 >gi|203284664|ref|YP_002222404.1| RNA polymerase sigma factor [Borrelia duttonii Ly] gi|201084107|gb|ACH93698.1| RNA polymerase sigma factor [Borrelia duttonii Ly] Length = 267 Score = 122 bits (306), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 133/229 (58%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+ + K+Y +GL+ DLIQEGN+GL++AAEK+D KFSTYA +W Sbjct: 41 AKNQMINANLRLVLKIIKRYAGKGLKIEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ++ R++ ++ +++P + I ++ + ++ P E+I ++ + Sbjct: 101 IKQSLQRALNTKTRLVKVPYRKENLILQINKYLMEE----EKSPKKEDIMERFNLTTAQY 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLT 621 K++ ++ SL+ I + S L + ED N+ +P +S ++ N L+ + L Sbjct: 157 VKIIPYLEKEYSLDKKIEGSENSTLLNLYED-NSFNP-ESTLEQNSTLKHLNYILETKLN 214 Query: 622 PREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ R+ + N+D TL+++ + ++ E +RQIE + ++KL+ Sbjct: 215 EKERYIIKKRYNLD-NSDKKSTLKDISTELGISSETVRQIEKRVLKKLR 262 >gi|269963639|ref|ZP_06177962.1| conserved hypothetical protein [Vibrio harveyi 1DA3] gi|269831652|gb|EEZ85788.1| conserved hypothetical protein [Vibrio harveyi 1DA3] Length = 279 Score = 122 bits (305), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 132/243 (54%), Gaps = 7/243 (2%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TNRGLQFLDLIQEGNIGLMKAA 485 H + R G+ EA ++ M+E+NLRLV+ +AK Y T LDLI+EGNIGL+KA Sbjct: 32 HYAKLNRAGDKEA---REVMIESNLRLVVKIAKSYLKRTGNNFTLLDLIEEGNIGLIKAI 88 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +K+D GY+FSTYA+WW+++ I ++ + T+R+P H+ +I+ + S + + Sbjct: 89 DKYDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRLPAHVCKEINSLASKKHDASKTMSK 148 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 + + E++ + VE V +++ ++ I + T + + + E + P Sbjct: 149 DISISELSHCSGVKVERVDELVALSG-FIDVSTTVDLNHAPFVLEQCESEYTTDPQQDCE 207 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + V+ +L + ++VL RFG+ + TL EVG V+ ER+RQ++ +A+ Sbjct: 208 DHCFTQALEHVVNTLPVKLQQVLIHRFGLFEHNVKTLAEVGDLLNVSNERVRQMQKEAVE 267 Query: 666 KLK 668 +++ Sbjct: 268 RIQ 270 >gi|187918623|ref|YP_001884188.1| RNA polymerase sigma factor RpoS [Borrelia hermsii DAH] gi|119861471|gb|AAX17266.1| RNA polymerase sigma factor RpoS [Borrelia hermsii DAH] Length = 267 Score = 122 bits (305), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 131/228 (57%), Gaps = 9/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+ + K+Y +GL+ DLIQEGN+GL++AAEK+D KFSTYA +W Sbjct: 41 AKNKMINANLRLVLKIIKRYAGKGLKVEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ++ R++ ++ +++P + I ++ + ++ P E+I ++ + Sbjct: 101 IKQSLQRALNTKTRLVKVPYRKENLILQINKYLMEE----EKSPKKEDIMERFNLTTAQY 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLT 621 K++ ++ SL+ + + S L + ED N+ +P +S ++ N L+ + L Sbjct: 157 VKIIPYLEKEYSLDKKLEGSENSTLLNLYED-NSFNP-ESTLEQNSTLKHLNHILETKLN 214 Query: 622 PREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E ++R R+ + N TL+++ + ++ E +RQIE + ++KL+ Sbjct: 215 DKERYIIRKRYNLDNNDKKSTLKDISSELGISSETVRQIEKRVLKKLR 262 >gi|125553511|gb|EAY99220.1| hypothetical protein OsI_21178 [Oryza sativa Indica Group] Length = 500 Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 148/277 (53%), Gaps = 10/277 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TN 465 + NE++S + ++ + ++ M R E A+ ++++ NLRLV+ KY + Sbjct: 229 LENEVQSEPNDAQLAEAMNMSVLQMRRHLEV-GRAARNKLIKHNLRLVLYTINKYYPDMS 287 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 +F D+ Q G GL+ A ++F+ G++ STYA++W++ +I R+I + T R P M Sbjct: 288 NDERFDDICQAGANGLITAIDRFEPKRGFRISTYALFWIRHSIVRAITLSNFT-RFPFAM 346 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDE 583 + ++ R ++ ++ R PT EE+ KK+ + R V+++T+ SL + E Sbjct: 347 ESERQEIHRAREELAFELGRAPTEEEVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQE 406 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + L + + D +A+ S+ LR +L SL P+E V+R RFG+ TL Sbjct: 407 E---LINEVTDDDAIGVDTSSHNTLLRLAIDDLLDSLKPKESVVIRQRFGLDGRGKRTLS 463 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ ++RE +R+ E KA+ KLKHP+R + LR ++ Sbjct: 464 EIAGNLNISREMVRKYELKALMKLKHPTRVEYLRRYM 500 >gi|115465727|ref|NP_001056463.1| Os05g0586600 [Oryza sativa Japonica Group] gi|30698488|dbj|BAC76601.1| Sig5 [Oryza sativa Japonica Group] gi|30698518|dbj|BAC76607.1| plastid sigma factor SIG5 [Oryza sativa Japonica Group] gi|113580014|dbj|BAF18377.1| Os05g0586600 [Oryza sativa Japonica Group] Length = 500 Score = 122 bits (305), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 148/277 (53%), Gaps = 10/277 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TN 465 + NE++S + ++ + ++ M R E A+ ++++ NLRLV+ KY + Sbjct: 229 LENEVQSEPNDAQLAEAMNMSVLQMRRHLEV-GRAARNKLIKHNLRLVLYTINKYYPDMS 287 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 +F D+ Q G GL+ A ++F+ G++ STYA++W++ +I R+I + T R P M Sbjct: 288 NDERFDDICQAGANGLITAIDRFEPKRGFRISTYALFWIRHSIVRAITLSNFT-RFPFAM 346 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDE 583 + ++ R ++ ++ R PT EE+ KK+ + R V+++T+ SL + E Sbjct: 347 ESERQEIHRAREELAFELGRAPTEEEVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQE 406 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + L + + D +A+ S+ LR +L SL P+E V+R RFG+ TL Sbjct: 407 E---LINEVTDDDAIGVDTSSHNTLLRLAIDDLLDSLKPKESVVIRQRFGLDGRGKRTLS 463 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ ++RE +R+ E KA+ KLKHP+R + LR ++ Sbjct: 464 EIAGNLNISREMVRKYELKALMKLKHPTRVEYLRRYM 500 >gi|42524684|ref|NP_970064.1| RNA polymerase sigma-32 factor [Bdellovibrio bacteriovorus HD100] gi|39576894|emb|CAE78123.1| RNA polymerase sigma-32 factor [Bdellovibrio bacteriovorus HD100] Length = 373 Score = 121 bits (304), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 75/233 (32%), Positives = 134/233 (57%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V+ANLR V+ VA +Y+ G + +DLIQEGN+GLM A +F+ G + TYA+WW Sbjct: 136 AAQALVKANLRFVVKVAAEYSKFGSKMIDLIQEGNVGLMHAVREFNPYKGARLITYAVWW 195 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I + Q +RI + K+ ++ + + + EP I+ +L +P + Sbjct: 196 IRGYIQEFLMRQYSMVRIGTTQNQRKLFYQLQKEKEALDAMGIEPNIGLISSRLGIPEDE 255 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-----LRETTTRV 616 VR + ++++ +SL+ P+ DE + LGD ++ + PLD A+ N L++ + Sbjct: 256 VRDMTMRMSGRDVSLDRPVDDESGTTLGD-LQRGPSDQPLDEALAHNEQLEILKQKIEEI 314 Query: 617 LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ RE+ +L R +N D TL+E+G++ +TRE +RQ+EA+ ++K+K Sbjct: 315 RPELSEREKIILDERI---LNDDPLTLQEIGEKHGITREAVRQMEARLMKKIK 364 >gi|254454176|ref|ZP_05067613.1| RNA polymerase sigma factor SigA [Octadecabacter antarcticus 238] gi|198268582|gb|EDY92852.1| RNA polymerase sigma factor SigA [Octadecabacter antarcticus 238] Length = 715 Score = 121 bits (303), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 70/223 (31%), Positives = 109/223 (48%), Gaps = 12/223 (5%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A ++ GL+ DL QEG GL ++ E F G + +TY+ + ++Q I R++ D Sbjct: 504 LATRFPTEGLEEDDLFQEGYFGLTRSVEMFHAGRGNRLTTYSQYRIRQTIARAVDDHRSV 563 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL-E 577 +RIPVH K+ + R R+S I R + K + + ++K+ I + I E Sbjct: 564 VRIPVHFASKVRLIERFGERVSGNISRSDYHCALGKAFQIELAEIQKIENIPRLSIEFDE 623 Query: 578 TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 D D + P ++ + L L R ++ RFG+ N Sbjct: 624 NLYSDADIE-----------LEPFQRVLEQQRQAIIKDFLEDLPERHADIIVRRFGLDGN 672 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + TLE+ G+ + VTRERIRQ+EAKAI L+HP R+K LR L Sbjct: 673 DEMTLEQCGQVYGVTRERIRQLEAKAIDWLRHPVRAKFLRELL 715 >gi|297812573|ref|XP_002874170.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp. lyrata] gi|297320007|gb|EFH50429.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp. lyrata] Length = 517 Score = 121 bits (303), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 79/241 (32%), Positives = 131/241 (54%), Gaps = 7/241 (2%) Query: 444 AKKEMVEANLRLVISVAKKY----TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A+ ++++ NLRLV+ V KY TN G +F DL Q G GL+ A ++F+ ++ STY Sbjct: 279 ARNKLIKHNLRLVLFVMNKYFHDFTN-GPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTY 337 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 ++W++ AI RS+ + T R+P + ++ +T + ++ R PT +E+ ++L + Sbjct: 338 GLFWIRHAIIRSMTTSNFT-RVPFGLESVRVEIFKTKTELLFELGRLPTEDEVVERLKIT 396 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E R+VL+ K +SL + + I D + V +S A LR VL S Sbjct: 397 PERYREVLRAAKPVLSLNSKHSVTQEEFING-ITDVDGVGANNSRQPALLRLALDDVLDS 455 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L P+E V+R R+G+ D TL E+ ++RE +R+ E KA+ KLKH +R LR + Sbjct: 456 LKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQY 515 Query: 680 L 680 + Sbjct: 516 I 516 >gi|56606829|gb|AAW02799.1| sigma factor [Nonomuraea sp. ATCC 39727] Length = 92 Score = 121 bits (303), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 56/91 (61%), Positives = 73/91 (80%) Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 GYKFSTYA WW+KQAITR++ADQ+ TIRIPVHM + I+KV R RRM N++ REPTPEEI Sbjct: 1 GYKFSTYATWWIKQAITRAMADQARTIRIPVHMVELINKVARVQRRMQNELGREPTPEEI 60 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 A++ + V+ V +V + +EPISL TP+G+E Sbjct: 61 AQESELEVDRVIEVQRYGREPISLHTPLGEE 91 >gi|85859725|ref|YP_461927.1| RNA polymerase sigma-B factor [Syntrophus aciditrophicus SB] gi|85722816|gb|ABC77759.1| RNA polymerase sigma-B factor [Syntrophus aciditrophicus SB] Length = 289 Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 83/251 (33%), Positives = 138/251 (54%), Gaps = 15/251 (5%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR+ + + EA+ +++V +NLR V+ +A +Y N G++ DLIQEGNIGLM A Sbjct: 28 EFRYAIEWKKNQNMEAA---EKLVVSNLRFVVKIAHEYRNYGVKLADLIQEGNIGLMHAV 84 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKI 543 +KFD GY+ +YA+WW++ I I ++I R K+ +T + + Sbjct: 85 KKFDPYKGYRLISYAVWWIRAYIQNYIIKTWSLVKIGTTQAQRKLFFKLNKTKKDIQALS 144 Query: 544 KREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFI----EDKNAV 598 + P EIA+ L + V ++ ++++ +SL+ IGD+ S DF+ ED+ Sbjct: 145 LKNPEFSEIAESLGVREGEVEEMDVRMSNRDLSLDMAIGDDGGSSHMDFLTYAGEDQE-- 202 Query: 599 SPLDSAIQANL-RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + L +A L R+ T LA L +E ++R R + + TL+E+G + +TRER R Sbjct: 203 TALIRKEEAELVRKNITGALAVLNEKEMYIIRNR--VMADDPKTLQEIGDIYNITRERAR 260 Query: 658 QIEAKAIRKLK 668 QIE +A++KL+ Sbjct: 261 QIEKQALKKLR 271 >gi|261415107|ref|YP_003248790.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|261371563|gb|ACX74308.1| RNA polymerase, sigma 32 subunit, RpoH [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326239|gb|ADL25440.1| RNA polymerase sigma-70 factor [Fibrobacter succinogenes subsp. succinogenes S85] Length = 270 Score = 121 bits (303), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 123/228 (53%), Gaps = 21/228 (9%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 IA+K+++ AN+R V+ VA +Y + DL+ EG +GL++A E F+ G KF +Y +W Sbjct: 41 IARKKLISANMRFVLKVAIQYRGCPIPLPDLVSEGAMGLVRAIESFEHTRGLKFISYGVW 100 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W+K ITR+I +Q IR+P + ++ K + R +EI E Sbjct: 101 WIKAYITRAINEQGNLIRLPANQHLRVRKALHEQSR----------GKEIN-------EE 143 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP-LDSAIQANLRETTTRVLASLT 621 +R++++I + +S ++P+ + + + + D A +P DS IQ+ E R L Sbjct: 144 IRELIQIGQRGVSFDSPLKADSKATYAEVLPDSGASNPEADSEIQSV--EALARDLMEQL 201 Query: 622 P-REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P RE RV+ FGI TL EVG+ ++ ER+RQ+ +A+R+++ Sbjct: 202 PEREARVITGIFGINQEAPQTLREVGESMNISHERVRQLRDQALRRIR 249 >gi|160933256|ref|ZP_02080645.1| hypothetical protein CLOLEP_02102 [Clostridium leptum DSM 753] gi|156868330|gb|EDO61702.1| hypothetical protein CLOLEP_02102 [Clostridium leptum DSM 753] Length = 260 Score = 120 bits (302), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 81/248 (32%), Positives = 143/248 (57%), Gaps = 16/248 (6%) Query: 426 EFRHIVSMVRKGEC-EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 E R +++ ++ G E A++E++ NLRLV+SV +++TNRG DL Q G IGL+KA Sbjct: 23 EKRALLTQMKNGTPQEQKKAREELINGNLRLVLSVIQRFTNRGENLDDLFQVGCIGLIKA 82 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD +FSTY + + I R + D + ++R+ +RD +K ++ R++ + Sbjct: 83 IDNFDISQDVRFSTYGVPMIIGEIRRFLRDNN-SVRVSRSLRDTAYKAMQVKERLTTQNN 141 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSP-L 601 +EP+ EEIAK+L +P E V L+ EP+SL P+ + DT + D + DKN + L Sbjct: 142 KEPSIEEIAKELELPKEDVVLALEAIVEPVSLYEPVFSDGNDTIFVMDQVGDKNDDNNWL 201 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + L+E + +L PRE+++L +RF G T EV K+ +++ ++ ++E Sbjct: 202 D---EIALKEA----IRNLGPREKKILNLRFFQG----KTQMEVAKEIGISQAQVSRLEK 250 Query: 662 KAIRKLKH 669 ++ ++K+ Sbjct: 251 GSLERIKN 258 >gi|56966075|pdb|1TLH|B Chain B, T4 Asia Bound To Sigma70 Region 4 Length = 81 Score = 120 bits (302), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 61/80 (76%), Positives = 67/80 (83%) Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 DSA +LR T VLA LT RE +VLRMRFGI MNTD+TLEEVGKQF VTRERIRQIEA Sbjct: 1 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEA 60 Query: 662 KAIRKLKHPSRSKKLRSFLD 681 KA+RKL+HPSRS+ LRSFLD Sbjct: 61 KALRKLRHPSRSEVLRSFLD 80 >gi|119953545|ref|YP_945755.1| RNA polymerase sigma factor RpoS [Borrelia turicatae 91E135] gi|119862316|gb|AAX18084.1| RNA polymerase sigma factor RpoS [Borrelia turicatae 91E135] Length = 267 Score = 120 bits (301), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 132/229 (57%), Gaps = 11/229 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +M+ ANLRLV+ + K+Y +GL+ DLIQEGN+GL++AAEK+D KFSTYA +W Sbjct: 41 AKNKMINANLRLVLKIIKRYAGKGLKVEDLIQEGNLGLIRAAEKYDPSKNTKFSTYASFW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +KQ++ R++ ++ +++P + I ++ + ++ P E+I ++ + Sbjct: 101 IKQSLQRALNTKTRLVKVPYRKENLILQINKYLMEE----EKSPKKEDIMERFNLTTAQY 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLT 621 K++ ++ SL+ I + S L + ED N+ +P +S ++ N L+ + L Sbjct: 157 IKIIPYLEKEYSLDKKIEGSENSTLLNLYED-NSFNP-ESTLEQNSTLKHLNHILETKLN 214 Query: 622 PREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E ++ R+ + N+D TL+++ + ++ E +RQIE + ++KLK Sbjct: 215 EKERYIIIKRYNLD-NSDKKSTLKDISNELGISSETVRQIEKRVLKKLK 262 >gi|330938480|gb|EGH42083.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 82 Score = 120 bits (301), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 59/81 (72%), Positives = 68/81 (83%) Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +D A +L+E T VL+ LT RE +VLRMRFGI MNTDHTLEEVGKQF VTRERIRQIE Sbjct: 1 IDVATVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 60 Query: 661 AKAIRKLKHPSRSKKLRSFLD 681 AKA+RKL+HP+RS+ LRSFLD Sbjct: 61 AKALRKLRHPTRSEHLRSFLD 81 >gi|212695902|ref|ZP_03304030.1| hypothetical protein ANHYDRO_00435 [Anaerococcus hydrogenalis DSM 7454] gi|212677025|gb|EEB36632.1| hypothetical protein ANHYDRO_00435 [Anaerococcus hydrogenalis DSM 7454] Length = 333 Score = 120 bits (300), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 92/282 (32%), Positives = 151/282 (53%), Gaps = 26/282 (9%) Query: 405 SILKIRNEIKSISVETGISISEF--RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +I KI+N + + I +S+ IV ++G A A +V+ N LV S A Sbjct: 60 NIHKIKNSLVAKKRSDIIRLSDLTNEQIVEQFQEGNQNALGA---LVDKNQGLVRSRASY 116 Query: 463 -YTNRG--LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 Y + G L+ DL+Q G +G+++AAEKFD LGYKF+TYA W+ +AI ++I + TI Sbjct: 117 FYRSHGNDLELEDLVQSGMLGMIRAAEKFDLTLGYKFTTYAYKWIDKAIRKAINKEGHTI 176 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK-----VLKITKEPI 574 RIP K++K+ + K E + EE+ K L EG+ K + I + + Sbjct: 177 RIPAGKYLKLNKLKQIL-----KANPEASEEELYKILKQ--EGIDKKQADDLFLINRNQV 229 Query: 575 ---SLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 SL + ED++ L D + D +++ D ++ ++ + + L L+ RE++++ Sbjct: 230 NSTSLNINLDSEDSTGDELMDMVGD-DSIPVDDQILKKDMEDFLMKALDQLSDREKQIII 288 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 R+G+ TLEE+G + ++RERIRQIE +A+ KLK S Sbjct: 289 YRYGLDNEKPKTLEEIGTIYSLSRERIRQIENQALGKLKQYS 330 >gi|325845925|ref|ZP_08169123.1| putative RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481831|gb|EGC84863.1| putative RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 333 Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 92/282 (32%), Positives = 151/282 (53%), Gaps = 26/282 (9%) Query: 405 SILKIRNEIKSISVETGISISEF--RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +I KI+N + + I +S+ IV ++G A A +V+ N LV S A Sbjct: 60 NIHKIKNSLVAKKRSDIIRLSDLTNEQIVEQFQEGNQNALGA---LVDKNQGLVRSRASY 116 Query: 463 -YTNRG--LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 Y + G L+ DL+Q G +G+++AAEKFD LGYKF+TYA W+ +AI ++I + TI Sbjct: 117 FYRSHGNDLELEDLVQSGMLGMIRAAEKFDLTLGYKFTTYAYKWIDKAIRKAINKEGHTI 176 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK-----VLKITKEPI 574 RIP K++K+ + K E + EE+ K L EG+ K + I + + Sbjct: 177 RIPAGKYLKLNKLKQIL-----KANPEASEEELYKILKQ--EGIDKKQADDLFLINRNQV 229 Query: 575 ---SLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 SL + ED++ L D + D +++ D ++ ++ + + L L+ RE++++ Sbjct: 230 NSTSLNINLDSEDSTGDELMDMVGD-DSIPVDDQILKKDMEDFLMKALDQLSDREKQIII 288 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 R+G+ TLEE+G + ++RERIRQIE +A+ KLK S Sbjct: 289 YRYGLDNEKPKTLEEIGTIYSLSRERIRQIENQALGKLKQYS 330 >gi|315608976|ref|ZP_07883948.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] gi|315249356|gb|EFU29373.1| DNA-directed RNA polymerase sigma subunit RpoD [Prevotella buccae ATCC 33574] Length = 287 Score = 120 bits (300), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 127/237 (53%), Gaps = 38/237 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ ANL+ V+++A+++ RGL DLI EGNIGLM+AA KFD G +F YA + Sbjct: 87 ALEQLTRANLKFVVAMARRFRGRGLAQSDLISEGNIGLMEAAGKFDGSRGNRFVAYAAPY 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V++A+ R++ Q+ R+P RD I R+ + E+ Sbjct: 147 VRKAMERAVEQQAGLYRVP---RD---------------IMRQKSRHEV----------- 177 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +P S++ P+ + + L D +E+K+A+ P D + E ++A+L R Sbjct: 178 --------QPASVDAPLSEGNKFTLLDILENKDAIHPDDDYNVQAMIEALESLVATLDER 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+RV+R +G+G +L E+ +Q + RER RQI +A+RK+ ++++ L+ F+ Sbjct: 230 EQRVVRGFYGLGTGR-ISLAEIAEQMGIKRERARQIRDRALRKIARSTQNRALKIFI 285 >gi|242089037|ref|XP_002440351.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor] gi|241945636|gb|EES18781.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor] Length = 501 Score = 119 bits (299), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 81/268 (30%), Positives = 148/268 (55%), Gaps = 19/268 (7%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV-ISVAKKYTNRGL--QFLDLIQE 476 TG+++ + R + + R A+ ++++ NLRLV ++ K Y + G +F DL Q Sbjct: 246 TGMTVHQLRRRLDVGRA-------ARNKLIKHNLRLVPYAINKYYPDMGTDERFDDLCQA 298 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G GL+ A ++F+ G++ STYA++W++ +I R++ S T R P M + ++ + Sbjct: 299 GANGLITAIDRFEPKRGFRISTYALFWIRHSIVRAMTLSSFT-RFPFAMESERQEIGKAR 357 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDEDTSHLGDFIED 594 ++ ++ R T EE+ +K+ + + R VL++T+ SL + E+ L + + D Sbjct: 358 EELAFELGRPATDEEVRRKVGISPQRYRDVLRMTRPTYSLHARNRVTQEE---LINEVTD 414 Query: 595 KNAVSPLDSAIQAN--LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 +A+ +D+ + N LR +L SL P+E V+R RFG+ TL E+ ++ Sbjct: 415 DDAIG-VDAGGRHNTLLRLAIDDLLDSLKPKESLVIRQRFGLDGRGKRTLSEIAGNLSIS 473 Query: 653 RERIRQIEAKAIRKLKHPSRSKKLRSFL 680 RE +R+ E KA+ KLKHP+R + LR ++ Sbjct: 474 REMVRKYELKALMKLKHPTRVEYLRRYM 501 >gi|288927103|ref|ZP_06420991.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] gi|288336130|gb|EFC74523.1| RNA polymerase sigma-70 factor [Prevotella buccae D17] Length = 287 Score = 119 bits (299), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 127/237 (53%), Gaps = 38/237 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ ANL+ V+++A+++ RGL DLI EGNIGLM+AA KFD G +F YA + Sbjct: 87 ALEQLTRANLKFVVAMARRFRGRGLAQSDLISEGNIGLMEAAGKFDGSRGNRFVAYAAPY 146 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V++A+ R++ Q+ R+P RD I R+ + E+ Sbjct: 147 VRKAMERAVEQQAGLYRVP---RD---------------IMRQKSRHEV----------- 177 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +P S++ P+ + + L D +E+K+A+ P D + E ++A+L R Sbjct: 178 --------QPASVDAPLSEGNKFTLLDILENKDAIHPDDDYNVQAMIEALESLVATLDER 229 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+RV+R +G+G +L E+ +Q + RER RQI +A+RK+ ++++ L+ F+ Sbjct: 230 EQRVVRGFYGLGTGR-ISLAEIAEQMGIKRERARQIRDRALRKIARSTQNRALKIFI 285 >gi|121488749|emb|CAJ18259.1| sigma 70-type sigma factor [Pelodictyon luteolum] Length = 165 Score = 119 bits (299), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 59/166 (35%), Positives = 102/166 (61%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P S + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHM-PDHSLNRDSLTLEVERSLSVLAPREADVIRSYFGIGMD 165 >gi|15237896|ref|NP_197800.1| SIGE (SIGMA FACTOR E); DNA binding / DNA-directed RNA polymerase/ sigma factor/ transcription factor [Arabidopsis thaliana] gi|4033838|emb|CAA77213.1| sigma-like factor [Arabidopsis thaliana] gi|4972299|dbj|BAA78109.1| RNA polymerase sigma subunit SigE [Arabidopsis thaliana] gi|10178160|dbj|BAB11572.1| sigma-like factor [Arabidopsis thaliana] gi|222423237|dbj|BAH19595.1| AT5G24120 [Arabidopsis thaliana] gi|332005876|gb|AED93259.1| RNA polymerase sigma factor [Arabidopsis thaliana] Length = 517 Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 78/241 (32%), Positives = 130/241 (53%), Gaps = 7/241 (2%) Query: 444 AKKEMVEANLRLVISVAKKY----TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A+ ++++ NLRLV+ V KY TN G +F DL Q G GL+ A ++F+ ++ STY Sbjct: 279 ARNKLIKHNLRLVLFVMNKYFHEFTN-GPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTY 337 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 ++W++ AI RS+ + T R+P + ++ + + ++ R PT +E+ ++L + Sbjct: 338 GLFWIRHAIIRSMTTSNFT-RVPFGLESVRVEIYKAKTELWFEMGRPPTEDEVVERLKIT 396 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E R+VL+ K +SL + + I D + V +S A LR VL S Sbjct: 397 PERYREVLRAAKPVLSLNSKHSVTQEEFING-ITDVDGVGANNSRQPALLRLALDDVLDS 455 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L P+E V+R R+G+ D TL E+ ++RE +R+ E KA+ KLKH +R LR + Sbjct: 456 LKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQY 515 Query: 680 L 680 + Sbjct: 516 I 516 >gi|255017998|ref|ZP_05290124.1| RNA polymerase sigma factor RpoD [Listeria monocytogenes FSL F2-515] Length = 209 Score = 119 bits (298), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 51/73 (69%), Positives = 63/73 (86%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK + EANLRLV+S+AK+Y RG+ FLDLIQEGN+GLMKA EKFD+ G+KFSTYA WW Sbjct: 137 AKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWW 196 Query: 504 VKQAITRSIADQS 516 ++QAITR+IADQ+ Sbjct: 197 IRQAITRAIADQA 209 Score = 56.2 bits (134), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 21/137 (15%) Query: 34 MIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINV--------VDGDDLED 85 +I+ +++G +T ++ A L P + S+QM++ + + GI V D +L Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 EE +S DL + V +DPVRMYL+E+G ++LL+ + EIA+AKR Sbjct: 83 EE--TESFDLTDMSVPPGV-----------KINDPVRMYLKEIGRVDLLTADEEIALAKR 129 Query: 146 IEAGRAMMMASLCESPL 162 IEAG L E+ L Sbjct: 130 IEAGDIEAKGRLAEANL 146 >gi|256546106|ref|ZP_05473459.1| RNA polymerase sigma factor RpoD (sigma-A) [Anaerococcus vaginalis ATCC 51170] gi|256398223|gb|EEU11847.1| RNA polymerase sigma factor RpoD (sigma-A) [Anaerococcus vaginalis ATCC 51170] Length = 333 Score = 119 bits (297), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 92/279 (32%), Positives = 149/279 (53%), Gaps = 26/279 (9%) Query: 408 KIRNEIKSISVETGISISEF--RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK-YT 464 KI+N I + I +S+ IV ++G A A +V+ N LV S A Y Sbjct: 63 KIKNSIVARQRSDIIRLSDLTNEQIVEQFQEGNQNALGA---LVDKNQGLVRSRASYFYR 119 Query: 465 NRG--LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 + G L+ DL+Q G +G+++AAEKFD LGYKF+TYA W+ +AI ++I + TIRIP Sbjct: 120 SHGNDLELEDLVQSGMLGMIRAAEKFDLTLGYKFTTYAYKWIDKAIRKAINKEGHTIRIP 179 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK-----VLKITKEPI--- 574 K++K+ + K E + EE+ K L EG+ K + I + + Sbjct: 180 AGKYLKLNKLKQIL-----KANPEASEEELYKILKQ--EGIDKKQADDLFLINRNQVNST 232 Query: 575 SLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 SL + ED++ L D + D +++ D ++ ++ + + L L+ RE++++ R+ Sbjct: 233 SLNINLDSEDSTGDELMDMVGD-DSIPVDDQILKKDMEDFLMKALDQLSDREKQIIIYRY 291 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 G+ TLEE+G + ++RERIRQIE +A+ KLK S Sbjct: 292 GLDNEKPKTLEEIGTIYNLSRERIRQIENQALGKLKQYS 330 >gi|224553536|gb|ACN55006.1| RNA polymerase sigma factor [Escherichia coli] gi|224553538|gb|ACN55007.1| RNA polymerase sigma factor [Escherichia coli] gi|224553540|gb|ACN55008.1| RNA polymerase sigma factor [Escherichia coli] gi|224553542|gb|ACN55009.1| RNA polymerase sigma factor [Escherichia coli] gi|224553546|gb|ACN55011.1| RNA polymerase sigma factor [Escherichia coli] gi|224553548|gb|ACN55012.1| RNA polymerase sigma factor [Escherichia coli] gi|224553550|gb|ACN55013.1| RNA polymerase sigma factor [Escherichia coli] gi|224553552|gb|ACN55014.1| RNA polymerase sigma factor [Escherichia coli] gi|224553554|gb|ACN55015.1| RNA polymerase sigma factor [Escherichia coli] gi|224553556|gb|ACN55016.1| RNA polymerase sigma factor [Escherichia coli] gi|224553558|gb|ACN55017.1| RNA polymerase sigma factor [Escherichia coli] gi|224553560|gb|ACN55018.1| RNA polymerase sigma factor [Escherichia coli] gi|224553562|gb|ACN55019.1| RNA polymerase sigma factor [Escherichia coli] gi|224553564|gb|ACN55020.1| RNA polymerase sigma factor [Escherichia coli] gi|224553566|gb|ACN55021.1| RNA polymerase sigma factor [Escherichia coli] gi|224553568|gb|ACN55022.1| RNA polymerase sigma factor [Escherichia coli] gi|224553570|gb|ACN55023.1| RNA polymerase sigma factor [Escherichia coli] gi|224553572|gb|ACN55024.1| RNA polymerase sigma factor [Escherichia coli] gi|224553574|gb|ACN55025.1| RNA polymerase sigma factor [Escherichia coli] gi|224553576|gb|ACN55026.1| RNA polymerase sigma factor [Escherichia coli] gi|224553578|gb|ACN55027.1| RNA polymerase sigma factor [Escherichia coli] gi|224553580|gb|ACN55028.1| RNA polymerase sigma factor [Escherichia coli] gi|224553582|gb|ACN55029.1| RNA polymerase sigma factor [Escherichia coli] gi|224553584|gb|ACN55030.1| RNA polymerase sigma factor [Escherichia coli] gi|224553586|gb|ACN55031.1| RNA polymerase sigma factor [Escherichia coli] gi|224553588|gb|ACN55032.1| RNA polymerase sigma factor [Escherichia coli] gi|224553594|gb|ACN55035.1| RNA polymerase sigma factor [Escherichia coli] gi|224553596|gb|ACN55036.1| RNA polymerase sigma factor [Escherichia coli] gi|224553598|gb|ACN55037.1| RNA polymerase sigma factor [Escherichia coli] gi|224553600|gb|ACN55038.1| RNA polymerase sigma factor [Escherichia coli] gi|224553602|gb|ACN55039.1| RNA polymerase sigma factor [Escherichia coli] gi|224553604|gb|ACN55040.1| RNA polymerase sigma factor [Escherichia coli] gi|224553608|gb|ACN55042.1| RNA polymerase sigma factor [Escherichia coli] gi|224553610|gb|ACN55043.1| RNA polymerase sigma factor [Escherichia coli ETEC H10407] gi|224553612|gb|ACN55044.1| RNA polymerase sigma factor [Escherichia coli] gi|224553614|gb|ACN55045.1| RNA polymerase sigma factor [Escherichia coli] gi|224553616|gb|ACN55046.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 119 bits (297), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 52/111 (46%), Positives = 84/111 (75%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVD 111 >gi|254514436|ref|ZP_05126497.1| RNA polymerase sigma factor SigB [gamma proteobacterium NOR5-3] gi|219676679|gb|EED33044.1| RNA polymerase sigma factor SigB [gamma proteobacterium NOR5-3] Length = 432 Score = 119 bits (297), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 72/224 (32%), Positives = 120/224 (53%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + NLRLV S+A +Y +G+ +LDLIQEG +GL++AAEK+D G++FSTY W Sbjct: 191 ARDTLTMHNLRLVYSIAGRYRGKGVNYLDLIQEGTLGLIRAAEKYDHNKGFRFSTYCFNW 250 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + QAI R + D IR P H++++++K+ R + EP +A+ + +E Sbjct: 251 ITQAIRRHVGDTGGLIRYPTHVQEQVNKLYRLRITEKQRTGEEPGDAALAEAAGLSLEKT 310 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 R++L++ ISL+ P D+D L D + + A +L + + L Sbjct: 311 RELLQLRNLGISLDAPQYDDDDGTLLDTMSGGPFEACEAEAETESLHDRLLVEMQGLDQA 370 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E V+ R+G+ + E+ + V+RE +RQ+E A+ KL Sbjct: 371 EREVVIARWGLHDGPPLSRAEIADRMSVSREWVRQLERAALTKL 414 >gi|224553534|gb|ACN55005.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 52/111 (46%), Positives = 84/111 (75%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIGRAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVD 111 >gi|312282679|dbj|BAJ34205.1| unnamed protein product [Thellungiella halophila] Length = 511 Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/303 (28%), Positives = 154/303 (50%), Gaps = 24/303 (7%) Query: 392 EGEWKNFVACEVDSILKIRNEIKS----------ISVETGISISEFRHIVSMVRKGECEA 441 E W + + ++L++++E++ I+ E +S +E + + + R Sbjct: 218 EHAWLFKLMQPMKALLQVKDELQKSLGREPRETEIAGEINMSAAEVKRKIEIGRA----- 272 Query: 442 SIAKKEMVEANLRLVISVAKKY----TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 A+ ++++ NLRLV+ V KY TN G +F DL Q G GL+ A ++F+ ++ S Sbjct: 273 --ARNKLIKHNLRLVLFVMNKYFQDFTN-GPKFQDLCQAGMRGLITAIDRFEPKRKFRLS 329 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TY ++W++ AI RS+ + T R+P + ++ +T + ++ R PT +E+ ++L Sbjct: 330 TYGLFWIRHAIIRSMTTSNFT-RVPFGLESVRVEIYKTKMELLFELGRLPTEDEVVERLK 388 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + E R+VL+ K SL + + I D + V + A LR VL Sbjct: 389 ISPERYREVLRAAKPVFSLNSKHSVTQEEFING-ITDVDGVGADNRRQPAILRLALDDVL 447 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 SL P+E V+R R+G+ D TL E+ ++RE +R+ E KA+ KLKH +R LR Sbjct: 448 DSLKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLR 507 Query: 678 SFL 680 ++ Sbjct: 508 QYI 510 >gi|88705109|ref|ZP_01102821.1| RNA polymerase sigma factor 70 family protein [Congregibacter litoralis KT71] gi|88700804|gb|EAQ97911.1| RNA polymerase sigma factor 70 family protein [Congregibacter litoralis KT71] Length = 439 Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 77/241 (31%), Positives = 129/241 (53%), Gaps = 11/241 (4%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S A+ + NLRLV S+A +Y +G+ +LDLIQEG +GL++AAEK+D G++FSTY Sbjct: 196 SDARDTLTMHNLRLVYSIAGRYRGKGVNYLDLIQEGTLGLIRAAEKYDHSKGFRFSTYCF 255 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+ QAI R + D IR P H++++++K+ R + EP +A+ + +E Sbjct: 256 NWITQAIRRHVGDTGGLIRYPTHVQEQVNKLYRLRVTEKQRTGEEPGDAALAEAAGLTLE 315 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS----AIQANLRETTTRVL 617 R +L++ +SL+ P D+D L D + P D+ A +L + + Sbjct: 316 KTRDLLQLRNLGVSLDAPQFDDDDGTLLDTMSG----GPFDASESEAETESLHDRLLLEM 371 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 L E V+ R+G+ + E+ + V+RE +RQ+E A+ KL S ++++R Sbjct: 372 EELDKAEREVVIARWGLHDGPPLSRAEIADRMSVSREWVRQLERAALTKL---SGNERIR 428 Query: 678 S 678 S Sbjct: 429 S 429 >gi|298250481|ref|ZP_06974285.1| RNA polymerase, sigma 32 subunit, RpoH [Ktedonobacter racemifer DSM 44963] gi|297548485|gb|EFH82352.1| RNA polymerase, sigma 32 subunit, RpoH [Ktedonobacter racemifer DSM 44963] Length = 313 Score = 118 bits (296), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 121/247 (48%), Gaps = 42/247 (17%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +VEANLRLV SVA +Y G+ +DLIQEGNIGL+ A EKFD GY+FSTYA W Sbjct: 70 AKNRLVEANLRLVRSVAYQYRGFGVDIMDLIQEGNIGLIHAVEKFDPTKGYRFSTYATHW 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++Q I R +A Q IRIP+++++++ + + ++ + KL + E Sbjct: 130 IRQYICRELARQIHKIRIPLYLQEQLRHLPEAPTTPDGQAMQD----QAHAKLMVAYERS 185 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL--ASL 620 + + P E P A +P +Q R+ ++ A L Sbjct: 186 KATHVSFDAVPFEFEDP-----------------APTPEQYCMQGAQRQLLHQLFLRAGL 228 Query: 621 TPREERVLRMRFGIGMNTDHTLE------------------EVGKQFCVTRERIRQIEAK 662 T RE +VL +R+G+ + LE ++G Q ++ E +RQIE + Sbjct: 229 TQRERQVLVLRYGLQQQREEGLEALLSGAISDQKQDESTYPQIGTQLGLSHEAVRQIEMR 288 Query: 663 AIRKLKH 669 A+ KL++ Sbjct: 289 ALLKLRY 295 >gi|307776476|pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2 gi|307776477|pdb|3LES|B Chain B, 2f5 Epitope Scaffold Es2 gi|307776478|pdb|3LEV|A Chain A, Hiv-1 Antibody 2f5 In Complex With Epitope Scaffold Es2 Length = 179 Score = 118 bits (295), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 52/91 (57%), Positives = 71/91 (78%), Gaps = 4/91 (4%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + + R+GE A++ ++EANLRLV+S+AKKYT RGL FLDLIQEGN GL++A Sbjct: 92 ELKRYLHIAREGEA----ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAV 147 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 EKF++ G+ FSTYA WW++QAI R+IADQ+ Sbjct: 148 EKFEYKRGFAFSTYATWWIRQAINRAIADQA 178 >gi|326503440|dbj|BAJ86226.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326503904|dbj|BAK02738.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 496 Score = 118 bits (295), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 143/277 (51%), Gaps = 10/277 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TN 465 +R+E++S E ++ V +R+ A+ ++++ NLRLV+ KY Sbjct: 225 MRSELQSEPTEAEVA-EAMNMPVQRLRRLRDVGRAARNKLIKHNLRLVLYAINKYYPDMT 283 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 +F DL Q G GL+ A ++F+ G++ STYA++W++ ++ R++ S T R P M Sbjct: 284 GDERFADLCQAGANGLITAIDRFEPKRGFRISTYALFWIRHSVVRAMTLSSFT-RFPFAM 342 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDE 583 + ++ R +S ++ R PT EE KK+ + R V+++T+ SL + + E Sbjct: 343 ESERQEINRAREELSFELGRTPTDEETMKKVGLSPARYRDVVRMTRPAYSLHSRNRVTQE 402 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + L + + D +A+ LR +L SL P+E V+R RFG+ TL Sbjct: 403 E---LINEVTDVDAIGVDTHKHNRLLRLAIDDLLDSLKPKESVVIRQRFGLDGRGRRTLS 459 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ ++RE +R+ E KA+ KLKHP+R LR ++ Sbjct: 460 EIAGNLRISREMVRKYELKALMKLKHPTRVDYLRRYM 496 >gi|121488745|emb|CAJ18257.1| sigma 70-type sigma factor [Chlorobaculum thiosulfatiphilum] Length = 165 Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 58/166 (34%), Positives = 101/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHM-PDHGLNRDSLTLEVERSLSVLAPREADVIRSYFGIGMD 165 >gi|225462725|ref|XP_002268709.1| PREDICTED: hypothetical protein [Vitis vinifera] gi|302143685|emb|CBI22546.3| unnamed protein product [Vitis vinifera] Length = 518 Score = 118 bits (295), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 78/240 (32%), Positives = 126/240 (52%), Gaps = 5/240 (2%) Query: 444 AKKEMVEANLRLVISVAKKYTN---RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+ ++++ NLRLV+ V KY G +F DL Q G GL+ A ++F+ ++ STY Sbjct: 280 ARNKLIKHNLRLVLFVINKYFQEFANGPKFQDLCQAGVKGLITAIDRFEPKRSFRLSTYG 339 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++W++ AI RS+ S T R+ + ++ R + K++R PT EEI +K+ + Sbjct: 340 LFWIRHAIMRSMTLSSFT-RVSFGLESVRVEIQRAKLELLFKLQRLPTEEEIIEKVGISP 398 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E +V++ +K +SL ++ I D V A LR VL SL Sbjct: 399 ERYHEVMRASKSVLSLHARHATTQEEYING-ITDVEGVGGDRGRQLALLRLALDDVLDSL 457 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 P+E V+R R+G+ D TL E+ ++RE +R+ E KA+ KLKHP+R LR ++ Sbjct: 458 KPKESLVMRQRYGLDGKGDRTLGEIAGNLSISREMVRKHEVKALMKLKHPARVDYLRQYI 517 >gi|121488769|emb|CAJ18269.1| sigma 70-type sigma factor [Chlorobium limicola] gi|121488771|emb|CAJ18270.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 117 bits (294), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 58/166 (34%), Positives = 100/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTRELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHL-PDHGLNKDSLTLEVERSLSVLAPREADVIRSYFGIGMD 165 >gi|121488773|emb|CAJ18271.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 117 bits (294), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 58/166 (34%), Positives = 100/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTRELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHL-PDHGLNKDSLTLEVERSLSVLXPREADVIRSYFGIGMD 165 >gi|121488747|emb|CAJ18258.1| sigma 70-type sigma factor [Pelodictyon luteolum] Length = 165 Score = 117 bits (294), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 58/166 (34%), Positives = 101/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+K A++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKXAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P S + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHM-PDHSLNRDSLTLEVERSLSVLAPREADVIRSYFGIGMD 165 >gi|242281118|ref|YP_002993247.1| RNA polymerase, sigma 70 family subunit [Desulfovibrio salexigens DSM 2638] gi|242124012|gb|ACS81708.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio salexigens DSM 2638] Length = 322 Score = 117 bits (294), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 84/253 (33%), Positives = 139/253 (54%), Gaps = 19/253 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKA 484 EFR + G+ +A+ +V ++LRLV+ +A + R +Q LDLIQEGN+GLMKA Sbjct: 60 EFRLAKQVQENGDQQAAF---RLVSSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMKA 116 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKI 543 KFD G KFS YA +W+K I + I D ++I + K+ + R+ + Sbjct: 117 VNKFDPDKGIKFSYYAAFWIKAYILKYIMDNWRMVKIGTTQTQRKLFYNLNKERQRLQAL 176 Query: 544 KREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 +PT E++KKL + E + ++ ++ K +SL G++ + DF+ D + P Sbjct: 177 GFDPTTSELSKKLNVSEEEITEMDQRLAKNDLSLNLKFGEDSEATRMDFLPD---LGPGV 233 Query: 603 SAIQANLRETTTRVL-------ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 AN +E +T +L +L +E+ +L R + ++ TL E+G++F VTRER Sbjct: 234 EETLAN-KEISTLLLDQLRAIVPNLNEKEQVILNDR--LLSDSPRTLREIGEEFGVTRER 290 Query: 656 IRQIEAKAIRKLK 668 +RQIEA+ ++KL+ Sbjct: 291 VRQIEARLLKKLR 303 >gi|121488735|emb|CAJ18251.1| sigma 70-type sigma factor [Chlorobium chlorovibrioides] Length = 165 Score = 117 bits (294), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 58/165 (35%), Positives = 101/165 (61%), Gaps = 1/165 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEYERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 +++ + P + + +L R L+ L PRE V+R FGIGM Sbjct: 121 LQNDGHM-PDHTLNRDSLTLEVERSLSVLAPREADVIRSYFGIGM 164 >gi|108803518|ref|YP_643455.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108764761|gb|ABG03643.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 274 Score = 117 bits (293), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 67/209 (32%), Positives = 110/209 (52%), Gaps = 1/209 (0%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 + F DL+QEG + L+ A + +D G +FSTYA WWVKQAI R+ + +R+P Sbjct: 63 VPFEDLLQEGALALVHAVDHYDPSRGMRFSTYATWWVKQAIRRAAMAYARPMRVPERTWR 122 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH 587 ++ R + ++ RE ++ L E + +V + +SLE+P+G+E+ Sbjct: 123 LSERLAEAERELRAELGREIEDRDLRSGLGWSEEELSEVRRAMGPVVSLESPVGEEEEDV 182 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 LGD + D+NA P + A + + R L++L RE VL R+G+ T ++G+ Sbjct: 183 LGDLVADENAEDPAELAARNDARRRLAHALSALPRRERAVLAGRYGL-TGEPRTFVDLGR 241 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + V+RER RQ+E A +L+ R L Sbjct: 242 ELGVSRERARQLERAAAERLREHGRRLGL 270 >gi|257067128|ref|YP_003153384.1| RNA polymerase, sigma 32 subunit, RpoH [Anaerococcus prevotii DSM 20548] gi|256799008|gb|ACV29663.1| RNA polymerase, sigma 32 subunit, RpoH [Anaerococcus prevotii DSM 20548] Length = 343 Score = 117 bits (293), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 87/257 (33%), Positives = 137/257 (53%), Gaps = 26/257 (10%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAA 485 IV + G A A +VE N LV S A + L DL+Q G +G+++AA Sbjct: 95 QIVEQFQIGNQNALAA---LVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAA 151 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD LGYKF+TYA W+ +AI ++I + TIRIP K++K+ + K Sbjct: 152 EKFDLSLGYKFTTYAYKWIDKAIRKAINKEGHTIRIPAGKYLKLNKLKQIL-----KANP 206 Query: 546 EPTPEEIAKKLAMPVEGVRK-----VLKITKEPI---SLETPIGDEDTS--HLGDFIEDK 595 E + EE+ + + EG+ K + I + + SL + ED++ L D + D+ Sbjct: 207 EASDEELYR--ILEKEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDE 264 Query: 596 NAVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + +P+D I + ++ + L LT RE++++ R+G+ TLEE+GK + ++RE Sbjct: 265 S--TPVDMLILEKDMENFLLKALDQLTDREKQIIIFRYGLDNEKPKTLEEIGKIYDLSRE 322 Query: 655 RIRQIEAKAIRKLKHPS 671 RIRQIE +A+ KLK S Sbjct: 323 RIRQIENQALGKLKEFS 339 >gi|157826497|ref|YP_001495561.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] gi|157801801|gb|ABV78524.1| RNA polymerase sigma factor RpoD [Rickettsia bellii OSU 85-389] Length = 81 Score = 117 bits (293), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 56/67 (83%), Positives = 62/67 (92%) Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 +LA+LTPREERVLRMRFGIGMNTDHTLEEVG+QF VTRERIRQIE+KA+RKL+HP RSKK Sbjct: 1 MLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKK 60 Query: 676 LRSFLDG 682 L SF G Sbjct: 61 LNSFRRG 67 >gi|224553592|gb|ACN55034.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 117 bits (293), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 51/111 (45%), Positives = 83/111 (74%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EEI ++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEEITEQLDKPVDDVSRMLRLNERITSVD 111 >gi|121488727|emb|CAJ18247.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 117 bits (293), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 58/166 (34%), Positives = 101/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLXKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEYERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 LQNDGHM-PDHTLNRDSLTLEVERSLSVLAPREADVIRSYFGIGMD 165 >gi|321309571|ref|YP_004191900.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] gi|319801415|emb|CBY92061.1| RNA polymerase sigma factor rpoD [Mycoplasma haemofelis str. Langford 1] Length = 424 Score = 117 bits (292), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 99/326 (30%), Positives = 156/326 (47%), Gaps = 52/326 (15%) Query: 404 DSILKIRNEIKSISVETGI----SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 D ILK R SISV + + E + ++ E + A K + NLRLV S Sbjct: 93 DLILKSRFSNTSISVALKLIGKLTFEEETALFKLLENPETR-NFAVKRLTIFNLRLVWSS 151 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+KY N G DL+QEG GL+KA KFD G +FSTYA WW++QA+ R++ D+S I Sbjct: 152 ARKYLNYGFPMEDLVQEGIFGLVKAIHKFDCAFGNRFSTYATWWIRQAMLRAVEDKSRII 211 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-----AMPVEGVRKVLKITKEPI 574 R+PVHM I+ + R + + + EPT E++ +++ V+ V + K+ + + Sbjct: 212 RVPVHMVPVINNLARIEKALILENGEEPTIEQLTQEMQKYDSQYTVQKVSDIKKLNIDWV 271 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFG 633 SL+ I D D + L D + D+ +S + AI + L ++L E VL M +G Sbjct: 272 SLDKLI-DYDENFL-DSVPDEEVISSEEEAILTHKSMVLQEFLESTLEDDELLVLDMHYG 329 Query: 634 IG-MNTDHTLEEV---------------------------GKQFCVTRERIRQIEAK--- 662 + + +T+E++ GKQ + E ++ +AK Sbjct: 330 LMEFESPNTIEQIVSEILFNPEYRDVIKNKAINFVINEMLGKQDVLAPEEWKKEKAKVEN 389 Query: 663 --------AIRKLKHPSRSKKLRSFL 680 A+RKLK PS++ K R+ Sbjct: 390 FVRKKISQALRKLKKPSKNGKYRTIF 415 >gi|196019865|ref|XP_002119058.1| hypothetical protein TRIADDRAFT_63024 [Trichoplax adhaerens] gi|190577137|gb|EDV18456.1| hypothetical protein TRIADDRAFT_63024 [Trichoplax adhaerens] Length = 349 Score = 117 bits (292), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 98/338 (28%), Positives = 166/338 (49%), Gaps = 51/338 (15%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 DDPVRMYL+EMG LL+R+GE+ +AKRIE R + + ++P+ + + W D++ Sbjct: 54 NDDPVRMYLKEMGYRLLLTRDGEVEVAKRIEKSRINKLFYIIQTPMALKKMQDWYDDILT 113 Query: 177 GTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKV 236 G LLRE+ID++A E FF D + EK Sbjct: 114 GKKLLREVIDIDATASNEQ---FF------------DENSEKTD---------------- 142 Query: 237 SKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRS 296 D +N E+ + D D+D + ++SA+E+ L+PK++ L +I+E + L Sbjct: 143 --------DFNTKNTESGNDDFDNDDDSDSTSISAIENDLKPKILDILLKISENCKSLLQ 194 Query: 297 LQD-------NAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRI 349 L D ++ N K EK + K+ + L+G L LN I+ + QL +I+K I Sbjct: 195 LYDIKKDKKISSPNQSKTEKKLLDNKI--NDIANLLGELKLNDQFINEIFYQLKEINKDI 252 Query: 350 MHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEG-EWKNFVACEVDSILK 408 + E EL +LA + + R F++ ++ +L+ +W+ K+ G ++ V K Sbjct: 253 IQIESELFKLASNSKLNRTKFIDVYRTIDLEKNWIDLLKN--RGVKYTKLVDENSSFFTK 310 Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKK 446 + + + I V+ G+SI++F+ I ++K E E KK Sbjct: 311 SQLKFEKIKVKAGLSITQFKKIFQDIQKWEREVQKLKK 348 >gi|227501074|ref|ZP_03931123.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] gi|227216847|gb|EEI82245.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus tetradius ATCC 35098] Length = 344 Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/257 (33%), Positives = 137/257 (53%), Gaps = 26/257 (10%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAA 485 IV + G A A +VE N LV S A + L DL+Q G +G+++AA Sbjct: 96 QIVEQFQIGNQNALAA---LVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAA 152 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD LGYKF+TYA W+ +AI ++I + TIRIP K++K+ + K Sbjct: 153 EKFDLSLGYKFTTYAYKWIDKAIRKAINKEGHTIRIPAGKYLKLNKLKQIL-----KANP 207 Query: 546 EPTPEEIAKKLAMPVEGVRK-----VLKITKEPI---SLETPIGDEDTS--HLGDFIEDK 595 E + EE+ + + EG+ K + I + + SL + ED++ L D + D+ Sbjct: 208 EASDEELYR--ILENEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDE 265 Query: 596 NAVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + +P+D I + ++ + L LT RE++++ R+G+ TLEE+GK + ++RE Sbjct: 266 S--TPVDMLILEKDMENFLLKALDQLTDREKQIIIYRYGLDNEKPKTLEEIGKIYDLSRE 323 Query: 655 RIRQIEAKAIRKLKHPS 671 RIRQIE +A+ KLK S Sbjct: 324 RIRQIENQALGKLKEFS 340 >gi|262195735|ref|YP_003266944.1| RNA polymerase, sigma 70 family subunit [Haliangium ochraceum DSM 14365] gi|262079082|gb|ACY15051.1| putative RNA polymerase, sigma 70 family subunit [Haliangium ochraceum DSM 14365] Length = 389 Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 80/240 (33%), Positives = 129/240 (53%), Gaps = 11/240 (4%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E + A + ++EANLRLV+ ++ +Y LDLIQEGNIGLM+A K+D G K S Sbjct: 133 ENEDADAARRLIEANLRLVVKISYEYRRAYRNLLDLIQEGNIGLMQAVRKYDPYRGVKLS 192 Query: 498 TYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 +YA WW++ I + I + ++I + K+ +R R ++ PTP +A+ L Sbjct: 193 SYAAWWIRAYILKFILNNWRLVKIGTTQAQRKLFFNLRKERERLEQLGFTPTPALLAENL 252 Query: 557 AMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLG--DFIEDKNAVSP----LDSAIQAN 608 + + V ++ K P SL+ P+ G+ED + D++ + P S Q Sbjct: 253 DVTEKEVVEMEKRLSAPDASLDAPMQGEEDGAPRTRMDYLPTEETDRPDRQVAQSQFQEL 312 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE R +L REE + R R+ +T TL+++G Q+ V+RER RQ+E + + +L+ Sbjct: 313 LREKLERFAETLEGREETIFRERWLT--DTPSTLQQIGDQYGVSRERARQLEKRLLGRLR 370 >gi|325479184|gb|EGC82281.1| sigma-70, region 4 [Anaerococcus prevotii ACS-065-V-Col13] Length = 343 Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/257 (33%), Positives = 137/257 (53%), Gaps = 26/257 (10%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAA 485 IV + G A A +VE N LV S A + L DL+Q G +G+++AA Sbjct: 95 QIVEQFQIGNQNALAA---LVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAA 151 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 EKFD LGYKF+TYA W+ +AI ++I + TIRIP K++K+ + K Sbjct: 152 EKFDLSLGYKFTTYAYKWIDKAIRKAINKEGHTIRIPAGKYLKLNKLKQIL-----KANP 206 Query: 546 EPTPEEIAKKLAMPVEGVRK-----VLKITKEPI---SLETPIGDEDTS--HLGDFIEDK 595 E + EE+ + + EG+ K + I + + SL + ED++ L D + D+ Sbjct: 207 EASDEELYR--ILENEGIDKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDE 264 Query: 596 NAVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + +P+D I + ++ + L LT RE++++ R+G+ TLEE+GK + ++RE Sbjct: 265 S--TPVDMLILEKDMENFLLKALDQLTDREKQIIIYRYGLDNEKPKTLEEIGKIYDLSRE 322 Query: 655 RIRQIEAKAIRKLKHPS 671 RIRQIE +A+ KLK S Sbjct: 323 RIRQIENQALGKLKEFS 339 >gi|229082715|ref|ZP_04215161.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-2] gi|228700606|gb|EEL53146.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-2] Length = 323 Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 135/263 (51%), Gaps = 9/263 (3%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E + + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 39 EIKEIGNYKVLSKQESLKLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 95 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA-DQSCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA WW+K+++ I +S +IP ++ Sbjct: 96 FDDLVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIKKSMLGIICRKKSGPFKIPNYVNQF 155 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP--ISLETPIGDEDTS 586 + V + R P+ EE+AK+L + E V K K ++L+ +ED Sbjct: 156 NLRYVELEDKYLQMYNRTPSVEEVAKELNVTSETVIKYNVYYKRATTMTLDVDTINEDIG 215 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEV 645 L F +D + + + + +L + L P+++ VL + FG+ + +E+ Sbjct: 216 ILNPFYDDSSTIPSTNEMVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEI 275 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 276 AKALMITTERVSQIKDEAIKKLK 298 >gi|224553590|gb|ACN55033.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 116 bits (291), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 52/111 (46%), Positives = 83/111 (74%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G+ FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFCFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVD 111 >gi|326490962|dbj|BAJ90342.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 496 Score = 116 bits (290), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/277 (29%), Positives = 142/277 (51%), Gaps = 10/277 (3%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY---TN 465 +R+E++S E ++ V +R+ A+ ++++ NLRLV+ KY Sbjct: 225 MRSELQSEPTEAEVA-EAMNMPVQRLRRLRDVGRAARNKLIKHNLRLVLYAINKYYPDMT 283 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 +F DL Q G GL+ A ++F+ G++ STYA+ W++ ++ R++ S T R P M Sbjct: 284 GDERFADLCQAGANGLITAIDRFEPKRGFRISTYALSWIRHSVVRAMTLSSFT-RFPFAM 342 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP--IGDE 583 + ++ R +S ++ R PT EE KK+ + R V+++T+ SL + + E Sbjct: 343 ESERQEINRAREELSFELGRTPTDEETMKKVGLSPARYRDVVRMTRPAYSLHSRNRVTQE 402 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 + L + + D +A+ LR +L SL P+E V+R RFG+ TL Sbjct: 403 E---LINEVTDVDAIGVDTHKHNRLLRLAIDDLLDSLKPKESVVIRQRFGLDGRGRRTLS 459 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E+ ++RE +R+ E KA+ KLKHP+R LR ++ Sbjct: 460 EIAGNLRISREMVRKYELKALMKLKHPTRVDYLRRYM 496 >gi|224553606|gb|ACN55041.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 116 bits (290), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 51/111 (45%), Positives = 83/111 (74%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EE A++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEESAEQLDKPVDDVSRMLRLNERITSVD 111 >gi|302391629|ref|YP_003827449.1| RNA polymerase, sigma subunit, RpsG/SigG [Acetohalobium arabaticum DSM 5501] gi|302203706|gb|ADL12384.1| RNA polymerase, sigma subunit, RpsG/SigG [Acetohalobium arabaticum DSM 5501] Length = 260 Score = 116 bits (290), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 84/248 (33%), Positives = 130/248 (52%), Gaps = 13/248 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + ++ G+ EA ++ +V NL+LV+SV +++ NRG DL Q G IGL Sbjct: 18 LSNEEMRELFKKMQNGDREA---RQTIVGGNLKLVLSVLQRFNNRGEPIDDLFQVGCIGL 74 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + N Sbjct: 75 MKAIDNFDLSRNVKFSTYAVPMIIGEIRRHLRDHN-PIRVSRSLRDTAYKALQMKESLEN 133 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K EPT EIA++L +P E + + L ++PISL PI + GD I + VS Sbjct: 134 KTSEEPTLTEIAQELGIPREEIVQALDAIQDPISLFEPIYQDG----GDPIYVMDQVSDD 189 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 DS ++ L R L L RE+ +L MRF G T EV +++ ++ ++E Sbjct: 190 DSEDESWLEGIAVREALRQLEDREKLILSMRFYKG----KTQMEVADNIGISQAQVSRLE 245 Query: 661 AKAIRKLK 668 A+ L+ Sbjct: 246 KAALENLE 253 >gi|325523156|gb|EGD01548.1| RpoD family RNA polymerase sigma factor [Burkholderia sp. TJI49] Length = 206 Score = 115 bits (289), Expect = 2e-23, Method: Composition-based stats. Identities = 53/94 (56%), Positives = 74/94 (78%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V++NLRLV+S+AK+Y +RGL DLIQEGNIGL+KA E++D G+KFSTYA WW Sbjct: 104 ARTKLVKSNLRLVVSIAKRYPDRGLPLPDLIQEGNIGLLKAVERYDHRRGFKFSTYATWW 163 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 ++QAIT ++AD TIR+P H D ++K+ R AR Sbjct: 164 IRQAITHALADLGRTIRVPAHTVDAVNKLARIAR 197 >gi|224116898|ref|XP_002331841.1| predicted protein [Populus trichocarpa] gi|222875079|gb|EEF12210.1| predicted protein [Populus trichocarpa] Length = 512 Score = 115 bits (289), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/245 (33%), Positives = 129/245 (52%), Gaps = 7/245 (2%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN---RGLQFLDLIQEGNIGLMKAAEK 487 V VRK A+ ++++ NLRLV+ V KY G ++ DL Q G GLM A ++ Sbjct: 263 VLQVRKQIEVGRAARNKLIKHNLRLVLFVINKYFQDYANGPRYQDLCQAGVKGLMTAIDR 322 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F+ ++ STY ++W++ AI RS+ S T R+ + ++ + + ++ R+P Sbjct: 323 FEPKRRFRLSTYGLFWIRHAIIRSMTLSSFT-RVSFGLESIRSEIQKAKLELWFQLLRKP 381 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T EEI +K+ + +E +V++ +K +SL + L + D N D A Sbjct: 382 TGEEIIEKVGISIERYHEVMRASKPVLSLHSR-HKTTQEELISGVADVNGGD--DRRQSA 438 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LR VL SL P+E V+R RFG+ D TL E+ ++RE +R+ EAKA+ KL Sbjct: 439 LLRLALDDVLDSLKPKESLVVRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEAKALMKL 498 Query: 668 KHPSR 672 KHP+R Sbjct: 499 KHPTR 503 >gi|227485585|ref|ZP_03915901.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] gi|227236451|gb|EEI86466.1| DNA-directed RNA polymerase sigma subunit RpoD [Anaerococcus lactolyticus ATCC 51172] Length = 340 Score = 115 bits (289), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/258 (33%), Positives = 137/258 (53%), Gaps = 26/258 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAE 486 IV + G A A +VE N LV S A + L DL+Q G +G+++AAE Sbjct: 93 IVEQFQLGNQNALAA---LVEKNQGLVRSRASYFFRSHGNDLDLEDLVQSGMLGMIRAAE 149 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD LGYKF+TYA W+ +AI ++I + TIRIP K++K+ + K E Sbjct: 150 KFDLTLGYKFTTYAYKWIDKAIRKAINKEGHTIRIPAGKYLKLNKLKQIL-----KANPE 204 Query: 547 PTPEEIAKKLAMPVEGVRK-----VLKITKEPI---SLETPIGDEDTS--HLGDFIEDKN 596 + EEI + + EG+ K + I + + SL + ED++ L D + D++ Sbjct: 205 ASDEEIYR--ILENEGINKKQADDLFLINRNQVNSTSLNINLDSEDSTGDELMDMVGDES 262 Query: 597 AVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +P+D I + ++ + L LT RE++++ R+G+ TLE++G + ++RER Sbjct: 263 --TPVDMLILEKDMENFLMQALDQLTDREKQIIIYRYGLDNEKPKTLEQIGAIYDLSRER 320 Query: 656 IRQIEAKAIRKLKHPSRS 673 IRQIE +A+ KLK S S Sbjct: 321 IRQIENQALGKLKDYSDS 338 >gi|224110206|ref|XP_002333134.1| predicted protein [Populus trichocarpa] gi|222834948|gb|EEE73397.1| predicted protein [Populus trichocarpa] Length = 512 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 78/253 (30%), Positives = 130/253 (51%), Gaps = 7/253 (2%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN---RGLQFLDLIQEGNIGLMKAAEK 487 V VRK A+ ++++ NLRLV+ V KKY G +F D Q G GL+ A ++ Sbjct: 263 VLQVRKQIAVGRAARNKLIKHNLRLVLFVIKKYFQDFANGTKFQDFCQAGVKGLITAIDR 322 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F+ ++ STY ++W++ AI RS+ S T R+ + ++ + + ++KR+P Sbjct: 323 FEPKRRFRLSTYGLFWIRHAIIRSMTLSSFT-RVSFGLESIRSEIQKAKLELWFQLKRQP 381 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +EI +K+ + E +V + +K +SL + +G + SA+ Sbjct: 382 MEDEIIEKVRISPERYHEVTRASKPVLSLHSRHKTTQEEFIGGIADVDGGDDRRQSAL-- 439 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LR VL SL P+E V+R R+G+ D TL E+ ++RE +R+ E KA+ KL Sbjct: 440 -LRLALDDVLDSLKPKESLVVRQRYGLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKL 498 Query: 668 KHPSRSKKLRSFL 680 KHP+R LR ++ Sbjct: 499 KHPTRVDYLRRYV 511 >gi|258514354|ref|YP_003190576.1| sporulation sigma factor SigG [Desulfotomaculum acetoxidans DSM 771] gi|257778059|gb|ACV61953.1| RNA polymerase, sigma 28 subunit, SigG [Desulfotomaculum acetoxidans DSM 771] Length = 257 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 88/267 (32%), Positives = 142/267 (53%), Gaps = 25/267 (9%) Query: 411 NEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N+++ V T I S+ R + +++G+ A + +++ NLRLV+SV +++TNR Sbjct: 4 NKVEICGVNTAKLPVIPNSKMRELFEAIQQGDTSA---RPQLINGNLRLVLSVIQRFTNR 60 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ +R Sbjct: 61 GEYVDDLFQVGCIGLMKAIDNFDLAQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLR 119 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDE 583 D +K ++ + NK REP+ EIAK+L MP E V L +EPISL PI G + Sbjct: 120 DVAYKALQVRDTLVNKHSREPSVNEIAKELKMPREEVVFALDAIQEPISLFEPIYHDGGD 179 Query: 584 DTSHLGDFIEDKNA-VSPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + +DKN ++ L+ AI+ LR+ L+ RE+ +L +RF G T Sbjct: 180 PIFVMDQISDDKNQDLNWLEGIAIKDALRK--------LSDREKHILTLRFFDG----KT 227 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 EV + +++ ++ ++E A+ ++ Sbjct: 228 QMEVADEIGISQAQVSRLEKAALHHMR 254 >gi|121488785|emb|CAJ18277.1| sigma 70-type sigma factor [Pelodictyon clathratiforme] Length = 165 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 57/166 (34%), Positives = 100/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTRELATLLEMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V++ FGIGM+ Sbjct: 121 LQNDGHL-PDYGLNRDSLTLEVERSLSVLAPREADVIKSYFGIGMD 165 >gi|91227014|ref|ZP_01261551.1| RpoS-like sigma factor [Vibrio alginolyticus 12G01] gi|91188816|gb|EAS75102.1| RpoS-like sigma factor [Vibrio alginolyticus 12G01] gi|210148643|gb|ACJ09227.1| RpoS-like sigma factor [Vibrio alginolyticus] Length = 279 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 74/257 (28%), Positives = 135/257 (52%), Gaps = 14/257 (5%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAA 485 H + R G+ EA ++ ++E+NLRLV+ +AK Y R LDLI+EGNIGL+KA Sbjct: 32 HYAKLNRAGDEEA---REMLIESNLRLVVKIAKGYLKRPGNNFTLLDLIEEGNIGLIKAV 88 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD GY+FSTYA+WW+++ I ++ + T+R+P H+ +I+ + S + Sbjct: 89 DKFDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRLPAHVCKEINSLALKKLDASKSESK 148 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 E + E+++ + E + +++ ++ I + T + + E + P Sbjct: 149 ELSISELSRCSGVKAERIDELVALSGF-IDVSTTADLHRVPFVLELCESEYTPDPQQDCE 207 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + ++ +L + ++VL RFG+ TL E+G V+ ER+RQ++ +A+ Sbjct: 208 NQCFTQAIENIIKTLPTKLQKVLIHRFGLFDQRVKTLSEIGLLLNVSNERVRQMQIEAVE 267 Query: 666 KLKHPSRSKKLRSFLDG 682 +++ K+LR DG Sbjct: 268 RVQ-----KRLR--FDG 277 >gi|51599021|ref|YP_073209.1| RNA polymerase sigma factor [Borrelia garinii PBi] gi|51573592|gb|AAU07617.1| RNA polymerase sigma factor [Borrelia garinii PBi] Length = 266 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 77/258 (29%), Positives = 145/258 (56%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + S +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIKLASQIQRGNAQA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + VL + L +E +++ R+ + N TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTIKHLNYVLETKLNEKERYIIKKRYNLDNNPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|167770711|ref|ZP_02442764.1| hypothetical protein ANACOL_02057 [Anaerotruncus colihominis DSM 17241] gi|167667306|gb|EDS11436.1| hypothetical protein ANACOL_02057 [Anaerotruncus colihominis DSM 17241] Length = 263 Score = 115 bits (288), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 132/233 (56%), Gaps = 16/233 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A ++EM+ NLRLV+SV +K+TNRG DL Q G IGL+KA + FD Sbjct: 38 IRQGDQKA---RQEMINGNLRLVLSVVQKFTNRGENLDDLFQVGCIGLIKAIDNFDPNQN 94 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTY + + I R + D + ++R+ +RD +K ++ + N+ +EPT EEIA Sbjct: 95 VRFSTYGVPMIIGEIRRHLRDNN-SVRVSRSLRDLAYKAMQAKEALINRNSKEPTVEEIA 153 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE 611 K++ E V L+ EP+SL P+ + DT ++ D I DKN+ S D + RE Sbjct: 154 KEMGAKKEDVVLALEAIVEPMSLYDPVYSDGGDTIYVMDQIGDKNSES--DWMDEIVFRE 211 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + +L RE+++L +RF G T EV K+ +++ ++ ++E A+ Sbjct: 212 A----MKNLGDREKQILSLRFFGG----KTQMEVAKEIGISQAQVSRLEKGAL 256 >gi|83589704|ref|YP_429713.1| sporulation sigma factor SigG [Moorella thermoacetica ATCC 39073] gi|83572618|gb|ABC19170.1| RNA polymerase, sigma subunit, RpsG/SigG [Moorella thermoacetica ATCC 39073] Length = 272 Score = 115 bits (288), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 131/246 (53%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + ++ GE A +++++ NLRLV+SV +++TNRG DL Q G IGLMKA Sbjct: 38 EIRQLFQQMQAGETGA---REKLITGNLRLVLSVIQRFTNRGEHVDDLFQVGCIGLMKAI 94 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + NK+ R Sbjct: 95 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQIRDTLVNKLAR 153 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLD 602 EP+ E+A++L +P E V L +EP+SL PI G + + ++KN D Sbjct: 154 EPSLAEVAQQLDLPQEEVIFALDAIQEPVSLFEPIYHDGGDPIFVMDQIGDEKNQ----D 209 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 S+ N+ + L PRE +L +RF G +E+G +++ ++ ++E Sbjct: 210 SSWLENI--AIKEAMNKLNPRERLILSLRFFEGKTQMEVADEIG----ISQAQVSRLEKA 263 Query: 663 AIRKLK 668 A++ ++ Sbjct: 264 ALQHMR 269 >gi|229113622|ref|ZP_04243069.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-15] gi|228669818|gb|EEL25214.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-15] gi|324323938|gb|ADY24981.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar finitimus YBT-020] Length = 323 Score = 115 bits (288), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 79/262 (30%), Positives = 134/262 (51%), Gaps = 9/262 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQF 470 I+ I +S E H+ + GE + + + N LV+SVA+ Y N+ ++F Sbjct: 40 IRGIGNYKVLSKEESLHLFKRYKHGEKDL---RDYLFHVNEGLVLSVARNYKNKHPDIEF 96 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI-ADQSCTIRIPVHMRDKI 529 DL+QEGN G+++A E F+ LGY FSTYA WW+++++ I +S +IP H+ Sbjct: 97 DDLVQEGNEGMLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQFN 156 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTSH 587 K V + + R P+ EE+ K+L + E V KV ++L+ +ED Sbjct: 157 LKYVELEDKYLQRYNRTPSVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINEDVGI 216 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVG 646 F +D++A+ + I +L + L P+++ VL + FG+ + +E+ Sbjct: 217 SNPFFDDRSAIPSTNEMIIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEIA 276 Query: 647 KQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 277 KALMITTERVSQIKDEAIKKLK 298 >gi|224553544|gb|ACN55010.1| RNA polymerase sigma factor [Escherichia coli] Length = 111 Score = 115 bits (288), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 51/111 (45%), Positives = 83/111 (74%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL LDLI+EGN+GL++A EKFD G++FST A WW++Q I R+I +Q+ TIR+P+H+ Sbjct: 1 GLALLDLIEEGNLGLIRAVEKFDPERGFRFSTSATWWIRQTIERAIMNQTRTIRLPIHIV 60 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + S++ Sbjct: 61 KELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERITSVD 111 >gi|302389526|ref|YP_003825347.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermosediminibacter oceani DSM 16646] gi|302200154|gb|ADL07724.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermosediminibacter oceani DSM 16646] Length = 257 Score = 115 bits (287), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 82/248 (33%), Positives = 137/248 (55%), Gaps = 13/248 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S S+ + + V++G+ EA +++++ NLRLV+SV +++ NRG DL Q G IGL Sbjct: 19 LSNSKMKELFLRVKQGDKEA---REKLIHGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + N Sbjct: 76 MKAIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDSLVN 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K REP+ EEIAK++ +P E + L +EPISL PI + GD I + +S Sbjct: 135 KNSREPSIEEIAKEMNIPSEEIVMALDAIQEPISLFEPIYHDG----GDPIFVMDQISDD 190 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + LR + + + L RE+ +L +RF G T EV ++ +++ ++ ++E Sbjct: 191 KNNDENWLRSISIKEAMQKLNEREKLILTLRFFEG----KTQMEVAQEIGISQAQVSRLE 246 Query: 661 AKAIRKLK 668 A++ LK Sbjct: 247 KAALKHLK 254 >gi|295102494|emb|CBL00039.1| RNA polymerase, sigma subunit, RpsG/SigG [Faecalibacterium prausnitzii L2-6] Length = 255 Score = 115 bits (287), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 143/265 (53%), Gaps = 20/265 (7%) Query: 411 NEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N+++ V T +S E R +++ R G+ +A ++ M+E NLRLV+SV ++++ R Sbjct: 3 NKVELCGVNTAELPILSEQEKRDLLTRARAGDKKA---RQSMIEGNLRLVLSVVQRFSQR 59 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G DL Q G IGL+KA + FD +FSTY + + I R + D + +R+ +R Sbjct: 60 GENMDDLFQVGCIGLIKAIDNFDPAQQVRFSTYGVPMIIGEIRRFLRDNNA-LRVSRSLR 118 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--D 584 D ++ +++ + ++ REPT +EIA+K + V L+ EP+SLE P+ + D Sbjct: 119 DTAYRAMQSREELEKQLGREPTVDEIAQKTGLSRREVSAALESVVEPLSLEEPVYADGGD 178 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 ++ D + D + S +Q R+T +A LTPRE+R++ +R+ G T E Sbjct: 179 AVYVIDQVRDPDGEDSWISGLQ--FRQT----VAGLTPREKRIMELRYLKG----KTQME 228 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKH 669 V ++ +++ ++ ++E A+ + Sbjct: 229 VAREIGISQAQVSRLEKAALEQFHQ 253 >gi|146295967|ref|YP_001179738.1| sporulation sigma factor SigG [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409543|gb|ABP66547.1| RNA polymerase, sigma subunit, RpsG/SigG [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 255 Score = 115 bits (287), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 80/228 (35%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K+ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARKQFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +RI ++D +K ++ R ++ REPT EEIA +L + E + Sbjct: 96 IIGEIRRYLRDNN-AMRISRSLKDTAYKALKIKERYISQNYREPTLEEIANELCISKEDL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL PI + DT ++ D + D+ + L L E + + L+ L Sbjct: 155 VFALDSIQEPISLYEPIFQDSTDTMYVVDQVSDQKSCENL------WLEEISLKDALSRL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L +R+ G T EV +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLRYYKG----KTQMEVATIIGISQAQVSRIEKSAIGHIK 252 >gi|111115602|ref|YP_710220.1| RNA polymerase sigma factor [Borrelia afzelii PKo] gi|110890876|gb|ABH02044.1| RNA polymerase sigma factor [Borrelia afzelii PKo] Length = 266 Score = 115 bits (287), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 76/258 (29%), Positives = 146/258 (56%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E +V +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIQLVGQIQRGSAKA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKAPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + +L + LT +E +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTLQHLNYILETKLTEKERYIIKKRYNLDNSPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|39840783|emb|CAD20832.1| sigma factor [Spinacia oleracea] Length = 548 Score = 115 bits (287), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 129/238 (54%), Gaps = 1/238 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E++++ LV+ +++ Y G+ DL+Q GNIG+++ AE+FD GY+FSTY +W Sbjct: 311 CRDELLKSGRSLVLYLSRYYRGLGVAHEDLMQAGNIGILQGAERFDHTRGYQFSTYVQYW 370 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++A+++ ++ I++P + I++V + + + + P E++K + ++ + Sbjct: 371 IRKAMSQLVSRHGRGIKVPTTLSTTINRVQKARKILKRSQGKHPDDVEVSKSTGLSLDKI 430 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + SL+ +G + D P + ++ ++R ++L L P+ Sbjct: 431 KSADNCLRIVGSLDQKVGHFINMKYLECTPDTALEMPEKTVMKQHMRNDVHKLLQELDPK 490 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 E RVL R+G+ + +L EVGK F V++E IR++E +A+ KL+ L+ +L+ Sbjct: 491 ERRVLIHRYGLEGHC-MSLHEVGKVFDVSKEWIRKMEKRALTKLRTEQNQTNLKHYLN 547 >gi|289751356|ref|ZP_06510734.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T92] gi|289691943|gb|EFD59372.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T92] Length = 470 Score = 114 bits (286), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 46/66 (69%), Positives = 58/66 (87%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350 Query: 504 VKQAIT 509 ++QAIT Sbjct: 351 IRQAIT 356 Score = 45.1 bits (105), Expect = 0.046, Method: Compositional matrix adjust. Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%) Query: 102 SSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG--RAMMMASLCE 159 S Q RKD+ ++ D VR YL+++G + LL+ E E+ +AKRIEAG +M L E Sbjct: 209 SEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSE 268 >gi|121488765|emb|CAJ18267.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 114 bits (286), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 57/166 (34%), Positives = 99/166 (59%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEFERDPNTRELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V+R F IGM+ Sbjct: 121 LQNDGHL-PDHGLNKDSLTLEVERSLSVLAPREADVIRSYFXIGMD 165 >gi|115372678|ref|ZP_01459985.1| alternative sigma factor RpoH [Stigmatella aurantiaca DW4/3-1] gi|310823838|ref|YP_003956196.1| RNA polymerase sigma-c factor [Stigmatella aurantiaca DW4/3-1] gi|115370399|gb|EAU69327.1| alternative sigma factor RpoH [Stigmatella aurantiaca DW4/3-1] gi|309396910|gb|ADO74369.1| RNA polymerase sigma-C factor [Stigmatella aurantiaca DW4/3-1] Length = 293 Score = 114 bits (286), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 83/245 (33%), Positives = 132/245 (53%), Gaps = 18/245 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+G+ +A +V +NLR V+ VA +Y + GL+ DLIQE NIGLMKA +KFD G Sbjct: 37 RQGDLQAG---HRLVTSNLRFVVKVAYEYRSYGLRMSDLIQEANIGLMKAVQKFDPDKGI 93 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRM---SNKIKREPTP 549 + +YA+WW++ I + +++ R + RT R + N Sbjct: 94 RLISYAVWWIRAYIQGYVLKNWSLVKLGTTQAQRRLFFALARTRRELEKQGNTDGNIVNA 153 Query: 550 EEIAKKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAI-- 605 EEIA+KL + VR++ ++ +SL+ P+G D D +H+ DF+ ++VS D Sbjct: 154 EEIARKLNVKASEVREMEQRMGGRDLSLDAPMGEDGDATHM-DFVA-SDSVSQADEVADR 211 Query: 606 -QANL-RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +A+L R + L L PRE ++ R + +++ TL E+G+ F +RER RQ+E +A Sbjct: 212 QEADLARTRIQQALQRLDPRERFIIEKR--VMSDSEMTLSELGEHFGFSRERARQLEIRA 269 Query: 664 IRKLK 668 KLK Sbjct: 270 KDKLK 274 >gi|121488532|emb|CAJ18256.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 114 bits (286), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 57/166 (34%), Positives = 100/166 (60%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEYERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L P E V+R FGIGM+ Sbjct: 121 LQNDGHM-PDHGLNRDSLTLEVERSLSVLAPGEADVIRSXFGIGMD 165 >gi|269968333|ref|ZP_06182353.1| conserved hypothetical protein [Vibrio alginolyticus 40B] gi|269827051|gb|EEZ81365.1| conserved hypothetical protein [Vibrio alginolyticus 40B] Length = 296 Score = 114 bits (286), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 74/257 (28%), Positives = 135/257 (52%), Gaps = 14/257 (5%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAA 485 H + R G+ EA ++ ++E+NLRLV+ +AK Y R LDLI+EGNIGL+KA Sbjct: 49 HYAKLNRVGDEEA---REMLIESNLRLVVKIAKGYLKRPGNNFTLLDLIEEGNIGLIKAV 105 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD GY+FSTYA+WW+++ I ++ + T+R+P H+ +I+ + S + Sbjct: 106 DKFDPEPGYRFSTYAVWWIRENIEAALMNNGRTVRLPAHVCKEINSLALKKLDASKSESK 165 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 E + E+++ + E + +++ ++ I + T + + E + P Sbjct: 166 ELSISELSRCSGVKAERIDELVALSG-FIDVSTTADLHRVPFVLELCESEYTPDPQQDCE 224 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + ++ +L + ++VL RFG+ TL E+G V+ ER+RQ++ +A+ Sbjct: 225 NQCFTQAIENIIKTLPIKLQKVLIHRFGLFDQRVKTLSEIGLLLNVSNERVRQMQIEAVE 284 Query: 666 KLKHPSRSKKLRSFLDG 682 +++ K+LR DG Sbjct: 285 RVQ-----KRLR--FDG 294 >gi|67921068|ref|ZP_00514587.1| Sigma-70 region 3:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] gi|67857185|gb|EAM52425.1| Sigma-70 region 3:Sigma-70 region 4 [Crocosphaera watsonii WH 8501] Length = 179 Score = 114 bits (285), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 61/173 (35%), Positives = 106/173 (61%), Gaps = 1/173 (0%) Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 TR+IA QS IR+PVH+ +K++K+ + R++S R + EEI ++L M VR+VL Sbjct: 5 TRAIATQSRIIRLPVHVTEKLNKIKQVQRKISQSKNRNASLEEIGQELGMTAAQVREVLM 64 Query: 569 ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVL 628 +SLE +G E + L D +E ++ +SP ++ +LR +L LT RE++V+ Sbjct: 65 KIPRSVSLEVKVGKEKDTELVDLLESED-ISPEENLAVESLRRDIGVLLKDLTEREQQVI 123 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 ++R+G ++L +G+ ++RER+RQIEAK ++KL+ P R ++R + + Sbjct: 124 KLRYGFEDGVAYSLAGIGRVLELSRERVRQIEAKTLQKLRQPRRRNQIRDYFE 176 >gi|229100411|ref|ZP_04231282.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-29] gi|229107324|ref|ZP_04237193.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-28] gi|228676119|gb|EEL31095.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-28] gi|228683031|gb|EEL37038.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock3-29] Length = 323 Score = 114 bits (285), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 134/263 (50%), Gaps = 9/263 (3%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E + + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 39 EIKEIGNYKVLSKQESLKLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 95 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA-DQSCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA WW+++++ I +S +IP ++ Sbjct: 96 FDDLVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNYVNQF 155 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTS 586 K V + R PT EE+ K+L + E V V ++L+ +ED Sbjct: 156 NLKYVELEDKYLQMYNRTPTVEEVVKELDVTSETVIRHNVYYKRATTMTLDIDTINEDIG 215 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEV 645 F +D +A+ ++ + +L + L P+++ VL + FG+ + +E+ Sbjct: 216 MSKPFYDDNSAIPLINEIVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEI 275 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 276 AKALMITTERVSQIKEEAIKKLK 298 >gi|229051333|ref|ZP_04194847.1| RNA polymerase sigma-43 factor [Bacillus cereus AH676] gi|229125362|ref|ZP_04254451.1| RNA polymerase sigma-43 factor [Bacillus cereus 95/8201] gi|228658091|gb|EEL13842.1| RNA polymerase sigma-43 factor [Bacillus cereus 95/8201] gi|228722026|gb|EEL73457.1| RNA polymerase sigma-43 factor [Bacillus cereus AH676] Length = 325 Score = 114 bits (285), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 77/253 (30%), Positives = 131/253 (51%), Gaps = 9/253 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQFLDLIQEGNI 479 +S E H+ + GE + + + N LV+S+A+ Y N+ ++F DL+QEGN Sbjct: 51 LSKEESLHLFKRYKHGEKDL---RDYLFHVNEGLVLSIARNYKNKHPDIEFDDLVQEGNE 107 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI-ADQSCTIRIPVHMRDKIHKVVRTARR 538 G+++A E F+ LGY FSTYA WW+++++ I +S +IP H+ K V + Sbjct: 108 GMLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQFNLKYVELEDK 167 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 + R P+ EE+ K+L + E V KV ++L+ +ED F +DK+ Sbjct: 168 YLQRYNRTPSVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINEDVGISTPFFDDKS 227 Query: 597 AVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A+ + I +L + L P+++ VL + FG+ + +E+ K +T ER Sbjct: 228 AIPSTNEMIIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTER 287 Query: 656 IRQIEAKAIRKLK 668 + QI+ +AI+KLK Sbjct: 288 VSQIKDEAIKKLK 300 >gi|330955106|gb|EGH55366.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae Cit 7] Length = 393 Score = 114 bits (285), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 118/430 (27%), Positives = 205/430 (47%), Gaps = 50/430 (11%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGHSYQKR 211 +M ++ P T ++ + L +++ G+ +G + Sbjct: 131 EVMGAIAHFPGTVDHILSEYTRVTSEGGRLSDVL-----------SGYIDPDDGIAPPAE 179 Query: 212 EDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDEDDSAHTLSA 271 + + + + D E +A S D+ +V+S P+ +R A Sbjct: 180 VPPPVDPKAVKAEGADDDEEESADAS-DEEDEVESGPDPVIAQQR------------FGA 226 Query: 272 MEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKVLKEKLVKLVGSLSLN 331 + DQ+ E+ R ++L+ +D+K ++ V L +L + L Sbjct: 227 VSDQM------------EITR--KALKKFG----RDDKHAIAEMV---ALAELFMPIKLV 265 Query: 332 QSRIDLLVEQLYDISKRIMHNEGELLRL-AQSYGIKRDVFLERHQGRELDPHWV-SYAKD 389 + + LVE++ +R+ E +++L + + R FL + G E+D W + AK Sbjct: 266 PKQFEGLVERVRGALERLRAQERAIMQLCVRDARMPRADFLRQFPGNEVDESWTDALAKG 325 Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 + ++ + I + + ++ ++ ETG+ I+E + I + GE +A AKKEMV Sbjct: 326 --KSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAKARRAKKEMV 383 Query: 450 EANLRLVISV 459 EANLRLVIS+ Sbjct: 384 EANLRLVISI 393 >gi|255545052|ref|XP_002513587.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] gi|223547495|gb|EEF48990.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis] Length = 501 Score = 114 bits (284), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 79/257 (30%), Positives = 132/257 (51%), Gaps = 15/257 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN---RGLQFLDLIQEGNIGLMKAAEK 487 V VRK A+ ++++ NLRLV+ V KY G +F DL Q G GL+ A ++ Sbjct: 252 VEKVRKQLEVGRAARNKLIKHNLRLVMFVMNKYFQDFANGPRFQDLCQAGVKGLITAIDR 311 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 F+ ++ STY+++W++ AI RS+ S T ++ + ++ + + +++R P Sbjct: 312 FEPQRRFQLSTYSLFWIRHAIIRSMTLSSFT-KVSFGLESVRTEIQKAKLELLIELQRRP 370 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA--- 604 T EEI +++ + E +V++ K +SL H E N ++ +D Sbjct: 371 TEEEIIERVGISAERYHEVIRAAKPALSLHA-------RHAVTQEEFINGITDIDGGDNR 423 Query: 605 -IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A LR VL SL P+E V+R R+G+ D TL E+ ++RE +R+ E KA Sbjct: 424 RQPALLRLALDDVLDSLKPKESLVIRQRYGLDGKGDRTLGEIAGNLNISREMVRKYEVKA 483 Query: 664 IRKLKHPSRSKKLRSFL 680 + KLKHP+R LR ++ Sbjct: 484 LMKLKHPARVDYLRRYV 500 >gi|296133647|ref|YP_003640894.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296032225|gb|ADG82993.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 257 Score = 114 bits (284), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 83/251 (33%), Positives = 131/251 (52%), Gaps = 19/251 (7%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S SE R I ++ G+ A + +++ NLRLV+SV +++TNRG DL Q G IGL Sbjct: 19 LSSSEMRKIFEQMQAGDKSA---RTKLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + N Sbjct: 76 MKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQVRDALVN 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVS 599 K REP+ EIA +L MP E V L +EPISL PI + D ++ D I D Sbjct: 135 KYSREPSINEIASELKMPREEVVFALDAIQEPISLFEPIYHDGGDPIYVMDQIGD----- 189 Query: 600 PLDSAIQANLRE--TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + + N E + + L RE+ +L +RF G EE+G +++ ++ Sbjct: 190 --EKNLDGNWLEGISVREAMRKLNEREKLILTLRFFEGKTQMEVAEEIG----ISQAQVS 243 Query: 658 QIEAKAIRKLK 668 ++E A++ ++ Sbjct: 244 RLEKAALKHMR 254 >gi|121488787|emb|CAJ18278.1| sigma 70-type sigma factor [Prosthecochloris aestuarii] Length = 165 Score = 114 bits (284), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 57/165 (34%), Positives = 98/165 (59%), Gaps = 1/165 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL EGN+GL+KAA++FD G+KF +YA+WW++Q+ +++A+QS +R+P++ ++K Sbjct: 1 DLXXEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSXLQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEYERDPNTKELANVLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ++ + P S + +L R L+ L PRE V+R FGIGM Sbjct: 121 LQ-HDGQKPDYSLTKDSLTLEVERSLSVLAPREADVIRSYFGIGM 164 >gi|9368549|emb|CAB98133.1| unnamed protein product [Mycoplasma genitalium] Length = 100 Score = 114 bits (284), Expect = 7e-23, Method: Composition-based stats. Identities = 52/78 (66%), Positives = 65/78 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V +NLRLV+S+AKK+ RGL F DLIQEGN+GL+KA KF+W LG KFSTYA WW Sbjct: 23 AINQLVTSNLRLVVSIAKKHLERGLDFNDLIQEGNLGLLKAISKFNWSLGNKFSTYATWW 82 Query: 504 VKQAITRSIADQSCTIRI 521 +KQAITR+IADQ+ T+RI Sbjct: 83 IKQAITRAIADQARTVRI 100 >gi|67078088|ref|YP_245708.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus E33L] gi|66970394|gb|AAY60370.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus E33L] Length = 323 Score = 114 bits (284), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 79/263 (30%), Positives = 135/263 (51%), Gaps = 9/263 (3%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E ++ + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 39 EIKEIGNYQVLSKQESLNLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 95 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ-SCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA WW+K+ + I + S +IP ++ Sbjct: 96 FDDLVQEGNEGMLRAMEDFNPDLGYCFSTYAFWWIKKRMLGIICKKRSGPFKIPNYVNQF 155 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTS 586 K V + R P+ EE+ K+L + E V V ++L+ +ED Sbjct: 156 NLKYVELEDKYLQMYNRPPSVEEVVKELDVTSEIVIRHNVYYKRVTTMTLDIDTINEDIG 215 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEV 645 F +DK+A+ ++ + +L + L P+++ VL + FG+ + +E+ Sbjct: 216 ISNSFYDDKSAIPSINEMVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEI 275 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 276 AKALMITTERVSQIKEEAIKKLK 298 >gi|159137617|gb|ABW88899.1| HrdB [Streptomyces cacaoi subsp. asoensis] Length = 133 Score = 114 bits (284), Expect = 8e-23, Method: Composition-based stats. Identities = 52/76 (68%), Positives = 67/76 (88%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ GYKFSTYA WW Sbjct: 58 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 117 Query: 504 VKQAITRSIADQSCTI 519 ++QAITR++ADQ+ TI Sbjct: 118 IRQAITRAMADQARTI 133 >gi|58699689|ref|ZP_00374359.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] gi|58533795|gb|EAL58124.1| RNA polymerase sigma factor RpoD [Wolbachia endosymbiont of Drosophila ananassae] Length = 256 Score = 114 bits (284), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 71/182 (39%), Positives = 108/182 (59%), Gaps = 13/182 (7%) Query: 328 LSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVF-------LERHQGRELD 380 + L+ + + + ++LY I++ I E L+ A+ Y I R+ F L +H+ +++ Sbjct: 12 IKLSDAAVARITQELYKINRSITLEEANLIAEARKYDIDRESFYKVYDDVLLKHELKKIS 71 Query: 381 PHWVSYAKDFPEGEWKN----FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 ++ + GE KN F+ + I N IK E ++ EF+ ++ ++K Sbjct: 72 LLKINENQSSFTGELKNKFLRFIDDNSEHIASTLNGIKQHIQED--NVQEFKELIKRIQK 129 Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E E S AK+EM++ANLRLV+S+AKKY+ RGL LDLIQEGNIGLMKA +KFD+ GYKF Sbjct: 130 HEREVSEAKQEMIKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKF 189 Query: 497 ST 498 ST Sbjct: 190 ST 191 >gi|326773500|ref|ZP_08232783.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] gi|326636730|gb|EGE37633.1| RNA polymerase sigma (70) factor RpoD [Actinomyces viscosus C505] Length = 311 Score = 114 bits (284), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 47/70 (67%), Positives = 62/70 (88%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++EANLRLV+S+AK+YT RG+ FLDLIQEGN+GL++A EKFD+ G+KFSTYA WW Sbjct: 224 AKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 283 Query: 504 VKQAITRSIA 513 ++QAITR++A Sbjct: 284 IRQAITRAMA 293 Score = 41.6 bits (96), Expect = 0.41, Method: Compositional matrix adjust. Identities = 18/34 (52%), Positives = 27/34 (79%) Query: 116 STDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 +T DPV+ YL+++G + LL+ E E+ +AKRIEAG Sbjct: 159 ATADPVKDYLKQIGKVALLNAEQEVELAKRIEAG 192 >gi|113955141|ref|YP_730472.1| type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] gi|113882492|gb|ABI47450.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CC9311] Length = 282 Score = 113 bits (283), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 80/237 (33%), Positives = 132/237 (55%), Gaps = 31/237 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGL---QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AK M++ANLRLV++V++KY +R L +F DL+QEG+IGL +A EKFD LGYKFSTYA Sbjct: 53 AKDRMIKANLRLVVTVSRKYLHRQLGQLEFGDLVQEGSIGLNRAVEKFDPELGYKFSTYA 112 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP- 559 WW++Q+I+R+I S TIR+P M + K+ N++ + E+I + L + Sbjct: 113 YWWIRQSISRAIDQTSATIRVPTSMNLVLAKL--------NQLPQGLNDEQICELLEVSD 164 Query: 560 --VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDS----AIQANLRET 612 ++ +R + K SL+ +G D D S L + + D+ + D A++ +L + Sbjct: 165 TQLKNLRHAF-VAKRIASLDMKLGADRDGSTLTELLCDEQSTLNYDEFQWEAVKRSLGDQ 223 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L + ++ +LR + + +L+ + + ++RER+RQ K R KH Sbjct: 224 AKIALNN----DQELLRR----NVVDEQSLQSIANEIGISRERVRQ---KVDRAKKH 269 >gi|219684379|ref|ZP_03539323.1| RNA polymerase sigma factor [Borrelia garinii PBr] gi|219685569|ref|ZP_03540385.1| RNA polymerase sigma factor [Borrelia garinii Far04] gi|219672368|gb|EED29421.1| RNA polymerase sigma factor [Borrelia garinii PBr] gi|219672847|gb|EED29870.1| RNA polymerase sigma factor [Borrelia garinii Far04] Length = 266 Score = 113 bits (283), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 76/258 (29%), Positives = 144/258 (55%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIKLAGQIQRGNAQA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + VL + L +E +++ R+ + N TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTIKHLNYVLETKLNEKERYIIKKRYNLDNNPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|229118995|ref|ZP_04248338.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-3] gi|228664438|gb|EEL19936.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock1-3] Length = 294 Score = 113 bits (283), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 134/263 (50%), Gaps = 9/263 (3%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E + + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 10 EIKEIGNYKVLSKQESLKLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 66 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA-DQSCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA WW+++++ I +S +IP ++ Sbjct: 67 FDDLVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNYVNQF 126 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTS 586 K V + R PT EE+ K+L + E V V ++L+ +ED Sbjct: 127 NLKYVELEDKYLQMYNRTPTVEEVVKELDVTSETVIRHNVYYKRATTMTLDIDTINEDIG 186 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEV 645 F +D +A+ ++ + +L + L P+++ VL + FG+ + +E+ Sbjct: 187 MSKPFYDDNSAIPLINEIVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEI 246 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 247 AKALMITTERVSQIKEEAIKKLK 269 >gi|134298555|ref|YP_001112051.1| sporulation sigma factor SigG [Desulfotomaculum reducens MI-1] gi|134051255|gb|ABO49226.1| RNA polymerase, sigma subunit, RpsG/SigG [Desulfotomaculum reducens MI-1] Length = 257 Score = 113 bits (283), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 81/245 (33%), Positives = 132/245 (53%), Gaps = 13/245 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ R + +++G+ +A + +++ NLRLV+SV +++TNRG DL Q G IGLMKA Sbjct: 22 TQMRTLFEAMQQGDKDA---RSQLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGLMKA 78 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + NK Sbjct: 79 IDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQVRDTLVNKYS 137 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REP+ EIA +L MP E + L +EPISL PI + GD I + +S + Sbjct: 138 REPSINEIAGELKMPREDIVFALDAIQEPISLFEPIYHDG----GDPIFVLDQISDEKNL 193 Query: 605 IQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L E + R L L+ RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 194 DLSWLEEISIRDALRRLSDREKHILTLRFFEG----KTQMEVADEIGISQAQVSRLEKAA 249 Query: 664 IRKLK 668 + +K Sbjct: 250 LNHMK 254 >gi|147678180|ref|YP_001212395.1| sporulation sigma factor SigG [Pelotomaculum thermopropionicum SI] gi|146274277|dbj|BAF60026.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 257 Score = 113 bits (283), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/254 (33%), Positives = 132/254 (51%), Gaps = 16/254 (6%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + V TG S+ + + + KG+ A + +++ NLRLV+SV +++TNRG DL Q Sbjct: 16 LPVLTG---SQMKALFEAMHKGDASA---RTKLINGNLRLVLSVIQRFTNRGEYVDDLFQ 69 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 G IGLMKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ Sbjct: 70 VGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQV 128 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + NK REP+ EIA +L MP E + L +EPISL PI + GD I Sbjct: 129 RDALVNKYSREPSINEIACELKMPREEIVFALDAIQEPISLFEPIYHDG----GDPIFVM 184 Query: 596 NAVSPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + +S + Q L R L L+ RE+ +L +RF G EE+G +++ Sbjct: 185 DQISDEKNQDQNWLEGIAIRDALRKLSDREKLILTLRFYEGKTQMEVAEEIG----ISQA 240 Query: 655 RIRQIEAKAIRKLK 668 ++ ++E A+ +K Sbjct: 241 QVSRLEKAALNHMK 254 >gi|216263458|ref|ZP_03435453.1| RNA polymerase sigma factor (rpoS) [Borrelia afzelii ACA-1] gi|215980302|gb|EEC21123.1| RNA polymerase sigma factor (rpoS) [Borrelia afzelii ACA-1] Length = 266 Score = 113 bits (283), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 145/258 (56%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIQLAGQIQRGSAKA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKAPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + +L + LT +E +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTLQHLNYILETKLTEKERYIIKKRYNLDNSPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|332196178|gb|AEE34299.1| sigma factor A [Arabidopsis thaliana] Length = 498 Score = 113 bits (283), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 62/204 (30%), Positives = 117/204 (57%), Gaps = 13/204 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E +A++++ +N+RLV+S+A++Y N G + DL+Q G IGL++ EKFD G++ STY Sbjct: 255 ECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQGGLIGLLRGIEKFDSSKGFRISTY 314 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM- 558 WW++Q ++R++ D S T+R+P H+ +++ ++R A+ + P+ + IA+ L M Sbjct: 315 VYWWIRQGVSRALVDNSRTLRLPTHLHERL-GLIRNAKLRLQEKGITPSIDRIAESLNMS 373 Query: 559 ------PVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 E V KV + ++ SL G+ S++ D + N P L+E Sbjct: 374 QKKVRNATEAVSKVFSLDRDAFPSLNGLPGETHHSYIADTRLENN---PWHGYDDLALKE 430 Query: 612 TTTRVL-ASLTPREERVLRMRFGI 634 ++++ A+L RE+ ++R+ +G+ Sbjct: 431 EVSKLISATLGEREKEIIRLYYGL 454 >gi|55274881|gb|AAV49243.1| RNA polymerase subunit sigma-38 [Shigella boydii] Length = 184 Score = 113 bits (283), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 51/142 (35%), Positives = 93/142 (65%) Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G++FSTYA WW++Q I R+I +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEI Sbjct: 37 GFRFSTYATWWIRQTIERAIMNQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEI 96 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A++L PV+ V ++L++ + S++TP+G + L D + D+ P D+ +++++ Sbjct: 97 AEQLDKPVDDVSRMLRLNERITSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQS 156 Query: 613 TTRVLASLTPREERVLRMRFGI 634 + L L ++ VL RFG+ Sbjct: 157 IVKWLFELNAKQREVLARRFGL 178 >gi|15894973|ref|NP_348322.1| sporulation sigma factor SigG [Clostridium acetobutylicum ATCC 824] gi|1350864|sp|P33658|RPSG_CLOAB RecName: Full=RNA polymerase sigma-G factor gi|15024660|gb|AAK79662.1|AE007679_8 Specialized DNA-dependent RNA polymerase sigma subunit [Clostridium acetobutylicum ATCC 824] gi|580960|emb|CAA80621.1| putative sigma factor G [Clostridium acetobutylicum ATCC 824] gi|706854|gb|AAC43310.1| putative sigma factor G [Clostridium acetobutylicum ATCC 824] gi|325509110|gb|ADZ20746.1| sporulation sigma factor SigG [Clostridium acetobutylicum EA 2018] Length = 257 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 134/245 (54%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R ++ +R G + A+++ ++ NLRLV+SV +++ NRG DL Q G IGL+K+ Sbjct: 23 EMRELLISMRNGN---TTAREKFIKGNLRLVLSVIQRFNNRGENADDLFQVGCIGLIKSI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD ++ ++ R+ +K + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYRALQVRDRLISKNNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 EPT +IAK+L +P E V L ++PISL PI D D ++ D I D LD Sbjct: 139 EPTVSQIAKELKIPREEVIFALDAIQDPISLFEPIYHDDGDAIYVMDQISDN---KNLDD 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + N+ + + L+ RE+ +L MRF G T EV + +++ ++ ++E A Sbjct: 196 SWLQNI--SIKEAMKKLSDREKMILNMRFFDG----RTQMEVADEIGISQAQVSRLEKTA 249 Query: 664 IRKLK 668 ++ +K Sbjct: 250 LKHMK 254 >gi|51892360|ref|YP_075051.1| sporulation sigma factor SigG [Symbiobacterium thermophilum IAM 14863] gi|51856049|dbj|BAD40207.1| RNA polymerase sigma factor similar to B. subtilis SigG [Symbiobacterium thermophilum IAM 14863] Length = 256 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 132/246 (53%), Gaps = 15/246 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 ++ R + +R GE A+ E++ NLRLV+SV +++ NRG DL Q G IGLMKA Sbjct: 21 AQMRELFVRMRSGE---KAARDELITGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKA 77 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + N++ Sbjct: 78 IDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDALVNRLS 136 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLD 602 REPT +EIA +L +P+E + L +EP+SL P+ ++ D ++ D + D+ S D Sbjct: 137 REPTVQEIADELGLPLEEIVYALDSIQEPVSLFEPLYNDGGDPIYVMDQVSDE---SQQD 193 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 S + + + L L RE +L +RF G EE+G +++ ++ ++E Sbjct: 194 SQWLEGI--SIRQALHRLNERERLILTLRFFEGKTQMEVAEEIG----ISQAQVSRLEKA 247 Query: 663 AIRKLK 668 A+ ++ Sbjct: 248 ALSHMR 253 >gi|47565382|ref|ZP_00236424.1| RNA polymerase sigma-43 factor, putative [Bacillus cereus G9241] gi|208742286|ref|YP_002267738.1| RNA polymerase sigma factor (sigma-A) (sigma-43) [Bacillus cereus] gi|47557736|gb|EAL16062.1| RNA polymerase sigma-43 factor, putative [Bacillus cereus G9241] Length = 325 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/263 (29%), Positives = 134/263 (50%), Gaps = 9/263 (3%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E + + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 41 EIKGIGNYKVLSKQESLKLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 97 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA-DQSCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA WW+++++ I +S +IP + Sbjct: 98 FDDLVQEGNEGMLRAMEDFNPALGYCFSTYAFWWIQKSMLGIICKKKSGPFKIPNSVNQF 157 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK--VLKITKEPISLETPIGDEDTS 586 + V + R P+ EE+ K+L + E V K V ++L+ +ED Sbjct: 158 NLRYVELEDKYLQMYNRPPSVEEVVKELNVTSETVIKHNVYYKRATTMTLDVDTINEDIG 217 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEV 645 L F +D +A+ + + +L + L P+++ VL + FG+ + +E+ Sbjct: 218 ILNPFYDDSSAIPSTNEMVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEI 277 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 K +T ER+ QI+ +AI+KLK Sbjct: 278 AKALMITTERVSQIKDEAIKKLK 300 >gi|1143832|gb|AAA84899.1| RNA polymerase sigma C subunit [Stigmatella aurantiaca DW4/3-1] Length = 293 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 83/245 (33%), Positives = 131/245 (53%), Gaps = 18/245 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+G+ +A +V +NLR V+ VA +Y + GL+ DLIQE NIGLMKA +KFD G Sbjct: 37 RQGDLQAG---HRLVTSNLRFVVKVAYEYRSYGLRMSDLIQEANIGLMKAVQKFDPDKGI 93 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRM---SNKIKREPTP 549 + +YA+WW+ I + +++ R + RT R + N Sbjct: 94 RLISYAVWWILAYIQGYVLKNWSLVKLGTTQAQRRLFFALARTRRELEKQGNTDGNIVNA 153 Query: 550 EEIAKKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAI-- 605 EEIA+KL + VR++ ++ +SL+ P+G D D +H+ DF+ ++VS D Sbjct: 154 EEIARKLNVKASEVREMEQRMGGRDLSLDAPMGEDGDATHM-DFVA-SDSVSQADEVADR 211 Query: 606 -QANL-RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +A+L R + L L PRE ++ R + +++ TL E+G+ F +RER RQ+E +A Sbjct: 212 QEADLARTRIQQALQRLDPRERFIIEKR--VMSDSEMTLSELGEHFGFSRERARQLEIRA 269 Query: 664 IRKLK 668 KLK Sbjct: 270 KDKLK 274 >gi|224534531|ref|ZP_03675107.1| RNA polymerase sigma factor [Borrelia spielmanii A14S] gi|224514208|gb|EEF84526.1| RNA polymerase sigma factor [Borrelia spielmanii A14S] Length = 266 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 145/258 (56%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIQLAGQIQRGNAQA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + +L + LT +E +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTIKHLNYILETKLTEKERYIIKKRYNLDNSPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|319649652|ref|ZP_08003808.1| FliA/WhiG family RNA polymerase [Bacillus sp. 2_A_57_CT2] gi|317398814|gb|EFV79496.1| FliA/WhiG family RNA polymerase [Bacillus sp. 2_A_57_CT2] Length = 236 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 80/242 (33%), Positives = 132/242 (54%), Gaps = 15/242 (6%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + + KG+ A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + Sbjct: 2 RELFKQMHKGDI---TAREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCIGLMKSIDN 58 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD KFSTYA+ + I R + D + IR+ +RD +K ++ R+ +K REP Sbjct: 59 FDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLMSKTSREP 117 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAI 605 T EEIAK+L +P E + L ++P+SL PI ++ D ++ D + D+ + Sbjct: 118 TAEEIAKELDVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQLSDERN-KDIQWIE 176 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + L+E R L RE+ +LR RF G EE+G +++ ++ ++E AI+ Sbjct: 177 EIALKEGMRR----LNEREKLILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIK 228 Query: 666 KL 667 ++ Sbjct: 229 QM 230 >gi|296506459|ref|YP_003667693.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis BMB171] gi|296327046|gb|ADH09973.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis BMB171] Length = 323 Score = 113 bits (282), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 131/253 (51%), Gaps = 9/253 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQFLDLIQEGNI 479 +S E H+ + GE + + + N LV+S+A+ Y N+ ++F DL+QEGN Sbjct: 49 LSKEESLHLFKRYKHGEKDL---RDYLFHVNEGLVLSIARNYKNKHPDIEFDDLVQEGNE 105 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI-ADQSCTIRIPVHMRDKIHKVVRTARR 538 G+++A E F+ LGY FSTYA WW+++++ I +S +IP H+ K V + Sbjct: 106 GMLRAMEDFNPDLGYCFSTYAFWWIQKSMLGIIRKKKSGPFKIPTHVNQFNLKYVELEDK 165 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 + R P+ EE+ K+L + E V KV ++L+ +ED F +D++ Sbjct: 166 YLQRYNRTPSVEEVVKELNVTRETVIRHKVYYKRATTMTLDIDTINEDVGISTPFFDDRS 225 Query: 597 AVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 A+ + I +L + L P+++ VL + FG+ + +E+ K +T ER Sbjct: 226 AIPSTNEMIIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVYLHKEIAKALMITTER 285 Query: 656 IRQIEAKAIRKLK 668 + QI+ +AI+KLK Sbjct: 286 VSQIKDEAIKKLK 298 >gi|121488781|emb|CAJ18275.1| sigma 70-type sigma factor [Chlorobium phaeovibrioides] Length = 165 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 55/163 (33%), Positives = 99/163 (60%), Gaps = 1/163 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K Sbjct: 1 DLINEGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P +E+A +L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYSQLEQEYERDPNTKELANQLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 +++ + P + +L R L+ L PRE V++ FGI Sbjct: 121 LQNDGHL-PDHGLNRDSLTLEVERSLSVLAPREADVIKSYFGI 162 >gi|294673921|ref|YP_003574537.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] gi|294472533|gb|ADE81922.1| RNA polymerase sigma-70 factor [Prevotella ruminicola 23] Length = 250 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/262 (29%), Positives = 134/262 (51%), Gaps = 47/262 (17%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 I E ++ E R + + KG+ E +++K ++EANL+ V+SVA++Y +G+ DL+ Sbjct: 29 IGREQLLTNEEERELAERIAKGD-ERALSK--LIEANLKFVVSVARQYKGKGVDMEDLVS 85 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GLMKAA KFD G +F +A +++Q+I ++I Q ++P Sbjct: 86 EGNLGLMKAAAKFDASKGVRFVNFAFVYIRQSIEKAIDQQGGLYQVP------------- 132 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 + +E+A++ A + +S++ P+G L + +K Sbjct: 133 ----------KDVKQEVARQQA--------------QAVSVDAPLGHRTNMSLLSVLVNK 168 Query: 596 NAVSPL-DSAIQAN-LRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVT 652 +A PL D + + + + L +L RE RV+ +GI N +H T+ E+ + V Sbjct: 169 DA--PLADERVHSEAIEDAIEFALGTLDARERRVINAFYGI--NQEHETMAEIAEDMDVK 224 Query: 653 RERIRQIEAKAIRKLKHPSRSK 674 RER+RQI KA+RKL+ R+K Sbjct: 225 RERVRQIREKAVRKLRKAYRNK 246 >gi|323701302|ref|ZP_08112977.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323533904|gb|EGB23768.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 257 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 81/245 (33%), Positives = 130/245 (53%), Gaps = 13/245 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S+ R + +++G EA + +++ NLRLV+SV +++TNRG DL Q G IGLMKA Sbjct: 22 SQMRTLFEAMQQGNKEA---RNQLINGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGLMKA 78 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + NK Sbjct: 79 IDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQVRDSLVNKFS 137 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REP+ EIA +L MP E + L +EPISL PI + GD I + +S + Sbjct: 138 REPSINEIAGELKMPREEIVFALDAIQEPISLFEPIYHDG----GDPIFVMDQISDEKNM 193 Query: 605 IQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L + R L L+ RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 194 DLSWLEGISIRDALRRLSDREKHILTLRFFEG----KTQMEVADEIGISQAQVSRLEKAA 249 Query: 664 IRKLK 668 + ++ Sbjct: 250 LNHMR 254 >gi|312134672|ref|YP_004002010.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774723|gb|ADQ04210.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 255 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 127/228 (55%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + NK +REPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINKNQREPTLEEIAKELSITKEEL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL P+ + DT ++ + + D+ + L E + + L+ L Sbjct: 155 VFALDSIQEPISLYEPVFQDSSDTMYVVEKLCDQKSCE------NVWLEEISLKDALSKL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L +R+ G T EV + +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLRYYKG----KTQMEVARIVGISQAQVSRIEKSAIGHIK 252 >gi|323699411|ref|ZP_08111323.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. ND132] gi|323459343|gb|EGB15208.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans ND132] Length = 375 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 133/236 (56%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQF-LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++V ++LRLV+ +A + R +Q LDLIQEGN+GL+KA KFD G KFS YA + Sbjct: 128 AAFKLVSSHLRLVVKIAMDFQRRWMQNGLDLIQEGNVGLLKAVTKFDPEKGIKFSYYAAF 187 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I + K+ + R+ + +P+ E ++++L + Sbjct: 188 WIKAYILKYIMDNWRMVKIGTTQTQRKLFYNLNKERQRLQTLGFDPSTEALSERLGVSEA 247 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDF-------IEDKNAVSPLDSAIQANLRETT 613 + ++ +++K +SL TP+GD+ + DF +E+ A + + N+RE Sbjct: 248 EIDEMDQRLSKNDMSLNTPLGDDSDTTRMDFLPSLAPGVEESIANDQIVDLLLNNIRE-- 305 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ASL +E +L R ++ D TL E+G++F VTRER+RQIEA+ + K++ Sbjct: 306 --IRASLNDKEVAILDRRL---LSDDPVTLREIGEEFGVTRERVRQIEARLMAKIR 356 >gi|253576139|ref|ZP_04853471.1| RNA polymerase sigma-G factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251844482|gb|EES72498.1| RNA polymerase sigma-G factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 260 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 145/272 (53%), Gaps = 22/272 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + +++ + A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLTNAEMRELFHSLQQDHVRS--AREKLVNGNLRLVLSVIQRFNN 60 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 61 RGEYVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 119 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++N+ REPT EI++ L +P E V L ++P+SL PI G Sbjct: 120 RDIAYKALQMRDNLTNQNSREPTIFEISEALGLPKEDVVFALDAIQDPVSLFEPIYHDGG 179 Query: 583 EDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + + +DKN VS ++ + LRE R L RE+ +L MRF G T Sbjct: 180 DPIYVMDQISDDKNKDVSWIE---EIALREAMQR----LGNREKMILSMRFFEG----KT 228 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EV + +++ ++ ++E AI +++ +S Sbjct: 229 QMEVADEIGISQAQVSRLEKSAILQMQKHVKS 260 >gi|257438785|ref|ZP_05614540.1| RNA polymerase sigma-G factor [Faecalibacterium prausnitzii A2-165] gi|257198753|gb|EEU97037.1| RNA polymerase sigma-G factor [Faecalibacterium prausnitzii A2-165] Length = 254 Score = 112 bits (281), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 69/224 (30%), Positives = 124/224 (55%), Gaps = 13/224 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 M+E NLRLV+SV +++ RG DL Q G IGL+KA + FD +FSTY + + Sbjct: 41 MIEGNLRLVLSVVQRFAQRGENLDDLFQVGCIGLIKAIDNFDPAQPVRFSTYGVPMIIGE 100 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R + D + +R+ +RD +K ++ + ++ REPT +E+A++ + V L Sbjct: 101 IRRFLRDNNA-LRVSRSLRDAAYKAMQAREALEKQLGREPTVDEVARQAGLSRREVNAAL 159 Query: 568 KITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + EPISLE P+ + D ++ D + D ++ S ++ R+T +A LTPRE+ Sbjct: 160 ESVVEPISLEEPLYTDGGDAMYVIDQVRDPDSEDSWISGLE--FRQT----VAGLTPREK 213 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R++ +R+ G T EV ++ +++ ++ ++E A+ + +H Sbjct: 214 RIMELRYLKG----ETQMEVAREIGISQAQVSRLEKAALEQFRH 253 >gi|159795060|pdb|2P7V|B Chain B, Crystal Structure Of The Escherichia Coli Regulator Of Sigma 70, Rsd, In Complex With Sigma 70 Domain 4 Length = 68 Score = 112 bits (280), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 55/66 (83%), Positives = 60/66 (90%) Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VLA LT RE +VLRMRFGI MNTD+TLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ Sbjct: 2 VLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 61 Query: 676 LRSFLD 681 LRSFLD Sbjct: 62 LRSFLD 67 >gi|153811113|ref|ZP_01963781.1| hypothetical protein RUMOBE_01504 [Ruminococcus obeum ATCC 29174] gi|149833001|gb|EDM88084.1| hypothetical protein RUMOBE_01504 [Ruminococcus obeum ATCC 29174] Length = 259 Score = 112 bits (280), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 81/243 (33%), Positives = 133/243 (54%), Gaps = 17/243 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ EA +++ ++ NLRLV+SV K++ N DL Q G IGLMKA + FD L Sbjct: 31 IKKGDSEA---REQYIKGNLRLVLSVIKRFQNSNENADDLFQIGCIGLMKAVDNFDDTLN 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D + +IR+ +RD +K + T M K +EPT +EIA Sbjct: 88 VKFSTYAVPMIIGEIRRYLRDYN-SIRVSRSLRDIAYKAIYTKENMIKKNLKEPTIDEIA 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLR 610 ++ + E + L + P+SL P+ E DT ++ D I D+ + D ++ +LR Sbjct: 147 DEIGIEKEMIVYALDAIQSPVSLFEPVYSEGGDTLYVMDQISDQK--NKEDHWLENLSLR 204 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E R L RE+ ++ MRF G T EV + +++ ++ ++E A++ +K+ Sbjct: 205 EAMNR----LNQREKHIIEMRFYEG----RTQMEVADEIGISQAQVSRLEKNALKTMKNY 256 Query: 671 SRS 673 RS Sbjct: 257 LRS 259 >gi|312622917|ref|YP_004024530.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203384|gb|ADQ46711.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 255 Score = 112 bits (279), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 127/228 (55%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + NK ++EPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINKNQKEPTLEEIAKELSITKEDL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL P+ + DT ++ + + D + + L E + + L+ L Sbjct: 155 VFALDSIQEPISLYEPVFQDSTDTMYVVERLCDHKSCESV------WLEEISLKDALSKL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L +R+ G T EV K +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLRYYKG----KTQMEVAKIVGISQAQVSRIEKSAIGHIK 252 >gi|121488757|emb|CAJ18263.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 163 Score = 112 bits (279), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 55/163 (33%), Positives = 97/163 (59%), Gaps = 1/163 (0%) Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EGN+GL+KAA++FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ + Sbjct: 1 EGNLGLIKAAKRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKA 60 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK 595 ++ + +R+P E+A L M + V LKI +S++ P D + L D +++ Sbjct: 61 YSQLEQEFERDPNTRELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQND 120 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 + P + +L R L+ L PRE V+R FGIGM+ Sbjct: 121 GHL-PDHGLNKDSLTLEVERSLSVLAPREADVIRSYFGIGMDN 162 >gi|223975681|gb|ACN32028.1| unknown [Zea mays] Length = 565 Score = 112 bits (279), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 126/240 (52%), Gaps = 6/240 (2%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +VS ++ G C + ++ LV +A+ YT G DL+Q G +G++ AEKFD Sbjct: 318 LVSRLQAGYC----CRDRLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFD 373 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G +FSTY +W+++ + +A+ S +P M + KV R + + R P+ Sbjct: 374 SRKGCRFSTYVKYWIRKGMLALLAENSGVTLLPARMESIMRKVKEARRGIRYRQGRNPSD 433 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QAN 608 E+A + + V VR K ++ +SL + + + I D++A SP ++A+ + Sbjct: 434 SEVAAAVGVSVANVRLARKCSRRAVSLYSEVAIGQDVKFAEVIPDESA-SPDEAALFRGQ 492 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE VL L RE RVLR+R G+ +LEE+G + V++E IR+IE A+ +L+ Sbjct: 493 LRERLLLVLGRLPAREGRVLRLRHGLEDGRCRSLEEIGGIYGVSKEWIRKIEKSAMARLR 552 >gi|302871380|ref|YP_003840016.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574239|gb|ADL42030.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 255 Score = 112 bits (279), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/228 (34%), Positives = 126/228 (55%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + NK REPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINKNHREPTLEEIAKELSITKEEL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL P+ + DT ++ + + D+ + L E + + L+ L Sbjct: 155 VFALDSIQEPISLYEPVFQDSSDTMYVVEKLCDQKSCE------NVWLEEISLKDALSKL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L +R+ G T EV + +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLRYYKG----KTQMEVARIVGISQAQVSRIEKSAIGHIK 252 >gi|325289982|ref|YP_004266163.1| RNA polymerase, sigma subunit, RpoX/SigF [Syntrophobotulus glycolicus DSM 8271] gi|324965383|gb|ADY56162.1| RNA polymerase, sigma subunit, RpoX/SigF [Syntrophobotulus glycolicus DSM 8271] Length = 257 Score = 112 bits (279), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 132/240 (55%), Gaps = 10/240 (4%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + ++ K + A+++++ NL+L+ ++ +++T+RG + DL Q G IGL+KA +KFD Sbjct: 21 MTELLHKAQAGDHDAREQLINCNLKLIFNLIQRFTHRGYELEDLFQIGTIGLIKAIDKFD 80 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + G KFSTYA+ + I R + D I++P ++ ++K+ R+ ++S ++ REPT Sbjct: 81 FSYGVKFSTYAVPMIIGEIRRFLRDDH-PIKVPRSYKELVYKIHRSREKLSLELNREPTV 139 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EIA+ L + E + L + P S+ + +D+ + +I D+ V + A Sbjct: 140 NEIAQDLNVGSEEIVTALDAVQSPTSINDTLYQDDSDPI--YILDQIPVE--KDLVPAWF 195 Query: 610 RETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + VL L RE++VL MRF D T E+ K+ +++ +I +IE A+ LK Sbjct: 196 EEVALKDVLNKLPEREKQVLVMRF----YEDKTQSEIAKRLNLSQVQISRIERAALLHLK 251 >gi|312111757|ref|YP_003990073.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y4.1MC1] gi|311216858|gb|ADP75462.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y4.1MC1] Length = 271 Score = 112 bits (279), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 141/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 15 RNKVEICGVDTSKLPVLKNEEMRELFKRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 71 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 72 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 130 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT EEIA L +P E V L ++P+SL PI ++ Sbjct: 131 RDIAYKALQVREKLMGEAAKEPTTEEIANVLGIPHEEVVFALDAIQDPVSLFEPIYNDGG 190 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D +N S I L+E R L RE+ ++R RF G Sbjct: 191 DPIYVMDQLSDERNGDSQWIEEIA--LKEGLCR----LNEREKMIIRKRFFQGKTQMEVA 244 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AIR++ Sbjct: 245 EEIG----ISQAQVSRLEKAAIRQM 265 >gi|295399724|ref|ZP_06809705.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|294978127|gb|EFG53724.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] Length = 271 Score = 111 bits (278), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/263 (31%), Positives = 138/263 (52%), Gaps = 17/263 (6%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 15 RNKVEICGVDTSKLPVLKNEEMRELFKRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 71 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 72 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 130 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 RD +K ++ ++ + +EPT EEIA L +P E V L ++P+SL PI ++ Sbjct: 131 RDIAYKALQVREKLMGEAAKEPTTEEIANVLGIPHEEVVFALDAIQDPVSLFEPIYNDG- 189 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEE 644 GD I + +S S + E + L L RE+ ++R RF G EE Sbjct: 190 ---GDPIYVMDQLSDERSGDNQWIEEIALKEGLCRLNEREKMIIRKRFFQGKTQMEVAEE 246 Query: 645 VGKQFCVTRERIRQIEAKAIRKL 667 +G +++ ++ ++E AIR++ Sbjct: 247 IG----ISQAQVSRLEKAAIRQM 265 >gi|162463525|ref|NP_001105185.1| sigma factor protein [Zea mays] gi|20159761|gb|AAM12034.1| sigma factor protein [Zea mays] Length = 568 Score = 111 bits (278), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 126/240 (52%), Gaps = 6/240 (2%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +VS ++ G C + ++ LV +A+ YT G DL+Q G +G++ AEKFD Sbjct: 321 LVSRLQAGYC----CRDRLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFD 376 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G +FSTY +W+++ + +A+ S +P M + KV R + + R P+ Sbjct: 377 SRKGCRFSTYVKYWIRKGMLALLAENSGVTLLPARMESIMRKVKEARRGIRYRQGRNPSD 436 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QAN 608 E+A + + V VR K ++ +SL + + + I D++A SP ++A+ + Sbjct: 437 SEVAAAVGVSVANVRLARKCSRRAVSLYSEVAIGQDVKFAEVIPDESA-SPDEAALFRGQ 495 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LRE VL L RE RVLR+R G+ +LEE+G + V++E IR+IE A+ +L+ Sbjct: 496 LRERLLLVLGRLPAREGRVLRLRHGLEDGRCRSLEEIGGIYGVSKEWIRKIEKSAMARLR 555 >gi|15615117|ref|NP_243420.1| sporulation sigma factor SigG [Bacillus halodurans C-125] gi|10175174|dbj|BAB06273.1| RNA polymerase sporulation forespore-specific (late) sigma-G factor [Bacillus halodurans C-125] Length = 261 Score = 111 bits (278), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 87/274 (31%), Positives = 149/274 (54%), Gaps = 25/274 (9%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + ++ G+ A ++ +V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNQEMRELFARLQSGDTSA---RETLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKR--EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 RD +K ++ ++ + +R EPT +EIAK+L +P E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRDQLMGEKQREKEPTVQEIAKELGVPKEDVVFALDAIQDPVSLFEPIYND 178 Query: 584 --DTSHLGDFI-EDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 D ++ D I +D+N V +D + L+E R L RE+ +L MRF G Sbjct: 179 GGDPIYVMDQISDDRNKDVQWVD---EIALKEAMVR----LNDREKLILNMRFYQGKTQM 231 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EE+G +++ ++ ++E AI+++ ++S Sbjct: 232 EVAEEIG----ISQAQVSRLEKAAIQQMSKHAQS 261 >gi|153004710|ref|YP_001379035.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter sp. Fw109-5] gi|152028283|gb|ABS26051.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter sp. Fw109-5] Length = 307 Score = 111 bits (278), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 80/238 (33%), Positives = 122/238 (51%), Gaps = 14/238 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ANLR V+ V+ +Y + G + DLIQEGNIGLMKA +KFD G + +YA+WW Sbjct: 46 AAHRLVTANLRFVVKVSYEYRSYGFKMADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWW 105 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTAR---RMSNKIKREPTPEE---IAKK 555 ++ I I +++ R + RT R +MS + R+ ++ IAKK Sbjct: 106 IRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTKRELDKMSVEHGRDSDAQDKGKIAKK 165 Query: 556 LAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRE 611 L + P E ++ +SL+ P+GD+ DF+ K+A D+ Q + Sbjct: 166 LRVKPAEVEEMEQRMDGRDLSLDAPMGDDGGYSHIDFVAAKSAAQDDELSDAEEQQIVSA 225 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 T LA L RE ++ R + + TL+E+G+ F +RER RQ+E +A KLK Sbjct: 226 KVTAALARLDQRERYIIEQR--VMSDRPLTLKELGEHFGFSRERARQLEIRAKEKLKQ 281 >gi|312128104|ref|YP_003992978.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778123|gb|ADQ07609.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 255 Score = 111 bits (278), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 125/226 (55%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + NK REPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINKNHREPTLEEIAKELSITKEEL 154 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EPISL P+ + T + ++ +K + S L E + + L+ LT Sbjct: 155 VFALDSIQEPISLYEPVFQDSTDTM--YVVEK--LCDHKSCENVWLEEISLKDALSKLTK 210 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +R+ G T EV + +++ ++ +IE AI +K Sbjct: 211 REKEILYLRYYKG----KTQMEVARIVGISQAQVSRIEKSAIGHIK 252 >gi|331269711|ref|YP_004396203.1| FliA/WhiG family RNA polymerase sigma 28 subunit [Clostridium botulinum BKT015925] gi|329126261|gb|AEB76206.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium botulinum BKT015925] Length = 242 Score = 111 bits (278), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 135/246 (54%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +R G+ ++++ + NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 8 EMKELLIKMRDGDY---FSREKFIRGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAI 64 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ R+ NK + Sbjct: 65 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDRLINKDNK 123 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 +P +IAK+L +P E V L ++P+SL PI + D ++ D I D +V DS Sbjct: 124 DPNVSQIAKELELPREEVVFALDAIQDPVSLFEPIYHDGGDALYVMDQISDNKSVD--DS 181 Query: 604 AIQ-ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 I+ +++E R L RE+ +L MRF G T EV + +++ ++ ++E Sbjct: 182 WIENISIKEAMKR----LNEREKLILNMRFFQG----RTQMEVADEIGISQAQVSRLEKT 233 Query: 663 AIRKLK 668 A++ ++ Sbjct: 234 ALKHMR 239 >gi|308173495|ref|YP_003920200.1| RNA polymerase sporulation-specific sigma factor sigma-G [Bacillus amyloliquefaciens DSM 7] gi|307606359|emb|CBI42730.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus amyloliquefaciens DSM 7] gi|328553575|gb|AEB24067.1| sporulation sigma factor SigG [Bacillus amyloliquefaciens TA208] gi|328911632|gb|AEB63228.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus amyloliquefaciens LL3] Length = 260 Score = 111 bits (277), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 126/229 (55%), Gaps = 18/229 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ REPT EEIAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSREPTAEEIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRVLA 618 L ++P+SL PI ++ D ++ D I D K+ + A++ +R Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDTQWIEELALKEGMRR------- 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 211 -LNEREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|154685949|ref|YP_001421110.1| sporulation sigma factor SigG [Bacillus amyloliquefaciens FZB42] gi|154351800|gb|ABS73879.1| SigG [Bacillus amyloliquefaciens FZB42] Length = 260 Score = 111 bits (277), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 77/229 (33%), Positives = 126/229 (55%), Gaps = 18/229 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ REPT EEIAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSREPTAEEIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRVLA 618 L ++P+SL PI ++ D ++ D I D K+ + A++ +R Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDTQWIEELALKEGMRR------- 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 211 -LNEREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|323452445|gb|EGB08319.1| hypothetical protein AURANDRAFT_5759 [Aureococcus anophagefferens] Length = 239 Score = 111 bits (277), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 125/246 (50%), Gaps = 15/246 (6%) Query: 444 AKKEMVEANLRLVISVAKKY----TNRGLQFLD-LIQEGNIGLMKAAEKFDWCLGYKFST 498 AK +V AN LV+S+A+ Y T G++ LD L+QEG +GL++A EK++ G +F T Sbjct: 1 AKHALVRANGGLVVSIARGYQRLRTGAGVEALDDLVQEGTLGLIRAVEKYEPERGIRFGT 60 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA W+K +I+ + I++P + D + R++ + N + R+ T EE+A+ L Sbjct: 61 YATAWIKASISAWLKRGDAMIKVPSRVADLGLRAARSSSALQNDLGRDATAEEVARDLGA 120 Query: 559 PVEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 V +S + G + S+ + D+ D A+ +L+ T Sbjct: 121 STAAVEAAASALHGSRVVSYDASAGGDSESNFVACLADE------DCAV-GDLKADLTNA 173 Query: 617 LAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 LA+ L RE RV+R+R+G+ T + E + +E +RQI KA RKL+ ++ Sbjct: 174 LAAVLDDRELRVVRLRYGLDDGTQRSTRECAAALGIGKESVRQICLKAFRKLRGTAQGSA 233 Query: 676 LRSFLD 681 L S +D Sbjct: 234 LLSHMD 239 >gi|150390630|ref|YP_001320679.1| sporulation sigma factor SigG [Alkaliphilus metalliredigens QYMF] gi|149950492|gb|ABR49020.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 257 Score = 111 bits (277), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 134/244 (54%), Gaps = 17/244 (6%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 RH+ ++++G+ A ++E ++ NLRLV+SV +++ NRG DL Q G IGL+KA + Sbjct: 25 RHLFGLIKQGDNSA---REEFIQGNLRLVLSVIQRFNNRGEHVDDLFQVGCIGLIKAIDN 81 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD +FSTYA+ + I R + D + +IR+ +RD +K ++ +++N+ +EP Sbjct: 82 FDLRHNVRFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDTAYKALQVRDQLTNQKSKEP 140 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAI 605 + EIA L +P E V L ++P+SL PI + D + D I D+ S ++ I Sbjct: 141 SVAEIAANLNIPREDVVFALDAIQDPVSLFEPIYHDSGDAIFVMDQIRDEK--SEDETWI 198 Query: 606 QA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 LRE R L RE+ +L +RF G T EV + +++ ++ ++E A+ Sbjct: 199 DGIALREAMRR----LNNREKHILNLRFFEG----RTQMEVADEIGISQAQVSRLEKTAL 250 Query: 665 RKLK 668 + ++ Sbjct: 251 KHMR 254 >gi|224531828|ref|ZP_03672460.1| RNA polymerase sigma factor [Borrelia valaisiana VS116] gi|224511293|gb|EEF81699.1| RNA polymerase sigma factor [Borrelia valaisiana VS116] Length = 266 Score = 111 bits (277), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 74/258 (28%), Positives = 143/258 (55%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIKLAGQIQRGSAQA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQ-ANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + L+ + L +E +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTLKHLNYVLETKLNEKERYIIKKRYNLDNSPKKSTLKDISMELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|225175484|ref|ZP_03729478.1| RNA polymerase, sigma 28 subunit, SigG [Dethiobacter alkaliphilus AHT 1] gi|225168813|gb|EEG77613.1| RNA polymerase, sigma 28 subunit, SigG [Dethiobacter alkaliphilus AHT 1] Length = 277 Score = 111 bits (277), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 78/246 (31%), Positives = 129/246 (52%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R + + +R+G+ A++++V NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 42 EMRRLFARLREGD---ESAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAI 98 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + IR+ +RD +KV++ ++N+ R Sbjct: 99 DNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKVLQVRDSLANRFAR 157 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLD 602 EPT EIAK+L + E + L +EP+SL PI G + + +DKN + Sbjct: 158 EPTISEIAKELNLKREDIVFALDAIQEPVSLFEPIYHDGGDPIFVMDQISDDKNHDNKWL 217 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + N L L RE+ +L +RF G +E+G +++ ++ ++E Sbjct: 218 EVLAIN------EALHKLNEREKLILTLRFYRGKTQMEVADEIG----ISQAQVSRLEKA 267 Query: 663 AIRKLK 668 A+ L+ Sbjct: 268 ALSHLR 273 >gi|313115569|ref|ZP_07801028.1| RNA polymerase sigma-G factor [Faecalibacterium cf. prausnitzii KLE1255] gi|310622084|gb|EFQ05580.1| RNA polymerase sigma-G factor [Faecalibacterium cf. prausnitzii KLE1255] Length = 255 Score = 110 bits (276), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 125/226 (55%), Gaps = 13/226 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++MVE NLRLV+SV +++ RG DL Q G IGL+KA + FD +FSTY + + Sbjct: 38 REQMVEGNLRLVLSVVQRFAQRGENLDDLFQVGCIGLIKAIDHFDPAQPVRFSTYGVPMI 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R + D + +R+ +RD ++ +++ + ++ REPT +EIA+ + V Sbjct: 98 IGEIRRFLRDNNA-LRVSRSLRDTAYRAMQSREALEKQLGREPTMDEIAQAAGLARREVT 156 Query: 565 KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L+ EPISLE P+ + D ++ D + D + S +Q R+T +A LTP Sbjct: 157 AALESVVEPISLEEPVYTDGGDAMYVIDQVRDPDGEDSWISGLQ--FRQT----VAGLTP 210 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+R++ +R+ G T EV ++ +++ ++ ++E A+ + + Sbjct: 211 REKRIMELRYLQG----KTQMEVAREIGISQAQVSRLEKGALSQFR 252 >gi|15595116|ref|NP_212905.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi B31] gi|195941591|ref|ZP_03086973.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 80a] gi|216264706|ref|ZP_03436698.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 156a] gi|218249170|ref|YP_002375269.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi ZS7] gi|221217974|ref|ZP_03589441.1| RNA polymerase sigma factor [Borrelia burgdorferi 72a] gi|223889406|ref|ZP_03623992.1| RNA polymerase sigma factor [Borrelia burgdorferi 64b] gi|224532620|ref|ZP_03673242.1| RNA polymerase sigma factor [Borrelia burgdorferi WI91-23] gi|225548870|ref|ZP_03769847.1| RNA polymerase sigma factor [Borrelia burgdorferi 94a] gi|225550031|ref|ZP_03770992.1| RNA polymerase sigma factor [Borrelia burgdorferi 118a] gi|225551867|ref|ZP_03772810.1| RNA polymerase sigma factor [Borrelia sp. SV1] gi|226320640|ref|ZP_03796199.1| RNA polymerase sigma factor [Borrelia burgdorferi 29805] gi|226321470|ref|ZP_03796997.1| RNA polymerase sigma factor [Borrelia burgdorferi Bol26] gi|2688700|gb|AAC67109.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi B31] gi|215981179|gb|EEC21986.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi 156a] gi|218164358|gb|ACK74419.1| RNA polymerase sigma factor (rpoS) [Borrelia burgdorferi ZS7] gi|221192280|gb|EEE18500.1| RNA polymerase sigma factor [Borrelia burgdorferi 72a] gi|223885092|gb|EEF56196.1| RNA polymerase sigma factor [Borrelia burgdorferi 64b] gi|224512476|gb|EEF82855.1| RNA polymerase sigma factor [Borrelia burgdorferi WI91-23] gi|225369490|gb|EEG98942.1| RNA polymerase sigma factor [Borrelia burgdorferi 118a] gi|225370473|gb|EEG99909.1| RNA polymerase sigma factor [Borrelia burgdorferi 94a] gi|225371662|gb|EEH01089.1| RNA polymerase sigma factor [Borrelia sp. SV1] gi|226233266|gb|EEH32018.1| RNA polymerase sigma factor [Borrelia burgdorferi Bol26] gi|226233963|gb|EEH32685.1| RNA polymerase sigma factor [Borrelia burgdorferi 29805] gi|312148432|gb|ADQ31091.1| RNA polymerase sigma factor [Borrelia burgdorferi JD1] gi|312149704|gb|ADQ29775.1| RNA polymerase sigma factor [Borrelia burgdorferi N40] Length = 266 Score = 110 bits (276), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 74/258 (28%), Positives = 143/258 (55%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIKLAGQIQRGNAKA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQ-ANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + L+ + L +E +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTLKHLNYILETKLNEKERYIIKKRYNLDNSPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|317129288|ref|YP_004095570.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus cellulosilyticus DSM 2522] gi|315474236|gb|ADU30839.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus cellulosilyticus DSM 2522] Length = 261 Score = 110 bits (276), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 88/269 (32%), Positives = 142/269 (52%), Gaps = 22/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ G+ A++E+V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNKEMRVLFEKMQNGD---EFAREELVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 RD +K ++ M N+ K REPT +EIAK L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRDNMMNEKKREREPTVQEIAKVLDVPKEDIVFALDAIQDPVSLFEPIYND 178 Query: 584 --DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D ++ D I D + + L+E R L RE+ +L MRF G T Sbjct: 179 GGDPIYVMDQISDDKQ-KDIQWIEEIALKEAMIR----LNDREKMILDMRFFQG----KT 229 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI+++ KH Sbjct: 230 QMEVADEIGISQAQVSRLEKAAIQQMNKH 258 >gi|295696452|ref|YP_003589690.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295412054|gb|ADG06546.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 261 Score = 110 bits (276), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 141/265 (53%), Gaps = 19/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V T ++ +E R + + + G+ A ++ ++ NLRLV+SV +++ N Sbjct: 3 RNKVEISGVNTSQLPVLTNAEMRKLFAEFQAGDLSA---RERLIHGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGENVDDLFQVGCIGLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +++N+ REPT EI+++L +P E V L ++P+SL PI + Sbjct: 119 RDIAYKALQVRDQLTNERLREPTITEISEQLNLPKEDVVFALDAIQDPVSLFEPIYHDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ D I D L + LRE + L RE+++L MRF G E Sbjct: 179 DPIYVMDQIRDDRNQDVL-WVEEIALREAMNK----LGQREQKILAMRFFEGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+G +++ ++ ++E AI+ ++ Sbjct: 234 EIG----ISQAQVSRLEKSAIQHMQ 254 >gi|239826533|ref|YP_002949157.1| sporulation sigma factor SigG [Geobacillus sp. WCH70] gi|239806826|gb|ACS23891.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. WCH70] Length = 259 Score = 110 bits (276), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 143/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRELFKRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ ++ +EP+ EEIAK L +P E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLMSETAKEPSAEEIAKVLGIPHEEVVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D +N S I L+E R L RE+ ++R RF G Sbjct: 179 DPIYVMDQLSDERNRDSQWIEEIA--LKEGMRR----LNEREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AIR++ Sbjct: 233 EEIG----ISQAQVSRLEKAAIRQM 253 >gi|311029938|ref|ZP_07708028.1| sporulation sigma factor SigG [Bacillus sp. m3-13] Length = 259 Score = 110 bits (276), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 84/264 (31%), Positives = 141/264 (53%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRKLFREMQGGELSA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ ++ REPT EEIAK L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRERLMSETSREPTAEEIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ D I D+ + + L+E R L RE+ +LR RF G + Sbjct: 179 DPIYVLDQISDEKN-KDIQWIEEIALKEGMRR----LNDREKLILRKRFFQGKTQMEVAD 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKAAIKQM 253 >gi|261880927|ref|ZP_06007354.1| RNA polymerase sigma factor rpoD [Prevotella bergensis DSM 17361] gi|270332314|gb|EFA43100.1| RNA polymerase sigma factor rpoD [Prevotella bergensis DSM 17361] Length = 243 Score = 110 bits (276), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 138/279 (49%), Gaps = 43/279 (15%) Query: 402 EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAK 461 E DSI + N+I ++ +S E + ++ G+ +A +E+ ANL VI++A Sbjct: 6 EKDSINRYLNDIGHHNL---LSNEEELQLADRIQAGDSQAI---EELTSANLTYVITLAN 59 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 +Y RGL DLI EGNIG+++AA KF G +F +A +++ A+ ++I Q+ R+ Sbjct: 60 QYVKRGLALEDLISEGNIGMLQAATKFSRDAGKRFVAFAAPYIRDAMEQAIEQQAGLYRV 119 Query: 522 PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG 581 P R A +NK++++ + + +S++ P+ Sbjct: 120 P-----------RNAD--NNKLEKKRS-----------------------KALSIDEPLC 143 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 LG I D+NA P + + L T ++A L RE++V+R +GIG T Sbjct: 144 GSHELSLGHVIPDRNATVPDEDLEKDMLLGELTELIADLDQREQQVIRALYGIGTEA-KT 202 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + E G + RER+RQI KAIRK+ ++S L+ +L Sbjct: 203 MLETGMAMGLKRERVRQIRNKAIRKICRLTKSSDLKDYL 241 >gi|160943880|ref|ZP_02091110.1| hypothetical protein FAEPRAM212_01380 [Faecalibacterium prausnitzii M21/2] gi|158444556|gb|EDP21560.1| hypothetical protein FAEPRAM212_01380 [Faecalibacterium prausnitzii M21/2] gi|295104729|emb|CBL02273.1| RNA polymerase, sigma subunit, RpsG/SigG [Faecalibacterium prausnitzii SL3/3] Length = 255 Score = 110 bits (276), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 75/263 (28%), Positives = 142/263 (53%), Gaps = 20/263 (7%) Query: 411 NEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N+++ V TG ++ +E R ++++ G+ A+ MVE NLRLV+SV +++ R Sbjct: 3 NKVELCGVNTGQLPVLTEAEKRQLLTLAHAGD---KAARARMVEGNLRLVLSVVQRFAQR 59 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G DL Q G IGL+KA + FD +FSTY + + I R + D + +R+ +R Sbjct: 60 GENLDDLFQVGCIGLIKAIDNFDPAQPVRFSTYGVPMIIGEIRRFLRDNNA-LRVSRTLR 118 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--D 584 D ++ ++ + ++ REPT +EIA + V L+ EP+SL+ P+ + D Sbjct: 119 DTAYRAMQARETLEKQLGREPTMDEIAAAAGLARREVTAALESVVEPLSLDEPVYTDGGD 178 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 ++ D + D ++ S +Q R+T +A+L+PRE+R++ +R+ G T E Sbjct: 179 AMYVIDQVRDPDSEESWISGLQ--FRDT----VAALSPREKRIMELRYLRG----KTQME 228 Query: 645 VGKQFCVTRERIRQIEAKAIRKL 667 V ++ +++ ++ ++E A+++ Sbjct: 229 VAQEIGISQAQVSRLEKGALQQF 251 >gi|293376228|ref|ZP_06622471.1| RNA polymerase sigma-G factor [Turicibacter sanguinis PC909] gi|325845152|ref|ZP_08168461.1| RNA polymerase sigma-G factor [Turicibacter sp. HGF1] gi|292645120|gb|EFF63187.1| RNA polymerase sigma-G factor [Turicibacter sanguinis PC909] gi|325488817|gb|EGC91217.1| RNA polymerase sigma-G factor [Turicibacter sp. HGF1] Length = 259 Score = 110 bits (275), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 79/271 (29%), Positives = 155/271 (57%), Gaps = 21/271 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 ++++ + V+T +S +E + + G EA ++ +++ NLRLV+S+ KK+ + Sbjct: 3 KHKVDIVGVDTAKLEVLSNAEMTELFKSFQNGNVEA---RESLIKGNLRLVLSIIKKFNH 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G +GLMKA + FD KFSTYA+ + I R + D + ++R+ + Sbjct: 60 RGENLDDLFQVGCLGLMKAIDHFDLSHEVKFSTYAVPMIIGEIRRYLRDNN-SLRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVEGVRKVLKITKEPISLETPIGDE- 583 RD +KV++ ++S +++R+PT EEIA + + P++ V V I+ +P+S+ +PI ++ Sbjct: 119 RDTAYKVLQVKDQLSIELQRDPTNEEIAAAIGVEPIDVVLSVEAIS-DPVSIFSPIYNDG 177 Query: 584 -DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 DT HL D I+D ++++ +++ L E R L RE+R++ R+ +G T Sbjct: 178 GDTIHLIDQIKD-DSITDDKWSVKLMLEEGFKR----LGKREKRIIHDRYFMG----KTQ 228 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 E+ + +++ ++ ++E A++ ++ +S Sbjct: 229 MEIAAEIGISQAQVSRLEKNALQVMEEMMKS 259 >gi|158522485|ref|YP_001530355.1| RNA polymerase sigma 70 family subunit [Desulfococcus oleovorans Hxd3] gi|158511311|gb|ABW68278.1| putative RNA polymerase, sigma 70 family subunit [Desulfococcus oleovorans Hxd3] Length = 321 Score = 110 bits (275), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 127/238 (53%), Gaps = 29/238 (12%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 + +NLRLV+ +A ++ +Q LDLIQEGNIGLM A +KFD KFS YA +W+K Sbjct: 78 LATSNLRLVVKIALEFQRVWMQNLLDLIQEGNIGLMHAVQKFDPYKNVKFSYYASFWIKA 137 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----------EPTPEEIAKKL 556 I + + D ++I + R++ ++K+ EP P+ +A++L Sbjct: 138 YILKFVMDNWRLVKI---------GTTQNQRKLFFRLKKEKQALIDQGFEPRPKLLAERL 188 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL-----DSAIQANLR 610 +P + V + ++ +SL+ P+ + + GD + D N P+ D A++ + Sbjct: 189 GVPQKEVINMEQRLDMWDLSLDEPVSHDSDTQKGDLL-DINNTQPVDEQVGDKALRQLVG 247 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E +LTPRE + + R I + TL+++G+++ ++RER+RQ+E I+K++ Sbjct: 248 EHLVEFKKTLTPRERDIFKTR--IYTDQPMTLQDIGERYAISRERVRQLEVNIIKKMR 303 >gi|258404985|ref|YP_003197727.1| putative RNA polymerase, sigma 70 family subunit [Desulfohalobium retbaense DSM 5692] gi|257797212|gb|ACV68149.1| putative RNA polymerase, sigma 70 family subunit [Desulfohalobium retbaense DSM 5692] Length = 350 Score = 110 bits (275), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 132/232 (56%), Gaps = 18/232 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++ ++LRLV+ +A ++ R ++ LDL+QEGN+GLMKA +KFD G KFS YA +W++ Sbjct: 108 LISSHLRLVVKIAMEFQRRWMKNVLDLVQEGNVGLMKAVQKFDPERGIKFSYYASFWIRA 167 Query: 507 AITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I + I D +++ R + + R +R+ + +P +++ L + E V Sbjct: 168 YILKFIMDNWRMVKLGTTQAQRKLFYNLSREKQRLQAQ-GFDPDASTLSENLDVSEESVV 226 Query: 565 KVL-KITKEPISLETPIGDEDTSHLGDF-------IEDKNAVSPLDSAIQANLRETTTRV 616 ++ ++ +SL+ P+G++ +S DF IE+ A + SA LR+ + Sbjct: 227 EMTQRLGGHDLSLDAPLGEDSSSSRMDFLPALGAGIEESLAQQEMGSA----LRQHLQTI 282 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L +E+ +L R + ++ TL E+G+++ +TRER+RQIE++ ++KLK Sbjct: 283 LPKLNDKEKEILEHR--LLTDSPVTLREIGEKYGITRERVRQIESRLLQKLK 332 >gi|294501013|ref|YP_003564713.1| RNA polymerase sigma-G factor [Bacillus megaterium QM B1551] gi|295706362|ref|YP_003599437.1| RNA polymerase sigma-G factor [Bacillus megaterium DSM 319] gi|294350950|gb|ADE71279.1| RNA polymerase sigma-G factor [Bacillus megaterium QM B1551] gi|294804021|gb|ADF41087.1| RNA polymerase sigma-G factor [Bacillus megaterium DSM 319] Length = 259 Score = 110 bits (275), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 81/267 (30%), Positives = 143/267 (53%), Gaps = 25/267 (9%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ G+ A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRKLFKQMQAGD---GTAREKLVSGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ ++ +EPT EEI+K L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRERLMSETSKEPTAEEISKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D ++ D + D +++ + A+Q +R L RE+ +LR RF G Sbjct: 179 DPIYVMDQLSDERNRDSTWIEEIALQEGMRR--------LNEREKLILRKRFFQGKTQME 230 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 231 VAEEIG----ISQAQVSRLEKAAIKQM 253 >gi|262277481|ref|ZP_06055274.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] gi|262224584|gb|EEY75043.1| alternative sigma factor RpoH [alpha proteobacterium HIMB114] Length = 300 Score = 110 bits (275), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 85/250 (34%), Positives = 134/250 (53%), Gaps = 29/250 (11%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ E++ ++V ++LRLV +A Y GL +L+ EGNIGLM A +KFD G++ Sbjct: 47 KGDKESA---HKLVTSHLRLVAKIATGYRGYGLPMSELVSEGNIGLMTAVKKFDPERGFR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE- 550 +TYAMWW+K ++ I ++I K K+ R+M N+I R + PE Sbjct: 104 LATYAMWWIKASMQEYILRSWSLVKIGTTAAQK--KLFFNLRKMKNQIMRSDQTDLLPEQ 161 Query: 551 --EIAKKLAMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 EIA +L + + V + + K P SL I G+E S D++ D+NA D +Q Sbjct: 162 VTEIANRLDVTEDEVNSMDQRMKGPEASLNATISGEEGESEWQDWVVDENA----DQELQ 217 Query: 607 ANLRETTT-------RVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQ 658 R+ T + ++ L RE+ +L F +N + TLEE+ +++ ++RERIRQ Sbjct: 218 IAHRQETNKRKALLDKAMSILNEREKEIL---FDRRLNEEPKTLEELSQKYNISRERIRQ 274 Query: 659 IEAKAIRKLK 668 IE +A KL+ Sbjct: 275 IENRAFEKLQ 284 >gi|169831582|ref|YP_001717564.1| sporulation sigma factor SigG [Candidatus Desulforudis audaxviator MP104C] gi|169638426|gb|ACA59932.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 255 Score = 110 bits (275), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 132/248 (53%), Gaps = 14/248 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ +E R + ++ G+ A + +++ NLRLV+SV +++TNRG DL Q G IGL Sbjct: 18 LTAAEMRQLFQEMQAGDPSA---RSKLINGNLRLVLSVIQRFTNRGEFVDDLFQVGCIGL 74 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ ++N Sbjct: 75 IKAIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQIRDNLAN 133 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REP+ EIA++L +P E + L +EPISL PI H GD I + VS Sbjct: 134 RFSREPSVSEIAQELNIPREEIVFALDSIQEPISLFEPI-----YHDGDPIFVMDQVSDE 188 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 +A L + R + L RE+ +L +RF G EE+G +++ ++ ++E Sbjct: 189 RNADANWLEDIAIRDAIRKLNEREKLILTLRFFEGKTQMEVAEEIG----ISQAQVSRLE 244 Query: 661 AKAIRKLK 668 A+ ++ Sbjct: 245 KAALSHMR 252 >gi|115374575|ref|ZP_01461855.1| sigma-E factor [Stigmatella aurantiaca DW4/3-1] gi|310823765|ref|YP_003956123.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] gi|115368445|gb|EAU67400.1| sigma-E factor [Stigmatella aurantiaca DW4/3-1] gi|309396837|gb|ADO74296.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] Length = 366 Score = 110 bits (275), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 123/231 (53%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V +NLRLV+ +A +Y L LDL+QEGNIGLM+A +K+D G K S+YA WW Sbjct: 120 AAYRLVASNLRLVVKLAHEYHRNPLSLLDLVQEGNIGLMQAVKKYDPERGVKLSSYAAWW 179 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI---KREPTPEEIAKKLAMPV 560 ++ I R I D +++ + K+ R+ +K+ EP P+ +A++L + Sbjct: 180 IRAYILRYIMDNWKMVKL--GTTEAQRKLFFKLRQEQDKLIAQGFEPNPKLLAERLNVTE 237 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + V ++ ++ + +S++ P+GDE + D + +AV + L+E LA Sbjct: 238 QDVVEMDQRLGHDEVSIDAPVGDESRASRADRLLPSSAVGAEERLGNEELKELFREKLAE 297 Query: 620 LTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E R F + D TL+++G ++ V+RER RQIEA I +++ Sbjct: 298 FAQTLEGKERFIFESRLTADEPLTLQDIGDKYGVSRERARQIEAALINRMR 348 >gi|222528794|ref|YP_002572676.1| sporulation sigma factor SigG [Caldicellulosiruptor bescii DSM 6725] gi|222455641|gb|ACM59903.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 255 Score = 110 bits (274), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 77/228 (33%), Positives = 126/228 (55%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + N ++EPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINNNQKEPTLEEIAKELSITKEDL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL P+ + DT ++ + + D + + L E + + L+ L Sbjct: 155 VFALDSIQEPISLYEPVFQDSTDTMYVVERLCDHKSCESV------WLEEISLKDALSKL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L +R+ G T EV K +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLRYYKG----KTQMEVAKIVGISQAQVSRIEKSAIGHIK 252 >gi|323449639|gb|EGB05525.1| hypothetical protein AURANDRAFT_60247 [Aureococcus anophagefferens] Length = 399 Score = 110 bits (274), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 75/263 (28%), Positives = 132/263 (50%), Gaps = 27/263 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ--------------FLDLIQEGNIGLMKAAEKFD 489 A++ M+ +N+RLV+++A++ Q DL+ EG +GL KA ++F+ Sbjct: 137 AREVMMLSNMRLVVAMARRMQRSLPQASRLAVDRDGGSYALDDLVAEGTLGLAKAVDRFE 196 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G++FSTYA WWV+QAI R+I + + +PVH++ K + + ++ R PT Sbjct: 197 PDRGFRFSTYATWWVRQAIQRAI-RRRAVVAVPVHVQQLAKKCENATQELRDEYGRPPTS 255 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE---DTSHLGDFIE--------DKNAV 598 E+A ++ + ++ + SL+ P+ SH+ DF E + + Sbjct: 256 AELAARVGASEKRLKLAGRAALATFSLDVPLSAARGGKGSHVADFAEAATLNEIVESDEP 315 Query: 599 SPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +P ++A LR+ + A+L P E VLR+R G+ T +VG+ T ++IR Sbjct: 316 APEEAATFHELRDAIDYAMHANLQPSERDVLRLRLGLDDGETRTRRQVGEICGQTEKKIR 375 Query: 658 QIEAKAIRKLKHPSRSKKLRSFL 680 IE A+ KL+H +LR ++ Sbjct: 376 AIERAALTKLRHTRDCVQLREYV 398 >gi|315121811|ref|YP_004062300.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313495213|gb|ADR51812.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 300 Score = 110 bits (274), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/238 (32%), Positives = 126/238 (52%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV+ +A Y GL ++I EGNIGLM+A +KFD G++ +TY +WW Sbjct: 49 AVHKLVTSHLRLVVKIAMGYRGYGLPISEVISEGNIGLMQAVKKFDPERGFRLATYGIWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPE---EIAKKL 556 +K AI I ++I K ++ RR+ +++ PE EIA KL Sbjct: 109 IKAAIQEYILRSWSLVKIGTTANQK--RLFFNLRRLKGRLQAVNDTNLKPEQVVEIATKL 166 Query: 557 AMP-VEGVRKVLKITK-EPISLETPIGDEDTSHLGDFI---EDKNAVSPLDSAIQANLRE 611 + E + +++ E +++ D+D+S D + D + +D + N R Sbjct: 167 NVSEAEVISMNCRLSGDESLNVLMNSSDKDSSQWQDLLVYNHDSQEQTLIDKEERKNRRN 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TR +++L PRE R+ R +N + TLE + +F V+RERIRQIEA+A K++ Sbjct: 227 MLTRSMSTLNPRERRIFEAR---RLNENPSTLENLSSEFAVSRERIRQIEARAFEKVQ 281 >gi|213018727|ref|ZP_03334535.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|212995678|gb|EEB56318.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 281 Score = 110 bits (274), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 79/244 (32%), Positives = 134/244 (54%), Gaps = 18/244 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ ++L LV+ +A K+ N GL +DL+ EGN+GLM A +KF+ LG++FSTYA+WW++ + Sbjct: 37 LITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEAS 96 Query: 508 ITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMPVE 561 + I ++I R + + +R+ RE +E I+ +L++ E Sbjct: 97 MKDFILKSWSLVKIGTTQAQRRLFFSLRKIKKRILQYTNRETLSKEEIKAISNELSVSEE 156 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN----LRETT- 613 V ++ L + ++ IGD+ L D I N VS + A Q + L+ET Sbjct: 157 DVVQMSYRLACKDQSLNNCIKIGDDSKKELQDMIPC-NLVSQ-EVAYQNHEEKALKETIL 214 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + LASL R + R+ + NT TL+E+ K++CV+RERIRQ+ +A+ K+K +S Sbjct: 215 SNALASLNERSRDIFISRY-LSENT-QTLDELSKKYCVSRERIRQLAEQAMSKVKQHIKS 272 Query: 674 KKLR 677 + L+ Sbjct: 273 ESLK 276 >gi|224533396|ref|ZP_03673990.1| RNA polymerase sigma factor [Borrelia burgdorferi CA-11.2a] gi|224513561|gb|EEF83918.1| RNA polymerase sigma factor [Borrelia burgdorferi CA-11.2a] Length = 266 Score = 110 bits (274), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 74/258 (28%), Positives = 145/258 (56%), Gaps = 10/258 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +KS+ I+ E + +++G +A K +M+ ANLRLV+ + K+Y +GL+ D Sbjct: 13 LKSVREHKLITHEEEIKLAGQIQRGNAKA---KNKMINANLRLVLKIIKRYAGKGLKIED 69 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LIQEGN+GL++AAEK+D KFSTYA +W+KQ++ R++ ++ +++P + I ++ Sbjct: 70 LIQEGNLGLIRAAEKYDPNKNTKFSTYASFWIKQSLQRALNTKTRLVKVPYRKENLILQI 129 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + + ++ P EEI K+ + K++ ++ SL+ I + S L + Sbjct: 130 ----NKYLTEEEKSPKKEEIMKRFNLSPAQYIKIIPYLEKEYSLDKEIEGSENSTLLNLY 185 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREER-VLRMRFGIGMNTDH-TLEEVGKQFC 650 ED N+ +P + Q + + +L + + +ER +++ R+ + + TL+++ + Sbjct: 186 ED-NSFNPEITLEQDSTLKHLNYILETKSNEKERYIIKKRYNLDNSPKKSTLKDISTELG 244 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ E +RQIE + ++KLK Sbjct: 245 ISSETVRQIEKRVLKKLK 262 >gi|121535758|ref|ZP_01667560.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121305657|gb|EAX46597.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 243 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 127/236 (53%), Gaps = 10/236 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++ + AK+ ++E N+ LV S+ ++ NRG ++ DL Q G IGLMKA E+FD Sbjct: 11 IKRAQAGDKQAKEYILEHNVNLVRSIVHRFLNRGYEWDDLFQIGCIGLMKAIERFDLNFN 70 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ V I R I D + T ++ +++ ++V RT R+ + + REPT E+A Sbjct: 71 VKFSTYAVPMVIGEIRRFIRDDNPT-KVSRPVKELAYRVYRTQERLQSLLGREPTIHEVA 129 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 K+LA+ + + L+ + P SL +D GD I + ++ D A + Sbjct: 130 KELALAPQEIVSALEAMQPPASLFEQAYHDD----GDPISRLDQIAQCDGQDNAYFEKLA 185 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R VL+ L P+E V+ +RF D T E+ +++ ++ +IE +A+R ++ Sbjct: 186 LREVLSRLPPKERYVIHLRFF----EDKTQAEIANMIGLSQVQVSRIEKQALRLIR 237 >gi|219670064|ref|YP_002460499.1| sporulation sigma factor SigG [Desulfitobacterium hafniense DCB-2] gi|219540324|gb|ACL22063.1| RNA polymerase, sigma 28 subunit, SigG [Desulfitobacterium hafniense DCB-2] Length = 257 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 80/248 (32%), Positives = 131/248 (52%), Gaps = 13/248 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S ++ + + + GE EA +++++ NLRLV+SV +++TNRG DL Q G IGL Sbjct: 19 LSSAKMKELFVAYQSGEKEA---REKLIYGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ ++ N Sbjct: 76 MKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDQLVN 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPT EIA KL +P E V L +EPISL PI + GD I + + Sbjct: 135 ECSREPTVSEIADKLTLPREEVIFALDAIQEPISLFEPIYHDG----GDPIFVMDQIGDE 190 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + L R L L+ RE+ +L +RF G +E+G +++ ++ ++E Sbjct: 191 KHSDNSWLEGIAVREALRRLSEREKLILSLRFFHGKTQMEVADEIG----ISQAQVSRLE 246 Query: 661 AKAIRKLK 668 A+ ++ Sbjct: 247 KAALGHMR 254 >gi|291484084|dbj|BAI85159.1| sporulation sigma factor SigG [Bacillus subtilis subsp. natto BEST195] Length = 237 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 126/227 (55%), Gaps = 14/227 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 16 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 75 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ +EPT E+IAK L +P E + Sbjct: 76 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSKEPTAEDIAKVLEVPHEEI 134 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI ++ D ++ D I D +N S + L+E R L Sbjct: 135 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNTDSQWIEELA--LKEGMRR----L 188 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 189 NDREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 231 >gi|89895640|ref|YP_519127.1| sporulation sigma factor SigG [Desulfitobacterium hafniense Y51] gi|89335088|dbj|BAE84683.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 266 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 80/248 (32%), Positives = 131/248 (52%), Gaps = 13/248 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S ++ + + + GE EA +++++ NLRLV+SV +++TNRG DL Q G IGL Sbjct: 28 LSSAKMKELFVAYQSGEKEA---REKLIYGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGL 84 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA + FD KFSTYA+ + I R + D + IR+ +RD +K ++ ++ N Sbjct: 85 MKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDQLVN 143 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + REPT EIA KL +P E V L +EPISL PI + GD I + + Sbjct: 144 ECSREPTVSEIADKLTLPREEVIFALDAIQEPISLFEPIYHDG----GDPIFVMDQIGDE 199 Query: 602 DSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + + L R L L+ RE+ +L +RF G +E+G +++ ++ ++E Sbjct: 200 KHSDNSWLEGIAVREALRRLSEREKLILSLRFFHGKTQMEVADEIG----ISQAQVSRLE 255 Query: 661 AKAIRKLK 668 A+ ++ Sbjct: 256 KAALGHMR 263 >gi|190571331|ref|YP_001975689.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|190357603|emb|CAQ55044.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Culex quinquefasciatus Pel] Length = 297 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 79/244 (32%), Positives = 134/244 (54%), Gaps = 18/244 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ ++L LV+ +A K+ N GL +DL+ EGN+GLM A +KF+ LG++FSTYA+WW++ + Sbjct: 53 LITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEAS 112 Query: 508 ITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMPVE 561 + I ++I R + + +R+ RE +E I+ +L++ E Sbjct: 113 MKDFILKSWSLVKIGTTQAQRRLFFSLRKIKKRILQYTNRETLSKEEIKAISNELSVSEE 172 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN----LRETT- 613 V ++ L + ++ IGD+ L D I N VS + A Q + L+ET Sbjct: 173 DVVQMSYRLACKDQSLNNCIKIGDDSKKELQDMIPC-NLVSQ-EVAYQNHEEKALKETIL 230 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + LASL R + R+ + NT TL+E+ K++CV+RERIRQ+ +A+ K+K +S Sbjct: 231 SNALASLNERSRDIFISRY-LSENT-QTLDELSKKYCVSRERIRQLAEQAMSKVKQHIKS 288 Query: 674 KKLR 677 + L+ Sbjct: 289 ESLK 292 >gi|138894663|ref|YP_001125116.1| sporulation sigma factor SigG [Geobacillus thermodenitrificans NG80-2] gi|134266176|gb|ABO66371.1| Sporulation-specific sigma factor [Geobacillus thermodenitrificans NG80-2] Length = 264 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 142/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 8 RNKVEICGVDTSKLPVLKNEEMRELFQRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 64 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 65 RGEFVDDLFQVGCIGLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 123 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ + +EP+ EEIAK+L + E V L ++P+SL PI ++ Sbjct: 124 RDIAYKALQVRERLMGETAKEPSTEEIAKELGVAHEEVVLALDAIQDPVSLFEPIYNDGG 183 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D +N S I L+E R L RE+ ++R RF G Sbjct: 184 DPIYVMDQLSDERNRDSQWIEEIA--LKEGLRR----LNEREKMIIRKRFFQGKTQMEVA 237 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AIR++ Sbjct: 238 EEIG----ISQAQVSRLEKAAIRQM 258 >gi|16078597|ref|NP_389416.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. 168] gi|221309407|ref|ZP_03591254.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. 168] gi|221313732|ref|ZP_03595537.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318656|ref|ZP_03599950.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. JH642] gi|221322929|ref|ZP_03604223.1| sporulation sigma factor SigG [Bacillus subtilis subsp. subtilis str. SMY] gi|321315298|ref|YP_004207585.1| sporulation sigma factor SigG [Bacillus subtilis BSn5] gi|133475|sp|P19940|RPSG_BACSU RecName: Full=RNA polymerase sigma-G factor; AltName: Full=Stage III sporulation protein G gi|143430|gb|AAA22703.1| sporulation-specific sigma factor [Bacillus subtilis] gi|580764|emb|CAA40771.1| sigma-G factor [Bacillus subtilis subsp. subtilis str. 168] gi|2633906|emb|CAB13407.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus subtilis subsp. subtilis str. 168] gi|320021572|gb|ADV96558.1| sporulation sigma factor SigG [Bacillus subtilis BSn5] Length = 260 Score = 109 bits (273), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 126/227 (55%), Gaps = 14/227 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ +EPT E+IAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSKEPTAEDIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI ++ D ++ D I D +N S + L+E R L Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNTDSQWIEELA--LKEGMRR----L 211 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 212 NDREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|196247722|ref|ZP_03146424.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|196212506|gb|EDY07263.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 259 Score = 109 bits (273), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 142/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRELFQRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ + +EP+ EEIAK+L + E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRERLMGETAKEPSTEEIAKELGVAHEEVVLALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D +N S I L+E R L RE+ ++R RF G Sbjct: 179 DPIYVMDQLSDERNRDSQWIEEIA--LKEGLRR----LNEREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AIR++ Sbjct: 233 EEIG----ISQAQVSRLEKAAIRQM 253 >gi|34733392|gb|AAP82769.1| sigma 70 [Hydrogenobacter hydrogenophilus] Length = 310 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 51/98 (52%), Positives = 70/98 (71%), Gaps = 1/98 (1%) Query: 407 LKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 L + E+K + E G E ++ ++++G + + AK+ MV+ NLRLV+S+AK Y NR Sbjct: 214 LSLEKEVKELRKEKGSFPEELDRVMHIIKEGRTKVTKAKQVMVKCNLRLVVSIAK-YVNR 272 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 GL FLDLIQEGNIGLMKA +K+D+ GYKFSTYA WW+ Sbjct: 273 GLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWI 310 Score = 51.2 bits (121), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 24/44 (54%), Positives = 29/44 (65%) Query: 119 DPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPL 162 DPV++YLREMG I LL RE EI AK+IE GR +M L + Sbjct: 1 DPVKLYLREMGRIPLLKREEEIMYAKQIEIGRKIMRRGLLRTSF 44 >gi|328948495|ref|YP_004365832.1| RNA polymerase, sigma 32 subunit, RpoH [Treponema succinifaciens DSM 2489] gi|328448819|gb|AEB14535.1| RNA polymerase, sigma 32 subunit, RpoH [Treponema succinifaciens DSM 2489] Length = 349 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 121/251 (48%), Gaps = 12/251 (4%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFDW 490 +++ + + A M E LR V+ ++ + F + Q G IGL++A + FD Sbjct: 109 NLIYEAQSGNVYAFNRMTEMYLRGVLRISYNFAKENYCDFEEAFQNGTIGLIRAIKNFDV 168 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 F++Y V + R + ++ +PVH K + + +S + + TPE Sbjct: 169 TSPNSFASYYSLSVLSEMQRKYSVKNSFFDLPVHFSQKTFEFLGI---ISKYLAKGKTPE 225 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 E ++ + L+I + P D D +F D + D I +L+ Sbjct: 226 E-----SIGIISDDFYLEINPKLKMYFLPYLDLDAISYENFAFD---IHIEDDIIYESLK 277 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E VL +L RE +VL MRFG+ TLEEVGK + V+RERIRQIE KA+R+L+HP Sbjct: 278 EQLNEVLHTLPERERKVLEMRFGLNNLKQMTLEEVGKYYNVSRERIRQIEKKALRRLRHP 337 Query: 671 SRSKKLRSFLD 681 R+ LR ++D Sbjct: 338 HRASGLRDYID 348 >gi|229541192|ref|ZP_04430252.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus coagulans 36D1] gi|229325612|gb|EEN91287.1| RNA polymerase, sigma 28 subunit, SigG [Bacillus coagulans 36D1] Length = 258 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/267 (30%), Positives = 143/267 (53%), Gaps = 25/267 (9%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R ++ + G+ A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRDLLKKMHAGDASA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD +FSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLNQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT EEIA++L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLMSATSKEPTTEEIARELDVPHEDIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED-KNAVSPL--DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 D ++ D + D KN S + A+Q +R L RE+ ++R RF G Sbjct: 179 DPIYVMDQVSDEKNKDSQWIEEIALQEGMRR--------LNEREKMIIRKRFFQGKTQME 230 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 231 VAEEIG----ISQAQVSRLEKAAIKQM 253 >gi|56419663|ref|YP_146981.1| sporulation sigma factor SigG [Geobacillus kaustophilus HTA426] gi|261419325|ref|YP_003253007.1| sporulation sigma factor SigG [Geobacillus sp. Y412MC61] gi|297530705|ref|YP_003671980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|319766141|ref|YP_004131642.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC52] gi|56379505|dbj|BAD75413.1| DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-G) [Geobacillus kaustophilus HTA426] gi|261375782|gb|ACX78525.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC61] gi|297253957|gb|ADI27403.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|317111007|gb|ADU93499.1| RNA polymerase, sigma 28 subunit, SigG [Geobacillus sp. Y412MC52] Length = 259 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 85/265 (32%), Positives = 143/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ EA ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRELFRRMHEGDLEA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLNQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ ++ +EP+ EEIAK+L + E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRERLMSETAKEPSTEEIAKELGVAHEEVVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D +N S I L+E R L RE+ ++R RF G Sbjct: 179 DPIYVMDQLSDERNRDSQWIEEIA--LKEGLRR----LNEREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AIR++ Sbjct: 233 EEIG----ISQAQVSRLEKAAIRQM 253 >gi|330936784|gb|EGH40944.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. pisi str. 1704B] Length = 176 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 46/91 (50%), Positives = 66/91 (72%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V R + +K M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD Sbjct: 83 VHFARLSQSGDPAGRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDP 142 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 G++FSTYA WW++Q I R+I +Q+ TIR+ Sbjct: 143 ERGFRFSTYATWWIRQTIERAIMNQTRTIRL 173 >gi|160892497|ref|ZP_02073287.1| hypothetical protein CLOL250_00024 [Clostridium sp. L2-50] gi|156865538|gb|EDO58969.1| hypothetical protein CLOL250_00024 [Clostridium sp. L2-50] Length = 258 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 77/232 (33%), Positives = 123/232 (53%), Gaps = 22/232 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV ++++N DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 ARETFIKGNLRLVLSVIQRFSNSNENPDDLFQVGCIGLIKAIDNFDRSLNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + R + D + +IR+ +RD +K + T + K+ REPT +EIAK++ + E + Sbjct: 98 ILGECRRYLRDNN-SIRVSRSLRDIAYKAIYTKDALLKKLDREPTVDEIAKEIDVAPEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L P+SL P+ E DT ++ D + DK N V + +L+E Sbjct: 157 TTALDAISTPVSLYEPVYQEGGDTLYIVDQLSDKKNKEENWVENI------SLKEA---- 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE +LR+RF G T EV + +++ ++ +IE AI+ LK Sbjct: 207 MKKLNEREYNILRLRFFEG----KTQTEVASEIAISQAQVSRIEKSAIKSLK 254 >gi|121535240|ref|ZP_01667054.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] gi|121306125|gb|EAX47053.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermosinus carboxydivorans Nor1] Length = 257 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 83/269 (30%), Positives = 144/269 (53%), Gaps = 25/269 (9%) Query: 409 IRNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 I N+++ V T +S ++ R + ++++G EA +++++ NLRLV+SV +++ Sbjct: 2 IVNKVEICGVNTAKLPVLSANKMRELFEIMQQGNPEA---REQLIYGNLRLVLSVIQRFN 58 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ Sbjct: 59 NRGEYVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRS 117 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---G 581 MRD +K ++ + +K REP+ EIA +L +P E + L +EP+SL PI G Sbjct: 118 MRDIAYKALQVRDALVSKFSREPSINEIADELKIPREEIIFALDAIQEPVSLFEPIYHDG 177 Query: 582 DEDTSHLGDFIEDKNA-VSPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 + + +DKN ++ L+ AI+ LR+ L+ RE+ +L +RF G Sbjct: 178 GDPIFVMDQISDDKNQDMNWLEGVAIKEALRK--------LSDREKHILTLRFFEGKTQM 229 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+G +++ ++ ++E A+ ++ Sbjct: 230 EVADEIG----ISQAQVSRLEKAALGHMR 254 >gi|253681759|ref|ZP_04862556.1| RNA polymerase sigma-G factor [Clostridium botulinum D str. 1873] gi|253561471|gb|EES90923.1| RNA polymerase sigma-G factor [Clostridium botulinum D str. 1873] Length = 257 Score = 109 bits (272), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/247 (32%), Positives = 136/247 (55%), Gaps = 19/247 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +R G+ ++++ + NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 23 EMKELLIKMRDGDY---FSREKFIRGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ R+ NK + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDRLINKDNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLD 602 +P +IAK+L +P E V L ++P+SL PI + D ++ D I D KNA D Sbjct: 139 DPNVSQIAKELELPREEVVFALDAIQDPVSLFEPIYHDGGDALYVMDQISDSKNAD---D 195 Query: 603 SAIQ-ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 S I+ +++E R L RE+ +L MRF G T EV + +++ ++ ++E Sbjct: 196 SWIENISIKEAMKR----LNKREKLILNMRFFQG----RTQMEVADEIGISQAQVSRLEK 247 Query: 662 KAIRKLK 668 A++ ++ Sbjct: 248 TALKHMR 254 >gi|296331109|ref|ZP_06873583.1| sporulation sigma factor SigG [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674264|ref|YP_003865936.1| sporulation-specific sigma factor sigma-G [Bacillus subtilis subsp. spizizenii str. W23] gi|296151753|gb|EFG92628.1| sporulation sigma factor SigG [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412508|gb|ADM37627.1| sporulation-specific sigma factor sigma-G [Bacillus subtilis subsp. spizizenii str. W23] Length = 260 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 126/227 (55%), Gaps = 14/227 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ +EPT E+IAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSKEPTAEDIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI ++ D ++ D I D +N S + L+E R L Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDSQWIEELA--LKEGMRR----L 211 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 212 NDREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|304404022|ref|ZP_07385684.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304347000|gb|EFM12832.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 272 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 144/269 (53%), Gaps = 23/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + + ++ A A++++V NLRLV+SV +++ N Sbjct: 15 RNKVEICGVDTSKLPVLTNAEMRELFTALQTRNERA--AREKLVNGNLRLVLSVIQRFNN 72 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 73 RGEYVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 131 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++N REPT EI++ L +P E V L ++P+SL PI G Sbjct: 132 RDIAYKALQVRDSLTNANSREPTIFEISEALGVPKEDVVFALDAIQDPVSLFEPIYHDGG 191 Query: 583 EDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + + +DKN +S ++ + LRE + L RE+ +L MRF G T Sbjct: 192 DPIYVMDQISDDKNKDISWIE---EIALREA----MHKLNDREKMILSMRFFEG----KT 240 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI+++ KH Sbjct: 241 QMEVADEIGISQAQVSRLEKSAIQQMQKH 269 >gi|168180582|ref|ZP_02615246.1| RNA polymerase sigma-G factor [Clostridium botulinum NCTC 2916] gi|168182609|ref|ZP_02617273.1| RNA polymerase sigma-G factor [Clostridium botulinum Bf] gi|170757556|ref|YP_001782076.1| sporulation sigma factor SigG [Clostridium botulinum B1 str. Okra] gi|170761503|ref|YP_001787848.1| sporulation sigma factor SigG [Clostridium botulinum A3 str. Loch Maree] gi|187778872|ref|ZP_02995345.1| hypothetical protein CLOSPO_02467 [Clostridium sporogenes ATCC 15579] gi|226949887|ref|YP_002804978.1| sporulation sigma factor SigG [Clostridium botulinum A2 str. Kyoto] gi|237795971|ref|YP_002863523.1| sporulation sigma factor SigG [Clostridium botulinum Ba4 str. 657] gi|169122768|gb|ACA46604.1| RNA polymerase sigma-G factor [Clostridium botulinum B1 str. Okra] gi|169408492|gb|ACA56903.1| RNA polymerase sigma-G factor [Clostridium botulinum A3 str. Loch Maree] gi|182668579|gb|EDT80558.1| RNA polymerase sigma-G factor [Clostridium botulinum NCTC 2916] gi|182674221|gb|EDT86182.1| RNA polymerase sigma-G factor [Clostridium botulinum Bf] gi|187772497|gb|EDU36299.1| hypothetical protein CLOSPO_02467 [Clostridium sporogenes ATCC 15579] gi|226842131|gb|ACO84797.1| RNA polymerase sigma-G factor [Clostridium botulinum A2 str. Kyoto] gi|229263792|gb|ACQ54825.1| RNA polymerase sigma-G factor [Clostridium botulinum Ba4 str. 657] Length = 257 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 129/245 (52%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +R GE E ++E ++ NLRLV+SV K++ NRG DL Q G IGL+KA Sbjct: 23 EMKKLLVRIRNGETEC---REEFIQGNLRLVLSVIKRFNNRGENVDDLFQVGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ ++ + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQARDKLIKNNNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT +IAK+L +P E V L ++P+SL PI + D + D I D V D Sbjct: 139 EPTVSQIAKELELPREEVVFALDAIQDPVSLFEPIYHDGGDAIFVMDQISDTKNV---DE 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 N+ + + L RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 196 NWIENI--SIKEAMKKLNDREKLILNLRFFDG----RTQMEVADEIGISQAQVSRLEKTA 249 Query: 664 IRKLK 668 ++ ++ Sbjct: 250 LKHMR 254 >gi|312794092|ref|YP_004027015.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181232|gb|ADQ41402.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 255 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 125/226 (55%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + N ++EPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYINNNQKEPTLEEIAKELSVTKEEL 154 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EPISL P+ + T + ++ +K + S L E + + L+ LT Sbjct: 155 VFALDSIQEPISLYEPVFQDSTDTM--YVVEK--LCDHKSCENVWLEEISLKDALSRLTK 210 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +R+ G T EV + +++ ++ +IE AI +K Sbjct: 211 REKEILYLRYYKG----KTQMEVARIVGISQAQVSRIEKSAIGHIK 252 >gi|251797866|ref|YP_003012597.1| sporulation sigma factor SigG [Paenibacillus sp. JDR-2] gi|247545492|gb|ACT02511.1| RNA polymerase, sigma 28 subunit, SigG [Paenibacillus sp. JDR-2] Length = 260 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 145/269 (53%), Gaps = 23/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + + ++ A A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLTNAEMRELFTALQTQNEWA--AREKLVNGNLRLVLSVIQRFNN 60 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 61 RGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 119 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++N+ REPT EI++ L +P E V L ++P+SL PI G Sbjct: 120 RDIAYKALQVRDSLTNQNSREPTIFEISEALNVPKEDVVFALDAIQDPVSLFEPIYHDGG 179 Query: 583 EDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + + +DKN VS ++ + LRE + L RE+ +L MRF G T Sbjct: 180 DPIYVMDQISDDKNKDVSWIE---EIALREA----MHKLNDREKMILSMRFFEG----KT 228 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI+++ KH Sbjct: 229 QMEVADEIGISQAQVSRLEKSAIQQMQKH 257 >gi|220917834|ref|YP_002493138.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|219955688|gb|ACL66072.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 322 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 121/236 (51%), Gaps = 11/236 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V +NLRLV+ +A +Y Q LDL+QEGN+GLM+A +K+D G K S+YA WW Sbjct: 69 AAYRLVASNLRLVVKIAHEYRRTAFQLLDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWW 128 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I R I + +++ + K+ + R EPTP +AK L + + Sbjct: 129 IRAYIIRFIMENWRLVKLGTTQAQRKLFFNLSKEREKLLARGIEPTPRLLAKNLQVEEKD 188 Query: 563 VRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSP----LDSAIQANLRETTT 614 V ++ ++ + +SL+ P+ GD+ + D + D SP D ++ RE Sbjct: 189 VEEMSARMAADDLSLDAPVGTEGDDGRQNRLDRLADDGGPSPDAALGDEQLRRIFREKLD 248 Query: 615 RVLASLTPREER-VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LT +ER + R T TL+EVG F +TRER RQIEAK +L+ Sbjct: 249 AFSGTLTDEKERYIFEHRLLPPDGTPPLTLQEVGDHFRLTRERARQIEAKLTGRLR 304 >gi|288958414|ref|YP_003448755.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288910722|dbj|BAI72211.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 323 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/241 (33%), Positives = 130/241 (53%), Gaps = 25/241 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLVI +A+ + GL +DL+ EGN+GLM+AA+KFD G++F+TYA WW Sbjct: 73 ALEQLVGSHLRLVIKIARGFGGYGLSLVDLVAEGNVGLMQAAQKFDPQRGFRFATYATWW 132 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE---EIAKKL 556 ++ AI I +++ K K+ RR+ +++ + + +PE IA +L Sbjct: 133 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKSQMAELEQGDLSPETVATIAAEL 190 Query: 557 AMP-VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 +P E V ++ SL+ + D +T+ L +D+ P A+ A+ E Sbjct: 191 DVPETEVVEMNRRLAANDSSLDATLSTDGETNWLELLADDR----PTQDAMLADADELAL 246 Query: 615 R------VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 R L L PRE R+L F + D TLE + +QF V+RER+RQIE +A KL Sbjct: 247 RRRLVGQALDRLDPRERRIL---FERRLKDDPSTLEALSQQFSVSRERVRQIEVRAFEKL 303 Query: 668 K 668 + Sbjct: 304 Q 304 >gi|197123044|ref|YP_002134995.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|196172893|gb|ACG73866.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] Length = 322 Score = 108 bits (271), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 78/236 (33%), Positives = 121/236 (51%), Gaps = 11/236 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V +NLRLV+ +A +Y Q LDL+QEGN+GLM+A +K+D G K S+YA WW Sbjct: 69 AAYRLVASNLRLVVKIAHEYRRTAFQLLDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWW 128 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I R I + +++ + K+ + R EPTP +AK L + + Sbjct: 129 IRAYIIRFIMENWRLVKLGTTQAQRKLFFNLSKEREKLLARGIEPTPRLLAKNLQVEEKD 188 Query: 563 VRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSP----LDSAIQANLRETTT 614 V ++ ++ + +SL+ P+ GD+ + D + D SP D ++ RE Sbjct: 189 VEEMSARMAADDLSLDAPVGTEGDDGRQNRLDRLADDGGPSPDAALGDEQLRRIFREKLD 248 Query: 615 RVLASLTPREER-VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LT +ER + R T TL+EVG F +TRER RQIEAK +L+ Sbjct: 249 AFSGTLTDEKERYIFEHRLLPPDGTPPLTLQEVGDHFRLTRERARQIEAKLTGRLR 304 >gi|332653369|ref|ZP_08419114.1| RNA polymerase sigma-G factor [Ruminococcaceae bacterium D16] gi|332518515|gb|EGJ48118.1| RNA polymerase sigma-G factor [Ruminococcaceae bacterium D16] Length = 256 Score = 108 bits (271), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 75/227 (33%), Positives = 123/227 (54%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E++ NLRLV+SV K+ NRG DL Q G IGL+KA + FD L KFSTY + Sbjct: 37 AREELIAGNLRLVLSVIHKFANRGENVDDLFQVGCIGLIKAIDNFDTSLDVKFSTYGVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S +R+ MRD +KV++ + ++EP+ EEIA+ L + E V Sbjct: 97 IVGEIRRYLRDNS-AMRVSRAMRDTAYKVLQAKESYMAQHQKEPSVEEIAQMLGIKREEV 155 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L +P+SL PI + DT + D ++D + L+E +R L+ Sbjct: 156 VFALDAILDPVSLYEPIYSDSGDTVCVMDQVKDSRNTDEMWLE-HIALKEAVSR----LS 210 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++L MRF T EV ++ +++ ++ ++E A+R+++ Sbjct: 211 EREQKILAMRF----YQSKTQVEVSREIGISQAQVSRLEKNALRQIR 253 >gi|308069872|ref|YP_003871477.1| RNA polymerase sigma-G factor (stage III sporulation protein G) [Paenibacillus polymyxa E681] gi|305859151|gb|ADM70939.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Paenibacillus polymyxa E681] Length = 260 Score = 108 bits (271), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 146/272 (53%), Gaps = 22/272 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + + +++ + A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLTNAEMRELFTSLQQNNERS--AREKLVNGNLRLVLSVIQRFNN 60 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 61 RGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 119 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++N REPT EI++ L +P E V L ++P+SL PI G Sbjct: 120 RDIAYKALQVRDSLTNLNSREPTIFEISEALNVPKEDVVFALDAIQDPVSLFEPIYHDGG 179 Query: 583 EDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + + +D+N VS ++ + LRE R L RE+ +L MRF G T Sbjct: 180 DPIYVMDQISDDRNKDVSWIE---EIALREAMHR----LGQREKMILSMRFYEG----KT 228 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EV + +++ ++ ++E AI++++ +S Sbjct: 229 QMEVADEIGISQAQVSRLEKSAIQQMQKHVKS 260 >gi|95929333|ref|ZP_01312076.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfuromonas acetoxidans DSM 684] gi|95134449|gb|EAT16105.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfuromonas acetoxidans DSM 684] Length = 282 Score = 108 bits (271), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 77/234 (32%), Positives = 129/234 (55%), Gaps = 15/234 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ANLR V+ +A +Y GL+ +DL+QEGNIGLMKA +KFD + +YA+WW Sbjct: 44 AAHKLVCANLRFVVKIAYEYQAYGLKMIDLVQEGNIGLMKAIKKFDPDRNIRLISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I + ++I R K+ ++ R K+ + EIA++L + + Sbjct: 104 IRAYIHNYIINAWSLVKIGTTQARKKLFFKLKQTRDALQKMGNDADHAEIARQLNVSTDE 163 Query: 563 VRKV-LKITKEPISLE---TPIGDEDTSHLGDFIE-DKNAVSPLDSAIQANLRETTTRV- 616 V ++ +++ SL+ TP D TSHL ++ DK+ L +L TT RV Sbjct: 164 VAEMSVRLGGRDSSLDGQLTP--DSTTSHLDTLVDHDKDQEQRLIELEHESL--TTHRVQ 219 Query: 617 --LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L RE+ ++ R I + TL+++ Q+ +++ER+RQ+E +A+ KLK Sbjct: 220 QALSHLNEREQHIVHSR--ILQDDKATLQDLADQYGISKERVRQLEKRALEKLK 271 >gi|126700256|ref|YP_001089153.1| sporulation sigma factor SigG [Clostridium difficile 630] gi|254976235|ref|ZP_05272707.1| sporulation sigma factor SigG [Clostridium difficile QCD-66c26] gi|255093622|ref|ZP_05323100.1| sporulation sigma factor SigG [Clostridium difficile CIP 107932] gi|255101810|ref|ZP_05330787.1| sporulation sigma factor SigG [Clostridium difficile QCD-63q42] gi|255307677|ref|ZP_05351848.1| sporulation sigma factor SigG [Clostridium difficile ATCC 43255] gi|255315370|ref|ZP_05356953.1| sporulation sigma factor SigG [Clostridium difficile QCD-76w55] gi|255518035|ref|ZP_05385711.1| sporulation sigma factor SigG [Clostridium difficile QCD-97b34] gi|255651151|ref|ZP_05398053.1| sporulation sigma factor SigG [Clostridium difficile QCD-37x79] gi|255656619|ref|ZP_05402028.1| sporulation sigma factor SigG [Clostridium difficile QCD-23m63] gi|260684217|ref|YP_003215502.1| sporulation sigma factor SigG [Clostridium difficile CD196] gi|260687876|ref|YP_003219010.1| sporulation sigma factor SigG [Clostridium difficile R20291] gi|296449925|ref|ZP_06891689.1| RNA polymerase sigma-G factor [Clostridium difficile NAP08] gi|296878307|ref|ZP_06902315.1| RNA polymerase sigma-G factor [Clostridium difficile NAP07] gi|306521001|ref|ZP_07407348.1| sporulation sigma factor SigG [Clostridium difficile QCD-32g58] gi|115251693|emb|CAJ69528.1| RNA polymerase sigma-G factor [Clostridium difficile] gi|260210380|emb|CBA64761.1| RNA polymerase sigma-G factor [Clostridium difficile CD196] gi|260213893|emb|CBE05925.1| RNA polymerase sigma-G factor [Clostridium difficile R20291] gi|296261195|gb|EFH08026.1| RNA polymerase sigma-G factor [Clostridium difficile NAP08] gi|296430605|gb|EFH16444.1| RNA polymerase sigma-G factor [Clostridium difficile NAP07] Length = 257 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 131/246 (53%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + + ++ ++ G+ EA +++ V NLRLV+SV KK+ NRG DL Q G IGL+KA Sbjct: 23 QMKELLLQIKNGDEEA---RQQFVRGNLRLVLSVIKKFNNRGENIDDLFQIGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD +FSTYA+ + I R + D + IR+ ++D +K ++ R+ + Sbjct: 80 DNFDLSQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLKDIAYKALQVRERLIRTNSK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT EIAK+L + VE V L ++PISL P+ + D + D ++DK Sbjct: 139 EPTVSEIAKELELEVESVVMALDAIQDPISLFDPVYQDNGDAIFVMDQVQDKKDTD---- 194 Query: 604 AIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + L+E + + + L RE+ VL +RF G +E+G +++ ++ +IE Sbjct: 195 --ENWLQEISLKEAIKKLNSREKLVLDLRFYKGRTQIEVADEIG----ISQAQVSRIEKN 248 Query: 663 AIRKLK 668 A++ ++ Sbjct: 249 ALKNMR 254 >gi|148380489|ref|YP_001255030.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 3502] gi|153933176|ref|YP_001384712.1| sporulation sigma factor SigG [Clostridium botulinum A str. ATCC 19397] gi|153936833|ref|YP_001388233.1| sporulation sigma factor SigG [Clostridium botulinum A str. Hall] gi|153938804|ref|YP_001391829.1| sporulation sigma factor SigG [Clostridium botulinum F str. Langeland] gi|148289973|emb|CAL84086.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 3502] gi|152929220|gb|ABS34720.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. ATCC 19397] gi|152932747|gb|ABS38246.1| RNA polymerase sigma-G factor [Clostridium botulinum A str. Hall] gi|152934700|gb|ABS40198.1| RNA polymerase sigma-G factor [Clostridium botulinum F str. Langeland] gi|295319855|gb|ADG00233.1| RNA polymerase sigma-G factor [Clostridium botulinum F str. 230613] gi|322806802|emb|CBZ04371.1| RNA polymerase sporulation specific sigma factor SigG [Clostridium botulinum H04402 065] Length = 257 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 76/245 (31%), Positives = 129/245 (52%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +R GE E ++E ++ NLRLV+SV K++ NRG DL Q G IGL+KA Sbjct: 23 EMKKLLVRIRNGETEC---REEFIQGNLRLVLSVIKRFNNRGENVDDLFQVGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ ++ + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQARDKLIKNNNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT +IAK+L +P E V L ++P+SL PI + D + D I D +D Sbjct: 139 EPTVSQIAKELELPREEVVFALDAIQDPVSLFEPIYHDGGDAIFVMDQISD---TKNIDE 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 N+ + + L RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 196 NWIENI--SIKEAMKKLNDREKLILNLRFFDG----RTQMEVADEIGISQAQVSRLEKTA 249 Query: 664 IRKLK 668 ++ ++ Sbjct: 250 LKHMR 254 >gi|212639646|ref|YP_002316166.1| sporulation sigma factor SigG [Anoxybacillus flavithermus WK1] gi|212561126|gb|ACJ34181.1| DNA-directed RNA polymerase specialized sigma subunit sigG [Anoxybacillus flavithermus WK1] Length = 259 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 83/265 (31%), Positives = 142/265 (53%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ G+ A +++++ NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRELFRQMQAGDISA---REKLITGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +M ++ +EPT EEIAK L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKMMSETAKEPTAEEIAKILDVPHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D ++ D + D KN + I L+E R L RE+ ++R RF G Sbjct: 179 DPIYVMDQLSDEKNRDTNWIEEIA--LKEGLRR----LNEREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 233 EEIG----ISQAQVSRLEKAAIKQM 253 >gi|332982148|ref|YP_004463589.1| RNA polymerase sigma subunit RpsG/SigG [Mahella australiensis 50-1 BON] gi|332699826|gb|AEE96767.1| RNA polymerase, sigma subunit, RpsG/SigG [Mahella australiensis 50-1 BON] Length = 257 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 121/227 (53%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+S+ +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREEFIRGNLRLVLSIIQRFNNRGEHVDDLFQVGCIGLIKAIDNFDLGQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ ++ + +EPT EEIAK + +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKALQVREQLVAQNGKEPTVEEIAKAMELPAEEV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVLASLT 621 + ++PISL P+ + GD I + VS D N ET + L+ Sbjct: 157 VFAMDAIQDPISLFEPVYHDG----GDAIYVMDQVSD-DKNQDDNWLETIALKEAMQKLS 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G EE+G +++ ++ ++E A+ ++ Sbjct: 212 EREKTILAMRFFQGRTQMEVAEEIG----ISQAQVSRLEKSALSHMR 254 >gi|311068054|ref|YP_003972977.1| sporulation sigma factor SigG [Bacillus atrophaeus 1942] gi|310868571|gb|ADP32046.1| sporulation sigma factor SigG [Bacillus atrophaeus 1942] Length = 260 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 75/229 (32%), Positives = 126/229 (55%), Gaps = 18/229 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ +EPT E+IAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSKEPTAEDIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRVLA 618 L ++P+SL PI ++ D ++ D I D K+ + A++ +R Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDTQWIEELALKEGMRR------- 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 211 -LNDREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|261405674|ref|YP_003241915.1| sporulation sigma factor SigG [Paenibacillus sp. Y412MC10] gi|315646040|ref|ZP_07899161.1| sporulation sigma factor SigG [Paenibacillus vortex V453] gi|329922674|ref|ZP_08278226.1| RNA polymerase sigma-G factor [Paenibacillus sp. HGF5] gi|261282137|gb|ACX64108.1| RNA polymerase, sigma 28 subunit, SigG [Paenibacillus sp. Y412MC10] gi|315278801|gb|EFU42115.1| sporulation sigma factor SigG [Paenibacillus vortex V453] gi|328942016|gb|EGG38299.1| RNA polymerase sigma-G factor [Paenibacillus sp. HGF5] Length = 260 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 80/231 (34%), Positives = 127/231 (54%), Gaps = 17/231 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMKA + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ +++N REPT EI++ L +P E V Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDQLTNANSREPTIFEISEALNVPKEDV 157 Query: 564 RKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLAS 619 L ++P+SL PI G + + +DKN VS ++ + LRE + Sbjct: 158 VFALDAIQDPVSLFEPIYHDGGDPIYVMDQISDDKNKDVSWIE---EIALREA----MHK 210 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 L RE+ +L MRF G T EV + +++ ++ ++E AI+++ KH Sbjct: 211 LGQREKMILSMRFYEG----KTQMEVADEIGISQAQVSRLEKSAIKQMQKH 257 >gi|326791409|ref|YP_004309230.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium lentocellum DSM 5427] gi|326542173|gb|ADZ84032.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium lentocellum DSM 5427] Length = 257 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 75/230 (32%), Positives = 127/230 (55%), Gaps = 18/230 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AREEYIRGNLRLVLSVIQRFNNRGEHVDDLFQVGCIGLIKAIDNFDVTQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++T +++ K +EPT +EIA +L + E + Sbjct: 98 IIGEIRRYLRDNNA-IRVSRSLRDTAYKALQTKEQLTRKNAKEPTVQEIADELGIKKEDI 156 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQAN--LRETTTRVLA 618 L ++PISL P+ + DT ++ D + +DKN D N L+E R+ Sbjct: 157 VFALDAIQDPISLFEPVYHDESDTLYIMDQVSDDKNQ----DDVWLENIALKEAMKRI-- 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++L +RF G T EV + +++ ++ ++E A++ +K Sbjct: 211 --NDREKQILMLRFFAG----KTQMEVANEIGISQAQVSRLEKTALKHMK 254 >gi|325288838|ref|YP_004265019.1| RNA polymerase, sigma subunit, RpsG/SigG [Syntrophobotulus glycolicus DSM 8271] gi|324964239|gb|ADY55018.1| RNA polymerase, sigma subunit, RpsG/SigG [Syntrophobotulus glycolicus DSM 8271] Length = 257 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 127/228 (55%), Gaps = 16/228 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++++++ NLRLV+SV ++++NRG DL Q G IGLMKA + FD KFSTYA+ + Sbjct: 39 REQLIKGNLRLVLSVIQRFSNRGEHVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMI 98 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R + D + +IR+ +RD +K ++ +++ + REPT +EIA KL P E V Sbjct: 99 IGEIRRYLRDNN-SIRVSRSLRDIAYKALQIRDKLATECSREPTIQEIAAKLETPQEEVI 157 Query: 565 KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSP--LDSAIQANLRETTTRVLASL 620 L +EP+SL PI + D ++ D I D L+S +++E R L Sbjct: 158 LALDAIQEPVSLFEPIYHDGGDPIYVMDQIGDHKQSDRIWLES---LSIKEGIER----L 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+R++ +RF G EE+G +++ ++ ++E A++ ++ Sbjct: 211 GEREKRIISLRFFQGKTQMEVAEEIG----ISQAQVSRLEKAALKHMR 254 >gi|168335364|ref|ZP_02693458.1| sporulation sigma factor SigG [Epulopiscium sp. 'N.t. morphotype B'] Length = 243 Score = 108 bits (270), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 73/221 (33%), Positives = 115/221 (52%), Gaps = 13/221 (5%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H+ ++ G+ ++A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + F Sbjct: 26 HLFELIGAGD---NMAREEYIRGNLRLVLSVIQRFNNRGEHVDDLFQVGCIGLIKAIDNF 82 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G KFSTYA+ + I R + D + IR+ +RD +K ++ ++ + +EPT Sbjct: 83 DTTQGVKFSTYAVPMIIGEIRRYLRDNNA-IRVSRSLRDTAYKALQVKEKLLRQNSKEPT 141 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI--- 605 EEIA L + E + L ++PISL P+ +D L FI D+ + I Sbjct: 142 IEEIAAVLEIATENIVFALDAIQDPISLFEPVYHDDGDAL--FIMDQVSDEKSQDDIWLE 199 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L+E R L RE+ +L +RF G +E+G Sbjct: 200 NIALKEAMKR----LNDREKHILTLRFFAGKTQMEVADEIG 236 >gi|158320421|ref|YP_001512928.1| sporulation sigma factor SigG [Alkaliphilus oremlandii OhILAs] gi|158140620|gb|ABW18932.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 257 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 131/245 (53%), Gaps = 13/245 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S+ R + + KG+ + A++E ++ NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 22 SQMRVLFDRIHKGD---NSAREEFIQGNLRLVLSVIQRFNNRGEHVDDLFQVGCIGLIKA 78 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD +FSTYA+ + I R + D + +IR+ +RD +K ++ ++ NK Sbjct: 79 IDNFDLSHNVRFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDTAYKALQVREQLINKNS 137 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 +EPT +IA++L +P E V L ++P+SL PI + GD I + V S Sbjct: 138 KEPTIAQIAEELNLPREDVVFALDAIQDPVSLFEPIYQDS----GDAIFVMDQVCDEKSE 193 Query: 605 IQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + + R + L RE+ +L +RF G +E+G +++ ++ ++E A Sbjct: 194 DECWIDGIALREAMRKLNSREKHILSLRFFEGRTQMEVADEIG----ISQAQVSRLEKTA 249 Query: 664 IRKLK 668 ++ ++ Sbjct: 250 LKHMR 254 >gi|86157650|ref|YP_464435.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|85774161|gb|ABC80998.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 322 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 77/236 (32%), Positives = 122/236 (51%), Gaps = 11/236 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V +NLRLV+ +A +Y Q LDL+QEGN+GLM+A +K+D G K S+YA WW Sbjct: 69 AAYKLVASNLRLVVKIAHEYRRTAFQLLDLVQEGNLGLMQAVKKYDPWKGVKLSSYAAWW 128 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I R I + +++ + K+ + R EPTP +AK L + + Sbjct: 129 IRAYIIRFIMENWRLVKLGTTQAQRKLFFNLSKEREKLLARGIEPTPRLLAKNLQVEEKD 188 Query: 563 VRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSP----LDSAIQANLRETTT 614 V ++ ++ + +SL+ P+ GD+ + D + D +P D ++ RE Sbjct: 189 VEEMSARMAADDLSLDAPVGTEGDDGRQNRLDRLADDGGQAPDAALGDEQLRRIFREKLD 248 Query: 615 RVLASLTPREER-VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LT +ER + R T TL+EVG F +TRER RQIEAK +L+ Sbjct: 249 AFSGTLTDEKERYIFEHRLLPPDGTPPLTLQEVGDHFRLTRERARQIEAKLTGRLR 304 >gi|26249145|ref|NP_755185.1| hypothetical protein c3306 [Escherichia coli CFT073] gi|289829787|ref|ZP_06547302.1| RNA polymerase sigma factor RpoS [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|26109552|gb|AAN81755.1|AE016765_157 Hypothetical protein c3306 [Escherichia coli CFT073] gi|323154962|gb|EFZ41154.1| RNA polymerase sigma factor rpoS [Escherichia coli EPECa14] Length = 172 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 54/163 (33%), Positives = 104/163 (63%) Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 2 NQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERI 61 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG Sbjct: 62 TSVDTPLGGDSEKALLDILADEKENGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFG 121 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 122 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQTQGL 164 >gi|167933077|ref|ZP_02520164.1| RNA polymerase, sigma 70 subunit, RpoD family protein [candidate division TM7 single-cell isolate TM7b] Length = 103 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 52/101 (51%), Positives = 74/101 (73%) Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 GDE+ S LGDFIED++ +P +SA L+E +L+SL+ RE+++++MRFG+ H Sbjct: 3 GDEEDSVLGDFIEDEDTATPEESASSQLLKEQVQGILSSLSDREQKIIKMRFGLENGKSH 62 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 TLEEVG++F VTRERIRQIEAKA+ KL+ +KKL +L+ Sbjct: 63 TLEEVGQEFAVTRERIRQIEAKALAKLRKHKDAKKLHEYLN 103 >gi|34499661|ref|NP_903876.1| RNA polymerase factor sigma-32 [Chromobacterium violaceum ATCC 12472] gi|34105511|gb|AAQ61866.1| RNA polymerase sigma-32 factor [Chromobacterium violaceum ATCC 12472] Length = 287 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 127/232 (54%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV ++LR+V+SV++ Y GLQ DLIQEGNIGLMKA ++F+ G + ++A+ W Sbjct: 49 AARQMVLSHLRVVVSVSRGYAGYGLQQADLIQEGNIGLMKAVKRFEPGRGVRLFSFAIHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I I +RI + K+ R M + E + IA+ L + E Sbjct: 109 IKAEIHEFILRNWRLVRIATTKPQR--KLFFNLRSMKSGFSALSEQEAKSIAEDLGVKPE 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS----AIQANLRETTTRV 616 VR++ +++T + +SL DED+ D++ D ++ P + A E Sbjct: 167 EVREMEIRMTGQDVSLLADSDDEDSYAPIDWLADSHS-EPTRALERRAFDMLQSEGLEYA 225 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++L PR R++ R+ + ++ TL E+ +F V+ ERIRQIEAKA+ K+K Sbjct: 226 LSTLDPRSRRIVEARW-LADDSGATLHELAAEFGVSAERIRQIEAKALSKMK 276 >gi|153005405|ref|YP_001379730.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] gi|152028978|gb|ABS26746.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] Length = 357 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 81/252 (32%), Positives = 127/252 (50%), Gaps = 13/252 (5%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR E A +V +NLRLV+ +A +Y Q LDL+QEGN+GLM+A +K+D G Sbjct: 94 VRYRETGDVDAAYRLVASNLRLVVKIAHEYRRTAFQLLDLVQEGNMGLMQAVKKYDPWKG 153 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR--EPTPEE 551 K S+YA WW++ I R I + +++ + A+ + R EPTP Sbjct: 154 VKLSSYAAWWIRAYIIRFIMENWRMVKLGTTQAQR-KLFFNLAKEREKLLARGIEPTPRL 212 Query: 552 IAKKLAMPVEGVRKVL-KITKEPISLETPI-GDEDTSHLG--DFIEDKNAVSP----LDS 603 +AK L + + V ++ ++ E +SL+ P+ GDED S D + A +P D Sbjct: 213 LAKNLDVEEKDVEEMTARMAGEDLSLDAPLRGDEDGSRQTRLDRVAGDGADAPDERLGDE 272 Query: 604 AIQANLRETTTRVLASLTPREERVL--RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++ RE ++ +ER + + G TL+E+G +F +TRER RQIEA Sbjct: 273 QLRRLFREKLETFSKTIRDEKERYIFDKRLLPAGGEAPLTLQEIGDRFKLTRERARQIEA 332 Query: 662 KAIRKLKHPSRS 673 K +L+ R+ Sbjct: 333 KLTARLRDYLRA 344 >gi|197122293|ref|YP_002134244.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] gi|196172142|gb|ACG73115.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] Length = 307 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/242 (31%), Positives = 121/242 (50%), Gaps = 14/242 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ANLR V+ VA +Y + G + DLIQEGNIGLMKA +KFD G + +YA+WW Sbjct: 46 AAHRLVTANLRFVVKVAYEYRSYGFRMADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWW 105 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPT------PEEIAKK 555 ++ I I +++ R + RT R + + + ++AKK Sbjct: 106 IRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTKRELDKRSQEHGADSDGHDANKVAKK 165 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L + VR++ ++ +SL+ P+GD+ DF+ A + + + + Sbjct: 166 LRVKPGEVREMEQRMEGRDLSLDAPMGDDGGYSHVDFLPSGTASQDDELSGVQEQKVVSG 225 Query: 615 RV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 RV L L RE ++ MR + + TL+E+G+ F +RER RQ+E +A KLK Sbjct: 226 RVGEALGRLDQRERYIIEMR--VMSDRPLTLKELGEHFGFSRERARQLEIRAKEKLKEEL 283 Query: 672 RS 673 R+ Sbjct: 284 RA 285 >gi|226313413|ref|YP_002773307.1| sporulation sigma factor SigG [Brevibacillus brevis NBRC 100599] gi|226096361|dbj|BAH44803.1| RNA polymerase sigma-G factor [Brevibacillus brevis NBRC 100599] Length = 259 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 86/270 (31%), Positives = 141/270 (52%), Gaps = 19/270 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLTNKEMRDLFERLQSGELAA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKAIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++NK REPT EI+++L + E V L ++P+SL PI + Sbjct: 119 RDIAYKALQVRDNLTNKHSREPTIIEISQELNVAKEDVVFALDAIQDPVSLFEPIYQDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ D I D+ + + LRE R L RE+ +L MRF G E Sbjct: 179 DPIYVMDQISDEKN-KDVTWVEEIALREGMQR----LGDREKMILSMRFYEGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 E+G +++ ++ ++E AI ++ +S Sbjct: 234 EIG----ISQAQVSRLEKAAIAHMQKHVQS 259 >gi|310642978|ref|YP_003947736.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309247928|gb|ADO57495.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 260 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 146/272 (53%), Gaps = 22/272 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + + +++ + A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLTNAEMRELFTSLQQNNERS--AREKLVNGNLRLVLSVIQRFNN 60 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 61 RGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 119 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++N REPT EI++ L +P E V L ++P+SL PI G Sbjct: 120 RDIAYKALQVRDSLTNLNSREPTIFEISEVLNVPKEDVVFALDAIQDPVSLFEPIYHDGG 179 Query: 583 EDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + + +D+N VS ++ + LRE R L RE+ +L MRF G T Sbjct: 180 DPIYVMDQISDDRNKDVSWIE---EIALREAMHR----LGQREKMILSMRFYEG----KT 228 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EV + +++ ++ ++E AI++++ +S Sbjct: 229 QMEVADEIGISQAQVSRLEKSAIQQMQKHVKS 260 >gi|254478776|ref|ZP_05092144.1| RNA polymerase sigma-G factor [Carboxydibrachium pacificum DSM 12653] gi|214035288|gb|EEB75994.1| RNA polymerase sigma-G factor [Carboxydibrachium pacificum DSM 12653] Length = 258 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 123/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + +NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 39 AREEFINSNLRLVLSVIQRFNNRGESVDDLFQVGCIGLIKAIDNFDLDQNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 99 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPSEEV 157 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + L L Sbjct: 158 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNVDEVWLEKIALKEALEKLNE 213 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 214 REKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 255 >gi|20808063|ref|NP_623234.1| sporulation sigma factor SigG [Thermoanaerobacter tengcongensis MB4] gi|20516644|gb|AAM24838.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 264 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 123/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + +NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 45 AREEFINSNLRLVLSVIQRFNNRGESVDDLFQVGCIGLIKAIDNFDLDQNVKFSTYAVPM 104 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 105 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPSEEV 163 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + L L Sbjct: 164 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNVDEVWLEKIALKEALEKLNE 219 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 220 REKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 261 >gi|304399205|ref|ZP_07381072.1| sigma-70 region 3 domain protein [Pantoea sp. aB] gi|304353259|gb|EFM17639.1| sigma-70 region 3 domain protein [Pantoea sp. aB] Length = 172 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 54/163 (33%), Positives = 104/163 (63%) Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 2 NQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERI 61 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG Sbjct: 62 TSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFG 121 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + TLE+VG++ +TRER+RQI+ + +R+L+ +++ L Sbjct: 122 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLREILQAQGL 164 >gi|14346036|gb|AAK59987.1| RNA polymerase major sigma subunit [Corynebacterium ammoniagenes] Length = 145 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 53/146 (36%), Positives = 98/146 (67%), Gaps = 2/146 (1%) Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ITR +ADQS TIR+PVH+ ++++K+ R R M + RE T EE+A++ + + +L Sbjct: 1 ITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQSLGREATNEELAEESGIEENKIEMLL 60 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTPREER 626 + +++P+SL+ P+G ++ + LGDFIED A ++A+ A++R + R V+ +L RE+ Sbjct: 61 RQSRDPVSLDMPVGADEEAPLGDFIEDAEATDA-ETAVVASMRHSDIRDVIGTLEQREQD 119 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVT 652 V+R+R+G+ TL+++G++F ++ Sbjct: 120 VIRLRYGLDDGVPRTLDQIGRKFGLS 145 >gi|288553150|ref|YP_003425085.1| sporulation sigma factor SigG [Bacillus pseudofirmus OF4] gi|288544310|gb|ADC48193.1| sporulation sigma factor SigG [Bacillus pseudofirmus OF4] Length = 261 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 85/272 (31%), Positives = 145/272 (53%), Gaps = 21/272 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + +E R + + ++ G+ A++ +V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNTEMRELFTQLQSGD---DSAREVLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKR--EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 RD +K ++ ++ + KR EPT +EIAK L +P E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRDQLMAEKKRENEPTVQEIAKVLDVPKEDVVFALDAIQDPVSLFEPIYND 178 Query: 584 --DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D + D I D+ ++ + L+E R L RE+ +L MRF G T Sbjct: 179 GGDPIFVMDQISDERN-KDVNWVEEIALKEAMIR----LNDREKMILNMRFFQG----KT 229 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 EV + +++ ++ ++E AI+++ ++S Sbjct: 230 QMEVADEIGISQAQVSRLEKAAIQQMNKHAQS 261 >gi|218132880|ref|ZP_03461684.1| hypothetical protein BACPEC_00741 [Bacteroides pectinophilus ATCC 43243] gi|217991753|gb|EEC57757.1| hypothetical protein BACPEC_00741 [Bacteroides pectinophilus ATCC 43243] Length = 259 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/240 (31%), Positives = 130/240 (54%), Gaps = 14/240 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++RK S A+++ ++ NLRLV+SV +++ G DL Q G IGLMKA + FD Sbjct: 27 LLRKAIDGDSKAREKYIKGNLRLVLSVIQRFAGNGENADDLFQIGCIGLMKAIDNFDVTQ 86 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + + R + D + +IR+ +RD +K + ++ K + EPT EI Sbjct: 87 NVRFSTYAVPMIMGEVRRYMRDYN-SIRVSRSLRDTAYKAIHARDMLTKKNQHEPTVMEI 145 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 A ++ +P E + L + P+SL P+ E DT ++ D I DK + D+ ++ L Sbjct: 146 AAEVGLPKEEIVMALDAMQTPLSLYEPVFSEGGDTLYVMDQISDKK--NREDNWVEDIAL 203 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE +R L RE ++R+RF G T EV + +++ ++ ++E A+R +K+ Sbjct: 204 REAVSR----LPERERNIIRLRFFDG----RTQMEVARDVGISQAQVSRLEKNALRSMKN 255 >gi|323706111|ref|ZP_08117680.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323534555|gb|EGB24337.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 256 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 76/227 (33%), Positives = 125/227 (55%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLNQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ ++ N+ +EPT +IAK+L +P E V Sbjct: 97 IIGEIRRYLRDNN-SIRVSRSLRDVAYKALQVRDKLVNENSKEPTVGDIAKELNIPREEV 155 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L ++P+SL PI + D ++ D I D+ V + Q L+E + L Sbjct: 156 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQIGDEKNVDEVWLE-QIALKEAIKK----LN 210 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 211 DREKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKSALSHMR 253 >gi|111035800|emb|CAL29427.1| RNA polymerase sigma-32 factor [Wolbachia endosymbiont of Onchocerca volvulus] Length = 297 Score = 108 bits (269), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 81/245 (33%), Positives = 133/245 (54%), Gaps = 18/245 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ ++L LV+ +A K+ N GL +DLI EGNIGLM A +KF+ LG++FSTYA+WW++ Sbjct: 52 KLITSHLNLVVKIAMKFKNYGLLLMDLIMEGNIGLMHAVKKFNPNLGFRFSTYAVWWIEA 111 Query: 507 AITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMPV 560 +I I I+I R + + +R+ RE E I+ +LA+ Sbjct: 112 SIKDFILKSWSFIKIGTTQAQRKLFFSLRKIKKRILQYTNRETLSNEEIKAISNELAVS- 170 Query: 561 EG--VRKVLKITKEPISLET--PIGDEDTSHLGDFIEDKNAVS---PLDSAIQANLRETT 613 EG ++ ++ + SL + +GD L D I N+VS + + L+ET Sbjct: 171 EGDVIQMSYRLAYKDQSLNSCLKVGDGSKKELQDMIPC-NSVSQEVTYQNHEEKELKETI 229 Query: 614 -TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 LA+L R + R+ + NT TL+E+GK++ V+RERIRQ+ +A+ K+K + Sbjct: 230 LNNALANLNERSRDIFISRY-LSENT-QTLDELGKKYNVSRERIRQLAEQAMSKVKQYIQ 287 Query: 673 SKKLR 677 S+ L+ Sbjct: 288 SESLK 292 >gi|220917075|ref|YP_002492379.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|219954929|gb|ACL65313.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 307 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 76/242 (31%), Positives = 121/242 (50%), Gaps = 14/242 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ANLR V+ VA +Y + G + DLIQEGNIGLMKA +KFD G + +YA+WW Sbjct: 46 AAHRLVTANLRFVVKVAYEYRSYGFRMADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWW 105 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPT------PEEIAKK 555 ++ I I +++ R + RT R + + + ++AKK Sbjct: 106 IRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTKRELDKRSQEHGADSDGHDANKVAKK 165 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L + VR++ ++ +SL+ P+GD+ DF+ A + + + + Sbjct: 166 LRVKPGEVREMEQRMEGRDLSLDAPMGDDGGYSHVDFLPSGTASQDDELSGVQEQKVVSG 225 Query: 615 RV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 RV L L RE ++ MR + + TL+E+G+ F +RER RQ+E +A KLK Sbjct: 226 RVVEALGRLDQRERYIIEMR--VMSDRPLTLKELGEHFGFSRERARQLEIRAKEKLKEEL 283 Query: 672 RS 673 R+ Sbjct: 284 RA 285 >gi|114569135|ref|YP_755815.1| RNA polymerase factor sigma-32 [Maricaulis maris MCS10] gi|114339597|gb|ABI64877.1| RNA polymerase, sigma 32 subunit, RpoH [Maricaulis maris MCS10] Length = 295 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/279 (30%), Positives = 143/279 (51%), Gaps = 30/279 (10%) Query: 415 SISVETGIS--ISEFRHIVSM---------VRKGECEASIAKKEMVEANLRLVISVAKKY 463 ++S E G+S +SE R + R E E A +++V ++LRLV +A Y Sbjct: 8 TLSPEQGLSSYLSEIRRFPMLEKDEEFMLGKRWREHEDGGAAEKLVTSHLRLVAKIAMGY 67 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 GL ++I EGN+GLM+A +KFD G++ +TYAMWW++ +I I +++ Sbjct: 68 RGYGLPIAEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLVKMGT 127 Query: 524 HMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKLAMPVEGVRKV-LKITKEPIS 575 K K+ RRM ++++ + E IA KL + + V + +++ S Sbjct: 128 TAAQK--KLFFNLRRMKSQMQALDEGDLKPDQVEAIATKLGVTNDEVMSMNGRLSGPDAS 185 Query: 576 LETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS----LTPREERVLRM 630 L P+ G E D++ D A S D +++ +T ++L S L RE+ +L+ Sbjct: 186 LNAPLRGTEGEGQWQDWLSDDTAESQEDELAESDEFDTRMQLLQSAMGELNEREQHILQE 245 Query: 631 RFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R ++ D TLEE+ + + V+RERIRQIE +A KL+ Sbjct: 246 RR---LSEDPKTLEELAEHYGVSRERIRQIEVRAFEKLQ 281 >gi|281421843|ref|ZP_06252842.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] gi|281404085|gb|EFB34765.1| RNA polymerase sigma-70 factor [Prevotella copri DSM 18205] Length = 136 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 50/96 (52%), Positives = 70/96 (72%), Gaps = 3/96 (3%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +RKG E AK++++ ANLR V+SVAK+Y +RGL DLI EGNIGL+KA E+FD G Sbjct: 40 IRKGGSEGERAKEKLIRANLRFVVSVAKRYQHRGLALTDLIDEGNIGLIKAVERFDETRG 99 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKI 529 +KF YA+WW++Q+I ++IA+Q+ RI + DKI Sbjct: 100 FKFIQYAIWWIRQSILQAIAEQNHITRISL---DKI 132 >gi|261342188|ref|ZP_05970046.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] gi|288315521|gb|EFC54459.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] Length = 172 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 53/155 (34%), Positives = 100/155 (64%) Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 +Q+ TIR+P+H+ +++ +RTAR +S+K+ EP+ EEIA++L PV+ V ++L++ + Sbjct: 2 NQTRTIRLPIHIVKELNVYLRTARELSHKLDHEPSAEEIAEQLDKPVDDVSRMLRLNERI 61 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 S++TP+G + L D + D+ P D+ +++++ + L L ++ VL RFG Sbjct: 62 TSVDTPLGGDSEKALLDILADEKDNGPEDTTQDDDMKQSIVKWLFELNAKQREVLARRFG 121 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TLE+VG++ +TRER+RQI+ + +R+L+ Sbjct: 122 LLGYEAATLEDVGREIGLTRERVRQIQVEGLRRLR 156 >gi|167630136|ref|YP_001680635.1| RNA polymerase sigma-g factor, putative [Heliobacterium modesticaldum Ice1] gi|167592876|gb|ABZ84624.1| RNA polymerase sigma-g factor, putative [Heliobacterium modesticaldum Ice1] Length = 265 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 81/247 (32%), Positives = 128/247 (51%), Gaps = 17/247 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E R + ++ GE A +++++ NLRLV+SV +++TNRG DL Q G IGLMKA Sbjct: 30 AEMRTLFQAMQSGERSA---REKLISGNLRLVLSVIQRFTNRGEYVDDLFQVGCIGLMKA 86 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + N++ Sbjct: 87 IDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDHLVNELS 145 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPL 601 REPT EIA L P E V L +EPISL PI G + + ++KN + Sbjct: 146 REPTVTEIADALGFPREEVVFALDAIQEPISLFEPIYHDGGDPIFVMDQIGDEKNQDAQW 205 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 I +RE R L RE+ +L +RF G T EV + +++ ++ ++E Sbjct: 206 LEGIA--VREALRR----LNDREKLILTLRFFEG----KTQMEVADEIGISQAQVSRLEK 255 Query: 662 KAIRKLK 668 A+ ++ Sbjct: 256 AALTHMR 262 >gi|157692208|ref|YP_001486670.1| sporulation sigma factor SigG [Bacillus pumilus SAFR-032] gi|194014766|ref|ZP_03053383.1| RNA polymerase sigma-G factor [Bacillus pumilus ATCC 7061] gi|157680966|gb|ABV62110.1| DNA-directed RNA polymerase sigma subunit SigG [Bacillus pumilus SAFR-032] gi|194013792|gb|EDW23357.1| RNA polymerase sigma-G factor [Bacillus pumilus ATCC 7061] Length = 259 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 126/229 (55%), Gaps = 18/229 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD +FSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVRFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ R+ ++ +EPT E+IAK L +P E + Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSKEPTAEDIAKVLEVPHEEI 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRVLA 618 L ++P+SL PI ++ D ++ D I D K+ + A++ +R Sbjct: 158 VFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDTQWVEELALKEGMRR------- 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE+ +LR RF G EE+G +++ ++ ++E AI+++ Sbjct: 211 -LNDREKMILRKRFFQGKTQMEVAEEIG----ISQAQVSRLEKAAIKQM 254 >gi|167465669|ref|ZP_02330758.1| sporulation sigma factor SigG [Paenibacillus larvae subsp. larvae BRL-230010] Length = 260 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 86/267 (32%), Positives = 143/267 (53%), Gaps = 19/267 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + ++++ A A++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLTNTEMRELFALLQTKNERA--AREKLVNGNLRLVLSVIQRFNN 60 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 61 RGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 119 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +++N+ REPT EI++ L +P E V L ++P+SL PI + Sbjct: 120 RDIAYKALQVRDQLTNRNSREPTIYEISEVLNVPKEDVVFALDAIQDPVSLFEPIYHDGG 179 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ D I D+ L LRE + L RE+ +L MRF G T Sbjct: 180 DPIYVMDQISDERN-KDLFWIEGIALREA----MRKLGSREKMILSMRFFEG----KTQM 230 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI ++ KH Sbjct: 231 EVADEIGISQAQVSRLEKSAINQMQKH 257 >gi|308803162|ref|XP_003078894.1| RNA-polymerase sigma factor (ISS) [Ostreococcus tauri] gi|116057347|emb|CAL51774.1| RNA-polymerase sigma factor (ISS) [Ostreococcus tauri] Length = 485 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 82/262 (31%), Positives = 135/262 (51%), Gaps = 22/262 (8%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTN-------RGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + IA++++V AN+ L VA + R + D+I EG GL++A+EKFD L Sbjct: 176 QGKIARQKLVSANIELAAKVATDVFHTFSPMERRSISRQDMIHEGVTGLVRASEKFDPAL 235 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIP---VHMRDKIHKVVRTARRMSNKIKREPTP 549 G FSTYA W KQA+TR + + TIR+P ++ R + H++ ++RM ++ R PT Sbjct: 236 GCAFSTYAYNWTKQAVTRGVLNNGRTIRVPEQVLYERREAHEL---SKRMEIELGRRPTL 292 Query: 550 EEI-AKKLAMPVEGVRKVLKITKE-PISLET-PIGDE-----DTSHLGDFIEDKNAVSPL 601 EI A+ V+ ++ ++ I K+ P+SL+ +GDE +T G + + + + Sbjct: 293 HEIAARSQKFSVDKLQLLVGIAKQHPLSLDILGVGDEERDGDETGLSGTWENEMGSTDEI 352 Query: 602 DSAIQAN-LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 I+ LR+ + L L+ E VL+ RFG+ T E+G + + E +R IE Sbjct: 353 TRTIELEFLRDDIKKTLNELSSDEAYVLKHRFGLVGGEFMTNAEIGSRIGKSAEGVRYIE 412 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 +A+ +LK L L G Sbjct: 413 KRALERLKSTPDFSDLAQHLKG 434 >gi|301166786|emb|CBW26363.1| RNA polymerase sigma-32 factor [Bacteriovorax marinus SJ] Length = 350 Score = 107 bits (268), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 83/275 (30%), Positives = 140/275 (50%), Gaps = 33/275 (12%) Query: 413 IKSISVETGISISEFRHIVS-MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 ++ IS ++I E R + +V G+ E + K++V ANLRLV+ +A +Y + + Sbjct: 82 LREISKYELLTIEEERELTQKLVETGDIEVA---KKLVAANLRLVVKIAMEYRSSFQNVM 138 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK--I 529 DLIQEGNIGLMKA K+D G K S YA WW+K I + I D ++I K Sbjct: 139 DLIQEGNIGLMKAVSKYDPDKGAKLSYYASWWIKSYILKYILDNFRLVKIGTTNEQKKLF 198 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPIG----- 581 + +++ R++ K EP + +++ L + + V + + + +SLETP+G Sbjct: 199 YNLMKEKDRLA-KQGIEPDHKLLSENLGVSEKAVALMDGRMSSSGGELSLETPLGHDSGS 257 Query: 582 --------DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 D+D S + + I D + L Q NLR+ ++ L R+ + + R Sbjct: 258 GVLSDILVDQDESDISEKIADAQGLEIL----QENLRD----FVSGLKERDRDIFKKR-- 307 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L+ + ++ V+RERIRQIE + ++ LK Sbjct: 308 LLSEVPPSLQNIADEYGVSRERIRQIEERLLKNLK 342 >gi|78043932|ref|YP_360874.1| sporulation sigma factor SigG [Carboxydothermus hydrogenoformans Z-2901] gi|77996047|gb|ABB14946.1| RNA polymerase sigma-G factor [Carboxydothermus hydrogenoformans Z-2901] Length = 257 Score = 107 bits (268), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 80/246 (32%), Positives = 131/246 (53%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + V++G+ EA +++++ NLRLV+S+ +++TNRG DL Q G IGL+KA Sbjct: 23 EMKKLFLKVKEGDMEA---RQKLISGNLRLVLSIIQRFTNRGEYVDDLFQVGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + IR+ +RD +K ++ + + R Sbjct: 80 DNFDLEQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDVAYKALQVRDNLVGRFSR 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLD 602 EPT EIA++L +P E V L ++P+SL PI + D + D I+D KN Sbjct: 139 EPTVSEIAQELKVPQEEVVFALDAIQDPVSLFEPIYQDGGDPIFVMDQIKDEKNTDHNWL 198 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 I L+E R L RE +L++RF G EE+G +++ ++ ++E Sbjct: 199 QGIA--LKEALER----LNERERLILKLRFYEGKTQMEVAEEIG----ISQAQVSRLEKA 248 Query: 663 AIRKLK 668 A+ L+ Sbjct: 249 ALNHLR 254 >gi|332799104|ref|YP_004460603.1| RNA polymerase sigma-28 subunit SigG [Tepidanaerobacter sp. Re1] gi|332696839|gb|AEE91296.1| RNA polymerase, sigma 28 subunit, SigG [Tepidanaerobacter sp. Re1] Length = 257 Score = 107 bits (268), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 81/267 (30%), Positives = 144/267 (53%), Gaps = 21/267 (7%) Query: 409 IRNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 I N+++ V+T +S ++ + + ++KG+ A +++++ NLRLV+SV +++ Sbjct: 2 IVNKVEICGVDTSKLPVLSNAKMKELFLQLQKGDKSA---REKLISGNLRLVLSVIQRFN 58 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 NRG DL Q G IGL+KA + FD KFSTYA+ + I R + D + IR+ Sbjct: 59 NRGEYVDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-QIRVSRS 117 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE- 583 +RD +K ++ + K REP+ E+AK++ MP E V L +EP+SL PI + Sbjct: 118 LRDTAYKALQVRDSLVTKNSREPSINEVAKEMNMPSEEVVFALDAIQEPVSLFEPIYHDG 177 Query: 584 -DTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D + D I D+ D +Q +++E R L RE+++L +RF G T Sbjct: 178 GDPIFVMDQISDEKNQD--DQWLQGISIKEAMQR----LGEREKKILNLRFFEG----KT 227 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 EV ++ +++ ++ ++E A++ ++ Sbjct: 228 QMEVAQEIGISQAQVSRLEKAALKHMR 254 >gi|144971|gb|AAA23295.1| ORF1 [Corynebacterium diphtheriae] gi|144975|gb|AAA23298.1| open reading frame [Corynebacterium diphtheriae PW8] Length = 143 Score = 107 bits (267), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 54/142 (38%), Positives = 97/142 (68%), Gaps = 2/142 (1%) Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 M ++ RE T EE+A++ + + +L+ +++P+SL+ P+G ++ + LGDFIED A Sbjct: 1 MYQQLGREATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEAT 60 Query: 599 SPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 +SA+ A+LR + R VL +L RE+ V+R+R+G+ TL+++G+QF ++RER+R Sbjct: 61 DA-ESAVVASLRHSDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVR 119 Query: 658 QIEAKAIRKLKHPSRSKKLRSF 679 QIE + + KL+ +R++KLR++ Sbjct: 120 QIEREVMSKLRDGARAEKLRAY 141 >gi|89099621|ref|ZP_01172496.1| sporulation sigma factor SigG [Bacillus sp. NRRL B-14911] gi|89085774|gb|EAR64900.1| sporulation sigma factor SigG [Bacillus sp. NRRL B-14911] Length = 259 Score = 107 bits (267), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 81/264 (30%), Positives = 140/264 (53%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + + +G+ + A++ +V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRKLFKQMHEGD---TYARECLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ R+ ++ +EPT EEIA+ L +P E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRERLMSETSKEPTAEEIARVLEVPHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + + L+E R L RE+ +LR RF G E Sbjct: 179 DPIFVMDQLSDERN-KDIQWIEEIALKEGMRR----LNEREKLILRKRFFQGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKAAIKQM 253 >gi|229076790|ref|ZP_04209702.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-18] gi|228706352|gb|EEL58613.1| RNA polymerase sigma-43 factor [Bacillus cereus Rock4-18] Length = 252 Score = 107 bits (267), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 117/227 (51%), Gaps = 6/227 (2%) Query: 448 MVEANLRLVISVAKKYTNRG--LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 M N+ LV+S+A+KY + ++F DL+QEGN G+++A E FD LGY FSTYA W+K Sbjct: 1 MFHVNIGLVLSIARKYKKKHPEIEFDDLVQEGNEGMLRAIEDFDPDLGYCFSTYAYCWIK 60 Query: 506 QAITRSIA-DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV- 563 +++ I +S +IP ++ K V + R PT EE+ K+L + E V Sbjct: 61 KSMLGFICKKKSGPFKIPNYVNQFNVKYVEIEDKYLQMHNRIPTVEEVVKELDVTREKVV 120 Query: 564 -RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLT 621 V ++L+ +ED L F D +A+ + I +L + L Sbjct: 121 RHNVYYNRVTTMTLDIDTINEDIGILNSFCNDNSAIPSTNEMIMEDLNYEIWIIFDEVLN 180 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P+++ VL + FG+ H +E+ K +T ER+ Q++ +AI +LK Sbjct: 181 PKQKMVLNLCFGLLDGEIHLHKEIAKALMITTERVSQLKDEAINRLK 227 >gi|167751709|ref|ZP_02423836.1| hypothetical protein EUBSIR_02718 [Eubacterium siraeum DSM 15702] gi|167655517|gb|EDR99646.1| hypothetical protein EUBSIR_02718 [Eubacterium siraeum DSM 15702] gi|291558002|emb|CBL35119.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium siraeum V10Sc8a] Length = 261 Score = 107 bits (267), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 80/247 (32%), Positives = 136/247 (55%), Gaps = 18/247 (7%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 SE ++ +R G+ A+++++ NLRLV+SV ++++ RG DL Q G IGLMKA Sbjct: 27 SEKTELLRQMRSGD---PTAREKLINGNLRLVLSVIQRFSGRGENPDDLFQVGCIGLMKA 83 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + F +FSTYA+ + + R + D S +IR+ MRD +K ++ +++N Sbjct: 84 IDNFSTDFNVRFSTYAVPMIMGELRRYLRD-SGSIRVSRSMRDLAYKAMQAREKLTNDNS 142 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKN-AVSPL 601 +EPT E+IAK++ E V L+ +PISL P+ E DT ++ D I D N + L Sbjct: 143 KEPTIEQIAKEIDAKREDVVIALEAVSDPISLYEPVFSESGDTIYMMDQIGDNNDDRNWL 202 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + L+E + L RE+ +L++RF G T EV ++ +++ ++ ++E Sbjct: 203 D---EIALKEA----IIGLDDREKNILKLRFFRG----KTQVEVAQEIGISQAQVSRLEK 251 Query: 662 KAIRKLK 668 A+ K+K Sbjct: 252 GALGKIK 258 >gi|317121713|ref|YP_004101716.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter marianensis DSM 12885] gi|315591693|gb|ADU50989.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter marianensis DSM 12885] Length = 261 Score = 107 bits (267), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 80/263 (30%), Positives = 142/263 (53%), Gaps = 17/263 (6%) Query: 411 NEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N+++ V T ++ + R + +R+G+ EA ++++V+ NLRLV+SV +++ +R Sbjct: 8 NKVEICGVNTAELPVLTNEQMRVLFRRMRQGDEEA---RQQLVQGNLRLVLSVIQRFNHR 64 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G DL Q G IGLMKA + FD +FSTYA+ + I R + D + IR+ +R Sbjct: 65 GEPVDDLFQVGCIGLMKAIDNFDLEQNVRFSTYAVPMIIGEIRRYLRDNT-PIRVSRSLR 123 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D +K ++ +++++ REPT EEIA++L +P E V L ++P+SL PI + Sbjct: 124 DVAYKALQVRDQLTHRHGREPTLEEIARELGLPREEVVHALDAIQDPVSLFEPIYQDG-- 181 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEV 645 GD I + VS + L R +A L RE+ ++ RF G T EV Sbjct: 182 --GDPIYVVDQVSDDKQRDEQWLETIAVREAMARLDEREQLIITKRFYQG----KTQMEV 235 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 + +++ ++ ++E A+++++ Sbjct: 236 ANEIGISQAQVSRLEKAALQRMR 258 >gi|164686360|ref|ZP_02210390.1| hypothetical protein CLOBAR_02798 [Clostridium bartlettii DSM 16795] gi|164601962|gb|EDQ95427.1| hypothetical protein CLOBAR_02798 [Clostridium bartlettii DSM 16795] Length = 257 Score = 107 bits (267), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 132/246 (53%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 + R ++ +++G+ +A +++ V+ NLRLV+SV +K+ NRG DL Q G +GL+KA Sbjct: 23 QMRELLVKIKQGDEDA---RQKFVKGNLRLVLSVIQKFNNRGENVDDLFQIGCVGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD +FSTYA+ + I R + D + IR+ ++D +K ++ R+ + Sbjct: 80 DNFDLSQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLKDIAYKALQVRERLIRTNSK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT EIAK+L M VE V L ++PISL P+ + D + D ++DK Sbjct: 139 EPTISEIAKELDMEVESVVMALDAIQDPISLFDPVYQDNGDAIFVMDQVQDKKDTD---- 194 Query: 604 AIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + L E + + L+ RE+ VL +RF G +E+G +++ ++ +IE Sbjct: 195 --ENWLEEIALKEAIKKLSSREKLVLDLRFYKGRTQIEVADEIG----ISQAQVSRIEKN 248 Query: 663 AIRKLK 668 A++ ++ Sbjct: 249 ALKNMR 254 >gi|114570847|ref|YP_757527.1| RNA polymerase sigma 32 subunit RpoH [Maricaulis maris MCS10] gi|114341309|gb|ABI66589.1| RNA polymerase, sigma 32 subunit, RpoH [Maricaulis maris MCS10] Length = 305 Score = 107 bits (267), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 79/237 (33%), Positives = 119/237 (50%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A E+ EA++RLVI+VA K+ GL F DLIQEGNIGLMKAA++FD +FSTY WW Sbjct: 55 ALHELTEAHMRLVIAVAAKFKRYGLPFSDLIQEGNIGLMKAADRFDPERDVRFSTYVTWW 114 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTP---EEIAKKL 556 ++ I + +R K + RR+ I TP ++IAK L Sbjct: 115 IRSCIQDYVLRNWSIVRTGTTSAQK--SLFFNLRRIRANIGDLDGSSITPDNRQKIAKDL 172 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V + L+++ SL P+GD + S DF+ D A + + + + Sbjct: 173 RVRERDVENMALRLSASDRSLNAPVGDAEDSQWQDFLVDDTAAPETEVMNRTDSERRSAW 232 Query: 616 V---LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L RE+ ++R R + D TL +G +++ER+RQIE A+ KL+ Sbjct: 233 LGLALDGLNSREQFIIRER---RLREDGSTLASLGDSLGISKERVRQIENAALAKLR 286 >gi|52080136|ref|YP_078927.1| sporulation sigma factor SigG [Bacillus licheniformis ATCC 14580] gi|52785510|ref|YP_091339.1| sporulation sigma factor SigG [Bacillus licheniformis ATCC 14580] gi|319646086|ref|ZP_08000316.1| RNA polymerase sigma-G factor [Bacillus sp. BT1B_CT2] gi|52003347|gb|AAU23289.1| RNA polymerase sporulation-specific sigma factor (sigma-G) [Bacillus licheniformis ATCC 14580] gi|52348012|gb|AAU40646.1| SigG [Bacillus licheniformis ATCC 14580] gi|317391836|gb|EFV72633.1| RNA polymerase sigma-G factor [Bacillus sp. BT1B_CT2] Length = 259 Score = 107 bits (266), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 75/231 (32%), Positives = 128/231 (55%), Gaps = 18/231 (7%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 + A++++V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 37 TTAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSHNVKFSTYAV 96 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 + I R + D + IR+ +RD +K ++ R+ ++ REPT +EIAK+L + E Sbjct: 97 PMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRERLISETSREPTAQEIAKELEVSHE 155 Query: 562 GVRKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRETTTRV 616 + L ++P+SL PI ++ D ++ D I D K++ + A++ +R Sbjct: 156 EIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNKDSQWIEELALKEGMRR----- 210 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE+ +LR RF G T EV + +++ ++ ++E AI+++ Sbjct: 211 ---LNEREKMILRKRFFQG----KTQMEVADEIGISQAQVSRLEKAAIKQM 254 >gi|317486415|ref|ZP_07945242.1| alternative sigma factor RpoH [Bilophila wadsworthia 3_1_6] gi|316922325|gb|EFV43584.1| alternative sigma factor RpoH [Bilophila wadsworthia 3_1_6] Length = 403 Score = 107 bits (266), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 80/249 (32%), Positives = 135/249 (54%), Gaps = 28/249 (11%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLG 493 + G+ +A+ +V ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G Sbjct: 151 KTGDSDAAF---RLVSSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPDKG 207 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTPE 550 KFS YA +W++ I + I D ++I + K+ R K+ E P Sbjct: 208 IKFSYYAAFWIRAYILKFIMDNWRMVKIGTTQAQR--KLFYNLNRERQKLIAEGFDPDAA 265 Query: 551 EIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS--------HLGDFIEDKNAVSPL 601 +A++L + + + ++ ++ +SL+ +GDE S LG IE+ A + Sbjct: 266 TLAERLGVGEDQIVEMQQRLDASDMSLDATVGDESGSATRMDFLPALGPGIEESLAGMEI 325 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQI 659 +Q+ +R+ +L SL+ +E +L R + TD TL E+G+++ VTRER+RQ+ Sbjct: 326 AELLQSKIRD----ILPSLSEKEAYILEHR----LLTDDPVTLREIGERYNVTRERVRQL 377 Query: 660 EAKAIRKLK 668 EA+ ++KLK Sbjct: 378 EARLLQKLK 386 >gi|125972969|ref|YP_001036879.1| sporulation sigma factor SigG [Clostridium thermocellum ATCC 27405] gi|256004766|ref|ZP_05429741.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 2360] gi|281417180|ref|ZP_06248200.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|125713194|gb|ABN51686.1| RNA polymerase, sigma subunit, RpsG/SigG [Clostridium thermocellum ATCC 27405] gi|255991216|gb|EEU01323.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 2360] gi|281408582|gb|EFB38840.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium thermocellum JW20] gi|316940795|gb|ADU74829.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium thermocellum DSM 1313] Length = 257 Score = 107 bits (266), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 123/228 (53%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDVTQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ +++N+ +EPT EEIAK+L +P E V Sbjct: 98 IIGEIRRYLRDNNA-IRVSRSLRDIAYKALQAKEKLTNQNSKEPTIEEIAKELGLPKEEV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++PISL + + D ++ D ++D KN I + + L Sbjct: 157 VFALDAIQDPISLFESVYHDGGDAIYVMDQVKDEKNNDENWLEGI------ALSEAMRKL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G EE+G +++ ++ ++E A+ ++ Sbjct: 211 NDREKLILNLRFFDGRTQMEVAEEIG----ISQAQVSRLEKTALMHMR 254 >gi|303238906|ref|ZP_07325437.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302593539|gb|EFL63256.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 257 Score = 107 bits (266), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDVSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ R++NK +EPT ++I+K+L +P E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALQAKERLTNKNSKEPTVDDISKELGIPKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++PISL + + D ++ D ++D KN I N + L Sbjct: 157 VFALDAIQDPISLFESVYHDGGDAIYVMDQVKDEKNHDENWLEGIALN------EAMRKL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G EE+G +++ ++ ++E A+ ++ Sbjct: 211 NDREKLILNLRFFDGRTQMEVAEEIG----ISQAQVSRLEKTALMHMR 254 >gi|302774234|ref|XP_002970534.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii] gi|300162050|gb|EFJ28664.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii] Length = 458 Score = 107 bits (266), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 132/261 (50%), Gaps = 14/261 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL--DLIQEGNIGLM 482 ++FR + ++ GE A+ +++E N RLV+ +A++Y F DL QEG GL+ Sbjct: 204 TDFRTLRRRLQLGEA----AQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLI 259 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 A + F+ G +FSTYA++W++ AI R+I IR+P K ++ + R + + Sbjct: 260 DAMDHFNPGKGTRFSTYAIFWIRTAIVRAITRTGQVIRLPFSFAAKKVEIRKARRELRVE 319 Query: 543 IKREPTPEEIAKKLAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R P+ EE+ ++ + PV+ SL + D L E + VS Sbjct: 320 LGRNPSDEEVMERTGLDPVQFWNIYYYSNFRVRSLNETVRGTDEEFLEYLPETGDIVSE- 378 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGI--GMNTDHTLEEVGKQFCVTRERIRQI 659 + +RE L L +E VL+ R+G+ G +L EVG++ +++E +R+ Sbjct: 379 ----SSEVREEIVTALQRLKDKERMVLQHRYGLEDGALAVKSLREVGRRLNMSQEMVRRY 434 Query: 660 EAKAIRKLKHPSRSKKLRSFL 680 EA A+ +L+H +K LRS L Sbjct: 435 EASALERLRHQEEAKSLRSCL 455 >gi|322384112|ref|ZP_08057830.1| sporulation sigma factor SigG-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151192|gb|EFX44501.1| sporulation sigma factor SigG-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 272 Score = 107 bits (266), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 86/267 (32%), Positives = 143/267 (53%), Gaps = 19/267 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T ++ +E R + ++++ A A++++V NLRLV+SV +++ N Sbjct: 15 RNKVEICGVDTAKLPVLTNTEMRELFALLQTKNERA--AREKLVNGNLRLVLSVIQRFNN 72 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD KFSTYA+ + I R + D + IR+ + Sbjct: 73 RGEFVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 131 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +++N+ REPT EI++ L +P E V L ++P+SL PI + Sbjct: 132 RDIAYKALQVRDQLTNRNSREPTIYEISEVLNVPKEDVVFALDAIQDPVSLFEPIYHDGG 191 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D ++ D I D+ L LRE + L RE+ +L MRF G T Sbjct: 192 DPIYVMDQISDERN-KDLFWIEGIALREA----MRKLGSREKMILSMRFFEG----KTQM 242 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI ++ KH Sbjct: 243 EVADEIGISQAQVSRLEKSAINQMQKH 269 >gi|157803973|ref|YP_001492522.1| RNA polymerase factor sigma-32 [Rickettsia canadensis str. McKiel] gi|157785236|gb|ABV73737.1| hypothetical protein A1E_04050 [Rickettsia canadensis str. McKiel] Length = 296 Score = 107 bits (266), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 125/237 (52%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +DT G+ IE P A+ N + TT+ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDTES-GELIELLPETRPTPEAMAINKQNYTTKKH 227 Query: 616 VLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LAS L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLASAMKILNDRELRILTER--KLKDTPKTLDILSSEYNISKERIRQIENTAFEKIK 282 >gi|56964115|ref|YP_175846.1| sporulation sigma factor SigG [Bacillus clausii KSM-K16] gi|56910358|dbj|BAD64885.1| DNA-directed RNA polymerase sigma factor sigma-G [Bacillus clausii KSM-K16] Length = 261 Score = 107 bits (266), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 86/269 (31%), Positives = 142/269 (52%), Gaps = 22/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + +E R + + ++ G A++ +V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTSTLPVLKNAEMRELFTKLQAG---YEPARETLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKR--EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE 583 RD +K ++ +M + KR EPT +EIA L +P E V L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVRDQMMAEKKREKEPTVQEIAAVLEVPKEDVVFALDAIQDPVSLFEPIYND 178 Query: 584 --DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D + D I D+ ++ + L+E R L RE+ +L MRF G Sbjct: 179 GGDPIFVMDQISDERN-KDINWVEEIALKEAMVR----LNDREKTILNMRFFQGKTQMEV 233 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EE+G +++ ++ ++E AI+++ KH Sbjct: 234 AEEIG----ISQAQVSRLEKGAIQQMNKH 258 >gi|225175855|ref|ZP_03729848.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Dethiobacter alkaliphilus AHT 1] gi|225168779|gb|EEG77580.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Dethiobacter alkaliphilus AHT 1] Length = 268 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 122/227 (53%), Gaps = 10/227 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E++ NLRLV+SV +++ NRG DL Q G IGLMKA + F FSTYA+ Sbjct: 38 ARQELINGNLRLVLSVLQRFKNRGENLDDLFQVGCIGLMKAVDNFSLDHNVHFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +R+ ++ HK ++ ++ K+ REPT +EIA L + E V Sbjct: 98 IIGEIKRYLRDNNA-VRVSRSLKMLAHKAQQSREELTRKLLREPTLKEIAADLDITPEEV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 + +P+SL P+ + T + F+ D VS S+ + + + T R + L+ Sbjct: 157 VFAYQAINDPLSLHDPVFQDTTDPV--FVMD--LVSDQSSSAEIWVEDITLRQAMEILSE 212 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L RF G T E+ + +++ ++ +IE A+R+++H Sbjct: 213 RERRILESRFFEG----RTQTEIANEIGISQAQVSRIEKSALRQVRH 255 >gi|154500348|ref|ZP_02038386.1| hypothetical protein BACCAP_04015 [Bacteroides capillosus ATCC 29799] gi|150270853|gb|EDM98136.1| hypothetical protein BACCAP_04015 [Bacteroides capillosus ATCC 29799] Length = 256 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 131/239 (54%), Gaps = 10/239 (4%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V+++++ + + A++E++ NLRLV+SV +K++NRG DL Q G IGL+KA + F+ Sbjct: 24 VALLKRTKEGDTAAREELIAGNLRLVLSVIQKFSNRGENVDDLFQVGCIGLIKAIDNFNT 83 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 L +FSTY + + I R + D S ++R+ MRD +KV++ + + +REPT E Sbjct: 84 DLDVRFSTYGVPMIVGEIRRYLRDNS-SMRVSRSMRDTAYKVLQAKEKFMAEHQREPTME 142 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 EIAK L + E V + +P+SL P+ S GD I + V + ++ L Sbjct: 143 EIAKMLDLKREDVVFAMDAIMDPVSLYEPV----YSDGGDAICVMDQVKDSKNTDESWLE 198 Query: 611 ETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ L+ RE +L +RF G T EV + +++ ++ ++E AI K++ Sbjct: 199 HIALKEAISHLSDRERHILSLRFFEG----RTQMEVSAEIGISQAQVSRLEKSAIWKIR 253 >gi|86158413|ref|YP_465198.1| RNA polymerase sigma factor RpoH [Anaeromyxobacter dehalogenans 2CP-C] gi|85774924|gb|ABC81761.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 307 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/244 (31%), Positives = 125/244 (51%), Gaps = 18/244 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ANLR V+ VA +Y + G + DLIQEGNIGLMKA +KFD G + +YA+WW Sbjct: 46 AAHRLVTANLRFVVKVAYEYRSYGFRMADLIQEGNIGLMKAVQKFDPDKGIRLISYAVWW 105 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPT------PEEIAKK 555 ++ I I +++ R + RT R + + + + ++AKK Sbjct: 106 IRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTKRELDKRSQEQGADSDGHDANKVAKK 165 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD--SAIQANLRET 612 L + VR++ ++ +SL+ P+GD+ DF+ + S D S +Q + Sbjct: 166 LRVKPGEVREMEQRMEGRDLSLDAPMGDDGGYSHVDFLA-SGSTSQDDELSGVQEQ-KVV 223 Query: 613 TTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + R+ L L RE ++ MR + + TL+E+G+ F +RER RQ+E +A KLK Sbjct: 224 SGRIVEALGRLDQRERYIIEMR--VMSDRPLTLKELGEHFGFSRERARQLEIRAKDKLKE 281 Query: 670 PSRS 673 R+ Sbjct: 282 ELRA 285 >gi|332976340|gb|EGK13196.1| DNA-directed RNA polymerase sigma subunit SigG [Desmospora sp. 8437] Length = 259 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/227 (33%), Positives = 122/227 (53%), Gaps = 14/227 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NLRLV+SV +++ NRG DL Q G IGLMKA + FD KFSTYA+ Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYAVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ + REPT +EI+++L + E V Sbjct: 99 IIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDSLTYRHSREPTIQEISEELNVSKEEV 157 Query: 564 RKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI G + + +D+N L + LRE R L Sbjct: 158 VFALDAIQDPVSLFEPIYQDGGDPIYVMDQLADDEN--KDLHWVEEIALREAMGR----L 211 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 RE+ +L MRF G EE+G +++ ++ ++E AI+++ Sbjct: 212 NDREKMILSMRFFEGKTQMEVAEEIG----ISQAQVSRLEKAAIQQM 254 >gi|326392135|ref|ZP_08213612.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus JW 200] gi|325991822|gb|EGD50337.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus JW 200] Length = 256 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 123/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLNQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 97 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPREEV 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + + L+ Sbjct: 156 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNMDEVWLEKIALKEAIQKLSE 211 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 212 REKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 253 >gi|326204636|ref|ZP_08194492.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium papyrosolvens DSM 2782] gi|325985203|gb|EGD46043.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium papyrosolvens DSM 2782] Length = 257 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/227 (32%), Positives = 121/227 (53%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 ARDEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDVSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ R++ + +EPT E+A++L +P E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALQAKERLTTQNSKEPTIAELAQELQLPKEDI 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVLASLT 621 L ++PISL + + GD I + VS D I N ET + + L Sbjct: 157 VFALDAIQDPISLFESVYHDG----GDAIYVMDQVSD-DKNIDENWLETISLKEAMRKLN 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A+ +K Sbjct: 212 DREKLILNLRFFEG----RTQMEVADEIGISQAQVSRLEKTALMHMK 254 >gi|268608170|ref|ZP_06141897.1| sporulation sigma factor SigG [Ruminococcus flavefaciens FD-1] Length = 259 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 124/228 (54%), Gaps = 15/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++++ NLRLV+SV +++T RG DL Q G IGL+KA FD +FSTY + Sbjct: 39 ARDKLIKGNLRLVLSVIQRFTGRGEDIDDLFQIGVIGLIKAINNFDLTKEVRFSTYCVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D S +++ +RD +K +++ R++ +++REP+ +EIA+ + + Sbjct: 99 ISGELRRHLRDYS-HVKVSRSLRDLAYKAIQSKERLTVRLQREPSIDEIAEDIGEKRSEI 157 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L+ +P+SL P+ +DT + D I D+N I++ L E T R + L Sbjct: 158 VIALESISDPVSLYEPVYSDSDDTLFIMDQISDRN-------DIESRLNELTIRDAINQL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +L +RF G T EV + +++ ++ ++E AIR +K Sbjct: 211 GQRERNILYLRFFRG----KTQTEVAGEIGISQAQVSRLEKSAIRTVK 254 >gi|156636395|gb|ABU92468.1| RpoD [Vibrio vulnificus] gi|156636449|gb|ABU92495.1| RpoD [Vibrio vulnificus] gi|156636451|gb|ABU92496.1| RpoD [Vibrio vulnificus] gi|156636453|gb|ABU92497.1| RpoD [Vibrio vulnificus] gi|156636459|gb|ABU92500.1| RpoD [Vibrio vulnificus] gi|156636463|gb|ABU92502.1| RpoD [Vibrio vulnificus] gi|156636465|gb|ABU92503.1| RpoD [Vibrio vulnificus] gi|156636467|gb|ABU92504.1| RpoD [Vibrio vulnificus] gi|156636469|gb|ABU92505.1| RpoD [Vibrio vulnificus] gi|156636471|gb|ABU92506.1| RpoD [Vibrio vulnificus] gi|156636473|gb|ABU92507.1| RpoD [Vibrio vulnificus] gi|156636477|gb|ABU92509.1| RpoD [Vibrio vulnificus] gi|156636479|gb|ABU92510.1| RpoD [Vibrio vulnificus] gi|156636481|gb|ABU92511.1| RpoD [Vibrio vulnificus] gi|156636483|gb|ABU92512.1| RpoD [Vibrio vulnificus] gi|156636485|gb|ABU92513.1| RpoD [Vibrio vulnificus] gi|156636487|gb|ABU92514.1| RpoD [Vibrio vulnificus] gi|156636489|gb|ABU92515.1| RpoD [Vibrio vulnificus] gi|156636491|gb|ABU92516.1| RpoD [Vibrio vulnificus] gi|156636493|gb|ABU92517.1| RpoD [Vibrio vulnificus] Length = 202 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 68/175 (38%), Positives = 98/175 (56%), Gaps = 6/175 (3%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E ++ + L + D LV +L R+ E +++ A + + F+ G Sbjct: 29 ELMLDVFKEFRLTPKQFDHLVNELRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGN 88 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W+ D P E + + I + +++++I ET +S+S + I + Sbjct: 89 ESSEEWLDKILVSDKPYAEK---IKLHEEDIRRSISKLRAIEEETSLSVSNIKDISRRMS 145 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|108760621|ref|YP_631554.1| RNA polymerase sigma-B factor [Myxococcus xanthus DK 1622] gi|108464501|gb|ABF89686.1| RNA polymerase sigma-B factor [Myxococcus xanthus DK 1622] Length = 246 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 122/232 (52%), Gaps = 16/232 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV ANLR V+ VA +Y + G++ DLIQEGNIGLMKA +KFD G + +YA+WW++ Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 508 ITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPT--PEEIAKKLAMPVEGV 563 I I +++ R + RT R + + ++IA++L + V Sbjct: 61 IQNYILKSWSLVKLGTTQAQRKLFFSLARTRRELEKFGSGDAAVNVDDIARRLHVKPGEV 120 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----QANLRETTTR-VL 617 R++ ++ +SL+ P+G++ + DF+ +A +P D +A L R L Sbjct: 121 REMEQRMGGRDLSLDAPMGEDGGNSHVDFV--VSAAAPQDDEFADKEEAGLINARVRTAL 178 Query: 618 ASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE ++ R MN TL+E+G+ F +RER RQ+E +A KLK Sbjct: 179 MRLDPRERFIIEQRV---MNERPMTLKELGEHFGFSRERARQLEIRAKDKLK 227 >gi|167037237|ref|YP_001664815.1| sporulation sigma factor SigG [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167040623|ref|YP_001663608.1| sporulation sigma factor SigG [Thermoanaerobacter sp. X514] gi|300914664|ref|ZP_07131980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|307267689|ref|ZP_07549143.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307724102|ref|YP_003903853.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|320115656|ref|YP_004185815.1| RNA polymerase sigma-G factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166854863|gb|ABY93272.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|166856071|gb|ABY94479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|300889599|gb|EFK84745.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X561] gi|306917291|gb|EFN47611.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter wiegelii Rt8.B1] gi|307581163|gb|ADN54562.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|319928747|gb|ADV79432.1| RNA polymerase sigma-G factor [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 256 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 123/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLNQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 97 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPREEV 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + + L+ Sbjct: 156 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNMDEVWLEKIALKEAIQKLSE 211 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 212 REKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 253 >gi|153003975|ref|YP_001378300.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] gi|152027548|gb|ABS25316.1| RNA polymerase sigma-70 [Anaeromyxobacter sp. Fw109-5] Length = 299 Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/243 (31%), Positives = 127/243 (52%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++VEANLR V+ VA +Y + GL+ DLIQEGNIGLMKA +KFD + +YA+WW Sbjct: 44 AAHKLVEANLRFVVKVAFEYRSYGLRMADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE-----------I 552 ++ I I ++I + K+ + R ++I+R TP + Sbjct: 104 IRAYIQNHILKSWSLVKIGTTQAQR--KLFFSLARTRHEIER-VTPGAGLDSEGIDVNLV 160 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL------GDFIEDKNAVSPLDSAI 605 AKKL + V ++ ++ +SL+ P+ D ++HL D +D+ A + D+ + Sbjct: 161 AKKLRVRASDVVEMQQRMEGRDLSLDAPVADGTSTHLEFTPSDADPQDDELARAEEDAIV 220 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + + +R L PRE ++ R I + TL ++G+ F +RER RQ+E +A+ Sbjct: 221 NRRVNDAMSR----LDPRERHIVEAR--IMGDGKETLRDLGQHFGFSRERARQLEIRALE 274 Query: 666 KLK 668 KL+ Sbjct: 275 KLR 277 >gi|288962535|ref|YP_003452830.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914801|dbj|BAI76286.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 296 Score = 106 bits (264), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/256 (30%), Positives = 131/256 (51%), Gaps = 21/256 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R + E S A ++V ++LRLV +A Y GL +LI EGN+G+M+A ++FD G+ Sbjct: 40 RWQQHEDSGAAHQLVTSHLRLVAKIAMGYRGYGLPLSELISEGNVGMMQAVKRFDPDRGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW++ AI I +++ K K+ RR+ +++ + +PE Sbjct: 100 RLATYAMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIEEGDLSPE 157 Query: 551 E---IAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + IA KL +P + V + + P SL P+ E DF+ D++A + A + Sbjct: 158 QVQAIATKLDVPEQDVVNMNRRLASPDHSLNAPLRAESEGEWQDFLVDESASQEIALADR 217 Query: 607 ANL---RETTTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 L R+ + L RE +L R+R TLE++ +++ ++RER+RQIE Sbjct: 218 EELGKRRKLLVEAMTGLNERERDILTERRLR-----EAPTTLEDLSQKYGISRERVRQIE 272 Query: 661 AKAIRKLKHPSRSKKL 676 +A KL+ ++ L Sbjct: 273 VRAFEKLQKAIKAAAL 288 >gi|110799379|ref|YP_696447.1| sporulation sigma factor SigG [Clostridium perfringens ATCC 13124] gi|168207288|ref|ZP_02633293.1| RNA polymerase sigma-G factor [Clostridium perfringens E str. JGS1987] gi|168210606|ref|ZP_02636231.1| RNA polymerase sigma-G factor [Clostridium perfringens B str. ATCC 3626] gi|168214238|ref|ZP_02639863.1| RNA polymerase sigma-G factor [Clostridium perfringens CPE str. F4969] gi|168217048|ref|ZP_02642673.1| RNA polymerase sigma-G factor [Clostridium perfringens NCTC 8239] gi|169342669|ref|ZP_02863710.1| RNA polymerase sigma-G factor [Clostridium perfringens C str. JGS1495] gi|182625828|ref|ZP_02953594.1| RNA polymerase sigma-G factor [Clostridium perfringens D str. JGS1721] gi|110674026|gb|ABG83013.1| RNA polymerase sigma-G factor [Clostridium perfringens ATCC 13124] gi|169299175|gb|EDS81245.1| RNA polymerase sigma-G factor [Clostridium perfringens C str. JGS1495] gi|170661342|gb|EDT14025.1| RNA polymerase sigma-G factor [Clostridium perfringens E str. JGS1987] gi|170711289|gb|EDT23471.1| RNA polymerase sigma-G factor [Clostridium perfringens B str. ATCC 3626] gi|170714329|gb|EDT26511.1| RNA polymerase sigma-G factor [Clostridium perfringens CPE str. F4969] gi|177908862|gb|EDT71354.1| RNA polymerase sigma-G factor [Clostridium perfringens D str. JGS1721] gi|182380954|gb|EDT78433.1| RNA polymerase sigma-G factor [Clostridium perfringens NCTC 8239] Length = 257 Score = 106 bits (264), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 AREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + TIR+ +RD +K + ++ N+ +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-TIRVSRSLRDIAYKALLVRDKLVNENNKEPTVSQIAKELKIPREDV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI + D ++ D I D KN D + N+ + L Sbjct: 157 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQISDSKNQ----DDSWLENI--AIKEAMKKL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 211 NDREKLILNLRFFNG----RTQMEVADEIGISQAQVSRLEKIALKHMR 254 >gi|148284686|ref|YP_001248776.1| RNA polymerase factor sigma-32 [Orientia tsutsugamushi str. Boryong] gi|146740125|emb|CAM80313.1| RNA polymerase sigma-32 factor [Orientia tsutsugamushi str. Boryong] Length = 299 Score = 106 bits (264), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 130/245 (53%), Gaps = 17/245 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V+++L+LV +A Y GL +DL+ EGNIGL++A +K++ LG++ STYA+WW Sbjct: 52 AAHSLVKSHLKLVAKIALSYRGYGLPVVDLVSEGNIGLLQAVKKYNPELGFRLSTYAIWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-------EPTPEEIAKKL 556 +K AI I +++ K K+ ++ NKI + ++IA + Sbjct: 112 IKAAIQDYILRSWSLVKLGTTAAQK--KLFFNLGKIKNKITKMHARAINSSDYKQIADES 169 Query: 557 AMPVEGVRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + + V +V +++ +SL TPI ++D + L + + + + A Q +L + Sbjct: 170 GVSIAEVSEVNQRLSNSDLSLNTPISYHEDDATELVELVPEHRPNQEIILANQQDLNLKK 229 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L +LT RE ++R R + TLE++ F V++ERIRQIE+KA KL+ Sbjct: 230 EVLENALQTLTQRELYIIRAR--KLQDEPDTLEKLSLHFNVSKERIRQIESKAFEKLQQY 287 Query: 671 SRSKK 675 + + K Sbjct: 288 AMNTK 292 >gi|134298969|ref|YP_001112465.1| FliA/WhiG family RNA polymerase sigma factor [Desulfotomaculum reducens MI-1] gi|134051669|gb|ABO49640.1| RNA polymerase, sigma subunit, RpoX/SigF [Desulfotomaculum reducens MI-1] Length = 260 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 131/237 (55%), Gaps = 10/237 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +++K + S A++ +V NL+LV ++ ++++NRG + DL Q G IGLMKA +KFD Sbjct: 25 LLKKAQSGNSEARERLVNCNLKLVFNLVQRFSNRGYELEDLFQIGCIGLMKAIDKFDLSY 84 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 KFSTYA+ + I R + D S +++ +++ +K+ +T R++ ++ REP+ EI Sbjct: 85 DVKFSTYAVPMIVGEIRRFLRDDS-PVKVSRSLKETAYKIQQTRDRLTARLGREPSINEI 143 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A++L+ E V L+ + P S+ + +D GD I + +S D L + Sbjct: 144 AEELSYSREEVVNALEAAQMPTSIYETLHQDD----GDPIYILDQLSGEDEGDAPWLEKL 199 Query: 613 TTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L L R+ ++L RF D T EV + +++ ++ ++E +A+RKLK Sbjct: 200 AVKQILIQLPERDRQILLWRF----FEDKTQSEVALRLGLSQVQVSRLERQALRKLK 252 >gi|189184203|ref|YP_001937988.1| RNA polymerase factor sigma-32 [Orientia tsutsugamushi str. Ikeda] gi|189180974|dbj|BAG40754.1| heat shock sigma factor RpoH [Orientia tsutsugamushi str. Ikeda] Length = 299 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 130/245 (53%), Gaps = 17/245 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V+++L+LV +A Y GL +DL+ EGNIGL++A +K++ LG++ STYA+WW Sbjct: 52 AAHSLVKSHLKLVAKIALSYRGYGLPVVDLVSEGNIGLLQAVKKYNPELGFRLSTYAIWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-------EPTPEEIAKKL 556 +K AI I +++ K K+ ++ NKI + ++IA + Sbjct: 112 IKAAIQDYILRSWSLVKLGTTAAQK--KLFFNLGKIKNKITKLHARAINSSDYKQIADES 169 Query: 557 AMPVEGVRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + + V +V +++ +SL TPI ++D + L + + + + A Q +L + Sbjct: 170 GVSIAEVSEVNQRLSNSDLSLNTPISYHEDDATELVELVPEHRPNQEIILANQQDLNLKQ 229 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L +LT RE ++R R + TLE++ F V++ERIRQIE+KA KL+ Sbjct: 230 EVLQNALQTLTQRELYIIRAR--KLQDEPDTLEKLSLHFNVSKERIRQIESKAFEKLQQY 287 Query: 671 SRSKK 675 + + K Sbjct: 288 AMNTK 292 >gi|256751992|ref|ZP_05492861.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus CCSD1] gi|256749102|gb|EEU62137.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacter ethanolicus CCSD1] Length = 256 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/226 (33%), Positives = 123/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLDQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 97 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPREEV 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + + L+ Sbjct: 156 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNMDEVWLEKIALKEAIQKLSE 211 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 212 REKMILTMRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 253 >gi|228931462|ref|ZP_04094387.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229188107|ref|ZP_04315191.1| RNA polymerase sigma-43 factor [Bacillus cereus BGSC 6E1] gi|228595348|gb|EEK53084.1| RNA polymerase sigma-43 factor [Bacillus cereus BGSC 6E1] gi|228828268|gb|EEM73978.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] Length = 323 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/268 (28%), Positives = 137/268 (51%), Gaps = 19/268 (7%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG--LQ 469 EIK I +S E ++ + GE + + + N+ LV+S+A+KY N+ ++ Sbjct: 39 EIKEIGNYQVLSKQESLNLFQRYKHGEKDL---RDYLFHVNVGLVLSIARKYKNKHPDIE 95 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ-SCTIRIPVHMRDK 528 F DL+QEGN G+++A E F+ LGY FSTYA W+++ + I + S +IP ++ Sbjct: 96 FDDLVQEGNEGMLRAMEDFNPALGYCFSTYAFCWIQKRMLGIICKKRSGPFKIPNYVNQF 155 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV-------RKVLKITKEPISLETPIG 581 K V + R P+ EE+ K L + E V ++ +T + ++ IG Sbjct: 156 NLKYVELEDKYLQMYNRPPSVEEVVKDLDVTSEIVIRHNVYYKRATTMTLDIDTINEDIG 215 Query: 582 DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASLTPREERVLRMRFGIGMNTDH 640 ++SH +DK+A+ ++ + +L + L P+++ VL + FG+ + Sbjct: 216 ISNSSH-----DDKSAIPSINEMVIEDLNYEIWLIFDEVLNPKQKMVLNLCFGLLDGKVY 270 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+ K +T ER+ QI+ +AI+KLK Sbjct: 271 LHKEIAKALMITTERVSQIKEEAIKKLK 298 >gi|197286218|ref|YP_002152090.1| RNA polymerase sigma factor RpoD [Proteus mirabilis HI4320] gi|227357334|ref|ZP_03841691.1| RNA polymerase sigma-70 factor [Proteus mirabilis ATCC 29906] gi|194683705|emb|CAR44685.1| RNA polymerase sigma-70 factor [Proteus mirabilis HI4320] gi|227162597|gb|EEI47586.1| RNA polymerase sigma-70 factor [Proteus mirabilis ATCC 29906] Length = 618 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 68/169 (40%), Positives = 99/169 (58%), Gaps = 9/169 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D+ D A A+ + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NSNDTDDDAVEAA--AQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 G + S+ E P L+ D + G L ++I A I P ++ Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIT--AFIDPNAE 173 >gi|317154823|ref|YP_004122871.1| sigma-70 family RNA polymerase sigma factor [Desulfovibrio aespoeensis Aspo-2] gi|316945074|gb|ADU64125.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio aespoeensis Aspo-2] Length = 397 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 79/246 (32%), Positives = 134/246 (54%), Gaps = 17/246 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++V ++LRLV+ +A + R +Q LDLIQEGN+GL+KA KFD G KFS YA + Sbjct: 150 AAFKLVSSHLRLVVRIAMDFQRRWMQNALDLIQEGNVGLLKAVTKFDPEKGIKFSYYAAF 209 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 WVK I + I D +++ + K+ + R+ + +PT E ++K L + Sbjct: 210 WVKAYILKYIMDNWRMVKVGTTQTQRKLFYNLNKERQRLQAMGFDPTTEALSKSLGVSEA 269 Query: 562 GVRKV-LKITKEPISLETPIG-DEDTSH------LGDFIEDKNAVSPLDSAIQANLRETT 613 + ++ ++++ +SL P+G D D + LG IE+ A + + NL+ Sbjct: 270 EIDEMDQRLSRNDMSLNAPLGEDSDATRMDFLPSLGPGIEESLASDQIVELLLENLKA-- 327 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + +L +E +L R + + TL E+G++F VTRER+RQIEA+ I K++ + Sbjct: 328 --IRPTLNDKELAILDHR--LLSDDPMTLREIGERFEVTRERVRQIEARLIAKIRE-HMT 382 Query: 674 KKLRSF 679 +K++ F Sbjct: 383 EKIKGF 388 >gi|86157496|ref|YP_464281.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter dehalogenans 2CP-C] gi|85774007|gb|ABC80844.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-C] Length = 300 Score = 106 bits (264), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 114/244 (46%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +VEANLR V+ VA +Y + GL+ DLIQEGNIGLMKA +KFD + +YA+WW Sbjct: 44 AGHRLVEANLRFVVKVAFEYRSYGLRMADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE------IAKK 555 ++ I I ++I R + RT + EE +AKK Sbjct: 104 IRAYIQNHILKSWSLVKIGTTQAQRKLFFSLARTRHEIERLTPGAGLAEEGIDVALVAKK 163 Query: 556 LAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-------- 606 L + P + V ++ +SL+ P+ D ++HL +P D Q Sbjct: 164 LRVRPSDVVEMTQRMEGRDLSLDAPVADGTSTHL--------EFTPADGEPQDEELARAE 215 Query: 607 --ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A L + + L PRE ++ R I TL ++G F +RER RQ+E +A+ Sbjct: 216 EDALLARRVSEAMGRLDPRERHIVEAR--IMGEGKETLRDLGHHFGFSRERARQLEIRAL 273 Query: 665 RKLK 668 KL+ Sbjct: 274 EKLR 277 >gi|304317193|ref|YP_003852338.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778695|gb|ADL69254.1| RNA polymerase, sigma 28 subunit, SigG [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 256 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 75/227 (33%), Positives = 124/227 (54%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLNQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ ++ N+ +EPT +IAK+L +P E V Sbjct: 97 IIGEIRRYLRDNN-SIRVSRSLRDVAYKALQIRDKLVNENSKEPTVGDIAKELNIPREEV 155 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L ++P+SL PI + D ++ D I D V + Q L+E + L Sbjct: 156 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQIGDDKNVDEVWLE-QIALKEAIKK----LN 210 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L MRF G T EV ++ +++ ++ ++E A+ ++ Sbjct: 211 DREKMILTMRFFEG----KTQMEVAREIGISQAQVSRLEKSALTHMR 253 >gi|156636391|gb|ABU92466.1| RpoD [Vibrio vulnificus] Length = 202 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 68/175 (38%), Positives = 99/175 (56%), Gaps = 6/175 (3%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E ++ + L + D LV +L R+ E +++ A + + F+ G Sbjct: 29 ELMLDVFKEFRLTPKQFDHLVNELRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGN 88 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W+ A D P E + + I + ++++I ET +S++ + I + Sbjct: 89 ESNEEWLDQILASDKPYVEK---IKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMS 145 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|170744871|ref|YP_001773526.1| RNA polymerase factor sigma-32 [Methylobacterium sp. 4-46] gi|168199145|gb|ACA21092.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium sp. 4-46] Length = 296 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 119/238 (50%), Gaps = 20/238 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ +I R ++IA +L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGRISALDEGDLRPEQVKQIATRL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V ++ + SL P+ +E D++ D SP A+ A E R+ Sbjct: 165 GVPEQDVIEMNRRLSGDASLNAPLREEGEGEWQDWLVDD---SPSQEAVLAREEEGQNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L PRE R+ R TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 AALRDALSVLNPRERRIFEARR--LAEEPITLEDLSSEFGVSRERVRQIEVRAFEKVQ 277 >gi|332297914|ref|YP_004439836.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] gi|332181017|gb|AEE16705.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema brennaborense DSM 12168] Length = 269 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 70/227 (30%), Positives = 115/227 (50%), Gaps = 4/227 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK ++V++NLRLV+S+A KY + + +DLIQEGN+GL+ AA KF + +FSTYA W Sbjct: 38 AKLKLVQSNLRLVVSIANKYVSDRIGVMDLIQEGNLGLLTAASKFHYSFNTRFSTYAYSW 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + Q I R I ++ I +P + + K+ + +++ EPT EIA + + + Sbjct: 98 ITQYILRFIQNKIPYITLPHRKEEMLRKIHMAKIDLMQQLQSEPTLREIASYMDVSESDI 157 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP- 622 L S++ I D I D + SP ++ NL R L P Sbjct: 158 SGALMHEYVYSSIDAEIDGTSNLTCADMIADPSP-SPEQLCLK-NLEAEDIRSLVETLPD 215 Query: 623 REERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +V+ RF TL ++ + ++ E +RQ+E +A++ L+ Sbjct: 216 RERQVIYYRFNFDNSRKPWTLRQISEMLGISAETVRQMELRALQFLR 262 >gi|18310743|ref|NP_562677.1| sporulation sigma factor SigG [Clostridium perfringens str. 13] gi|18145424|dbj|BAB81467.1| probable transcription initiation factor sigma G [Clostridium perfringens str. 13] Length = 270 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 51 AREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + TIR+ +RD +K + ++ N+ +EPT +IAK+L +P E V Sbjct: 111 IIGEIRRYLRDNN-TIRVSRSLRDIAYKALLVRDKLVNENNKEPTVSQIAKELKIPREDV 169 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI + D ++ D I D KN D + N+ + L Sbjct: 170 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQISDSKNQ----DDSWLENI--AIKEAMKKL 223 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 224 NDREKLILNLRFFNG----RTQMEVADEIGISQAQVSRLEKIALKHMR 267 >gi|260893400|ref|YP_003239497.1| RNA polymerase, sigma 28 subunit, SigG [Ammonifex degensii KC4] gi|260865541|gb|ACX52647.1| RNA polymerase, sigma 28 subunit, SigG [Ammonifex degensii KC4] Length = 256 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 73/229 (31%), Positives = 129/229 (56%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E+++ NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 ARSELIKGNLRLVLSVVQRFANRGEHLDDLFQVGCIGLIKAIDNFDLDQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++++ REP+ EIA+ L +P E V Sbjct: 97 IIGEIRRYLRDNN-AIRVSRSLRDIAYKALQVRDVLASQYAREPSVAEIAEALKLPQEEV 155 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNA-VSPLDSAIQANLRETTTRVLAS 619 L+ ++P+SL P+ + D ++ D + D KN V+ L++ ++E R Sbjct: 156 VMALEAIQDPVSLFEPVYHDGGDPIYVMDQVGDEKNQDVNWLEN---IAIKEAMKR---- 208 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ RE ++++MRF G EE+G +++ ++ ++E A+ ++ Sbjct: 209 LSERERQIIKMRFFEGKTQMEVAEEIG----ISQAQVSRLEKAALNHMR 253 >gi|288287|emb|CAA39117.1| unnamed protein product [Myxococcus xanthus] Length = 246 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 121/232 (52%), Gaps = 16/232 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV ANLR V+ VA +Y + G++ DLIQEGNIGLMKA +KFD G + +YA+WW++ Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPVEGV 563 I I +++ K+ + RR K ++IA++L + V Sbjct: 61 IQNYILKSWSLVKLGTTQAHGKLFFSLARTRRELEKFGSGDAAVNVDDIARRLHVKPGEV 120 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----QANLRETTTR-VL 617 R++ ++ +SL+ P+G++ + DF+ +A +P D +A L R L Sbjct: 121 REMEQRMGGRDLSLDAPMGEDGGNSHVDFV--VSAAAPQDDEFADKEEAGLINARVRTAL 178 Query: 618 ASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE ++ R MN TL+E+G+ F +RER RQ+E +A KLK Sbjct: 179 MRLDPRERFIIEQRV---MNERPMTLKELGEHFGFSRERARQLEIRAKDKLK 227 >gi|156636433|gb|ABU92487.1| RpoD [Vibrio vulnificus] gi|156636455|gb|ABU92498.1| RpoD [Vibrio vulnificus] gi|156636457|gb|ABU92499.1| RpoD [Vibrio vulnificus] gi|156636461|gb|ABU92501.1| RpoD [Vibrio vulnificus] gi|156636475|gb|ABU92508.1| RpoD [Vibrio vulnificus] gi|156636495|gb|ABU92518.1| RpoD [Vibrio vulnificus] gi|156636497|gb|ABU92519.1| RpoD [Vibrio vulnificus] gi|156636499|gb|ABU92520.1| RpoD [Vibrio vulnificus] gi|156636501|gb|ABU92521.1| RpoD [Vibrio vulnificus] Length = 202 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 68/175 (38%), Positives = 97/175 (55%), Gaps = 6/175 (3%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E ++ + L + D LV +L R+ E +++ A + + F+ G Sbjct: 29 ELMLDVFKEFRLTPKQFDHLVNELRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGN 88 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W+ D P E + + I + ++++I ET +S+S + I + Sbjct: 89 ESSEEWLDKILVSDKPYAEK---IKLHEEDIRRSIAKLRAIEEETSLSVSNIKDISRRMS 145 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|205373280|ref|ZP_03226084.1| sporulation sigma factor SigG [Bacillus coahuilensis m4-4] Length = 258 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/261 (29%), Positives = 140/261 (53%), Gaps = 13/261 (4%) Query: 410 RNEIKSISVETG-ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 RN+++ V+T + + + + + RK + + +++++V NLRLV+SV +++ NRG Sbjct: 3 RNKVEICGVDTSKLPVLKNEEMRELFRKMQAGDTYSREKLVNGNLRLVLSVIQRFNNRGE 62 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK 528 DL Q G IGLMK+ + FD +FSTYA+ + I R + D + IR+ +RD Sbjct: 63 YVDDLFQVGCIGLMKSIDNFDLSQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDI 121 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTS 586 +K ++ ++ + +EPT EEIAK L +P E + L ++P+SL PI ++ D Sbjct: 122 AYKALQAREKLMGETSKEPTAEEIAKVLDVPHEDIVFALDAIQDPVSLFEPIYNDGGDPI 181 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 + D + D+ ++ + L+E R L RE+ ++R RF G T EV Sbjct: 182 FVMDQLSDERN-RDVNWIEEIALKEGLRR----LNDREKMIIRKRFFQG----KTQMEVA 232 Query: 647 KQFCVTRERIRQIEAKAIRKL 667 + +++ ++ ++E AI+ + Sbjct: 233 DEIGISQAQVSRLEKAAIKHM 253 >gi|220931759|ref|YP_002508667.1| sporulation sigma factor SigG [Halothermothrix orenii H 168] gi|219993069|gb|ACL69672.1| sporulation sigma factor SigG [Halothermothrix orenii H 168] Length = 260 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 137/255 (53%), Gaps = 25/255 (9%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + +++G+ A +++++ NLRLV+SV +++ NRG DL Q G IGL Sbjct: 18 LSNEEMRKLFKKMQQGDWSA---RQKIINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGL 74 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA + FD +FSTYA+ + I R + D + IR+ +RD +K ++ + N Sbjct: 75 IKAIDNFDLSQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDTAYKALQMKESLKN 133 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFI-----ED 594 K EP+ +E++++L +P + L ++PISL PI + D + D I ED Sbjct: 134 KKSEEPSLKEVSEELGIPRSEIIFALDAIQDPISLFEPIYHDGGDPIFVMDQISDEKTED 193 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 +N + + A++ LR+ L+PRE+ +L RF G T EV + +++ Sbjct: 194 ENWLEGI--AVREGLRK--------LSPREKLILAYRFYEG----KTQMEVANEIGISQA 239 Query: 655 RIRQIEAKAIRKLKH 669 ++ ++E A+++LK Sbjct: 240 QVSRLEKAALKRLKR 254 >gi|110802253|ref|YP_699047.1| sporulation sigma factor SigG [Clostridium perfringens SM101] gi|110682754|gb|ABG86124.1| RNA polymerase sigma-G factor [Clostridium perfringens SM101] Length = 257 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 AREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + TIR+ +RD +K + ++ N+ +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-TIRVSRSLRDIAYKALLVRDKLVNENNKEPTVSQIAKELKIPREDV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI + D ++ D I D KN D + N+ + L Sbjct: 157 VFALDAIQDPVSLFEPIYYDGGDAIYVMDQISDSKNQ----DDSWLENI--AIKEAMKKL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 211 NDREKLILNLRFFNG----RTQMEVADEIGISQAQVSRLEKIALKHMR 254 >gi|197121539|ref|YP_002133490.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] gi|196171388|gb|ACG72361.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter sp. K] Length = 300 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 114/244 (46%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +VEANLR V+ VA +Y + GL+ DLIQEGNIGLMKA +KFD + +YA+WW Sbjct: 44 AGHRLVEANLRFVVKVAFEYRSYGLRMADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE------IAKK 555 ++ I I ++I R + RT + EE +AKK Sbjct: 104 IRAYIQNHILKSWSLVKIGTTQAQRKLFFSLARTRHEIERLTPGAGLAEEGIDVALVAKK 163 Query: 556 LAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-------- 606 L + P + V ++ +SL+ P+ D ++HL +P D Q Sbjct: 164 LRVRPSDVVEMTQRMEGRDLSLDAPVADGTSTHL--------EFTPADGEPQDEELARAE 215 Query: 607 --ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A L + + L PRE ++ R I TL ++G F +RER RQ+E +A+ Sbjct: 216 EDALLARRVSEAMGRLDPRERHIVEAR--IMGEGKETLRDLGHHFGFSRERARQLEIRAL 273 Query: 665 RKLK 668 KL+ Sbjct: 274 EKLR 277 >gi|144898533|emb|CAM75397.1| Sigma-70 region 2:Sigma-70 region 4 [Magnetospirillum gryphiswaldense MSR-1] Length = 290 Score = 105 bits (263), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 79/245 (32%), Positives = 127/245 (51%), Gaps = 22/245 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E + A ++V ++LRLV +A Y + GL DLI EGN+GLM+A +KF+ G++ S Sbjct: 42 DYEDTAAAHQLVTSHLRLVAKIAMGYRHYGLPMADLISEGNLGLMRAVKKFEPERGFRLS 101 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPEE-- 551 TYAMWW+K ++ + + ++I K K+ R++ K++ E P + Sbjct: 102 TYAMWWIKASLNEFVLNSWSLVKIGTLAAQK--KLFFNLRKVKTKLRLLDATELAPADVR 159 Query: 552 -IAKKLAMP-VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 IAK+L + + V ++ SL TP+G+ T + + + D+ A L Sbjct: 160 AIAKELGVSETDVVNMNRRMGGRDSSLNTPVGESGTEII-ELLPDETDNQETGLAKHEEL 218 Query: 610 ---RETTTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 R+ + L SL RE + R+R + TLEE+G +F V+RERIRQIE KA Sbjct: 219 SKGRKLIAQALTSLNEREREIFVERRLR-----DEPLTLEELGARFGVSRERIRQIEVKA 273 Query: 664 IRKLK 668 K++ Sbjct: 274 FEKVR 278 >gi|302793696|ref|XP_002978613.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii] gi|300153962|gb|EFJ20599.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii] Length = 458 Score = 105 bits (262), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 76/261 (29%), Positives = 132/261 (50%), Gaps = 14/261 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL--DLIQEGNIGLM 482 ++FR + ++ GE A+ +++E N RLV+ +A++Y F DL QEG GL+ Sbjct: 204 TDFRTLRRRLQLGEA----AQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLI 259 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 A + F+ G +FSTYA++W++ A+ R+I IR+P K ++ + R + + Sbjct: 260 DAMDHFNPGKGTRFSTYAIFWIRTAMVRAITRTGQVIRLPFSFAAKKVEIRKARRELRVE 319 Query: 543 IKREPTPEEIAKKLAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R P+ EE+ ++ + PV+ SL + D L E + VS Sbjct: 320 LGRNPSDEEVMERTGLDPVQFWNIYYYSNFRVRSLNETVRGTDEEFLEYLPETGDIVSE- 378 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGI--GMNTDHTLEEVGKQFCVTRERIRQI 659 + +RE L L +E VL+ R+G+ G +L EVG++ +++E +R+ Sbjct: 379 ----SSEVREEIVTALQRLKDKERMVLQHRYGLEDGAIAVKSLREVGRRLNMSQEMVRRY 434 Query: 660 EAKAIRKLKHPSRSKKLRSFL 680 EA A+ +L+H +K LRS L Sbjct: 435 EASALERLRHQEEAKSLRSCL 455 >gi|156636373|gb|ABU92457.1| RpoD [Vibrio vulnificus] gi|156636375|gb|ABU92458.1| RpoD [Vibrio vulnificus] gi|156636377|gb|ABU92459.1| RpoD [Vibrio vulnificus] gi|156636379|gb|ABU92460.1| RpoD [Vibrio vulnificus] gi|156636381|gb|ABU92461.1| RpoD [Vibrio vulnificus] gi|156636383|gb|ABU92462.1| RpoD [Vibrio vulnificus] gi|156636385|gb|ABU92463.1| RpoD [Vibrio vulnificus] gi|156636387|gb|ABU92464.1| RpoD [Vibrio vulnificus] gi|156636389|gb|ABU92465.1| RpoD [Vibrio vulnificus] gi|156636393|gb|ABU92467.1| RpoD [Vibrio vulnificus] gi|156636397|gb|ABU92469.1| RpoD [Vibrio vulnificus] gi|156636399|gb|ABU92470.1| RpoD [Vibrio vulnificus] gi|156636401|gb|ABU92471.1| RpoD [Vibrio vulnificus] gi|156636403|gb|ABU92472.1| RpoD [Vibrio vulnificus] gi|156636405|gb|ABU92473.1| RpoD [Vibrio vulnificus] gi|156636407|gb|ABU92474.1| RpoD [Vibrio vulnificus] gi|156636409|gb|ABU92475.1| RpoD [Vibrio vulnificus] gi|156636411|gb|ABU92476.1| RpoD [Vibrio vulnificus] gi|156636413|gb|ABU92477.1| RpoD [Vibrio vulnificus] gi|156636415|gb|ABU92478.1| RpoD [Vibrio vulnificus] gi|156636417|gb|ABU92479.1| RpoD [Vibrio vulnificus MO6-24/O] gi|156636419|gb|ABU92480.1| RpoD [Vibrio vulnificus] gi|156636421|gb|ABU92481.1| RpoD [Vibrio vulnificus] gi|156636423|gb|ABU92482.1| RpoD [Vibrio vulnificus] gi|156636425|gb|ABU92483.1| RpoD [Vibrio vulnificus] gi|156636427|gb|ABU92484.1| RpoD [Vibrio vulnificus] gi|156636429|gb|ABU92485.1| RpoD [Vibrio vulnificus] gi|156636435|gb|ABU92488.1| RpoD [Vibrio vulnificus] gi|156636437|gb|ABU92489.1| RpoD [Vibrio vulnificus] gi|156636439|gb|ABU92490.1| RpoD [Vibrio vulnificus] gi|156636441|gb|ABU92491.1| RpoD [Vibrio vulnificus] gi|156636443|gb|ABU92492.1| RpoD [Vibrio vulnificus] gi|156636445|gb|ABU92493.1| RpoD [Vibrio vulnificus] gi|156636447|gb|ABU92494.1| RpoD [Vibrio vulnificus] Length = 202 Score = 105 bits (262), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 68/175 (38%), Positives = 99/175 (56%), Gaps = 6/175 (3%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E ++ + L + D LV +L R+ E +++ A + + F+ G Sbjct: 29 ELMLDVFKEFRLTPKQFDHLVNELRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGN 88 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E + W+ A D P E + + I + ++++I ET +S++ + I + Sbjct: 89 ESNEEWLDQILASDKPYVEK---IKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMS 145 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|133470|sp|P19433|RPSB_MYXXA RecName: Full=RNA polymerase sigma-B factor Length = 246 Score = 105 bits (262), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 78/232 (33%), Positives = 121/232 (52%), Gaps = 16/232 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV ANLR V+ VA +Y + G++ DLIQEGNIGLMKA +KFD G + +YA+WW++ Sbjct: 1 MVTANLRFVVKVAYEYRSYGIKMSDLIQEGNIGLMKAVQKFDPDKGIRLISYAVWWIRAY 60 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPVEGV 563 I I +++ K+ + RR K ++IA++L + V Sbjct: 61 IQNYILKSWSLVKLGTTQAHGKLFFSLARTRRELEKFGSGDAAVNVDDIARRLHVKPGEV 120 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----QANLRETTTR-VL 617 R++ ++ +SL+ P+G++ + DF+ +A +P D +A L R L Sbjct: 121 REMEQRMGGRDLSLDAPMGEDGGNSHVDFV--VSAAAPQDDEFADKEEAGLINARVRAAL 178 Query: 618 ASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE ++ R MN TL+E+G+ F +RER RQ+E +A KLK Sbjct: 179 MRLDPREPFIIEQRV---MNERPMTLKELGEHFGFSRERARQLEIRAKDKLK 227 >gi|220916304|ref|YP_002491608.1| RNA polymerase, sigma 70 family subunit [Anaeromyxobacter dehalogenans 2CP-1] gi|219954158|gb|ACL64542.1| putative RNA polymerase, sigma 70 family subunit [Anaeromyxobacter dehalogenans 2CP-1] Length = 300 Score = 105 bits (262), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 119/240 (49%), Gaps = 21/240 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +VEANLR V+ VA +Y + GL+ DLIQEGNIGLMKA +KFD + +YA+WW Sbjct: 44 AGHRLVEANLRFVVKVAFEYRSYGLRMADLIQEGNIGLMKAVQKFDPDKEIRLISYAVWW 103 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE------IAKK 555 ++ I I ++I R + RT + EE +AKK Sbjct: 104 IRAYIQNHILKSWSLVKIGTTQAQRKLFFSLARTRHEIERLTPGAGLAEEGIDVALVAKK 163 Query: 556 LAM-PVEGVRKVLKITKEPISLETPIGDEDTSHL------GDFIEDKNAVSPLDSAIQAN 608 L + P + V ++ +SL+ P+ D ++HL G+ +++ A + D+ + Sbjct: 164 LRVRPSDVVEMTQRMEGRDLSLDAPVADGTSTHLEFTPADGEPQDEELARAEEDALLARR 223 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + E R L PRE ++ R I TL ++G F +RER RQ+E +A+ KL+ Sbjct: 224 VSEAMGR----LDPRERHIVEAR--IMGEGKETLRDLGHHFGFSRERARQLEIRALEKLR 277 >gi|168186812|ref|ZP_02621447.1| RNA polymerase sigma-G factor [Clostridium botulinum C str. Eklund] gi|169295146|gb|EDS77279.1| RNA polymerase sigma-G factor [Clostridium botulinum C str. Eklund] Length = 256 Score = 105 bits (262), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 74/230 (32%), Positives = 126/230 (54%), Gaps = 14/230 (6%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 ++++++ V NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 35 NLSREKFVRGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAV 94 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 + I R + D + +IR+ +RD +K ++ R+ K ++P +IAK+L +P E Sbjct: 95 PMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDRIIKKENKDPNVSQIAKELDLPRE 153 Query: 562 GVRKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLA 618 V L ++P+SL PI + D ++ D I D KNA D + N+ + + Sbjct: 154 EVVFALDAIQDPVSLFEPIYHDGGDALYVMDQISDNKNA----DESWIENI--SIKEAMK 207 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE+ +L MRF G T EV + +++ ++ ++E A++ ++ Sbjct: 208 RLNEREKLILNMRFFQG----RTQMEVADEIGISQAQVSRLEKTALKHMR 253 >gi|160880600|ref|YP_001559568.1| sporulation sigma factor SigG [Clostridium phytofermentans ISDg] gi|160429266|gb|ABX42829.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 260 Score = 105 bits (262), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 128/238 (53%), Gaps = 15/238 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA ++ ++ NLRLV+S+ ++++N DL Q G IGLMKA + FD G Sbjct: 31 IKQGDKEA---RELYIKGNLRLVLSIIQRFSNSNENVDDLFQIGCIGLMKAIDNFDITQG 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D + IR+ +RD +K + + K +EPT EIA Sbjct: 88 VKFSTYAVPMIIGEIRRYLRDNN-AIRVSRSLRDTAYKAIYAKEMLLKKNDKEPTVCEIA 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++ + E + L + P+SL P+ E DT ++ D + DK + + +L+E Sbjct: 147 NEVGISQEDIVAALDAIQSPVSLYEPVYSEGGDTLYIMDQVSDKKNKEE-NWVEEISLKE 205 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R L+PRE ++ +RF G T EV ++ +++ ++ ++E A++ +++ Sbjct: 206 AMAR----LSPRENNIINLRFFQG----KTQMEVAEEIQISQAQVSRLEKNALKNMRN 255 >gi|156636431|gb|ABU92486.1| RpoD [Vibrio vulnificus] Length = 202 Score = 105 bits (262), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 67/175 (38%), Positives = 98/175 (56%), Gaps = 6/175 (3%) Query: 319 EKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYG-IKRDVFLERHQGR 377 E ++ + L + D LV +L R+ E +++ A + + F+ G Sbjct: 29 ELMLDVFKEFRLTPKQFDHLVNELRTAMDRVRTQERLIMKSAVEIAKMPKKSFIALFTGN 88 Query: 378 ELDPHWVS--YAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 E W+ D P E + + I + +++++I ET +S++ + I + Sbjct: 89 ESSEEWLDKILVSDKPYAEK---IKLHEEDIRRSISKLRAIEEETSLSVNNIKDISRRMS 145 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 GE +A AKKEMVEANLRLVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ Sbjct: 146 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 200 >gi|23014972|ref|ZP_00054764.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 292 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 80/239 (33%), Positives = 126/239 (52%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y + GL DLI EGNIGLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHKLVTSHLRLVAKIALGYRHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE---IAKKL 556 +K ++ + + ++I K K+ RR+ ++++ + PE IA++L Sbjct: 108 IKASLNEFVLNSWSMVKIGTLAAQK--KLFFNLRRIKSRLRLLESGDLAPEHVTTIAREL 165 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 + V + ++ SL TP+G E + + D + D+ A + L R Sbjct: 166 DVDERDVVAMNRRMAGRDSSLNTPVG-EGGAEIQDLMADEADNQETSLAKREELSKGRTL 224 Query: 613 TTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L SLT RE V R+R + TLEE+G ++ V+RERIRQIE KA K++ Sbjct: 225 IARALDSLTEREREVFVERRLR-----DDPLTLEELGGRYGVSRERIRQIEVKAFEKVR 278 >gi|302382389|ref|YP_003818212.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] gi|302193017|gb|ADL00589.1| RNA polymerase, sigma 32 subunit, RpoH [Brevundimonas subvibrioides ATCC 15264] Length = 295 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 82/253 (32%), Positives = 132/253 (52%), Gaps = 21/253 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + S + +V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G+ Sbjct: 40 RWSEHQDSESAHRLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE 550 + +TYAMWW++ +I I +++ K K+ R+ ++I + + PE Sbjct: 100 RLATYAMWWIRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQISAFEEGDLRPE 157 Query: 551 E---IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 IA KL + E V + + SL P+ + S D++ D NAVS ++A+ A Sbjct: 158 HLAAIATKLGVSEEEVTNMNRRLGGDASLNAPLRVDGESEWQDWLSDDNAVSQ-ETAL-A 215 Query: 608 NLRETTTRV------LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIE 660 + E + R+ + LT RE+ +L R + D TLEE+ Q+ V+RER+RQIE Sbjct: 216 DSEEKSLRMGLLQEAMGELTEREKHILTER---RLKDDPVTLEELAGQYGVSRERVRQIE 272 Query: 661 AKAIRKLKHPSRS 673 +A KL+ R+ Sbjct: 273 VRAFEKLQKAMRA 285 >gi|220927320|ref|YP_002502622.1| RNA polymerase factor sigma-32 [Methylobacterium nodulans ORS 2060] gi|219951927|gb|ACL62319.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium nodulans ORS 2060] Length = 296 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 118/238 (49%), Gaps = 20/238 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ +I R ++IA +L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGRISALDEGDLRPEQVKQIATRL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V + + SL P+ +E D++ D SP A+ A E R+ Sbjct: 165 GVPEQDVIDMNRRLSGDASLNAPLREEGEGEWQDWLVDD---SPSQEAVLAREEEGQNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L PRE R+ R TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 AALRDALSVLNPRERRIFEARR--LAEEPITLEDLSTEFGVSRERVRQIEVRAFEKVQ 277 >gi|283852956|ref|ZP_06370215.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. FW1012B] gi|283571646|gb|EFC19647.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio sp. FW1012B] Length = 342 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 127/239 (53%), Gaps = 15/239 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++ ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G KFS YA + Sbjct: 95 AAFRLISSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAY 154 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I + K+ + R + +P+ ++++ L + Sbjct: 155 WIKAYILKYIMDNWRMVKIGTTQAQRKLFYNLNKERHRLQTLGFDPSASQLSQALNVTES 214 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP------LDSAIQANLRETTT 614 + ++ +++ +SL+ +GD+ TS DF+ A++P I L + Sbjct: 215 DIVEMDQRLSGNDLSLDMTLGDDSTSTRLDFLP---ALTPGIEEILAGDEISHQLDKHIQ 271 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSR 672 + L +E +L R I ++ TL E+G ++ +TRER+RQIEA+ + KLK H SR Sbjct: 272 TIRPKLNEKELDLLDNR--ILSDSPATLREIGAKYGITRERVRQIEARLLEKLKEHLSR 328 >gi|188580210|ref|YP_001923655.1| RNA polymerase factor sigma-32 [Methylobacterium populi BJ001] gi|179343708|gb|ACB79120.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium populi BJ001] Length = 297 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 116/239 (48%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHRLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ +I R ++IA L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGRISALDEGDLRPDQVQQIATSL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V + + SL P+ +E D++ D SP + A E R+ Sbjct: 165 GVPTQDVIDMNRRLSGDTSLNAPLREEGEGEWQDWLVDN---SPSQETVLAREEEGRNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PRE R+ R + D TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 SALRDALGVLNPRERRIFEAR---RLADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQ 277 >gi|312876365|ref|ZP_07736350.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796859|gb|EFR13203.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 255 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 75/228 (32%), Positives = 125/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +E NLRLV+SV +K+ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 36 ARRIFIEGNLRLVLSVVQKFANRGENLDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++RI ++D +K ++ + + ++EPT EEIAK+L++ E + Sbjct: 96 IIGEIRRYLRDNN-SMRISRSLKDTAYKALKIKEKYISNNQKEPTLEEIAKELSITKEEL 154 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 L +EPISL P+ + DT ++ + + D S+ L E + + L+ L Sbjct: 155 VFTLDSIQEPISLYEPVFQDSTDTMYVVEKLYDHK------SSENVWLEEISLKDALSRL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T RE+ +L + + G T EV + +++ ++ +IE AI +K Sbjct: 209 TKREKEILYLHYYKG----KTQMEVARIVGISQAQVSRIEKSAIGHIK 252 >gi|153953967|ref|YP_001394732.1| sporulation sigma factor SigG [Clostridium kluyveri DSM 555] gi|219854581|ref|YP_002471703.1| hypothetical protein CKR_1238 [Clostridium kluyveri NBRC 12016] gi|146346848|gb|EDK33384.1| SigG [Clostridium kluyveri DSM 555] gi|219568305|dbj|BAH06289.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 257 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 72/227 (31%), Positives = 123/227 (54%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ ++ + +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDKLIRENNKEPTISQIAKELELPREEV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L ++P+SL PI + D ++ D I D V D N+ + + L Sbjct: 157 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQISDTKNV---DENWLENI--SIKEAMKKLN 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A+R ++ Sbjct: 212 DREKLILNLRFFDG----RTQMEVAHEIGISQAQVSRLEKTALRHMR 254 >gi|89895050|ref|YP_518537.1| hypothetical protein DSY2304 [Desulfitobacterium hafniense Y51] gi|89334498|dbj|BAE84093.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 260 Score = 105 bits (261), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 134/250 (53%), Gaps = 15/250 (6%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E ++ + G+ EA ++ ++ NL+L+ ++ +++++RG + DL Q G IGL Sbjct: 16 LSDEEMMDLLHRAQNGDAEA---RERLINCNLKLIFNLVQRFSHRGYELEDLFQIGTIGL 72 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA +KFD+ G KFSTYA+ + I R + D +++P ++ ++KV + +S Sbjct: 73 IKAIDKFDFTYGVKFSTYAVPMIIGEIRRFLRDDH-PVKVPRSYKELVYKVNKARESLSA 131 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R+PT EIA+ + + E + L+ + P S+ + +D+ + +I D+ P+ Sbjct: 132 TLGRDPTIGEIAESIGVDREDIVSALEAVQSPTSIHDTLYQDDSDPI--YILDQ---LPM 186 Query: 602 DSAIQANLRETTT--RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + ++A E VL L RE+RVL MRF D T E+ +++ +I +I Sbjct: 187 EKDLEAGWFEKIALKEVLDKLPEREKRVLMMRF----YEDKTQSEIAALLNLSQVQISRI 242 Query: 660 EAKAIRKLKH 669 E A+ +++ Sbjct: 243 ERAALHRIRQ 252 >gi|219669461|ref|YP_002459896.1| RNA polymerase, sigma 28 subunit, SigF [Desulfitobacterium hafniense DCB-2] gi|219539721|gb|ACL21460.1| RNA polymerase, sigma 28 subunit, SigF [Desulfitobacterium hafniense DCB-2] Length = 261 Score = 105 bits (261), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 134/250 (53%), Gaps = 15/250 (6%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E ++ + G+ EA ++ ++ NL+L+ ++ +++++RG + DL Q G IGL Sbjct: 17 LSDEEMMDLLHRAQNGDAEA---RERLINCNLKLIFNLVQRFSHRGYELEDLFQIGTIGL 73 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA +KFD+ G KFSTYA+ + I R + D +++P ++ ++KV + +S Sbjct: 74 IKAIDKFDFTYGVKFSTYAVPMIIGEIRRFLRDDH-PVKVPRSYKELVYKVNKARESLSA 132 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 + R+PT EIA+ + + E + L+ + P S+ + +D+ + +I D+ P+ Sbjct: 133 TLGRDPTIGEIAESIGVDREDIVSALEAVQSPTSIHDTLYQDDSDPI--YILDQ---LPM 187 Query: 602 DSAIQANLRETTT--RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + ++A E VL L RE+RVL MRF D T E+ +++ +I +I Sbjct: 188 EKDLEAGWFEKIALKEVLDKLPEREKRVLMMRF----YEDKTQSEIAALLNLSQVQISRI 243 Query: 660 EAKAIRKLKH 669 E A+ +++ Sbjct: 244 ERAALHRIRQ 253 >gi|126650128|ref|ZP_01722361.1| sporulation sigma factor SigF [Bacillus sp. B14905] gi|126593300|gb|EAZ87262.1| sporulation sigma factor SigF [Bacillus sp. B14905] Length = 263 Score = 105 bits (261), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 76/254 (29%), Positives = 133/254 (52%), Gaps = 17/254 (6%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S E +S E R +++ +KG+ EA +K MVE N RLV S+ +++T RG++ DL Q Sbjct: 7 SSEKLLSQEEMRDLIARAQKGDHEA---RKRMVEGNTRLVWSIVQRFTTRGVELEDLFQI 63 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G IGLMK+ +KFD KFSTYA+ + I R + D +++ +R+ K+ Sbjct: 64 GCIGLMKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDGM-VKVSRSIRELNFKIRHAT 122 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIED 594 K + PT +E+A+ L + E + ++P SL + + D+ L D ++D Sbjct: 123 DEFIKKNEHPPTIQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMDQMKD 182 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + + P D L+E TR L PRE+ ++ +R+ +D T E+ + +++ Sbjct: 183 EKSEQPFDY---IPLKEVLTR----LEPREQSIIYLRYF----SDCTQTEIANRLGISQV 231 Query: 655 RIRQIEAKAIRKLK 668 ++ ++E K + +LK Sbjct: 232 QVSRLEKKILAQLK 245 >gi|220929478|ref|YP_002506387.1| sporulation sigma factor SigG [Clostridium cellulolyticum H10] gi|219999806|gb|ACL76407.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulolyticum H10] Length = 257 Score = 104 bits (260), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 73/227 (32%), Positives = 122/227 (53%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E ++ NLRLV+SV +++ NRG DL Q G IGL+K+ + FD KFSTYA+ Sbjct: 38 ARDEFIKGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKSIDNFDVTQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K ++ R++ + +EPT E+A++L +P E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALQAKERLTTQNSKEPTIVELAQELQLPKEDI 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVLASLT 621 L ++PISL + + GD I + VS D I N ET + + L Sbjct: 157 VFALDAIQDPISLFESVYHDG----GDAIYVMDQVSD-DKNIDENWLETISLKEAMRKLN 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A+ +K Sbjct: 212 DREKLILNLRFFEG----RTQMEVADEIGISQAQVSRLEKTALMHMK 254 >gi|67458885|ref|YP_246509.1| RNA polymerase factor sigma-32 [Rickettsia felis URRWXCal2] gi|67004418|gb|AAY61344.1| RNA polymerase sigma-32 factor [Rickettsia felis URRWXCal2] Length = 293 Score = 104 bits (260), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 82/276 (29%), Positives = 139/276 (50%), Gaps = 23/276 (8%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 S L+ N+I S++ E EF S + + + +A+ ++V ++L+LV +A Y Sbjct: 18 SYLQKINKIPSLTQE-----EEFLLAKSYLEENDLQAA---HKLVTSHLKLVAKIASGYR 69 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW+K AI I +++ Sbjct: 70 TYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKMGTT 129 Query: 525 MRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAMPVEGVRKV-LKITKEPISLET 578 K + + +++N R T + +IA +L + V V ++ +I+ +SL Sbjct: 130 AAQKKLFFSLNKIKHKITNLYSRAITADDFIQIADELGVSVNEVSEMNTRISGPDLSLNN 189 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT------TRVLASLTPREERVLRMRF 632 PI +D G+ IE P I N +++T + + L RE R+ R Sbjct: 190 PINSDDAES-GELIELLPETRPTPETIAINKQDSTGKRKLLSNAMKILNDRELRIFTER- 247 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 248 -KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|33322911|gb|AAQ07192.1|AF496500_1 RNA polymerase sigma factor [Lactobacillus delbrueckii subsp. lactis] Length = 141 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 54/126 (42%), Positives = 84/126 (66%), Gaps = 3/126 (2%) Query: 549 PEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 PEE+A ++ P++ ++++ + K E SL+ P+G+E S LGD +ED A +P + Sbjct: 6 PEELAAEMNEPLQKXQEIITVAKNQETDSLDKPVGEEGDSQLGDLLEDNKATNPEEYTAF 65 Query: 607 ANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 L++ + ++ LT RE +VL++RFG+ + HTLEEVG+ VTRER+RQIEAKA++ Sbjct: 66 EMLKDQLSSMMGEFLTDREAKVLKLRFGLENDEPHTLEEVGRSLGVTRERVRQIEAKAVK 125 Query: 666 KLKHPS 671 KLKH S Sbjct: 126 KLKHHS 131 >gi|57239060|ref|YP_180196.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] gi|58579003|ref|YP_197215.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] gi|58617062|ref|YP_196261.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Gardel] gi|57161139|emb|CAH58052.1| RNA polymerase sigma-70 factor [Ehrlichia ruminantium str. Welgevonden] gi|58416674|emb|CAI27787.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Gardel] gi|58417629|emb|CAI26833.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str. Welgevonden] Length = 622 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 60/151 (39%), Positives = 95/151 (62%), Gaps = 2/151 (1%) Query: 40 QRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGS-EDSLDLASS 98 ++G+VT ++N +S++ +++T+++L + GINV++ D EDE S +S L Sbjct: 20 KQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQSD-EDEASSIVESGRLKDG 78 Query: 99 ASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLC 158 + V K TDDP+RMYL EM S+ELLSREGEI IAK+I++ + M+ SL Sbjct: 79 IDDDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKKIKSEKVNMLRSLV 138 Query: 159 ESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 ESP+ + + WRD+L + +LR++IDL+A Sbjct: 139 ESPMVLRTFMSWRDDLVNEQIMLRDLIDLDA 169 >gi|260425737|ref|ZP_05779717.1| RNA polymerase sigma-32 factor [Citreicella sp. SE45] gi|260423677|gb|EEX16927.1| RNA polymerase sigma-32 factor [Citreicella sp. SE45] Length = 292 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 79/259 (30%), Positives = 136/259 (52%), Gaps = 24/259 (9%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EAS+ + ++ A +RL IS+A K+ G DL+QE +GLMKAA+KFD G +FSTY Sbjct: 39 EASLHR--LINAYMRLAISMASKFKRYGAPMGDLVQEAGLGLMKAADKFDPDRGVRFSTY 96 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--------- 550 A+WW+K +I + +R K + RR+ +++RE E Sbjct: 97 AVWWIKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREAAAEGKTLERHML 154 Query: 551 --EIAKKLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIED--KNAVSPLDSA 604 IA+++ +P+ V + +++ SL T DED D +ED + S ++ Sbjct: 155 HAAIAQEIGVPLSDVEMMEGRLSGSDFSLNATQSSDEDGREWIDTLEDDGEQGSSVVEGR 214 Query: 605 I-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + A LRE +++L RE ++R R + TLE +G++ +++ER+RQ+EA A Sbjct: 215 LDNAQLREWLVVAMSALNDRERFIVRER--KLRDETRTLESLGQELGLSKERVRQLEAAA 272 Query: 664 IRKLKHP--SRSKKLRSFL 680 K++ ++S++++ FL Sbjct: 273 FAKMRKSLEAQSREVQHFL 291 >gi|254519266|ref|ZP_05131322.1| sporulation sigma factor SigG [Clostridium sp. 7_2_43FAA] gi|226913015|gb|EEH98216.1| sporulation sigma factor SigG [Clostridium sp. 7_2_43FAA] Length = 259 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ NRG DL Q G IGLMKA + FD KFSTYA+ Sbjct: 40 ARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLGQNVKFSTYAVPM 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + R+ + +EPT +IAK+L +P E V Sbjct: 100 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALLVRDRLIKENNKEPTVSQIAKELNLPREEV 158 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L ++P+SL PI + D ++ D I D KN+ D + N+ + + L Sbjct: 159 VFALDAIQDPVSLFEPIYHDGGDAIYVMDQISDSKNS----DESWLENI--SIKEAMKKL 212 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 213 NDREKLILTLRFFNG----RTQMEVADEIGISQAQVSRLEKTALKHMR 256 >gi|255085668|ref|XP_002505265.1| predicted protein [Micromonas sp. RCC299] gi|226520534|gb|ACO66523.1| predicted protein [Micromonas sp. RCC299] Length = 477 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 132/289 (45%), Gaps = 62/289 (21%) Query: 444 AKKEMVEANLRLVISVAKKY------TNRGL-QFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 A++ +V N+ L +VA +RGL DL+QEG GL AA+KFD GY+F Sbjct: 85 ARRVLVTRNVGLARTVAADIHAKLNDADRGLLSVSDLMQEGCAGLATAADKFDPQRGYRF 144 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA +W+K+A+ + + TIR+P+H+ + I K+ + R + R+PT +E+A +L Sbjct: 145 STYAFFWIKKAVIDCVGNSGRTIRLPIHVNENIQKMKKATRELKEIKVRDPTEDELADRL 204 Query: 557 AMPVEGVRKV-LKITKEPISLETPI---GD---------------EDTSHLGDFIEDKNA 597 V +R++ + + P+S++ GD DF NA Sbjct: 205 GWSVVKLRQMKVWAFRTPVSMDATTAKKGDPWEDADDAVAEAASLNAAMQSSDFGTGLNA 264 Query: 598 VSPLDSA---IQAN-LRETTTRVLASLTPREERVLRMRFGI------------------- 634 P D+A + A+ LR V ++L PRE +LR RFG+ Sbjct: 265 --PSDTAEADVDADLLRMALEEVFSTLLPREAFILRHRFGLAAASTAMEGGDWLKASRAE 322 Query: 635 ---------GMNT--DHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 GM T + +G V+ E +R E +A+ KLK P R Sbjct: 323 VLSALRDDEGMGTRGGANFKTLGNLLGVSSESVRTYERRALAKLKQPDR 371 >gi|323702540|ref|ZP_08114203.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323532514|gb|EGB22390.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 260 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 129/237 (54%), Gaps = 10/237 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +++K + + A++ +V NL+LV ++ +++ NRG + DL Q G IGLMKA +KFD Sbjct: 25 LIKKAQAGDADARERLVNCNLKLVFNLVQRFNNRGYELEDLFQIGCIGLMKAIDKFDLSY 84 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 KFSTYA+ + I R + D S +++ +++ +K+ +T R++ ++ R+P+ EI Sbjct: 85 DVKFSTYAVPMIVGEIRRFLRDDS-PVKVSRSLKETAYKIQQTRDRLTARLGRDPSINEI 143 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 A++L E V L+ + P S+ + +D GD I + +S D L + Sbjct: 144 AQELGCHREEVVSALEAAQTPTSIYETLHQDD----GDPIYILDQLSGADDGDSPWLEKL 199 Query: 613 TTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L L R+ ++L RF D T EV + +++ ++ ++E +A+RKLK Sbjct: 200 AVKQLLIELPERDRQILLWRF----FEDKTQSEVALRLGLSQVQVSRLERQALRKLK 252 >gi|163850434|ref|YP_001638477.1| RNA polymerase factor sigma-32 [Methylobacterium extorquens PA1] gi|163662039|gb|ABY29406.1| RNA polymerase sigma factor RpoH [Methylobacterium extorquens PA1] Length = 297 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 115/239 (48%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHRLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ +I R + IA L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGRISALDEGDLRPDQVQHIATSL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V + + SL P+ +E D++ D SP + A E R+ Sbjct: 165 GVPAQDVIDMNRRLSGDTSLNAPLREEGEGEWQDWLVDN---SPSQETVLAREEEGRNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PRE R+ R + D TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 SALRDALGVLNPRERRIFEAR---RLADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQ 277 >gi|114797392|ref|YP_759060.1| RNA polymerase factor sigma-32 [Hyphomonas neptunium ATCC 15444] gi|114737566|gb|ABI75691.1| alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] Length = 298 Score = 104 bits (260), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 129/248 (52%), Gaps = 21/248 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E + A ++MV ++LRLV +A Y GL ++I EGN+GLM+A +KFD G+ Sbjct: 42 RWHEHEDTEAAEKMVTSHLRLVAKIAMGYRGYGLPMAEVISEGNVGLMQAVKKFDPDKGF 101 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW++ AI I +++ K K+ RR+ +++ + PE Sbjct: 102 RLATYAMWWIRAAIQEYILRSWSLVKLGTTAAQK--KLFFNLRRLKGEMQALEEGDLKPE 159 Query: 551 E---IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + IA+KL + V + +++ SL P+G + D++ D P + Sbjct: 160 QARLIAEKLNVTETEVYSMNGRMSGSDASLNVPMGTDGDMEWQDWLADDE---PGTAETF 216 Query: 607 ANLRE------TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 AN +E T+ + L+ RE +L R + + TLEE+ +Q+ V+RERIRQIE Sbjct: 217 ANSQELDARMTLLTQAMEDLSERERHILTERRLV--DEPKTLEELSEQYNVSRERIRQIE 274 Query: 661 AKAIRKLK 668 +A KL+ Sbjct: 275 VRAFEKLQ 282 >gi|218528993|ref|YP_002419809.1| RNA polymerase factor sigma-32 [Methylobacterium chloromethanicum CM4] gi|240137510|ref|YP_002961981.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254559688|ref|YP_003066783.1| RNA polymerase sigma-32 [Methylobacterium extorquens DM4] gi|218521296|gb|ACK81881.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium chloromethanicum CM4] gi|240007478|gb|ACS38704.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|254266966|emb|CAX22766.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens DM4] Length = 297 Score = 104 bits (259), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 115/239 (48%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHRLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ +I R + IA L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGRISALDEGDLRPDQVQHIATSL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V + + SL P+ +E D++ D SP + A E R+ Sbjct: 165 GVPAQDVIDMNRRLSGDTSLNAPLREEGEGEWQDWLVDN---SPSQETVLAREEEGRNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PRE R+ R + D TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 SALRDALGVLNPRERRIFEAR---RLADDPITLEDLSGEFGVSRERVRQIEVRAFEKVQ 277 >gi|313901760|ref|ZP_07835186.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter subterraneus DSM 13965] gi|313467966|gb|EFR63454.1| RNA polymerase, sigma subunit, RpsG/SigG [Thermaerobacter subterraneus DSM 13965] Length = 261 Score = 104 bits (259), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 80/263 (30%), Positives = 141/263 (53%), Gaps = 17/263 (6%) Query: 411 NEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 N+++ V T +S + R + +R+G+ EA ++++V+ NLRLV+SV +++ +R Sbjct: 8 NKVEICGVNTAELPVLSNEQMRVLFRRMREGDEEA---RQQLVQGNLRLVLSVIQRFNHR 64 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 G DL Q G IGLMKA + FD +FSTYA+ + I R + D + IR+ +R Sbjct: 65 GEPVDDLFQVGCIGLMKAIDNFDLEQNVRFSTYAVPMIIGEIRRYLRDNT-PIRVSRSLR 123 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 D +K ++ +++++ REPT EEIA++L P E V L ++P+SL PI + Sbjct: 124 DVAYKALQVRDQLTHRHGREPTLEEIAQELGQPREEVVHALDAIQDPVSLFEPIYQDG-- 181 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEV 645 GD I + VS + L R ++ L RE+ ++ RF G T EV Sbjct: 182 --GDPIFVVDQVSDDKQRDERWLETIAVREAMSRLDEREQLIITKRFYQG----KTQMEV 235 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 + +++ ++ ++E A+++++ Sbjct: 236 ANEIGISQAQVSRLEKAALQRMR 258 >gi|294676015|ref|YP_003576630.1| RNA polymerase sigma-32 factor [Rhodobacter capsulatus SB 1003] gi|294474835|gb|ADE84223.1| RNA polymerase sigma-32 factor-1 [Rhodobacter capsulatus SB 1003] Length = 292 Score = 104 bits (259), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 79/253 (31%), Positives = 132/253 (52%), Gaps = 26/253 (10%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW+K + Sbjct: 45 LVSAYMRLAISMASKFRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE-------EIAKKLAMPV 560 I + +R K + +R+ +I+RE E ++ +K+A+ + Sbjct: 105 IQEFVMRNWSMVRTGSTSSQK--ALFFNLKRVQAQIQREAEAEGVVLDGAQLREKVAISI 162 Query: 561 EGVRKV------LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQAN----L 609 GV +++ +SL P DED D +ED+ SP +A+ + Sbjct: 163 -GVSMADVEMMEGRLSGSDLSLNAPQSHDEDGREWVDTLEDEGG-SPETRVTEAHDGAKM 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ + + L+ RE ++ R I + TLE +G++ +++ERIRQ+EA+A K++ Sbjct: 221 RDWLGQAMGQLSARERYIVAQRRLI--DEPRTLESLGEELGLSKERIRQLEAQAFSKMRK 278 Query: 670 P--SRSKKLRSFL 680 SRS+++ F Sbjct: 279 SLESRSEEVIGFF 291 >gi|167628452|ref|YP_001678951.1| RNA polymerase sigma-f factor, putative [Heliobacterium modesticaldum Ice1] gi|167591192|gb|ABZ82940.1| RNA polymerase sigma-f factor, putative [Heliobacterium modesticaldum Ice1] Length = 264 Score = 104 bits (259), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 124/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +++ NLRLV ++ +++ +RG + DL Q G IGL+KA +KFD +FSTYA+ Sbjct: 35 ARERLIQCNLRLVFNLVQRFQHRGYELEDLFQIGVIGLIKAIDKFDLSYNVRFSTYAVPM 94 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S +++ ++ ++ R + ++ + REPT +EIA + MPVE V Sbjct: 95 IVGEIRRFLRDDS-PVKVSRSYKEIAQRIHRVRQELNGSLGREPTVQEIAGAMNMPVEDV 153 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAIQANLRETTTRVLASLTP 622 + L+ + P S+ + +D + F+ D+ A V +SA +L VL+ L Sbjct: 154 VEALEAVQLPTSIHETLYQDDGDPI--FLLDQLASVGTEESAWFDHL--ALKDVLSRLAA 209 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +L MRF D T EV +++ +I +IE A++K++ Sbjct: 210 REREILEMRF----FQDKTQTEVATLVGLSQVQISRIERAALKKIR 251 >gi|303248805|ref|ZP_07335056.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio fructosovorans JJ] gi|302489817|gb|EFL49747.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio fructosovorans JJ] Length = 344 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 130/245 (53%), Gaps = 15/245 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++ ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G KFS YA + Sbjct: 97 AAFRLISSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAY 156 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I + K+ + R + +P+ ++++ L + Sbjct: 157 WIKAYILKYIMDNWRMVKIGTTQAQRKLFYNLNKERNRLQTLGFDPSASQLSEALNVTES 216 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP------LDSAIQANLRETTT 614 + ++ +++ +SL+ +G++ TS DF+ A++P I L + Sbjct: 217 DIVEMDQRLSGNDLSLDVSLGEDSTSTRLDFLP---ALTPGIEEILAGDEISHQLEKHIQ 273 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 + SL +E +L R I ++ TL E+G ++ +TRER+RQIEA+ + KLK SK Sbjct: 274 TIRPSLNEKELDLLDNR--ILSDSPVTLREIGAKYGITRERVRQIEARLLEKLKE-HLSK 330 Query: 675 KLRSF 679 ++ F Sbjct: 331 RIEDF 335 >gi|91205341|ref|YP_537696.1| RNA polymerase factor sigma-32 [Rickettsia bellii RML369-C] gi|91068885|gb|ABE04607.1| RNA polymerase sigma-32 factor [Rickettsia bellii RML369-C] Length = 294 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 85/276 (30%), Positives = 141/276 (51%), Gaps = 23/276 (8%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 S L+ N+I S++ E EF S + + + +A+ ++V ++L+LV +A Y Sbjct: 18 SYLQKINKIPSLTQE-----EEFLLAKSYLEQNDLQAA---HKLVTSHLKLVAKIATGYR 69 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW+K AI I +++ Sbjct: 70 TYGLPVTELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKAAIQEYILKSWSLVKMGTT 129 Query: 525 MRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAMPVEGVRKV-LKITKEPISLET 578 K + + +++N R T + +IA +L + V V + ++++ +SL Sbjct: 130 AAQKKLFFSLSKIKNKITNLYSRAITSDDFVQIADELGVSVSEVSDMNIRLSGSDLSLNN 189 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT-TRVLAS-----LTPREERVLRMRF 632 I ++D S G+ IE P AI + + T R L S L RE R+L R Sbjct: 190 TINNDDASS-GELIELLPETRPSPEAIAISKEDMTHKRALLSSAMKVLNARELRILTER- 247 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 248 -KLQDTPKTLDVLSSEYNISKERIRQIENTAFEKIK 282 >gi|23098931|ref|NP_692397.1| sporulation sigma factor SigG [Oceanobacillus iheyensis HTE831] gi|22777159|dbj|BAC13432.1| stage III sporulation protein G (RNA polymerase sporulation-specific sigma G factor) [Oceanobacillus iheyensis HTE831] Length = 260 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 76/237 (32%), Positives = 125/237 (52%), Gaps = 12/237 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 VR E A++E+V NLRLV+SV +++ NRG DL Q G IGLMK+ + FD Sbjct: 28 FVRMQEDGDITAREELVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSH 87 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D + IR+ +RD +K ++ ++ +K +EP+P EI Sbjct: 88 NVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVREKLISKTSKEPSPAEI 146 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLR 610 AK++ +P V L ++P+SL PI ++ D + D I D+ DS+ L Sbjct: 147 AKEMDIPQTDVVFALDAIQDPVSLFEPIYNDGGDPIFVMDQISDE---KDKDSSWVDKL- 202 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + L RE+ +L RF G T EV + +++ ++ ++E AI ++ Sbjct: 203 -SLKEGMHQLNEREKMILNKRFFQG----KTQMEVADEIGISQAQVSRLEKAAISQM 254 >gi|291544789|emb|CBL17898.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus sp. 18P13] Length = 257 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 129/228 (56%), Gaps = 15/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +++ NLRLV+SV +++ RG DL Q G IGL+KA FD +FSTY + Sbjct: 39 ARDKLINGNLRLVLSVIQRFAGRGEDIDDLFQIGVIGLIKAINNFDLSKEVRFSTYCVPM 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + I++ +RD +K ++ +++ + ++EPT +EIAK++ V Sbjct: 99 ISGELRRFLRDYN-HIKVSRSLRDLAYKAMQAKEQLTAEQQKEPTMDEIAKRIDAKRSDV 157 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAV-SPLDSAIQANLRETTTRVLASL 620 L+ +P+SL P+ + DT ++ D I D+N+V S LD + LR+ + +L Sbjct: 158 VLALESVTDPVSLYEPVYSDAGDTLYVLDQISDQNSVDSWLD---EIALRDA----IKAL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PRE+R+L +RF G T EV ++ +++ ++ ++E A+ ++K Sbjct: 211 QPREKRILYLRFFQG----KTQVEVAQEIGISQAQVSRLEKGALNQIK 254 >gi|302874724|ref|YP_003843357.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulovorans 743B] gi|302577581|gb|ADL51593.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium cellulovorans 743B] Length = 256 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 131/245 (53%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R ++ ++ G+ I++++ + NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 22 EMRELLDKMKAGDY---ISREKFIRGNLRLVLSVIQRFNNRGENADDLFQVGCIGLIKAL 78 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD ++ ++ ++ + + Sbjct: 79 DNFDLTQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYRALQVRDKLLTENNK 137 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT +IAK+L + E V L +EP+SL PI + D ++ D I D LD Sbjct: 138 EPTVYQIAKELDVAKEEVIFALDAIQEPVSLFEPIYHDGGDAIYVMDQISDS---KNLDE 194 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + N+ + L+ RE+ +L MRF G T EV + +++ ++ ++E A Sbjct: 195 SWLENI--AIKEAMKRLSDREKLILNMRFFDG----RTQMEVADEIGISQAQVSRLEKNA 248 Query: 664 IRKLK 668 +R ++ Sbjct: 249 LRHMR 253 >gi|218289914|ref|ZP_03494104.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218240054|gb|EED07240.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 259 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 84/269 (31%), Positives = 143/269 (53%), Gaps = 24/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V T ++ ++ R + +R G+ A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVNTSQLPVLTNAQMRELFEQLRAGDLSA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD +FSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKAIDNFDLNQNVRFSTYAVPMIVGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +++K REP+ EIA ++ +P E V L ++P+S+ PI + Sbjct: 119 RDIAYKALQVRDMLASKNLREPSIVEIANEMNLPKEEVVFALDAIQDPVSMFEPIYHDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D ++ D I D+ DSA LRE + L+ RE+++L RF G T Sbjct: 179 DPIYVMDQIHDEREK---DSAWVEGIALREAMRK----LSDREKKILAKRFYEG----KT 227 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI ++ KH Sbjct: 228 QMEVADEIGISQAQVSRLEKAAIHRMYKH 256 >gi|170752008|ref|YP_001758268.1| RNA polymerase factor sigma-32 [Methylobacterium radiotolerans JCM 2831] gi|170658530|gb|ACB27585.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium radiotolerans JCM 2831] Length = 297 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 118/239 (49%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 47 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K K+ R+ KI + ++IA +L Sbjct: 107 IKAAIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKGKISALDEGDLKPDQVKQIATRL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +P + V + + SL P+ +E D++ D SP + A +E R+ Sbjct: 165 GVPEQDVIDMNRRLSGDTSLNAPLREEGEGEWQDWLVDN---SPSQETVLAREQEGQNRL 221 Query: 617 ------LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PRE R+ R + D TLE++ +F V+RER+RQIE +A K++ Sbjct: 222 SALKDALGVLNPRERRIFEARR---LAEDPITLEDLSGEFGVSRERVRQIEVRAFEKVQ 277 >gi|255525678|ref|ZP_05392611.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium carboxidivorans P7] gi|296185436|ref|ZP_06853846.1| RNA polymerase sigma-G factor [Clostridium carboxidivorans P7] gi|255510664|gb|EET86971.1| RNA polymerase, sigma 28 subunit, SigG [Clostridium carboxidivorans P7] gi|296050270|gb|EFG89694.1| RNA polymerase sigma-G factor [Clostridium carboxidivorans P7] Length = 257 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 132/245 (53%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +R G+ +++ +++NLRLV+SV +++ NRG DL Q G IGL+K+ Sbjct: 23 EMKELLLSMRNGDVSC---REKFIKSNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKSI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD ++ ++ R+ ++ + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYRALQVRDRLISENNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT +IAK+L +P E V L ++P+SL PI + D ++ D I D +D Sbjct: 139 EPTVSQIAKELKVPREEVVFALDAIQDPVSLFEPIYHDGGDAIYVMDQISDN---KNMDD 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + N+ + L RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 196 SWLENI--AIKEAMKKLNDREKLILNLRFFDG----RTQMEVADEIGISQAQVSRLEKTA 249 Query: 664 IRKLK 668 +R ++ Sbjct: 250 LRHMR 254 >gi|157828283|ref|YP_001494525.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. 'Sheila Smith'] gi|165932987|ref|YP_001649776.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. Iowa] gi|157800764|gb|ABV76017.1| RNA polymerase factor sigma-32 [Rickettsia rickettsii str. 'Sheila Smith'] gi|165908074|gb|ABY72370.1| RNA polymerase sigma-32 factor [Rickettsia rickettsii str. Iowa] Length = 293 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 123/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTTAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I ++D G+ IE P A+ N + +T++ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINNDDAES-GELIELLPETRPTPEAMAINKQNSTSKRQ 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|254459542|ref|ZP_05072958.1| sigma 32 [Rhodobacterales bacterium HTCC2083] gi|206676131|gb|EDZ40618.1| sigma 32 [Rhodobacteraceae bacterium HTCC2083] Length = 292 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 77/258 (29%), Positives = 132/258 (51%), Gaps = 20/258 (7%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 CEAS+ + ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FST Sbjct: 38 CEASLHR--LINAYMRLAISMASKFRRYGAPLNDLIQEAGLGLMKAADKFDPDRGVRFST 95 Query: 499 YAMWWVKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTP 549 YA+WW+K +I + +R + +MR ++ R A++ + R Sbjct: 96 YAVWWIKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAQQRGEALDRHQLH 155 Query: 550 EEIAKKLAMPVEGVRKVL-KITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP---LDSA 604 + I+ ++ +P+ V + +++ SL ED D +ED A + + Sbjct: 156 QMISTEIGVPLNDVEMMHGRLSGSDFSLNATQSVEDEGREWIDALEDDGAQAEEIVENEH 215 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A +RE + +L RE ++R R ++ TLE +G + +++ERIRQ+EA A Sbjct: 216 DTAQMREWLLGAMNALNERERFIVRER--KLLDEPRTLESLGNELGLSKERIRQLEAAAF 273 Query: 665 RKLKHP--SRSKKLRSFL 680 +K++ + S ++ +FL Sbjct: 274 QKMRKTLEANSSEVHAFL 291 >gi|239906748|ref|YP_002953489.1| RNA polymerase sigma factor [Desulfovibrio magneticus RS-1] gi|239796614|dbj|BAH75603.1| RNA polymerase sigma factor [Desulfovibrio magneticus RS-1] Length = 348 Score = 104 bits (259), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 133/243 (54%), Gaps = 11/243 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++ ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G KFS YA + Sbjct: 101 AAFRLISSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVTKFDPDKGIKFSYYAAY 160 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I + K+ + R+ + +P+ ++++ L + Sbjct: 161 WIKAYILKYIMDNWRMVKIGTTQAQRKLFYNLNKERQRLQSLGFDPSAAQLSQALNVTES 220 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLA 618 + ++ +++ +SL+ +GD+ TS DF+ A++P I A + + + Sbjct: 221 DIVEMDQRLSGNDLSLDVSLGDDTTSTRLDFLP---ALTPGIEEILAGDEISHQLDKHIQ 277 Query: 619 SLTPR--EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 S+ P+ E+ + + I ++ TL E+G ++ +TRER+RQIE++ + KLK SK++ Sbjct: 278 SIRPKLNEKEIELLDNRILSDSPVTLREIGAKYGITRERVRQIESRLLEKLKD-HLSKRI 336 Query: 677 RSF 679 F Sbjct: 337 EDF 339 >gi|167835356|ref|ZP_02462239.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis MSMB43] Length = 311 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 128/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+SVA+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARQLVLSHLRLVVSVARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 189 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 248 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALESLDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|222832319|gb|EEE70796.1| predicted protein [Populus trichocarpa] Length = 294 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 63/182 (34%), Positives = 95/182 (52%), Gaps = 16/182 (8%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDE 86 K +IKL + RGY+T E+N LP V +E +E ++ML++MG+ V D + L Sbjct: 34 LKALIKLGKTRGYLTHSEINDHLPDKLVDAETLEVVISMLNDMGVAVYEQTPDAETLLLN 93 Query: 87 EGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRI 146 + + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRI Sbjct: 94 NTGQSATTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRI 152 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGFFHGTEGH 206 E G MM ++ SP T ++ +E+ +G ++ I+D GF + E Sbjct: 153 EGGLMDMMEAISASPATIAEILAMSEEIREGKVVISTIVD-----------GFVNANEDD 201 Query: 207 SY 208 Y Sbjct: 202 DY 203 >gi|115378280|ref|ZP_01465448.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] gi|310821082|ref|YP_003953440.1| RNA polymerase sigma-b factor [Stigmatella aurantiaca DW4/3-1] gi|401024|sp|Q01624|RPSB_STIAD RecName: Full=RNA polymerase sigma-B factor gi|46680|emb|CAA78693.1| sigma factor (SigB) [Stigmatella aurantiaca DW4/3-1] gi|115364722|gb|EAU63789.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] gi|309394154|gb|ADO71613.1| RNA polymerase sigma-B factor [Stigmatella aurantiaca DW4/3-1] Length = 296 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 78/254 (30%), Positives = 129/254 (50%), Gaps = 20/254 (7%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+ E + + KG+ A +V +NLR V+ V+ +Y + G++ DLIQEGNIGL Sbjct: 27 LSVEEEQALARKFVKGDLAAG---HRLVTSNLRFVVKVSYEYRSYGIKMSDLIQEGNIGL 83 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRM 539 MKA +KFD G + +YA+WW++ I I +++ R + RT R + Sbjct: 84 MKAVQKFDPDKGIRLISYAVWWIRAYIQNYILKSWSLVKLGTTQAQRKLFFSLARTRREL 143 Query: 540 SNKIKREPT---PEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDK 595 + +EIA KL + VR++ ++ +SL+ P+G++ + DF+ Sbjct: 144 EKFGAGDGAVVNVDEIANKLNVKASEVREMEQRMGGRDLSLDAPMGEDGGNSHVDFV--A 201 Query: 596 NAVSPLDSAI----QANLRETTTRV-LASLTPREERVLRMRFGIGMN-TDHTLEEVGKQF 649 +A +P D +A L + + L L PRE ++ R MN TL+E+G+ F Sbjct: 202 SAAAPQDDEFADKEEAGLINSRVHMALMRLDPRERFIIEQRV---MNERPMTLKELGEHF 258 Query: 650 CVTRERIRQIEAKA 663 +RER RQ+E +A Sbjct: 259 GFSRERARQLEIRA 272 >gi|188585937|ref|YP_001917482.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350624|gb|ACB84894.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 269 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 130/245 (53%), Gaps = 11/245 (4%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 SE + + +R G+ E A+++++ NLRLV+SV +++ NRG DL Q G +GL+KA Sbjct: 22 SEMKELFEKMRVGDDEDE-ARQKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCVGLIKA 80 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ + K Sbjct: 81 IDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQIRDELVEKNS 139 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 REP EIA+KL + E V L ++P+SL PI + GD I + +S + Sbjct: 140 REPAISEIAEKLDVSEEQVVFALDAIQDPVSLFEPIYHDG----GDPIFVMDQISDEKNQ 195 Query: 605 IQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L E + L L+ RE+ ++ +RF G EE+G +++ ++ ++E A Sbjct: 196 DRTWLEEIAIKEGLHRLSSREKLIVNLRFFKGKTQMEVAEEIG----ISQAQVSRLEKAA 251 Query: 664 IRKLK 668 + +LK Sbjct: 252 LSQLK 256 >gi|328542558|ref|YP_004302667.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326412304|gb|ADZ69367.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 296 Score = 103 bits (258), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 125/251 (49%), Gaps = 18/251 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + A + +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G+ Sbjct: 39 RYKEHDDPAAAERLVNSHLRLVAKIAMGYRGYGLPLGEVVSEGNVGLMQAVKRFEPDKGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K AI I +++ K ++ RR+ +I+ + Sbjct: 99 RLATYAMWWIKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALEEGDLKPE 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 +EIA KL +P E V + + SL PI + D+ D++ D++ A Sbjct: 157 QVQEIATKLGVPEEDVVSMNRRLAGDASLNAPIRAAEADSGEWQDWLVDESESQETLLAN 216 Query: 606 QANL---RETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEA 661 Q L R+ + LT RE R+ R + D TLEE+ +F V+RER+RQIE Sbjct: 217 QEELDIRRKLLGDAMDILTERERRIFEAR---RLAEDPITLEELSTEFGVSRERVRQIEV 273 Query: 662 KAIRKLKHPSR 672 +A K++ R Sbjct: 274 RAFEKIQKAVR 284 >gi|209965510|ref|YP_002298425.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958976|gb|ACI99612.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 295 Score = 103 bits (258), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 123/243 (50%), Gaps = 28/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A E+V + RLV++ A ++ N GL DL+QEGN+GLM+AA +F+ +FSTYA WW Sbjct: 46 ALHELVRSYTRLVVATAARFRNYGLPMGDLVQEGNVGLMQAAARFEPDREVRFSTYAAWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP--------EEIAKK 555 ++ A+ I +R K + RR+ KI+ P+ IA++ Sbjct: 106 IRSAMQDYILRNWSIVRTGTTAAQK--ALFFNLRRLRAKIEDSPSASALSPDGRRRIAEE 163 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L + V + +++ SL +P+ + DF+ D+ SP D I +R+ Sbjct: 164 LNVDESDVESMEMRLAAADQSLNSPVAEGGDDEWQDFLSDQRP-SPEDVVI--GMRDGRM 220 Query: 615 R------VLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 R L L+PRE ++ R+R + TLEE+G+ V++ER+RQ+E +A+ Sbjct: 221 RSRWLAEALGELSPRERTIIAQRRLR-----DDGATLEELGRVLGVSKERVRQLEHRALM 275 Query: 666 KLK 668 KL+ Sbjct: 276 KLR 278 >gi|189424394|ref|YP_001951571.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter lovleyi SZ] gi|189420653|gb|ACD95051.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter lovleyi SZ] Length = 285 Score = 103 bits (258), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 85/277 (30%), Positives = 139/277 (50%), Gaps = 15/277 (5%) Query: 399 VACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVIS 458 + DS K +EIKS + E R V + + + A+ + ++ +NLR V+ Sbjct: 5 IPVTTDSFSKYLSEIKSFPLLD--EQEEHRLAVRLFEENDLSAA---QTLITSNLRFVVK 59 Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 +A +Y N GL+ LDLIQEGNIGLM A KF+ G++ TYA+WW++ I I Sbjct: 60 IAAEYRNYGLKMLDLIQEGNIGLMLAVRKFNPYRGFRLITYAVWWIRAQIQSYIVSSWSL 119 Query: 519 IRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV---EGVRKVLKITKEPI 574 ++I + K+ ++ A+ + + A L++ V E L++ E + Sbjct: 120 LKIGTTQAQRKLFFKLKQAKNAILSMNGGDEGDLPATALSLDVREAEVEEMELRLMGE-V 178 Query: 575 SLET-PIGDEDTSHLGDFIEDK-NAVSPL-DSAIQANLRETTTRVLASLTPREERVLRMR 631 SL+ + E S L ++D+ N S L D Q LR ++ L +E+ V++ R Sbjct: 179 SLDAEQVAGEGGSLLETLVDDRPNQESQLADLQEQQALRVVVADAVSRLGEKEQFVVKQR 238 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 I + TL+E+ F ++RER+RQIE A+RK+K Sbjct: 239 --IVADDPMTLQEIADHFSISRERVRQIEENALRKIK 273 >gi|317403164|gb|EFV83689.1| RNA polymerase sigma factor [Achromobacter xylosoxidans C54] Length = 294 Score = 103 bits (258), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 131/231 (56%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 61 AARELVLSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ R + E + IA++L + E Sbjct: 121 IKAEIHEYIIRNWRLVKVATTKAQRKLFFNLRSMRPDGQTLDPEQV-DHIARELNVRRED 179 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRET-TTRVL 617 V ++ ++++ +SLE D+D+ ++ D+ P L+ A + L+ + + L Sbjct: 180 VSEMEVRLSGRDMSLENQDDDDDSYAPIAYLSDEGRQEPTRVLERAARDQLQSSGLSSAL 239 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR R++ R+ + + TL E+ ++F V+ ERIRQIEA A++K++ Sbjct: 240 EALDPRSRRIVEARW-LQDDGGATLHELAQEFGVSAERIRQIEAAALKKMR 289 >gi|15892330|ref|NP_360044.1| RNA polymerase factor sigma-32 [Rickettsia conorii str. Malish 7] gi|15619475|gb|AAL02945.1| RNA polymerase sigma-32 factor [Rickettsia conorii str. Malish 7] Length = 293 Score = 103 bits (258), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 122/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +D G+ IE P A+ N + +T++ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPEAMAINKQNSTSKRQ 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|53724102|ref|YP_104622.1| RNA polymerase factor sigma-32 [Burkholderia mallei ATCC 23344] gi|121598782|ref|YP_991458.1| RNA polymerase factor sigma-32 [Burkholderia mallei SAVP1] gi|124383719|ref|YP_001027464.1| RNA polymerase factor sigma-32 [Burkholderia mallei NCTC 10229] gi|126449925|ref|YP_001082430.1| RNA polymerase factor sigma-32 [Burkholderia mallei NCTC 10247] gi|167001066|ref|ZP_02266867.1| alternative sigma factor RpoH [Burkholderia mallei PRL-20] gi|238561338|ref|ZP_00442201.2| alternative sigma factor RpoH [Burkholderia mallei GB8 horse 4] gi|254175044|ref|ZP_04881705.1| alternative sigma factor RpoH [Burkholderia mallei ATCC 10399] gi|254201710|ref|ZP_04908074.1| alternative sigma factor RpoH [Burkholderia mallei FMH] gi|254207043|ref|ZP_04913394.1| alternative sigma factor RpoH [Burkholderia mallei JHU] gi|254357524|ref|ZP_04973798.1| alternative sigma factor RpoH [Burkholderia mallei 2002721280] gi|52427525|gb|AAU48118.1| RNA polymerase sigma-32 factor [Burkholderia mallei ATCC 23344] gi|121227592|gb|ABM50110.1| alternative sigma factor RpoH [Burkholderia mallei SAVP1] gi|124291739|gb|ABN01008.1| RNA polymerase sigma-32 factor [Burkholderia mallei NCTC 10229] gi|126242795|gb|ABO05888.1| alternative sigma factor RpoH [Burkholderia mallei NCTC 10247] gi|147747604|gb|EDK54680.1| alternative sigma factor RpoH [Burkholderia mallei FMH] gi|147752585|gb|EDK59651.1| alternative sigma factor RpoH [Burkholderia mallei JHU] gi|148026588|gb|EDK84673.1| alternative sigma factor RpoH [Burkholderia mallei 2002721280] gi|160696089|gb|EDP86059.1| alternative sigma factor RpoH [Burkholderia mallei ATCC 10399] gi|238524810|gb|EEP88241.1| alternative sigma factor RpoH [Burkholderia mallei GB8 horse 4] gi|243063136|gb|EES45322.1| alternative sigma factor RpoH [Burkholderia mallei PRL-20] Length = 311 Score = 103 bits (258), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 127/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+SVA+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSVARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 189 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 248 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALESLDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|253997181|ref|YP_003049245.1| RNA polymerase sigma-32 subunit RpoH [Methylotenera mobilis JLW8] gi|253983860|gb|ACT48718.1| RNA polymerase, sigma 32 subunit, RpoH [Methylotenera mobilis JLW8] Length = 285 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 80/233 (34%), Positives = 121/233 (51%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LRLV S+A+ Y GL DLIQEGNIGLMKA ++FD G + ++AM W Sbjct: 49 AARQLIVSHLRLVASIARGYMGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAMHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAM-PV 560 +K I I ++I + K+ R M I T E IA++L + P Sbjct: 109 IKAEIHEYIVRNWRLVKIATTKAQR--KLFFNLRSMKTGINTMQTSEIDHIARELNVKPE 166 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSP-LDSAIQANLRETT--TR 615 E + ++ ISLE+ I D+ H +++D++ P A Q + ETT Sbjct: 167 EVLEMESRLNGHEISLESNIDDDSEEHYSPIAYLQDESLTPPEALEAKQFEMAETTGLAS 226 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R RV+ R+ + + TL E+ +F V+ ERIRQIE KA+ K+K Sbjct: 227 ALNHLDERSRRVVEARW-LQEDASKTLHELADEFGVSAERIRQIEQKAMLKMK 278 >gi|258511274|ref|YP_003184708.1| RNA polymerase, sigma 28 subunit, SigG [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478000|gb|ACV58319.1| RNA polymerase, sigma 28 subunit, SigG [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 259 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 84/269 (31%), Positives = 143/269 (53%), Gaps = 24/269 (8%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V T ++ ++ R + +R G+ A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVNTSQLPVLTNAQMRELFEQLRAGDPSA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMKA + FD +FSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKAIDNFDLNQNVRFSTYAVPMIVGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ +++K REP+ EIA ++ +P E V L ++P+S+ PI + Sbjct: 119 RDIAYKALQVRDMLASKNLREPSIVEIANEMNLPKEEVVFALDAIQDPVSMFEPIYHDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D ++ D I D+ DSA LRE + L+ RE+++L RF G T Sbjct: 179 DPIYVMDQIHDEREK---DSAWVEGIALREAMRK----LSDREKKILAKRFYEG----KT 227 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 EV + +++ ++ ++E AI ++ KH Sbjct: 228 QMEVADEIGISQAQVSRLEKAAIHRMYKH 256 >gi|289578664|ref|YP_003477291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|297544884|ref|YP_003677186.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528377|gb|ADD02729.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|296842659|gb|ADH61175.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 256 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 74/226 (32%), Positives = 122/226 (53%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E + NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 37 AREEFINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLIKAIDNFDLDQNVKFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + IR+ +RD +K ++ ++ ++ +EPT EIAK+L +P E V Sbjct: 97 IIGEIRRYLRDNT-PIRVSRSLRDIAYKALQVRDKLVSENSKEPTVGEIAKELDLPREEV 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI + GD I + VS + + L + + + L Sbjct: 156 VMALDAIQEPVSLFEPIYHDG----GDAIYVMDQVSDDKNIDEVWLEKIALKEAIQKLNE 211 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV K+ +++ ++ ++E A+ ++ Sbjct: 212 REKLILTLRFFEG----KTQMEVAKEIGISQAQVSRLEKAALNHMR 253 >gi|261366888|ref|ZP_05979771.1| RNA polymerase sigma-G factor [Subdoligranulum variabile DSM 15176] gi|282571002|gb|EFB76537.1| RNA polymerase sigma-G factor [Subdoligranulum variabile DSM 15176] Length = 260 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 129/249 (51%), Gaps = 16/249 (6%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S +E ++ R G+ EA +++M++ NLRLV+SV +K+ NRG DL Q G IGL Sbjct: 19 LSETEKSALIRAARAGDAEA---RRKMIQGNLRLVLSVVQKFANRGENLDDLFQVGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA + FD L +FSTY + + I R + D + +R+ +RD + +R + Sbjct: 76 IKAIDHFDPSLQVRFSTYGVPMIVGEIRRFLRDNN-AVRVSRSIRDLAYHSMRAREALQK 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 + R+P EIA ++ E V L+ EP SL P+ ED+ + D + D Sbjct: 135 ENGRDPKISEIAARVGASPENVAMALESVVEPASLYEPVYSDGEDSFAIVDQLHDATGEE 194 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 S I R+T + SL+ RE R++ MR+ G T +V ++ +++ ++ ++ Sbjct: 195 SWISDIM--FRDT----VKSLSARERRIIAMRYLGG----KTQMQVAREIGISQAQVSRL 244 Query: 660 EAKAIRKLK 668 E A+ ++K Sbjct: 245 EKGALNRIK 253 >gi|291531212|emb|CBK96797.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium siraeum 70/3] Length = 255 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 78/244 (31%), Positives = 133/244 (54%), Gaps = 18/244 (7%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 SE ++ +R G+ A+++++ NLRLV+SV ++++ RG DL Q G IGLMKA Sbjct: 27 SEKTELLRQMRSGD---PTAREKLINGNLRLVLSVIQRFSGRGENPDDLFQVGCIGLMKA 83 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + F +FSTYA+ + + R + D S +IR+ MRD +K ++ +++N Sbjct: 84 IDNFSTDFNVRFSTYAVPMIMGELRRYLRD-SGSIRVSRSMRDLAYKAMQAREKLTNDNS 142 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKN-AVSPL 601 +EPT E+IAK++ E V L+ +PISL P+ E DT ++ D I D N + L Sbjct: 143 KEPTIEQIAKEIDAKREDVVIALEAVSDPISLYEPVFSESGDTIYMMDQIGDNNDDRNWL 202 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + L+E + L RE+ +L++RF G T EV ++ +++ ++ ++E Sbjct: 203 D---EIALKEA----IIGLDDREKNILKLRFFRG----KTQVEVAQEIGISQAQVSRLEK 251 Query: 662 KAIR 665 + R Sbjct: 252 RRSR 255 >gi|34580656|ref|ZP_00142136.1| RNA polymerase sigma-32 factor [Rickettsia sibirica 246] gi|28262041|gb|EAA25545.1| RNA polymerase sigma-32 factor [Rickettsia sibirica 246] Length = 293 Score = 103 bits (257), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 121/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPMTELVSEGNIGLMQAVKKFNPALGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +D G+ IE P + N + +T++ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPETMAINKQNSTSKRQ 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|288961334|ref|YP_003451673.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288913642|dbj|BAI75129.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 287 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 124/241 (51%), Gaps = 34/241 (14%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A+ Y GL DL+ EGN+GLM+AA+KFD G++F+TYA WWV+ A Sbjct: 38 LVGSHLRLVVKMARGYLGYGLPLADLVAEGNVGLMQAAQKFDPGKGFRFATYASWWVRAA 97 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAMPVEGV 563 I + ++I K K+ + RR+ +++ + +PE VE + Sbjct: 98 IQEYVLHNWSLVKIGTTAGQK--KLFFSLRRLKARMQELDSGDLSPE--------AVESI 147 Query: 564 RKVLKITK-EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L ++K E + + +G++ + ++G ED +A + A+ R VLA Sbjct: 148 ATELNVSKAEVVEMNRRLGNDRSLNVG-LSEDGDAEW---QDLLADDRPDQETVLADSEE 203 Query: 623 REERVLRMRFGIGMNTDH---------------TLEEVGKQFCVTRERIRQIEAKAIRKL 667 R R ++ G+G+ D TLEE+ + F V+RER+RQ+E +A KL Sbjct: 204 RRRRQQFLKLGLGVLDDRERRILVARRLRDEPLTLEELSQTFQVSRERVRQLEVRAFEKL 263 Query: 668 K 668 + Sbjct: 264 Q 264 >gi|121488737|emb|CAJ18252.1| sigma 70-type sigma factor [Chlorobium limicola] Length = 165 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 53/164 (32%), Positives = 94/164 (57%), Gaps = 1/164 (0%) Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L EGN+GL KA +FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ Sbjct: 2 LXNEGNLGLXKAXXRFDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNKI 61 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + ++ + +R+P +E+A L M + V LKI +S++ P D + L D + Sbjct: 62 SKAYSQLEQEYERDPNTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVL 121 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 ++ + P + + +L R L+ L PRE V+R F I M Sbjct: 122 QNDGHM-PDHTLNRDSLTLEVERSLSVLAPREADVIRSYFXIXM 164 >gi|53718144|ref|YP_107130.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei K96243] gi|76812253|ref|YP_332145.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 1710b] gi|126441976|ref|YP_001057600.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 668] gi|126453430|ref|YP_001064846.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 1106a] gi|134279764|ref|ZP_01766476.1| alternative sigma factor RpoH [Burkholderia pseudomallei 305] gi|167717993|ref|ZP_02401229.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei DM98] gi|167737009|ref|ZP_02409783.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 14] gi|167814118|ref|ZP_02445798.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 91] gi|167822644|ref|ZP_02454115.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 9] gi|167844214|ref|ZP_02469722.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei B7210] gi|167892724|ref|ZP_02480126.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 7894] gi|167901220|ref|ZP_02488425.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei NCTC 13177] gi|167909437|ref|ZP_02496528.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei 112] gi|167917468|ref|ZP_02504559.1| RNA polymerase factor sigma-32 [Burkholderia pseudomallei BCC215] gi|217419877|ref|ZP_03451383.1| alternative sigma factor RpoH [Burkholderia pseudomallei 576] gi|226199497|ref|ZP_03795054.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pakistan 9] gi|237810751|ref|YP_002895202.1| alternative sigma factor RpoH [Burkholderia pseudomallei MSHR346] gi|242316271|ref|ZP_04815287.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106b] gi|254181885|ref|ZP_04888482.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1655] gi|254187820|ref|ZP_04894332.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pasteur 52237] gi|254196825|ref|ZP_04903249.1| alternative sigma factor RpoH [Burkholderia pseudomallei S13] gi|254260127|ref|ZP_04951181.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710a] gi|254296064|ref|ZP_04963521.1| alternative sigma factor RpoH [Burkholderia pseudomallei 406e] gi|52208558|emb|CAH34494.1| RNA polymerase sigma-32 factor [Burkholderia pseudomallei K96243] gi|76581706|gb|ABA51181.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710b] gi|126221469|gb|ABN84975.1| alternative sigma factor RpoH [Burkholderia pseudomallei 668] gi|126227072|gb|ABN90612.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106a] gi|134248964|gb|EBA49046.1| alternative sigma factor RpoH [Burkholderia pseudomallei 305] gi|157805888|gb|EDO83058.1| alternative sigma factor RpoH [Burkholderia pseudomallei 406e] gi|157935500|gb|EDO91170.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pasteur 52237] gi|169653568|gb|EDS86261.1| alternative sigma factor RpoH [Burkholderia pseudomallei S13] gi|184212423|gb|EDU09466.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1655] gi|217397181|gb|EEC37197.1| alternative sigma factor RpoH [Burkholderia pseudomallei 576] gi|225928378|gb|EEH24408.1| alternative sigma factor RpoH [Burkholderia pseudomallei Pakistan 9] gi|237503746|gb|ACQ96064.1| alternative sigma factor RpoH [Burkholderia pseudomallei MSHR346] gi|242139510|gb|EES25912.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1106b] gi|254218816|gb|EET08200.1| alternative sigma factor RpoH [Burkholderia pseudomallei 1710a] Length = 311 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 127/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+SVA+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSVARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 189 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 248 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALESLDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|238650752|ref|YP_002916605.1| RNA polymerase factor sigma-32 [Rickettsia peacockii str. Rustic] gi|238624850|gb|ACR47556.1| RNA polymerase factor sigma-32 [Rickettsia peacockii str. Rustic] Length = 293 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 122/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +D G+ IE P A+ N + +T++ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPEAMAINKQNSTSKRQ 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|15604172|ref|NP_220687.1| RNA polymerase factor sigma-32 [Rickettsia prowazekii str. Madrid E] gi|3860864|emb|CAA14764.1| RNA POLYMERASE SIGMA-32 FACTOR (rpoH) [Rickettsia prowazekii] gi|292571903|gb|ADE29818.1| RNA polymerase sigma-32 factor [Rickettsia prowazekii Rp22] Length = 293 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 81/276 (29%), Positives = 141/276 (51%), Gaps = 23/276 (8%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 S L+ N+I S++ E EF S + + + +A+ ++V ++L+LV +A Y Sbjct: 18 SYLQKINKIPSLTQE-----EEFLLAKSYLEENDLQAA---HKLVTSHLKLVAKIASSYK 69 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW+K +I I +++ Sbjct: 70 TYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKASIQEYILKSWSLVKMGTT 129 Query: 525 MRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAMPVEGVRKV-LKITKEPISLET 578 K + + +++N R T + +IA +L + V V ++ +I+ +SL Sbjct: 130 AAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSVNEVSEMNTRISGPDLSLNN 189 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR------VLASLTPREERVLRMRF 632 I +D G+ IE + P A+ N + T++ + L RE R+L+ R Sbjct: 190 SINSDDVES-GELIELLPELRPTPEAMAINKQNYTSKRKLLSNAMQILNDRELRILKDR- 247 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 248 -KLTDTPKTLDILSSEYNISKERIRQIENTAFEKIK 282 >gi|188588400|ref|YP_001920536.1| sporulation sigma factor SigG [Clostridium botulinum E3 str. Alaska E43] gi|251778549|ref|ZP_04821469.1| RNA polymerase sigma-G factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188498681|gb|ACD51817.1| RNA polymerase sigma-G factor [Clostridium botulinum E3 str. Alaska E43] gi|243082864|gb|EES48754.1| RNA polymerase sigma-G factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 257 Score = 103 bits (257), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 121/226 (53%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 ARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + REPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALIVRDKFIKDNNREPTISQIAKELELPREEV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L ++P+SL PI + GD I + +S + ++ L + + + LT Sbjct: 157 VFALDAIQDPVSLFEPIYHDG----GDAIFVMDQISDSKNTDESWLENISIKEAMKKLTD 212 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 213 REKLILNLRFFRG----RTQMEVADEIGISQAQVSRLEKTALKHMR 254 >gi|114798150|ref|YP_762122.1| putative alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] gi|114738324|gb|ABI76449.1| putative alternative sigma factor RpoH [Hyphomonas neptunium ATCC 15444] Length = 295 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 79/254 (31%), Positives = 128/254 (50%), Gaps = 20/254 (7%) Query: 429 HIVSMVRKG-ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 H S+ R+ E E A E+ A +RLVIS+A K+ + GL DL+ EGN+GLM+AA + Sbjct: 29 HEASLARRWREAEDEAALHELTTAYMRLVISMAAKFRHYGLPMADLVSEGNVGLMQAAAR 88 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSN---- 541 F+ +FSTYA WW++ +I + +R K + R R+S+ Sbjct: 89 FEPEREVRFSTYASWWIRSSIQDYVLRNWSIVRTGTTSAQKSLFFNLRRLRARISDLGDG 148 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 + RE + ++ L +P+ V + +++ SL P+ + + D I D+ A P Sbjct: 149 TMTRE-NKQWVSTHLGVPLRDVEIMSARLSGSDRSLNAPLTMDGDAEWQDMIADEGA--P 205 Query: 601 LDSAIQ-----ANLRETTTRVLASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCVTRE 654 + A+ A E + + +LTPRE ++ R R TLE +G + V++E Sbjct: 206 PEEAVMRSHDTARRHEWISEAMEALTPRETYIITRRRLS---EEPQTLEALGHELGVSKE 262 Query: 655 RIRQIEAKAIRKLK 668 R+RQIE +A+ KLK Sbjct: 263 RVRQIEHQALSKLK 276 >gi|300854419|ref|YP_003779403.1| putative RNA polymerase sigma-G factor [Clostridium ljungdahlii DSM 13528] gi|300434534|gb|ADK14301.1| predicted RNA polymerase sigma-G factor [Clostridium ljungdahlii DSM 13528] Length = 257 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 133/245 (54%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +++G+ E+ +++ ++ NLRLV+SV +++ NRG DL Q G IGL+KA Sbjct: 23 EMKELLIKMQQGDNES---REKFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAI 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD KFSTYA+ + I R + D + +IR+ +RD +K ++ ++ + + Sbjct: 80 DNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDKLIRENNK 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT +IA++L +P E V L ++P+SL PI + D ++ D I D LD Sbjct: 139 EPTISQIAEELNIPREEVVFALDAIQDPVSLFEPIYHDGGDAIYVMDQISD---TKNLDE 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 N+ + + L RE+ +L +RF G T EV + +++ ++ ++E A Sbjct: 196 NWLENI--SIKEAMKKLNDREKLILNLRFFDG----RTQMEVADEIGISQAQVSRLEKTA 249 Query: 664 IRKLK 668 +R ++ Sbjct: 250 LRHMR 254 >gi|118443097|ref|YP_878334.1| sporulation sigma factor SigG [Clostridium novyi NT] gi|118133553|gb|ABK60597.1| Specialized DNA-dependent RNA polymerase sigma subunit [Clostridium novyi NT] Length = 256 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/230 (31%), Positives = 126/230 (54%), Gaps = 14/230 (6%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 ++++++ V NLRLV+SV +++ NRG DL Q G IGL+KA + FD KFSTYA+ Sbjct: 35 NLSREKFVRGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLIKAIDNFDLSQNVKFSTYAV 94 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 + I R + D + +IR+ +RD +K ++ ++ K ++P IAK+L +P E Sbjct: 95 PMIIGEIRRYLRDNN-SIRVSRSLRDIAYKALQVRDKIIKKENKDPNVSRIAKELDLPRE 153 Query: 562 GVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLA 618 V L ++P+SL PI + D ++ D I D V +S I+ +++E R Sbjct: 154 EVVFALDAIQDPVSLFEPIYHDGGDALYVMDQISDSKNVD--ESWIENISIKEAMKR--- 208 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE+ +L MRF G T EV + +++ ++ ++E A++ ++ Sbjct: 209 -LNEREKMILNMRFFQG----RTQMEVADEIGISQAQVSRLEKTALKHMR 253 >gi|114764201|ref|ZP_01443439.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114543353|gb|EAU46369.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 292 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 129/249 (51%), Gaps = 18/249 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW+K + Sbjct: 45 LINAYMRLAISMAAKFKRYGAPMGDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + +MR ++ R A ++R IAK++ + Sbjct: 105 IQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAAAEGRALERHSLHAAIAKEVGV 164 Query: 559 PVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIED--KNAVSPLDSAIQAN-LRETT 613 P+ V + +++ SL T DED D +ED + + S ++ + + LRE Sbjct: 165 PLHDVEMMDGRLSGSDFSLNATQSTDEDGREWIDTLEDDGEQSASLVEGKLDNDQLREWL 224 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP--S 671 L L RE ++R R + TLE +G++ +++ER+RQ+EA A K++ + Sbjct: 225 VVALTGLNDRERFIVRER--KLRDETRTLESLGQELGLSKERVRQLEAAAFVKMRKSLEA 282 Query: 672 RSKKLRSFL 680 +S+++ FL Sbjct: 283 QSREVAQFL 291 >gi|78357159|ref|YP_388608.1| sigma 70 family protein [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78219564|gb|ABB38913.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 360 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 131/239 (54%), Gaps = 19/239 (7%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 S A +V ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G KFS YA Sbjct: 112 SDAAFRLVSSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPDKGIKFSYYA 171 Query: 501 MWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 +W+K I + I D ++I + K+ + R+ +P ++++L + Sbjct: 172 AFWIKAYILKFIMDNWRLVKIGTTQAQRKLFYNLNKERQKLIAQGYDPDAAMLSERLDVT 231 Query: 560 VEGVRKV-LKITKEPISLETPIGDEDTS--------HLGDFIEDKNAVSPLDSAIQANLR 610 E V ++ ++ +SL+ +GDE+ S LG IED A + + + +Q +R Sbjct: 232 TEQVVEMEQRLDASDMSLDVQVGDENGSASRMDFLPALGPGIEDTLANNEIAAMVQERIR 291 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ L +E +L R ++ D TL E+G+++ +TRER+RQIEA+ ++K++ Sbjct: 292 D----IVPLLNDKELDILNSRL---LSEDPVTLREIGEKYDITRERVRQIEARLLQKIR 343 >gi|157825543|ref|YP_001493263.1| RNA polymerase factor sigma-32 [Rickettsia akari str. Hartford] gi|157799501|gb|ABV74755.1| RNA polymerase factor sigma-32 [Rickettsia akari str. Hartford] Length = 293 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 125/237 (52%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y G+ +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGIPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEEIAK---KLAM 558 +K AI I +++ K + + +++N R T ++ AK +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAKIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--R 615 V V ++ +I+ +SL I +D + G+ IE P A+ N + T+ + Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDAAS-GELIELLPETRPTPEAMAINKQNFTSKRK 227 Query: 616 VLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LA+ L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLANAMKILNDRELRILTER--KLTDTPTTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|46579995|ref|YP_010803.1| sigma 70 family protein [Desulfovibrio vulgaris str. Hildenborough] gi|120602593|ref|YP_966993.1| sigma-70 region 2 domain-containing protein [Desulfovibrio vulgaris DP4] gi|46449411|gb|AAS96062.1| sigma 70 family protein [Desulfovibrio vulgaris str. Hildenborough] gi|120562822|gb|ABM28566.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfovibrio vulgaris DP4] gi|311234006|gb|ADP86860.1| RNA polymerase sigma factor, sigma-70 family [Desulfovibrio vulgaris RCH1] Length = 356 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 74/236 (31%), Positives = 127/236 (53%), Gaps = 17/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A +V ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G KFS YA + Sbjct: 110 AAFRLVSSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPEKGIKFSYYAAF 169 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I + K+ + R+ +P ++++L + E Sbjct: 170 WIKAYILKFIMDNWRMVKIGTTQAQRKLFYNLNKERQKLILQGYDPDAATLSERLNVTKE 229 Query: 562 GVRKV-LKITKEPISLETPIGDED--------TSHLGDFIEDKNAVSPLDSAIQANLRET 612 V ++ ++ +SL+ P+GDE LG IED + + S +Q L+ Sbjct: 230 QVVEMEQRLDASDVSLDIPVGDEGGGASRMDFLPALGPGIEDALSNHEIASMVQNRLQS- 288 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L+ +E +L+ R + TL E+G+++ +TRER+RQIEA+ ++K++ Sbjct: 289 ---IIPKLSDKEVDILQNR--LLSEEPVTLREIGEKYDITRERVRQIEARLLQKIR 339 >gi|157964378|ref|YP_001499202.1| RNA polymerase factor sigma-32 [Rickettsia massiliae MTU5] gi|157844154|gb|ABV84655.1| RNA polymerase sigma-32 factor [Rickettsia massiliae MTU5] Length = 310 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 122/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 66 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 125 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 126 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGV 185 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +D G+ IE P A+ N + +T++ Sbjct: 186 SVNEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPEAMAINKQNSTSKRQ 244 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 245 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 299 >gi|56477835|ref|YP_159424.1| RNA polymerase factor sigma-32 [Aromatoleum aromaticum EbN1] gi|56313878|emb|CAI08523.1| Sigma-32 factor RpoH (RNA polymerase sigma factor) [Aromatoleum aromaticum EbN1] Length = 283 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 87/293 (29%), Positives = 151/293 (51%), Gaps = 24/293 (8%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 +S A FP F +D ++ N I ++ + +S++ + +G+ EA+ Sbjct: 1 MSQALSFP----VPFAVGSIDQYIQSVNRIPLLTEQEEVSLA-----TRLRNEGDLEAA- 50 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +V ++LRLV+++++ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 51 --RGLVMSHLRLVVAISRGYLGYGLPHADLIQEGNIGLMKAVKRFDPDRGVRLVSFAIHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVE 561 +K I I ++I + K+ +R+ ++ + + R+ +AK+L + P E Sbjct: 109 IKAEIHEYILKNWRLVKIATTKAQRKLFFNLRSLKQDTGTLNRDEV-VAVAKQLGVKPEE 167 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLR----ETTTR 615 V ++T I LE D+D H ++ D NA P + QA L E + Sbjct: 168 VVEMETRLTGRDIQLEGG-PDDDEHHFAPIAYLPDPNA-EPSEVLEQAQLARLQDEGLSD 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LASL R +++ R+ + TL E+ ++ V+ ERIRQIEAKA++K++ Sbjct: 226 ALASLDDRSRTIVKRRW-LTEGDSATLHELAAEYGVSAERIRQIEAKAMQKMR 277 >gi|284046869|ref|YP_003397209.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283951090|gb|ADB53834.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 276 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 68/237 (28%), Positives = 124/237 (52%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+K MVE +L L +A++Y++RG DL+Q ++GL+KA ++FD G F++YA+ Sbjct: 50 ARKAMVEQHLGLAHHLARRYSDRGEPLDDLVQVASLGLLKAVDRFDPARGVSFASYAVPT 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R D+ I +P RD +R ++ R PTP ++ K+ + VE V Sbjct: 110 ILGELRRHFRDRGWAIHVP---RDLKEAALRVESALAGHAGRSPTPSQLGKETGLDVEAV 166 Query: 564 RKVLKI--TKEPISLETPIGDED---TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + L++ +SL+ P G+E+ T+ L D + + D +A R T R+ + Sbjct: 167 LEALEVAGAHRALSLDAPAGNEEEGTTATLVDRLGRDD-----DELDRAGDRATIERLAS 221 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L PRE +LR+RF D T E+G + V++ + ++ A+ +++ S++ + Sbjct: 222 VLEPREREILRLRF----VEDMTQSEIGARVGVSQMHVSRLIRTALTRMRLASQTSR 274 >gi|239947881|ref|ZP_04699634.1| alternative sigma factor RpoH [Rickettsia endosymbiont of Ixodes scapularis] gi|239922157|gb|EER22181.1| alternative sigma factor RpoH [Rickettsia endosymbiont of Ixodes scapularis] Length = 293 Score = 103 bits (256), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 122/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 + V ++ +I+ +SL I +D G+ IE P A+ N + +T++ Sbjct: 169 SINEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPEAMAINKQNSTSKRK 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSSEYNISKERIRQIENTAFEKIK 282 >gi|296445492|ref|ZP_06887449.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] gi|296257058|gb|EFH04128.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] Length = 294 Score = 102 bits (255), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 143/285 (50%), Gaps = 27/285 (9%) Query: 411 NEIKSISVETGIS--ISEFRHIVSM---------VRKGECEASIAKKEMVEANLRLVISV 459 N + ++S ++G+S ++E R + R E E A +++V ++LRLV + Sbjct: 3 NALPTLSGDSGLSRYLAEIRRFPMLEPEQEYMLAKRWREHEDPNAAQKLVTSHLRLVAKI 62 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW++ +I I + Sbjct: 63 AMGYRGYGLPIGEIVSEGNVGLMQAVKRFEPERGFRLATYAMWWIRASIQEYILRSWSLV 122 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKLAMPVEGVRKVLKITKE 572 ++ K K+ R+ +KI + TPE EIA++L + + V ++ + Sbjct: 123 KMGTTASQK--KLFFNLRKAKSKISAFEDGDLTPEHVGEIARRLGVTNQDVIEMNRRMSG 180 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRETTTRVLASLTPREERVLR 629 SL P+ +E D++ D ++ +D N + L L PRE R+ Sbjct: 181 DASLNAPLREEGEGEWQDWLVDDSSDQERILVDQEEAGNRLDALRGALTVLNPRERRIFE 240 Query: 630 MRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 R ++ D TLE++ +F V+RER+RQIE +A K++ R+ Sbjct: 241 AR---RLSEDPVTLEDLSTEFGVSRERVRQIEVRAFEKVQSAVRA 282 >gi|256829638|ref|YP_003158366.1| RNA polymerase sigma-32 subunit RpoH [Desulfomicrobium baculatum DSM 4028] gi|256578814|gb|ACU89950.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfomicrobium baculatum DSM 4028] Length = 356 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 123/231 (53%), Gaps = 16/231 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++ +NLRLV+ +A + R ++ LDLIQEGN+GLMKA +KFD G KFS YA +W+K Sbjct: 113 LITSNLRLVVKIAMDFQRRWMKNVLDLIQEGNVGLMKAVQKFDPDKGIKFSYYASFWIKA 172 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP-VEGVR 564 I + I D ++I + K+ + R+ +PT ++K L + + V Sbjct: 173 YILKFIMDNWRMVKIGTTQAQRKLFYNLGKERQRLQAQGFDPTTSTLSKNLQVSEADIVE 232 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDF-------IEDKNAVSPLDSAIQANLRETTTRVL 617 ++ + +SL+ IGD+ + DF IE++ A + I N+ + Sbjct: 233 MGQRLGQHDVSLDMKIGDDSSFTPMDFIPALEAGIEEQMAADEISVLIHDNI----DAIR 288 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +E +L R + ++ TL E+G ++ +TRER+RQIEA+ ++K+K Sbjct: 289 DGLNEKELDILEQR--LLADSPITLREIGDKYGITRERVRQIEARLLQKIK 337 >gi|2529271|gb|AAB81191.1| sigma factor [Lysinibacillus sphaericus] Length = 263 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 79/265 (29%), Positives = 135/265 (50%), Gaps = 39/265 (14%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S E +S E R +++ ++G+ EA +K MVE N RLV S+ +++T RG++ DL Q Sbjct: 7 SSEKLLSQEEMRDLIARAQQGDHEA---RKRMVEGNTRLVWSIVQRFTTRGVELEDLFQI 63 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G IGLMK+ +KFD KFSTYA+ + I R + D D + KV R+ Sbjct: 64 GCIGLMKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRD------------DGMVKVSRSI 111 Query: 537 RRMSNKIK-----------REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDE 583 R ++ KI+ PT +E+A+ L + E + ++P SL + + Sbjct: 112 RELNFKIRHATDEFIKRNEHRPTIQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEG 171 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D+ L D ++D+ + P D L+E TR L PRE+ ++ +R+ +D T Sbjct: 172 DSITLMDQMKDEKSEQPFDY---IPLKEVLTR----LEPREQSIIYLRYF----SDCTQT 220 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+ + +++ ++ ++E K + +LK Sbjct: 221 EIANRLGISQVQVSRLEKKILAQLK 245 >gi|51473499|ref|YP_067256.1| RNA polymerase factor sigma-32 [Rickettsia typhi str. Wilmington] gi|51459811|gb|AAU03774.1| RNA polymerase sigma 32 subunit (heat shock sigma factor) [Rickettsia typhi str. Wilmington] Length = 293 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 81/276 (29%), Positives = 140/276 (50%), Gaps = 23/276 (8%) Query: 405 SILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYT 464 S L+ N+I S++ E EF S + + + +A+ ++V ++L+LV +A Y Sbjct: 18 SYLQKINKIPSLTQE-----EEFLLAKSYLEENDLQAA---HKLVTSHLKLVAKIASGYK 69 Query: 465 NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVH 524 GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW+K +I I +++ Sbjct: 70 TYGLPITELVSEGNIGLMQAVKKFNPELGFRLSTYAMWWIKASIQEYILKSWSLVKMGTT 129 Query: 525 MRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAMPVEGVRKV-LKITKEPISLET 578 K + + +++N R T + +IA +L + V V ++ +I+ +SL Sbjct: 130 AAQKKLFFSLNKVKHKITNLYSRAITTDDFAQIADELGVSVHEVSEMNTRISGPDLSLNN 189 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR------VLASLTPREERVLRMRF 632 I +D G+ IE P A+ N + T++ + L RE R+L+ R Sbjct: 190 SINSDDVES-GELIELLPETRPTPEAMAINKQNYTSKRKLLSNAMQILNDRELRILKDR- 247 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 248 -KLTDTPKTLDILSSEYNISKERIRQIENTAFEKIK 282 >gi|1552544|emb|CAA90874.1| sigma factor [Bacillus coagulans] Length = 252 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 126/242 (52%), Gaps = 16/242 (6%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +++R+ E A+ +VE N+RLV SV ++ NRG + DL Q G IGL+K+ +KFD Sbjct: 19 VKNLIRRTEEGDQEARDLIVEKNIRLVWSVVHRFLNRGYEPDDLFQIGCIGLLKSVDKFD 78 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D T+++ +++ +++ + ++ K+ R PT Sbjct: 79 LSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETGNRIRKIRDELTKKLGRSPTV 137 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQ 606 EIA +L MPVE V + K P S+ + D D L D I D+N D A+Q Sbjct: 138 HEIASELGMPVEEVVMAQEAGKAPSSIHETVYENDGDPITLLDQISDQNDQKWFDQIALQ 197 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +R L RE ++ +R+ D T E G++ +++ ++ ++E K +R Sbjct: 198 EAIR--------GLEERERLIVYLRY----YKDQTQSEAGERLGISQVQVSRLEKKILRV 245 Query: 667 LK 668 +K Sbjct: 246 MK 247 >gi|311103433|ref|YP_003976286.1| alternative sigma factor RpoH [Achromobacter xylosoxidans A8] gi|310758122|gb|ADP13571.1| alternative sigma factor RpoH [Achromobacter xylosoxidans A8] Length = 294 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/231 (31%), Positives = 130/231 (56%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E++ ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 61 AARELILSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ R + + + IA++L + E Sbjct: 121 IKAEIHEYIIRNWRLVKVATTKAQRKLFFNLRSMRPDGQTLDPDQV-DHIARELNVRRED 179 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRET-TTRVL 617 V ++ ++++ +SLE D+D+ ++ D+ P L+ A + L+ T L Sbjct: 180 VSEMEVRLSGRDMSLENQDDDDDSYAPIAYLSDEGRQEPTRVLERAARDQLQSAGLTDAL 239 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR R++ R+ + + TL E+ ++F V+ ERIRQIEA A++K++ Sbjct: 240 QALDPRSRRIVEARW-LQDDGGATLHELAQEFGVSAERIRQIEAAALKKMR 289 >gi|224369499|ref|YP_002603663.1| RpoH [Desulfobacterium autotrophicum HRM2] gi|223692216|gb|ACN15499.1| RpoH [Desulfobacterium autotrophicum HRM2] Length = 322 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 128/240 (53%), Gaps = 34/240 (14%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 MV +NLRLV+ +A + +Q LDLIQEGNIGL+KA +KFD KFS YA +W+K Sbjct: 80 MVTSNLRLVVKIALDFQRIWMQNLLDLIQEGNIGLVKAVKKFDPYKNVKFSYYASFWIKA 139 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE----------PTPEEIAKKL 556 I + I D ++I + R++ ++K+E P P+ +++++ Sbjct: 140 YILKFIMDNWRLVKI---------GTTQGQRKLFFRLKKEKQKLIDEGFDPGPKLLSERM 190 Query: 557 AMPVEGVRKV-LKITKEPISLETPI-GDEDTSHL------GDFIEDKNAVSPLDSAIQAN 608 + + + ++ ++ +SL+ P+ D DT + D ED+ A ++ + Sbjct: 191 GVSEQEIIEMDQRLDGWDLSLDEPLRNDSDTERIEFINVESDSTEDRVARKEIEDILHVR 250 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ T A+L PRE + R I + TL+E+G+++ ++RER+RQIE I+K+K Sbjct: 251 VKKFT----ATLNPREMEIFSKR--IFSDEPRTLQEIGEEYNISRERVRQIENNIIKKMK 304 >gi|167949414|ref|ZP_02536488.1| RNA polymerase, sigma 70 subunit, RpoD [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 309 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 59/157 (37%), Positives = 95/157 (60%), Gaps = 1/157 (0%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGS 89 K++I +++G++T E+N LP V EQ+ED V M+++MGI V + DLED+ S Sbjct: 10 LKQLIAKGKEQGFLTYAEVNDHLPEGIVEPEQIEDIVRMINDMGITVHETAPDLEDKTLS 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++++ A+ + DS T DPVRMY+REMG++ELL+REGE+ IAKRIE G Sbjct: 70 DEAVTSDDDAAEEAAAALASVDSEFGRTTDPVRMYMREMGTVELLTREGELRIAKRIEDG 129 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 + A+L P+T + L ++ +G + ++I+ Sbjct: 130 LKQVSAALATFPVTIEMLHSMLTKVGEGEKRMADVIN 166 >gi|317470325|ref|ZP_07929717.1| RNA polymerase sigma-G factor [Anaerostipes sp. 3_2_56FAA] gi|316902189|gb|EFV24111.1| RNA polymerase sigma-G factor [Anaerostipes sp. 3_2_56FAA] Length = 258 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 121/228 (53%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSGSNENADDLFQVGCIGLMKAIDNFDRSLNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + ++R+ +RD +K + ++ K +EPT E IA+++ M E V Sbjct: 98 IIGEVRRYLRDNN-SMRVSRSLRDIAYKAITAKEALTKKFNKEPTIEAIAEEIEMKKEDV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L P+SL P+ + DT L D ++DK L A L++ + L Sbjct: 157 LFALDAIATPLSLYEPVYQDGGDTLFLMDQVKDKKNKEELWVESIA-LKDA----MEHLP 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++R+RF G T EV + +++ ++ ++E A++ +KH Sbjct: 212 EREYNIIRLRFFDG----KTQTEVADEISISQAQVSRLEKNALKHMKH 255 >gi|225574955|ref|ZP_03783565.1| hypothetical protein RUMHYD_03034 [Blautia hydrogenotrophica DSM 10507] gi|225037802|gb|EEG48048.1| hypothetical protein RUMHYD_03034 [Blautia hydrogenotrophica DSM 10507] Length = 259 Score = 102 bits (255), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 74/232 (31%), Positives = 125/232 (53%), Gaps = 12/232 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV K+++N DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 AREEYIKGNLRLVLSVIKRFSNSNENADDLFQIGCIGLIKAIDNFDTTLDVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + R+ + +EPT EEI+K++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKAIYAKERIVKEELKEPTIEEISKEIGIEKEMI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ E D ++ D I DK + +LRE R L Sbjct: 157 VYALDAIQNPVSLFEPVYTEGGDALYVMDQISDKKNKEE-HWVEELSLREAMDR----LG 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 RE+ ++ +RF G T EV ++ +++ ++ ++E A++ ++ RS Sbjct: 212 EREKHIIDLRFYEG----KTQMEVAREIGISQAQVSRLEKNALKTMRTYLRS 259 >gi|167561467|ref|ZP_02354383.1| RNA polymerase factor sigma-32 [Burkholderia oklahomensis EO147] gi|167568698|ref|ZP_02361572.1| RNA polymerase factor sigma-32 [Burkholderia oklahomensis C6786] Length = 311 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 127/236 (53%), Gaps = 14/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARQLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 189 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 248 Query: 616 VLASLTPREERVLRMRF---GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ G + TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALESLDARSRRIIEARWLNVGDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|154485093|ref|ZP_02027541.1| hypothetical protein EUBVEN_02816 [Eubacterium ventriosum ATCC 27560] gi|149734046|gb|EDM50165.1| hypothetical protein EUBVEN_02816 [Eubacterium ventriosum ATCC 27560] Length = 258 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 126/246 (51%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + ++KG +A+++ + NLRLV+S+ ++++N DL Q G IGL+KA Sbjct: 23 EKKELFKEIKKGN---EVAREKYIRGNLRLVLSILQRFSNSNENVDDLFQIGCIGLIKAV 79 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD L KFSTYA+ + + R + D + IR+ ++D +K + + R Sbjct: 80 DNFDDTLNVKFSTYAVPMISGELKRYLRDNAA-IRVSRSIKDIAYKAIYCKENIIKTTHR 138 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLD 602 EPT EIAK++ + E V L + P+SL P+ D+ DT ++ D I D KN Sbjct: 139 EPTVVEIAKEIGVEPEDVVYALDAIQSPVSLYDPVYDQGGDTLYVMDQISDKKNKEEKWV 198 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 I N L L+ RE +++ MRF G +E+G +++ ++ ++E Sbjct: 199 ENIVLN------EALKGLSERERKIIDMRFFNGKTQMEIADEIG----ISQAQVSRLEKN 248 Query: 663 AIRKLK 668 A++ +K Sbjct: 249 ALKAMK 254 >gi|3219168|dbj|BAA28784.1| sigma-32 homolog [Achromobacter xylosoxidans] Length = 306 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 130/231 (56%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E++ ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 73 AARELILSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 132 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ R + E E IA++L + E Sbjct: 133 IKAEIHEYIIRNWRLVKVATTKAQRKLFFNLRSMRPDGQTLDPEQV-EHIARELNVRRED 191 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRET-TTRVL 617 V ++ ++++ +SLE D+D+ ++ D P L+ A + L+ + + L Sbjct: 192 VSEMEVRLSGRDMSLENQDDDDDSYAPIAYLSDDGRQEPTRVLERAARDQLQGSGLSDAL 251 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR R++ R+ + + TL E+ ++F V+ ERIRQIEA A++K++ Sbjct: 252 EALDPRSRRIVEARW-LQDDGGATLHELAQEFGVSAERIRQIEAAALKKMR 301 >gi|83718896|ref|YP_441014.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis E264] gi|167579742|ref|ZP_02372616.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis TXDOH] gi|167617818|ref|ZP_02386449.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis Bt4] gi|257140333|ref|ZP_05588595.1| RNA polymerase factor sigma-32 [Burkholderia thailandensis E264] gi|83652721|gb|ABC36784.1| RNA polymerase sigma-32 factor [Burkholderia thailandensis E264] Length = 311 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 127/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 189 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 248 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDSLDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|118579103|ref|YP_900353.1| RNA polymerase sigma-32 subunit RpoH [Pelobacter propionicus DSM 2379] gi|118501813|gb|ABK98295.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter propionicus DSM 2379] Length = 282 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 123/233 (52%), Gaps = 13/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ +NLR V+ VA +Y + GL+ LDLIQEGNIGLM A +K++ G + +YA+WW Sbjct: 45 AAHTLITSNLRFVVRVAYEYRHYGLKMLDLIQEGNIGLMMAVKKYNPFKGVRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAM 558 ++ I + ++I + K+ +R AR N I+ E + A+ L + Sbjct: 105 IRAYIQNHVISAWSLLKIGTTQAQRKLFFKLREAR---NAIRHLNGGEDDLQSTARSLNV 161 Query: 559 PVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS--AIQANLRETTTR 615 V ++ + + SL+ + G E + L ++D+ L S +Q LR Sbjct: 162 SDSEVVEMEQRLRGECSLDAELPGGEGVTGLDGLVDDRMNQEELLSECQLQRKLRTDVAT 221 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++L +E V+ R + +T TL+E+ +F ++RER+RQIE A++KLK Sbjct: 222 AVSALNEKERFVIEHR--VSADTPLTLQEIASRFSISRERVRQIEEAALKKLK 272 >gi|167748837|ref|ZP_02420964.1| hypothetical protein ANACAC_03611 [Anaerostipes caccae DSM 14662] gi|167651807|gb|EDR95936.1| hypothetical protein ANACAC_03611 [Anaerostipes caccae DSM 14662] Length = 275 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 71/228 (31%), Positives = 121/228 (53%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 55 AREQYIKGNLRLVLSVIQRFSGSNENADDLFQVGCIGLMKAIDNFDRSLNVKFSTYAVPM 114 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + ++R+ +RD +K + ++ K +EPT E IA+++ M E V Sbjct: 115 IIGEVRRYLRDNN-SMRVSRSLRDIAYKAITAKEALTKKFNKEPTIEAIAEEIEMKKEDV 173 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L P+SL P+ + DT L D ++DK L A L++ + L Sbjct: 174 LFALDAIATPLSLYEPVYQDGGDTLFLMDQVKDKKNKEELWVESIA-LKDA----MEHLP 228 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++R+RF G T EV + +++ ++ ++E A++ +KH Sbjct: 229 EREYNIIRLRFFDG----KTQTEVADEISISQAQVSRLEKNALKHMKH 272 >gi|237747428|ref|ZP_04577908.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes HOxBLS] gi|229378779|gb|EEO28870.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes HOxBLS] Length = 299 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 78/238 (32%), Positives = 128/238 (53%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD +G + +YA+ W Sbjct: 62 AAQELVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPGMGVRLVSYAIHW 121 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+ + + + R +A+KL + E Sbjct: 122 IKAEIHEYILRNWRMVKIATTKAQRKLFFNLRSHKNGLDSMTRAQI-RSLAEKLNVKDEE 180 Query: 563 VRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 V ++ ++ I+LET D+D ++L E S L++ ++ E Sbjct: 181 VAEMETRLNGHDIALETQHDDDDDNFAPIAYLSS--EQTEPASILEARQNDRMQSEGLAE 238 Query: 616 VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 LA L PR R++ R+ +N+D TL + +F V+ ERIRQIEA A++K+K+ Sbjct: 239 ALAKLDPRSRRIVEARW---LNSDDGNSATLHALAAEFGVSAERIRQIEAAALKKMKN 293 >gi|242089059|ref|XP_002440362.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor] gi|241945647|gb|EES18792.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor] Length = 529 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 119/239 (49%), Gaps = 8/239 (3%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++S ++ G C ++ ++ LV +A+ YT G DL+Q G +G++ AEKFD Sbjct: 277 LMSRLQTGYC----CRERLLVTTEWLVRCIARSYTGMGTALDDLLQAGKMGVLDGAEKFD 332 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G +FSTY +W+++ + +A+ S +P M + KV R + R P+ Sbjct: 333 TRKGCRFSTYVKYWIRKGMLALLAENSGVTLLPARMESIMRKVKEARRGIRYSEGRNPSD 392 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA----I 605 E+A + + V VR K ++ P+SL + IG + + I D+ A + Sbjct: 393 SEVAAAVGVSVANVRLARKCSRRPVSLYSEIGIGQHAKFAEVIPDEAAAAAEAPDEAALF 452 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + LRE VL L RE VLR+R G+ +LEE+G + V++E IR+IE A+ Sbjct: 453 RGQLRERLLLVLGRLPAREGHVLRLRHGLEDGRCRSLEEIGGMYRVSKEWIRKIEKSAM 511 >gi|302346408|ref|YP_003814706.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] gi|302150820|gb|ADK97081.1| RNA polymerase sigma factor RpoD family protein [Prevotella melaninogenica ATCC 25845] Length = 228 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/255 (28%), Positives = 127/255 (49%), Gaps = 39/255 (15%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ I+ E +S E + + ++ G+ A +++ +ANL+ V+S+A +Y NRGL D Sbjct: 8 IEDIANEQLLSDKEEQELAEKIKVGDARAL---EKLTKANLKFVVSLAHQYRNRGLGEDD 64 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIG+M AA+KFD G +F +A ++++A+ +I +Q+ ++P Sbjct: 65 LISEGNIGMMYAAQKFDGSKGVRFVIFAAPYIRKAMEETIKEQATLYKLP---------- 114 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 K E + E + A+ ++ +P+ P+G + L + Sbjct: 115 -----------KNETSRFEQKRSHAISID----------QPV----PVGSNNNFTLQHIL 149 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E++NA + Q L + L L RE+RV+ +G+ +T+ E+ + + Sbjct: 150 ENENAKHADEHLNQEILSNEIQKGLDVLDEREKRVITYIYGL-TGAHYTMAEIAEDMGLK 208 Query: 653 RERIRQIEAKAIRKL 667 RER+RQI KA+RKL Sbjct: 209 RERVRQIRDKALRKL 223 >gi|86358940|ref|YP_470832.1| RNA polymerase factor sigma-32 [Rhizobium etli CFN 42] gi|86283042|gb|ABC92105.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 302 Score = 102 bits (254), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 79/247 (31%), Positives = 127/247 (51%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSAVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + ET Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHE-SQEDVLIEQDELETRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMSVLNERERRIFEAR---RLAEDPVTLEDLSAEFDISRERVRQIEVRAFEKVQD 282 Query: 670 PSRSKKL 676 R + L Sbjct: 283 AVRKEAL 289 >gi|67921071|ref|ZP_00514590.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] gi|67857188|gb|EAM52428.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH 8501] Length = 250 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 45/68 (66%), Positives = 56/68 (82%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK E+++ANLRLV+SVAKKY +RGL+ LDLIQEG +GL KA EKFD GY+FSTYA WW Sbjct: 179 AKDEIIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPVKGYRFSTYAYWW 238 Query: 504 VKQAITRS 511 ++Q IT + Sbjct: 239 IRQGITSA 246 >gi|42520871|ref|NP_966786.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila melanogaster] gi|42410611|gb|AAS14720.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila melanogaster] Length = 297 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 129/244 (52%), Gaps = 16/244 (6%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ ++L LV+ +A K+ N GL +DL+ EGN+GLM A +KF+ LG++FSTYA+WW++ Sbjct: 52 KLITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEA 111 Query: 507 AITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMPV 560 +I I ++I R + + +R+ RE E I+ +L++ Sbjct: 112 SIKDFILKSWSFVKIGTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIKAISNELSVSE 171 Query: 561 EGVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVS---PLDSAIQANLRETT- 613 V ++ + + ++ IGD+ L D I N VS + + L+ET Sbjct: 172 GDVLQMNYRMACKDQSLNDCIKIGDDSKRELQDMIPC-NLVSQEVTYQNHEEKELKETIL 230 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 LASL R + R+ + N TL+E+ K++CV+RERIRQ+ +A+ K+K +S Sbjct: 231 NNALASLNERARDIFISRY-LSENI-QTLDELSKKYCVSRERIRQLAEQAMAKVKQYIQS 288 Query: 674 KKLR 677 + L+ Sbjct: 289 ESLK 292 >gi|114566373|ref|YP_753527.1| sporulation sigma factor SigG [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337308|gb|ABI68156.1| RNA polymerase sigma-G factor [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 234 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 68/226 (30%), Positives = 124/226 (54%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++++ N+RLV+SV +++TNRG DL Q G IGL+K+ + FD +FSTYA+ Sbjct: 15 AREKLIQGNIRLVLSVIQRFTNRGEYVDDLFQVGCIGLIKSIDNFDLSQNVRFSTYAVPM 74 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +R+ +RD +K ++ ++ N EPT +IA+ L + E V Sbjct: 75 IIGEIRRYLRDNNA-VRVSRSLRDIAYKALQVREKLINDNSAEPTVSQIAQHLDVSREEV 133 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI ++ GD I + +S S + L E + + + L Sbjct: 134 VFALDAIQEPVSLFEPIYNDG----GDPILVMDQLSDERSGDEQWLEEISIKEAMKKLND 189 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++ +RF G EE+G +++ ++ ++E A+++L+ Sbjct: 190 REKHIVSLRFFAGKTQMEVAEEIG----ISQAQVSRLEKAALKQLR 231 >gi|85373062|ref|YP_457124.1| RNA polymerase factor sigma-32 [Erythrobacter litoralis HTCC2594] gi|84786145|gb|ABC62327.1| RNA polymerase sigma-32 factor [Erythrobacter litoralis HTCC2594] Length = 301 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 79/254 (31%), Positives = 127/254 (50%), Gaps = 30/254 (11%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A ++V ++LRLV +A Y GL DLI EGN+GLM+ +KF+ G+ Sbjct: 42 RYQEHEDPEAAAQLVSSHLRLVAKIAMGYRGYGLPVSDLISEGNVGLMQGVKKFEPDRGF 101 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPE 550 + +TYAMWW+K ++ I +++ K K+ RRM +++ + +PE Sbjct: 102 RLATYAMWWIKASMQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKKQLEAYEDTDLSPE 159 Query: 551 E---IAKKLAMPVEGVRKVLKITKEPI-----SLETPI--GDEDTSHLGDFIEDKNAVSP 600 + IA L +P + +V+ + + + SL TP+ G++ + D++ D P Sbjct: 160 DVTKIATDLGVPEQ---EVINMNRRMMMGGDGSLNTPMRNGEDGSGEWQDWLTDDR---P 213 Query: 601 LDSAIQANLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 L AN E R + +L RE+ +L R TLEE+ + + V+RE Sbjct: 214 LQDETVANAEEAQVRHEMLVEAMDALNEREQHILTERRLT--ENPQTLEELSQVYDVSRE 271 Query: 655 RIRQIEAKAIRKLK 668 RIRQIE +A KL+ Sbjct: 272 RIRQIEVRAFEKLQ 285 >gi|150016005|ref|YP_001308259.1| sporulation sigma factor SigG [Clostridium beijerinckii NCIMB 8052] gi|149902470|gb|ABR33303.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 257 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 120/226 (53%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 ARETFIKGNLRLVLSVIQRFNNRGENIDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALIMREKFIKDNNKEPTISQIAKELELPREEV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L ++P+SL PI + GD I + +S + + L + + + LT Sbjct: 157 VFALDAIQDPVSLFEPIYHDG----GDAIYVMDQISDAKNTDEHWLENISIKEAMKKLTD 212 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 213 REKLILNLRFFNG----RTQMEVADEIGISQAQVSRLEKTALKHMR 254 >gi|125972644|ref|YP_001036554.1| RNA polymerase, sigma 28 subunit [Clostridium thermocellum ATCC 27405] gi|125712869|gb|ABN51361.1| RNA polymerase, sigma subunit, RpoX/SigF [Clostridium thermocellum ATCC 27405] Length = 246 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/223 (31%), Positives = 126/223 (56%), Gaps = 11/223 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE N+ LV S+ +++ NRG + D+ Q G IGL+KA KFD KFSTYA+ + Sbjct: 27 LVEKNVGLVWSIVRRFQNRGYEAEDIFQIGCIGLIKAINKFDCSYDVKFSTYAVPMIIGE 86 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R I D I++ +++ +K T MS ++ REPT EI+++L +PVE V + Sbjct: 87 IKRFIRDDG-MIKVSRSLKELANKARITKEIMSKELGREPTVGEISEQLGIPVEEVVMAM 145 Query: 568 KITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + + P SL + +G+ D S L D I +++ +D + +LR +VL +L PRE+ Sbjct: 146 EASCTPESLYSTLGEGDNSSTLLIDKIANESENQEVDIVDRIDLR----KVLDTLKPREK 201 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +R+ + T ++ K +++ ++ +IE K + +++ Sbjct: 202 QIIVLRYF----KEKTQVQIAKMLGISQVQVSRIEKKILEEIR 240 >gi|254363063|ref|ZP_04979122.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica PHL213] gi|261492837|ref|ZP_05989384.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261494798|ref|ZP_05991276.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. OVINE] gi|153094728|gb|EDN75518.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica PHL213] gi|261309509|gb|EEY10734.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. OVINE] gi|261311519|gb|EEY12675.1| DNA-directed RNA polymerase sigma subunit RpoH [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 319 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 78/298 (26%), Positives = 153/298 (51%), Gaps = 28/298 (9%) Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 + P VS + P+G +DS +++ N+ ++ E ++E R Sbjct: 35 MHPALVSGSMPVPQGN--------LDSYIRMANQYPILTAEQEKELAE--------RYYY 78 Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 E A K+++ +++R VI +A+ Y GL DLIQEGNIGLMKA ++FD +G + + Sbjct: 79 DEDVEAAKQLILSHMRFVIHIARGYLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVS 138 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKL 556 +A+ WVK I + +++ + K+ R+ N++ E +++A L Sbjct: 139 FAVHWVKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKNKNRLAWFNEEEIKKVADDL 196 Query: 557 AMPVEGVRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + VE VR++ ++T + + + P G DED+ +IED ++ D + + + T Sbjct: 197 GVSVEEVREMESRMTGQDLGFDLPAGDDDEDSYAPSMYIEDSSSNFADDLEDEQHNGQAT 256 Query: 614 TRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ LA+L R + +++ R+ + TL+++ ++ ++ ER+RQ+E A++K+K Sbjct: 257 AQLAYALATLDERSQDIIKTRW--LDDNKATLQDLADKYNISAERVRQLENAALKKIK 312 >gi|256004731|ref|ZP_05429707.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 2360] gi|281416836|ref|ZP_06247856.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum JW20] gi|255991324|gb|EEU01430.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 2360] gi|281408238|gb|EFB38496.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum JW20] gi|316941118|gb|ADU75152.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium thermocellum DSM 1313] Length = 248 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/223 (31%), Positives = 126/223 (56%), Gaps = 11/223 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE N+ LV S+ +++ NRG + D+ Q G IGL+KA KFD KFSTYA+ + Sbjct: 29 LVEKNVGLVWSIVRRFQNRGYEAEDIFQIGCIGLIKAINKFDCSYDVKFSTYAVPMIIGE 88 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R I D I++ +++ +K T MS ++ REPT EI+++L +PVE V + Sbjct: 89 IKRFIRDDG-MIKVSRSLKELANKARITKEIMSKELGREPTVGEISEQLGIPVEEVVMAM 147 Query: 568 KITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + + P SL + +G+ D S L D I +++ +D + +LR +VL +L PRE+ Sbjct: 148 EASCTPESLYSTLGEGDNSSTLLIDKIANESENQEVDIVDRIDLR----KVLDTLKPREK 203 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +R+ + T ++ K +++ ++ +IE K + +++ Sbjct: 204 QIIVLRYF----KEKTQVQIAKMLGISQVQVSRIEKKILEEIR 242 >gi|58584688|ref|YP_198261.1| DNA-directed RNA polymerase sigma 32 subunit [Wolbachia endosymbiont strain TRS of Brugia malayi] gi|58419004|gb|AAW71019.1| DNA-directed RNA polymerase sigma 32 subunit, RpoH subfamily [Wolbachia endosymbiont strain TRS of Brugia malayi] Length = 297 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 76/260 (29%), Positives = 132/260 (50%), Gaps = 28/260 (10%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 +C+ + +++ ++L LV+ +A K+ N GL +DLI EGN+GL+ A +KF+ LG++F Sbjct: 42 NQCKDISSAHKLITSHLNLVVKIAMKFKNYGLLLMDLIMEGNMGLIHAVKKFNPDLGFRF 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE--- 551 STYA+WW++ +I I ++I R + + +R+ RE E Sbjct: 102 STYAVWWIEASIKDFILKSWSFVKIGTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIK 161 Query: 552 -IAKKLAMPVEGVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ- 606 I+ +L++ V ++ L + ++ +G + L D I P +S Q Sbjct: 162 AISNELSVSEGDVIQMNYRLACKDQSLNNCIKVGGDSKKELQDMI-------PCNSVNQE 214 Query: 607 --------ANLRETT-TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 L+ET LASL R + R+ + NT TL+E+ K++CV+RERIR Sbjct: 215 VTYQNREEKELKETILNNALASLNERSRDIFISRY-LSENT-QTLDELSKKYCVSRERIR 272 Query: 658 QIEAKAIRKLKHPSRSKKLR 677 Q+ +A+ K+K +S+ L+ Sbjct: 273 QLAEQAMSKVKQHIQSESLK 292 >gi|291559903|emb|CBL38703.1| RNA polymerase, sigma subunit, RpsG/SigG [butyrate-producing bacterium SSC/2] Length = 258 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 125/230 (54%), Gaps = 14/230 (6%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ ++ NLRLV+S+ ++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 37 LAREHYIKGNLRLVLSIIQRFSGSNENADDLFQVGCIGLMKAIDNFDRNLNVKFSTYAVP 96 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + + R + D ++R+ +RD +K + ++ K+ EPT + IAK++ M E Sbjct: 97 MIIGEVKRYLRDNH-SMRVSRSLRDTAYKAINAREVLTKKLNHEPTIDVIAKEIDMKKED 155 Query: 563 VRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS 619 V L P+SL P+ + DT +L D ++DK + DS +++ L+E + Sbjct: 156 VLFALDAIATPLSLYEPVYQDGGDTLYLMDQVKDKK--NKEDSWVESIALKEA----MEH 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE +++MRF G T EV + +++ ++ ++E A++ +K+ Sbjct: 210 LPDREYDIIKMRFFEG----KTQTEVADEIAISQAQVSRLEKNALKHMKN 255 >gi|187935615|ref|YP_001885389.1| sporulation sigma factor SigG [Clostridium botulinum B str. Eklund 17B] gi|187723768|gb|ACD24989.1| RNA polymerase sigma-G factor [Clostridium botulinum B str. Eklund 17B] Length = 257 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 121/226 (53%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 ARETFIKGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALIVRDKFIKDNNKEPTISQIAKELELPREEV 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L ++P+SL PI + GD I + +S + ++ L + + + LT Sbjct: 157 VFALDAIQDPVSLFEPIYHDG----GDAIFVMDQISDSKNTDESWLENISIKEAMKKLTD 212 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 213 REKLILNLRFFRG----RTQMEVADEIGISQAQVSRLEKTALKHMR 254 >gi|229543947|ref|ZP_04433006.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus coagulans 36D1] gi|229325086|gb|EEN90762.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus coagulans 36D1] Length = 252 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 127/242 (52%), Gaps = 16/242 (6%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +++R+ + A+ +VE N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 19 VKNLIRRSQEGDQGARDLIVEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFD 78 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D T+++ +++ +++ +T ++ K+ R PT Sbjct: 79 LSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETGNRIRKTRDELTKKLGRSPTV 137 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQ 606 EIA +L MPVE V + K P S+ + D D L D I D+N D A+Q Sbjct: 138 HEIASELGMPVEEVVMAQEAGKAPSSIHETVYENDGDPITLLDQISDQNDQKWFDQIALQ 197 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +R L RE ++ +R+ D T EV ++ +++ ++ ++E K + Sbjct: 198 EAIR--------GLEERERLIVYLRY----YKDQTQSEVAERLGISQVQVSRLEKKILEV 245 Query: 667 LK 668 +K Sbjct: 246 MK 247 >gi|149924702|ref|ZP_01913051.1| sigma 32 (RpoH) [Plesiocystis pacifica SIR-1] gi|149814429|gb|EDM74021.1| sigma 32 (RpoH) [Plesiocystis pacifica SIR-1] Length = 371 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 82/251 (32%), Positives = 131/251 (52%), Gaps = 23/251 (9%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFD 489 V V G+ EA+ K +V +NLRLV+ +A +Y RG Q LDL+QEGN+GL+KA +KFD Sbjct: 113 VRWVEHGDQEAA---KRLVTSNLRLVVKIANEY-RRGYQNLLDLVQEGNVGLLKAVQKFD 168 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPT 548 G K STY+ WW++ + + I + ++I + K+ +R R + +PT Sbjct: 169 PYRGVKLSTYSGWWIRAYVLKHILNNWRLVKIGTTQNQRKLFFNLRKQREALIRAGIDPT 228 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLG---DFIEDKNA-----VS 599 E IAK+L + E V ++ K P SL P+G + D +ED+ VS Sbjct: 229 AENIAKELDVSTEEVVEMQKRMGAPDASLNAPLGSGEEPGARTRLDMLEDETTDPEGEVS 288 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIR 657 + L + A+L+ RE + FG + D TL+ +G+++ V+RER R Sbjct: 289 --GEEFKRLLHDKLRTFGATLSGREAEI----FGERLIADEPITLQALGERWGVSRERAR 342 Query: 658 QIEAKAIRKLK 668 Q+E + + +L+ Sbjct: 343 QVEKRMVLRLR 353 >gi|94309217|ref|YP_582427.1| RNA polymerase factor sigma-32 [Cupriavidus metallidurans CH34] gi|93353069|gb|ABF07158.1| RNA polymerase sigma 32 (sigma H) factor [Cupriavidus metallidurans CH34] Length = 311 Score = 102 bits (253), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 77/238 (32%), Positives = 132/238 (55%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + MV ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 72 AARRMVMSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPEQGVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMP 559 +K I + +++ + K+ +R+ ++ S+ TPE+I A++L + Sbjct: 132 IKAEIHEYVLKNWRMVKVATTKAQRKLFFNLRSHKQGSHTF----TPEQIEAVARELNVK 187 Query: 560 VEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKN-AVSPLDSAIQANLR-ETTT 614 E V ++ +++ ++LE I G+E+ + + ++ N L++ L+ E Sbjct: 188 PEEVMEMETRMSGGDMALEGQIEDGEEEFAPIAYLADNHNEPTQVLEAKRHDRLQVEGLE 247 Query: 615 RVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PR R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 248 EALTKLDPRSRRIIEARW-LDVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 304 >gi|332799331|ref|YP_004460830.1| RNA polymerase sigma-28 subunit SigF [Tepidanaerobacter sp. Re1] gi|332697066|gb|AEE91523.1| RNA polymerase, sigma 28 subunit, SigF [Tepidanaerobacter sp. Re1] Length = 240 Score = 101 bits (252), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 126/229 (55%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E+V NL LV S+ K++ NRG + DL Q G+IGL+KA EKFD+ KFSTYA+ Sbjct: 20 ARDELVSLNLGLVWSIVKRFNNRGYEPEDLFQIGSIGLLKAIEKFDFSYDVKFSTYAVPM 79 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D I++ +++ +K+ +T ++N + REPT EI+ ++ +PVE + Sbjct: 80 IMGEIRRYIRDDK-PIKVSRSLKELGYKIQKTQEELTNTLDREPTINEISDEMEVPVEEI 138 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RETTTRVLASL 620 ++ ++ +SL + +D S + I+ N ++ Q NL + L+ L Sbjct: 139 VMAMEASQSLVSLNDVVYQDDGSPIY-LIDQLN-----ENEYQENLLHDKIALKEALSKL 192 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E +++ +R+ D T +V K+ +T+ ++ ++E K + K+K+ Sbjct: 193 DRDERQIITLRYF----KDMTQIDVAKKLNMTQVQVSRLERKVLTKVKN 237 >gi|329890478|ref|ZP_08268821.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] gi|328845779|gb|EGF95343.1| alternative sigma factor RpoH [Brevundimonas diminuta ATCC 11568] Length = 294 Score = 101 bits (252), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 87/288 (30%), Positives = 142/288 (49%), Gaps = 32/288 (11%) Query: 411 NEIKSISVETGIS--ISEFRHIVSMV---------RKGECEASIAKKEMVEANLRLVISV 459 N + +S E G+S ++E R + R E + A +V ++LRLV + Sbjct: 4 NTLTVMSPEQGLSRYLTEIRKFPMLTKDEEFMLAKRWSEHQDPEAAHRLVTSHLRLVAKI 63 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW++ +I I + Sbjct: 64 AMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLV 123 Query: 520 RIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKLAMPVEGVRKVLKITKE 572 ++ K K+ R+ ++I + + PE IA KL + E V + + Sbjct: 124 KMGTTAAQK--KLFFNLRKAKSQISAFEEGDLHPEHLTAIATKLGVSEEEVTNMNRRLGG 181 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV------LASLTPREER 626 SL P+ + S D++ D +AVS ++ + N E + R+ + LT RE+ Sbjct: 182 DASLNAPLRADGESEWQDWLADDDAVSQ-ETQLAEN-EEKSIRMSLLQEAMEELTDREKH 239 Query: 627 VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L R + D TLEE+ Q+ V+RER+RQIE +A KL+ R+ Sbjct: 240 ILTER---RLKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAMRA 284 >gi|284050754|ref|ZP_06380964.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca] Length = 159 Score = 101 bits (252), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 48/90 (53%), Positives = 64/90 (71%), Gaps = 7/90 (7%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S + G+S SE I++ R+ AK++M+EANLRLV+S+AKKY R ++FLDLIQE Sbjct: 77 SAKAGLSESEMTDIINRGRR-------AKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQE 129 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 G +GL + EKFD GYKFSTYA WW++Q Sbjct: 130 GTLGLERGVEKFDPMRGYKFSTYAYWWIRQ 159 >gi|119632740|gb|ABL84377.1| DNA directed RNA polymerase sigma 42 protein [Streptococcus suis] Length = 75 Score = 101 bits (252), Expect = 3e-19, Method: Composition-based stats. Identities = 46/75 (61%), Positives = 62/75 (82%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEGN+GLMKA +KFD+ G+KFSTYA WW++QAITR+IADQ+ TIRIPVHM + I+K Sbjct: 1 DLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 60 Query: 532 VVRTARRMSNKIKRE 546 +VR R + ++ ++ Sbjct: 61 LVREQRNLLQELGQD 75 >gi|167765669|ref|ZP_02437722.1| hypothetical protein CLOSS21_00157 [Clostridium sp. SS2/1] gi|167712644|gb|EDS23223.1| hypothetical protein CLOSS21_00157 [Clostridium sp. SS2/1] Length = 271 Score = 101 bits (252), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 125/230 (54%), Gaps = 14/230 (6%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ ++ NLRLV+S+ ++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 50 LAREHYIKGNLRLVLSIIQRFSGSNENADDLFQVGCIGLMKAIDNFDRNLNVKFSTYAVP 109 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + + R + D ++R+ +RD +K + ++ K+ EPT + IAK++ M E Sbjct: 110 MIIGEVKRYLRDNH-SMRVSRSLRDTAYKAINAREVLTKKLNHEPTIDVIAKEIDMKKED 168 Query: 563 VRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS 619 V L P+SL P+ + DT +L D ++DK + DS +++ L+E + Sbjct: 169 VLFALDAIATPLSLYEPVYQDGGDTLYLMDQVKDKK--NKEDSWVESIALKEA----MEH 222 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE +++MRF G T EV + +++ ++ ++E A++ +K+ Sbjct: 223 LPDREYDIIKMRFFEG----KTQTEVADEIAISQAQVSRLEKNALKHMKN 268 >gi|307944600|ref|ZP_07659940.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] gi|307772349|gb|EFO31570.1| alternative sigma factor RpoH [Roseibium sp. TrichSKD4] Length = 294 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 128/249 (51%), Gaps = 21/249 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 48 AAERLVNSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI I +++ K ++ RR+ KI+ + +EIA KL Sbjct: 108 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGKIQALEEGDLKPHQVQEIATKL 165 Query: 557 AMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 + E V + + SL +P+ + D D++ D+ A Q L RE Sbjct: 166 GVSEEEVISMNRRLGGDTSLNSPVRAEADAGEWQDWLVDEADSQETLLANQEELDQRREL 225 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRK----L 667 ++ + L RE R+ R ++ D TLE++ +F V+RER+RQIE +A K + Sbjct: 226 LSQAMDELNERERRIFTAR---RLSEDPITLEDLSTEFGVSRERVRQIEVRAFEKVQKAV 282 Query: 668 KHPSRSKKL 676 K+ +R+K+L Sbjct: 283 KNSARAKEL 291 >gi|255280674|ref|ZP_05345229.1| RNA polymerase sigma-G factor [Bryantella formatexigens DSM 14469] gi|255268611|gb|EET61816.1| RNA polymerase sigma-G factor [Bryantella formatexigens DSM 14469] Length = 258 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 130/246 (52%), Gaps = 25/246 (10%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ EA ++ ++ NLRLV+SV K+++ DL Q G IGLMKA + F+ + Sbjct: 31 IRQGDMEA---RELYIKGNLRLVLSVIKRFSASNENADDLFQIGCIGLMKAIDNFNTEMD 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D + +IR+ +RD +K + T K +EPT E+A Sbjct: 88 VKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDTAYKALYTREAYMKKHLKEPTINELA 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQ 606 +++ + E + + + P+SL P+ E DT ++ D I DK N V L Sbjct: 147 EEIGISREDIVFAMDAIQSPLSLYDPVYSEGGDTLYVMDQISDKKNKEENWVESLA---- 202 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L+E R L+ RE +++ MRF G T EV + C+++ ++ ++E A++ Sbjct: 203 --LQEAMKR----LSDRERKIINMRFFEG----KTQMEVAAEICISQAQVSRLEKSALKS 252 Query: 667 LKHPSR 672 +++ R Sbjct: 253 MRNFLR 258 >gi|229586560|ref|YP_002845061.1| RNA polymerase factor sigma-32 [Rickettsia africae ESF-5] gi|228021610|gb|ACP53318.1| RNA polymerase sigma-32 factor [Rickettsia africae ESF-5] Length = 293 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 121/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++L+LV +A Y GL +L+ EGNIGLM+A +KF+ LG++ STYAMWW Sbjct: 49 AAHKLVTSHLKLVAKIASGYRTYGLPMTELVSEGNIGLMQAVKKFNPELGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K AI I +++ K + + +++N R T + +IA +L + Sbjct: 109 IKAAIQEYILKSWSLVKMGTTAAQKKLFFSLNKVKHKITNLYSRTITTDDFVQIADELGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 V V ++ +I+ +SL I +D G+ IE P + N + +T++ Sbjct: 169 SVNEVSEMNTRISGPDLSLNNSINSDDAES-GELIELLPETRPTPETMAINKQNSTSKRQ 227 Query: 616 ----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE R+L R +T TL+ + ++ +++ERIRQIE A K+K Sbjct: 228 LLSNAMKILNDRELRILTER--KLTDTPKTLDILSNEYNISKERIRQIENTAFEKIK 282 >gi|108757418|ref|YP_634007.1| RNA polymerase sigma-E factor [Myxococcus xanthus DK 1622] gi|108461298|gb|ABF86483.1| RNA polymerase sigma-E factor [Myxococcus xanthus DK 1622] Length = 278 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 126/234 (53%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V +NLRLV+ +A +Y L LDL+QEGNIGLM+A +K+D G K S+YA WW Sbjct: 30 AAYRLVASNLRLVVKLAHEYHRNPLSLLDLVQEGNIGLMQAVKKYDPERGVKLSSYAAWW 89 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I R I D +++ + K+ +R + E +P+ +A++L + + Sbjct: 90 IRAYILRYIMDNWKMVKLGTTEAQRKLFFKLRQEQEKLIAQGFEASPKLLAERLNVTEQD 149 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLD-----SAIQANLRETTT 614 V ++ ++ + +S++ P+G++D S D N++ P D ++A RE + Sbjct: 150 VVEMDQRLGHDEMSIDAPLGNDDDSRTTRADRYLPSNSM-PADERLGAEQLKALFREKLS 208 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +E + R + + TL+++G ++ V+RER RQIEA I +++ Sbjct: 209 EFARTLEGKERFIFESR--LVSDEPLTLQDIGDKYGVSRERARQIEAALINRMR 260 >gi|330814385|ref|YP_004358624.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] gi|327487480|gb|AEA81885.1| RNA polymerase sigma factor RpoH [Candidatus Pelagibacter sp. IMCC9063] Length = 300 Score = 101 bits (252), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 124/237 (52%), Gaps = 16/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +L+ EGNIGLM+A KFD G++ +TYAMWW Sbjct: 52 AAHKLVTSHLRLVAKIAMGYRGYGLPVSELVSEGNIGLMQAVRKFDPEKGFRLATYAMWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE---EIAKKL 556 +K +I + ++I K K+ +++ N+I + PE EIA +L Sbjct: 112 IKASIQEYVLRSWSLVKIGTTSAQK--KLFFNLKKIKNQIFAAEQGNMLPEHITEIATQL 169 Query: 557 AMPV-EGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ SL P+G ED+ + D++ D+NA L + + L + + Sbjct: 170 DVREDEVVSMNQRLAGHEHSLNAPVGGEDSDAEWQDWVVDENADQELQISQKQELNQRQS 229 Query: 615 ---RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L RE+ +L R I + TLEE+ ++ V+RERIRQIE +A K++ Sbjct: 230 LLKNALHVLDEREKEILHNRRLI--DEPKTLEELSQKHKVSRERIRQIENRAFEKVQ 284 >gi|221195774|ref|ZP_03568827.1| RNA polymerase sigma-F factor [Atopobium rimae ATCC 49626] gi|221184248|gb|EEE16642.1| RNA polymerase sigma-F factor [Atopobium rimae ATCC 49626] Length = 276 Score = 101 bits (251), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 119/225 (52%), Gaps = 17/225 (7%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E S + +++ ++L LV +A K+ NRG DLIQ G IGL+KA ++FD G +F+ Sbjct: 40 ETHDSEVRDQLIVSHLNLVRFLASKFKNRGEPLDDLIQVGTIGLIKAIDRFDPSRGLEFT 99 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA + I R D+ ++R+P +++ KV + ++ +++R P+ EEIAKKL Sbjct: 100 TYATPTIMGEIKRHFRDKGWSVRVPRRLQELSAKVNQITDELTTELQRSPSIEEIAKKLG 159 Query: 558 MPVEGVRKVLKITKEPISLETPI--------GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 + V+ V + ++ + S+ P+ GDE S + +I + A++ D I Sbjct: 160 VSVDEVLEAMESSGAYSSV--PLEGGGSSVDGDEAPSIIDQYITEDEALAGSDDRI---- 213 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +A +PRE+ ++RMRF G+ E++G Q V+R Sbjct: 214 --VLEDAIADFSPREQEIIRMRFVEGLTQVEIAEKLGISQVQVSR 256 >gi|88608622|ref|YP_506230.1| RNA polymerase sigma-32 factor [Neorickettsia sennetsu str. Miyayama] gi|88600791|gb|ABD46259.1| RNA polymerase sigma-32 factor [Neorickettsia sennetsu str. Miyayama] Length = 288 Score = 101 bits (251), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 123/240 (51%), Gaps = 27/240 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +VEA LRLV+ V ++ N G +DL EGNIGLMKA + F+ LG+ +TYA+WW Sbjct: 46 AAQRLVEAYLRLVVKVTVRFRNYGFPLMDLASEGNIGLMKAIKNFNPTLGHGIATYAIWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK-----IKREPTPEEIAKKLAM 558 +K AI + ++I + ++ R++ N + + I++ LA+ Sbjct: 106 IKAAINEYVIRSWSMVKIGTTAAQR--RLFFNLRKLKNSGSVAGLDENQVVKRISEILAV 163 Query: 559 PVEGVRKVLKI-TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRV 616 V ++ +I +SL +G++D+S + D + P A Q A L ET R Sbjct: 164 SKNDVEEMERILNARDVSLNMQLGEDDSSEVHDLV-------PFPEANQEAVLLETQERQ 216 Query: 617 LAS---------LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + S L R + + R + TL+E+G++F +++ER+RQI A+A++K+ Sbjct: 217 MKSQLLYEAVEALEARHKEIFVARSLSAV--PRTLKELGEKFSISQERVRQIHARAMKKV 274 >gi|12744861|gb|AAK06822.1|AF326688_1 RNA polymerase sigma-32 factor [Burkholderia pseudomallei] Length = 281 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+SVA+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 42 AARRLVLSHLRLVVSVARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ D+ R K + TPEEI A++L + Sbjct: 102 IKAEIHEYILRNWRMVKVG---DDEGAAQAFFNLRSHKKGTQAFTPEEIDGLAQELNVKR 158 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE I G+E + + + N + + +A Q ++ +T R Sbjct: 159 EEVAEMETRLSGGDIALEGQIDDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAR 218 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 219 ALESLDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 274 >gi|296536196|ref|ZP_06898318.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] gi|296263478|gb|EFH09981.1| DNA-directed RNA polymerase sigma subunit RpoH [Roseomonas cervicalis ATCC 49957] Length = 295 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 125/245 (51%), Gaps = 21/245 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGN+G+M+A +FD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ AI I +++ K K+ RR+ ++ + E+IA+ L Sbjct: 109 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMAALEEGDLQPEQVEKIARVL 166 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ---ANLRET 612 +P + V + + P SL P+ + D++ D++ + A + +N RE Sbjct: 167 QVPEQDVVSMNRRLASPDNSLNAPVRADSEGEWQDWLVDESESQETEIAERQDMSNRREL 226 Query: 613 TTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L +L RE +L R++ + TLEE+ +Q+ ++RER+RQIE +A KL+ Sbjct: 227 LGEALKTLNERERHILIERRLK-----DEPTTLEELSQQYNISRERVRQIEVRAFEKLQK 281 Query: 670 PSRSK 674 +S+ Sbjct: 282 SMKSQ 286 >gi|212703179|ref|ZP_03311307.1| hypothetical protein DESPIG_01221 [Desulfovibrio piger ATCC 29098] gi|212673445|gb|EEB33928.1| hypothetical protein DESPIG_01221 [Desulfovibrio piger ATCC 29098] Length = 364 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A +V ++LRLV+ +A + R +Q LDL+QEGN+GLM+A KFD G KFS YA + Sbjct: 119 AAFRLVSSHLRLVVRIAMDFQRRWMQNVLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASF 178 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I ++ K+ + R+ +P ++++L + E Sbjct: 179 WIKAYILKFIMDNWRMVKIGTTQVQRKLFYNLNRERQKLIAQGFDPDAAMLSERLGVSEE 238 Query: 562 GVRKV-LKITKEPISLETPIGDED--------TSHLGDFIEDKNAVSPLDSAIQANLRET 612 + ++ ++ +SL +G++ LG IED DS + LRE Sbjct: 239 QITEMDQRLAANDLSLNAQVGEDAGGATRMDFLPALGPGIEDSLG----DSEVAELLREK 294 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L L +E +L+ R + TD TL E+G+++ VTRER+RQ+EA+ + K++ Sbjct: 295 LKTILPKLNEKELYILQNR----LLTDDPVTLREIGERYNVTRERVRQLEARLLEKIRQ 349 >gi|308233741|ref|ZP_07664478.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Atopobium vaginae DSM 15829] gi|328943730|ref|ZP_08241195.1| DNA-directed RNA polymerase sigma subunit SigB [Atopobium vaginae DSM 15829] gi|327491699|gb|EGF23473.1| DNA-directed RNA polymerase sigma subunit SigB [Atopobium vaginae DSM 15829] Length = 286 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 62/228 (27%), Positives = 129/228 (56%), Gaps = 9/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V A+L L +A K+ NRG DL+Q IGL+KA ++FD G +F+T+A Sbjct: 48 AREQLVLAHLNLARFLASKFKNRGESLDDLVQVATIGLIKAIDRFDISRGLEFTTFATPT 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + + +++ K++R P+ +EIA+ L + V+ V Sbjct: 108 IMGEIKRHFRDKGWSVRVPRRLQELSAKVTQVSDKLTEKLQRSPSVDEIAQALGVSVDEV 167 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 + ++ +SL+ P GD+D + DK A+ +D ++ ++ R + + Sbjct: 168 LEAMESAHAYSSVSLDVPQGDDDDGTQSSTVIDKYAL--VDEDLESSDDRIVLEQAIKDF 225 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + RE++++RMRF G T E+ ++ +++ ++ ++ K ++K + Sbjct: 226 SEREQQIIRMRFLEGF----TQVEIAQKLQISQVQVSRLLRKTLQKFQ 269 >gi|288802544|ref|ZP_06407983.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] gi|288335072|gb|EFC73508.1| RNA polymerase sigma-70 factor [Prevotella melaninogenica D18] Length = 257 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/255 (28%), Positives = 127/255 (49%), Gaps = 39/255 (15%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ I+ E +S E + + ++ G+ A +++ +ANL+ V+S+A +Y NRGL D Sbjct: 37 IEDIANEQLLSDKEEQDLAEKIKVGDARAL---EKLTKANLKFVVSLAHQYHNRGLGEDD 93 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIG+M AA+KFD G +F +A ++++A+ +I +Q+ ++P Sbjct: 94 LISEGNIGMMYAAQKFDGSKGVRFVVFAAPYIRKAMEEAIKEQATLYKLP---------- 143 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 K E + E + A+ ++ +P+ P+G + L + Sbjct: 144 -----------KNETSRFEQKRSHAISID----------QPV----PVGSNNNFTLQHIL 178 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E++NA + Q L + L L RE+RV+ +G+ +T+ E+ + + Sbjct: 179 ENENAKHADEHLNQEILSNEIQKGLDVLDEREKRVITYIYGL-TGAHYTMAEIAEDMGLK 237 Query: 653 RERIRQIEAKAIRKL 667 RER+RQI KA+RKL Sbjct: 238 RERVRQIRDKALRKL 252 >gi|32474462|ref|NP_867456.1| sigma-70 factor [Rhodopirellula baltica SH 1] gi|32445000|emb|CAD75002.1| sigma-70 factor [Rhodopirellula baltica SH 1] Length = 557 Score = 101 bits (251), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 114/238 (47%), Gaps = 60/238 (25%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA K ++V+ANLRLV+S+AK++ F LI +GN+ L++A EKFD+ G KFSTY Sbjct: 372 EAVKVKNKIVQANLRLVVSIAKRHVASAEDFFSLISDGNMSLIRAVEKFDYSRGNKFSTY 431 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A W + + R+I ++ RD+ TP+E+ Sbjct: 432 ASWAIMKNFARTIPNE-------FKHRDRF----------------RATPDEMF------ 462 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +D L ++E+ +Q + R+L Sbjct: 463 --------------------VAHQD-ERLDPYLEE---------TVQLQRQRELARILDR 492 Query: 620 LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L RE++++ RFG+ + TL+EVG++ VT+ER+RQ+EA+A+ KL+ +R K+ Sbjct: 493 LDEREQKIITARFGLQRGVEPLTLKEVGEEMGVTKERVRQLEARALSKLRDAARDAKI 550 >gi|83311906|ref|YP_422170.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82946747|dbj|BAE51611.1| RNA polymerase sigma-32 factor [Magnetospirillum magneticum AMB-1] Length = 292 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 120/239 (50%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y + GL DLI EGNIGLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHRLVTSHLRLVAKIALGYRHYGLPVADLISEGNIGLMRAVKKFEPDRGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAMP 559 +K ++ + + ++I K K+ RR+ ++++ + PE +A Sbjct: 108 IKASLNEFVLNSWSMVKIGTLAAQK--KLFFNLRRIKSRLRLLEAGDLAPEHVATIAREL 165 Query: 560 VEGVRKVLKITKEPI----SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 R V+ + + SL P+G E + + D + D+ + L R Sbjct: 166 DVDERDVVAMNRRMAGRDSSLNAPVG-EGGTEIQDLMADEADNQETAYGKREELSKGRVL 224 Query: 613 TTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L SLT RE V R+R + TLEE+G ++ V+RERIRQIE KA K++ Sbjct: 225 IARALDSLTEREREVFVERRLR-----DDPVTLEELGGRYGVSRERIRQIEVKAFEKVR 278 >gi|198284078|ref|YP_002220399.1| RNA polymerase sigma-32 subunit RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218665176|ref|YP_002426733.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248599|gb|ACH84192.1| RNA polymerase, sigma 32 subunit, RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218517389|gb|ACK77975.1| RNA polymerase sigm-70 factor family [Acidithiobacillus ferrooxidans ATCC 23270] Length = 285 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 72/251 (28%), Positives = 133/251 (52%), Gaps = 29/251 (11%) Query: 429 HIVSMVRKG-ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 ++ +R+G EC A+ ++ A++ LV +VA+ Y N+GL DL+QEG +GL++A ++ Sbjct: 45 QLIRRLRRGDEC----ARATLISAHMPLVRAVARGYRNKGLSQEDLLQEGYMGLLRAVDR 100 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN--KIKR 545 F LG +FS+YA WW+++A+ R++ +S IR+P ++ +H +++ + ++R Sbjct: 101 FQEGLGTRFSSYATWWIREAMQRALI-RSRFIRLPDYLAKSLHAYMQSGAEEDSDAGVRR 159 Query: 546 EPTPEEIAKK----LAMPVEGVRKVL---KITKEPISLETPIGDEDTSHLGDFIEDKNAV 598 E E + + A+ +R +I+ P +E GD S D+ D Sbjct: 160 EQRREALGVRESTMRALDFADIRVFSLDEEISDGPGRIEQVTGDV-ASPDSDYDRD---- 214 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 AI LRE T L ++ V+ R+G+ + TLE V ++ V+RE +RQ Sbjct: 215 -----AICKALREHLT----ELNEKQREVMVFRYGMHGDAPMTLEAVAERMGVSREAVRQ 265 Query: 659 IEAKAIRKLKH 669 ++ +A+ +L+ Sbjct: 266 LQVRALTRLRQ 276 >gi|327539462|gb|EGF26077.1| sigma-70 factor [Rhodopirellula baltica WH47] Length = 557 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 114/238 (47%), Gaps = 60/238 (25%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA K ++V+ANLRLV+S+AK++ F LI +GN+ L++A EKFD+ G KFSTY Sbjct: 372 EAVKVKNKIVQANLRLVVSIAKRHVASAEDFFSLISDGNMSLIRAVEKFDYSRGNKFSTY 431 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A W + + R+I ++ RD+ TP+E+ Sbjct: 432 ASWAIMKNFARTIPNE-------FKHRDRF----------------RATPDEMF------ 462 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + +D L ++E+ +Q + R+L Sbjct: 463 --------------------VAHQD-ERLDPYLEE---------TVQLQRQRELARILDR 492 Query: 620 LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L RE++++ RFG+ + TL+EVG++ VT+ER+RQ+EA+A+ KL+ +R K+ Sbjct: 493 LDEREQKIITARFGLQRGVEPLTLKEVGEEMGVTKERVRQLEARALSKLRDAARDAKI 550 >gi|296284608|ref|ZP_06862606.1| RNA polymerase factor sigma-32 [Citromicrobium bathyomarinum JL354] Length = 280 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 82/252 (32%), Positives = 125/252 (49%), Gaps = 26/252 (10%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A ++V ++LRLV +A Y GL DLI EGN+GLM+ +KF+ G+ Sbjct: 21 RYEEHEDPEAAAQLVSSHLRLVAKIAMGYRGYGLPVSDLISEGNVGLMQGVKKFEPDRGF 80 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-KREPT---PE 550 + +TYAMWW+K +I I +++ K K+ RRM + E T P+ Sbjct: 81 RLATYAMWWIKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKKNLDAYEDTDLHPD 138 Query: 551 E---IAKKLAMPVEGV----RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 + IA L +P + V R++L +++ +E+ S D++ D PL Sbjct: 139 DVKKIATDLGVPEQEVINMNRRMLMGGDSSLNVSMRGDEENASQWQDWLTDDR---PLQD 195 Query: 604 AIQANLRETTTR------VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERI 656 A+ +E R + SL RE+ +L R + D TLEE+ K + V+RERI Sbjct: 196 ETTADTQEAQVRHAMLLEAMDSLNDREKHILTER---RLTEDPQTLEELSKVYDVSRERI 252 Query: 657 RQIEAKAIRKLK 668 RQIE +A KL+ Sbjct: 253 RQIEVRAFEKLQ 264 >gi|288957081|ref|YP_003447422.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288909389|dbj|BAI70878.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 298 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 79/255 (30%), Positives = 121/255 (47%), Gaps = 47/255 (18%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V A RLV++ A ++ N GL DL+QEGN+GLM+AA +F+ +FSTYA WW Sbjct: 46 ALHQLVRAYTRLVVATASRFRNYGLPMGDLVQEGNVGLMQAASRFEPDREVRFSTYAAWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-------EPTPEE----I 552 ++ A+ I +R K + RR+ KI P +E I Sbjct: 106 IRSAMQDYILRNWSIVRTGTTAAQK--SLFFNLRRLRAKIDSATQNGSGAPLTKEGREWI 163 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 A +L + V V + ++++ SL TP+ D DF+ D+ SP D I +R+ Sbjct: 164 AGELRVEVAEVEAMEMRLSGADQSLNTPVADGSDDDWQDFLADQRP-SPEDVVI--GMRD 220 Query: 612 TTTR------VLASLTP-----------REERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 TR L L+P REE TLEE+G++ V++E Sbjct: 221 ANTRSQWLAEALGELSPRERTIIRERRLREE-------------GATLEELGRELGVSKE 267 Query: 655 RIRQIEAKAIRKLKH 669 R+RQ+E +A+ KL+ Sbjct: 268 RVRQLEHRALLKLRQ 282 >gi|225630797|ref|YP_002727588.1| heat shock sigma factor RpoH [Wolbachia sp. wRi] gi|225592778|gb|ACN95797.1| heat shock sigma factor RpoH [Wolbachia sp. wRi] Length = 270 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 129/249 (51%), Gaps = 16/249 (6%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ ++L LV+ +A K+ N GL +DL+ EGN+GLM A +KF+ LG++FSTYA+WW++ Sbjct: 25 KLITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEA 84 Query: 507 AITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMPV 560 +I I ++I R + + +R+ RE E I+ +L++ Sbjct: 85 SIKDFILKSWSFVKIGTTQAQRRLFFSLRKIKKRILQYTNRETLNNEEIKAISNELSVSE 144 Query: 561 EGVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVS---PLDSAIQANLRETT- 613 V ++ + + ++ IGD+ L D I N VS + + L+E Sbjct: 145 GDVLQMNYRMACKDQSLNDCIKIGDDSKRELQDMIPC-NLVSQEVTYQNHEEKELKEAIL 203 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 LASL R + R+ + N TL+E+ K++CV+RERIRQ+ +A+ K+K +S Sbjct: 204 NNALASLNERARDIFISRY-LSENI-QTLDELSKKYCVSRERIRQLAEQAMAKVKQYIQS 261 Query: 674 KKLRSFLDG 682 + L+ L Sbjct: 262 ESLKFCLHA 270 >gi|182418893|ref|ZP_02950150.1| RNA polymerase sigma-G factor [Clostridium butyricum 5521] gi|237667291|ref|ZP_04527275.1| RNA polymerase sigma-G factor [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377176|gb|EDT74744.1| RNA polymerase sigma-G factor [Clostridium butyricum 5521] gi|237655639|gb|EEP53195.1| RNA polymerase sigma-G factor [Clostridium butyricum E4 str. BoNT E BL5262] Length = 257 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 70/227 (30%), Positives = 119/227 (52%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ NRG DL Q G IGLMK+ + FD KFSTYA+ Sbjct: 38 ARETFIKGNLRLVLSVIQRFNNRGENIDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT +IAK+L +P E V Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKALIVREKFIKDNNKEPTISQIAKELELPREEV 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L ++P+SL PI + D ++ D I D D N+ + + L+ Sbjct: 157 VFALDAIQDPVSLYEPIYHDGGDAIYVMDQISDSKDT---DENWLENI--SIKEAMKKLS 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G T EV + +++ ++ ++E A++ ++ Sbjct: 212 DREKLILNLRFFNG----RTQMEVADEIGISQAQVSRLEKTALKHMR 254 >gi|33594607|ref|NP_882251.1| RNA polymerase factor sigma-32 [Bordetella pertussis Tohama I] gi|33598734|ref|NP_886377.1| RNA polymerase factor sigma-32 [Bordetella parapertussis 12822] gi|33603808|ref|NP_891368.1| RNA polymerase factor sigma-32 [Bordetella bronchiseptica RB50] gi|33564683|emb|CAE44005.1| RNA polymerase sigma-32 factor [Bordetella pertussis Tohama I] gi|33574864|emb|CAE39527.1| RNA polymerase sigma-32 factor [Bordetella parapertussis] gi|33577933|emb|CAE35198.1| RNA polymerase sigma-32 factor [Bordetella bronchiseptica RB50] gi|332384018|gb|AEE68865.1| RNA polymerase factor sigma-32 [Bordetella pertussis CS] Length = 307 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 134/239 (56%), Gaps = 11/239 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ +E+V ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + Sbjct: 68 EGDLEAA---RELVVSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVR 124 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +++ + K+ +R+ R + E + IA+ Sbjct: 125 LVSFAVHWIKAEIHEFIIRNWRLVKVATTKAQRKLFFNLRSMRPDGQTLDPEQV-DHIAR 183 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLR 610 +L + E V ++ ++++ +SLE+ D+D+ ++ D+ P LD +L+ Sbjct: 184 ELNVRREDVSEMEVRLSGRDLSLESQDDDDDSFAPIAYLSDEGRQEPSRVLDRMAHDDLQ 243 Query: 611 ET-TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L +L R R++ R+ + + TL E+ ++F V+ ER+RQIEA A++K++ Sbjct: 244 GAGLGRALEALDARSRRIIEARW-LQDDGGLTLHELAQEFGVSAERVRQIEAAALKKMR 301 >gi|325270141|ref|ZP_08136748.1| RNA polymerase sigma-43 factor [Prevotella multiformis DSM 16608] gi|324987442|gb|EGC19418.1| RNA polymerase sigma-43 factor [Prevotella multiformis DSM 16608] Length = 228 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 122/246 (49%), Gaps = 39/246 (15%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R + ++ G+ +A +++ +ANL+ V+S+A +Y NRGL DLI EGNIG+ Sbjct: 17 LSDREERTLAGRIKVGDAQAL---EKLTKANLKYVVSLAHQYRNRGLGEDDLISEGNIGM 73 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 M AA++FD G +F +A ++++A+ +I +Q+ R+P + ++ R+ ++ S+ Sbjct: 74 MHAAQRFDGSRGVRFVVFAAPYIRKAMEEAIKEQAALYRLPRNEKN------RSEQKRSH 127 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 I + PV P+G + L + +E+ NA Sbjct: 128 AI-----------SIDQPV------------------PVGSSNNFTLQNVLENDNAPHAD 158 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + Q L + L L RE +V+ +G+ +T+ E + + RER+RQI Sbjct: 159 EQLNQEILSSEIQKGLGVLNERERQVIACLYGLS-GVHYTMAEAAEHMGLKRERVRQIRD 217 Query: 662 KAIRKL 667 KA+RKL Sbjct: 218 KALRKL 223 >gi|299134310|ref|ZP_07027503.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] gi|298591057|gb|EFI51259.1| RNA polymerase, sigma 32 subunit, RpoH [Afipia sp. 1NLS2] Length = 299 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 120/248 (48%), Gaps = 21/248 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ +KI RE + IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALEEGDMREDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + V + + SL PI D+ + D++ D SP AI A + Sbjct: 167 GVTERDVIDMNRRLGGDASLNAPIRDDGEPGEWQDWLVD---TSPNQEAIMAESEEYDHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R T + L PRE R+ R TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RNALTGAMGVLNPRERRIFEARRLA--EEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQA 281 Query: 670 PSRSKKLR 677 +S R Sbjct: 282 AVKSTVAR 289 >gi|92118359|ref|YP_578088.1| RNA polymerase factor sigma-32 [Nitrobacter hamburgensis X14] gi|91801253|gb|ABE63628.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter hamburgensis X14] Length = 299 Score = 100 bits (250), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 122/239 (51%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALEEGDMHPDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + + V + + SL PI D+ + D++ D SP AI A + Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEAGEWQDWLVDH---SPTQEAIMAEHEELNHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ T + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RQALTGAMGVLNPRERRIFEARR--LADEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQ 280 >gi|258515296|ref|YP_003191518.1| RNA polymerase, sigma 28 subunit, SigF [Desulfotomaculum acetoxidans DSM 771] gi|257779001|gb|ACV62895.1| RNA polymerase, sigma 28 subunit, SigF [Desulfotomaculum acetoxidans DSM 771] Length = 259 Score = 100 bits (249), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 138/247 (55%), Gaps = 19/247 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R +++ + G+ ++A++ +V NL+LV ++ K++ NRG + DL Q G+IGLMKA Sbjct: 20 EMRQLLAKAKLGD---AVARERLVNCNLKLVFNLVKRFNNRGYELEDLFQIGSIGLMKAI 76 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD KFSTYA+ + I R + D + +++ +++ +KV +T R+ K+ R Sbjct: 77 DKFDLNYDVKFSTYAVPMIVGEIRRFLRDDN-PVKVSRSVKEIAYKVQQTKERLIGKLGR 135 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDK--NAVSPL 601 EP+ E+A+++ + E V L+ + P S+ + D D +L D + K N + L Sbjct: 136 EPSIGEVAEEIGLSKEEVVIALEAAQSPTSIYETLHQDDGDPIYLLDQLSSKEGNDLFWL 195 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D Q ++E +L +L R+ ++L RF D T ++ ++ +++ ++ ++E Sbjct: 196 D---QIEVKE----LLNNLHERDRQILIWRFF----EDKTQSDIARRLGLSQVQVSRLER 244 Query: 662 KAIRKLK 668 +A+ KLK Sbjct: 245 QALNKLK 251 >gi|74099847|gb|AAZ99132.1| RpoH [Rhizobium leguminosarum] Length = 302 Score = 100 bits (249), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 127/247 (51%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + +T Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHD-SQEDVLIEQDELDTRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMSVLNERERRIFEAR---RLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQD 282 Query: 670 PSRSKKL 676 R + L Sbjct: 283 AVRKEAL 289 >gi|89053397|ref|YP_508848.1| RNA polymerase factor sigma-32 [Jannaschia sp. CCS1] gi|88862946|gb|ABD53823.1| RNA polymerase, sigma 32 subunit, RpoH [Jannaschia sp. CCS1] Length = 292 Score = 100 bits (249), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 81/265 (30%), Positives = 133/265 (50%), Gaps = 26/265 (9%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R CE S+ + +V A +RL IS+A K+ G DLIQE +GLMKAA+KFD G Sbjct: 33 RDDRCEESLHR--LVTAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGV 90 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKR 545 +FSTYA+WW+K +I + +R + +MR ++ R A + + + + Sbjct: 91 RFSTYAVWWIKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAMKSGDTLDK 150 Query: 546 EPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIED-----KNAV 598 + IA ++ +P+ V + ++ SL ED D +ED ++ V Sbjct: 151 HQLRQMIATEVGVPLHDVEMMEGRLAGSDYSLNATQSAEDEGREWIDTLEDDGEQAEHIV 210 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIR 657 Q LR+ + +L RE ++R R + D TLE +G + +++ER+R Sbjct: 211 EHFHDTAQ--LRDWLIASMNALNDRERFIVRER---KLREDPRTLESLGTELGLSKERVR 265 Query: 658 QIEAKAIRKLKHP--SRSKKLRSFL 680 Q+EA A K++ ++SK++RSFL Sbjct: 266 QLEAAAFGKMRKTLEAQSKEVRSFL 290 >gi|225019126|ref|ZP_03708318.1| hypothetical protein CLOSTMETH_03078 [Clostridium methylpentosum DSM 5476] gi|224948099|gb|EEG29308.1| hypothetical protein CLOSTMETH_03078 [Clostridium methylpentosum DSM 5476] Length = 288 Score = 100 bits (249), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 131/231 (56%), Gaps = 21/231 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++ NL+LV+SV +++TNRG DL Q G IGL+KA + FD +FSTYA+ Sbjct: 70 AREKLISGNLKLVLSVIQRFTNRGENLDDLFQVGCIGLIKAIDNFDISQNVRFSTYAVPM 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + ++R+ ++D +K ++ +++ +EPT +EI++++ + E V Sbjct: 130 IIGEIRRYLRDNN-SVRVSRSLKDTAYKAMQAKEKLTTAHLKEPTIDEISQEMGVRREDV 188 Query: 564 RKVLKITKEPISLETPIGDE--DTSH----LGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 L+ +P+SL P+ + DT + +GD +DKN + + AI+ ++ Sbjct: 189 VLALESIVDPVSLYEPVYSDGGDTIYVMDQIGDKSDDKNWLDEI--AIKEAIK------- 239 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L RE+++L +RF G E++G +++ ++ ++E A+ ++K Sbjct: 240 -NLNEREKKILSLRFFNGKTQVEVAEDIG----ISQAQVSRLEKGALDRIK 285 >gi|75676615|ref|YP_319036.1| RNA polymerase factor sigma-32 [Nitrobacter winogradskyi Nb-255] gi|74421485|gb|ABA05684.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrobacter winogradskyi Nb-255] Length = 299 Score = 100 bits (249), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 119/239 (49%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ +KI R + IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMRPDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + + V + + SL PI D+ + D++ D+ SP AI A + Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEAGEWQDWLVDQ---SPNQEAIMAEHEEFDHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R T + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RRALTGAMGVLNPRERRIFEARRLA--DEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQ 280 >gi|291536437|emb|CBL09549.1| RNA polymerase, sigma subunit, RpsG/SigG [Roseburia intestinalis M50/1] Length = 259 Score = 100 bits (249), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 120/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV K+++ DL Q G IGL+K+ + FD +G KFSTYA+ Sbjct: 38 ARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCIGLIKSIDNFDPTIGVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T +S +EPT +EIA + + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIHTKEILSKTENKEPTLDEIAAESGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + DT ++ D I DK N V L + Sbjct: 157 VFALDAIQSPLSLYDPVYTDGGDTLYVMDQISDKKNREENWVEEL----------SLNDA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L L RE +L++RF G T EV + +++ ++ ++E A++ ++H Sbjct: 207 LDRLNERENYILKLRFFEG----KTQMEVADEIHISQAQVSRLEKSALKSIRH 255 >gi|94265020|ref|ZP_01288789.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|94270029|ref|ZP_01291635.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|93450968|gb|EAT01953.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] gi|93454509|gb|EAT04794.1| Sigma-70 region 2 [delta proteobacterium MLMS-1] Length = 337 Score = 100 bits (249), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 126/236 (53%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++V ANLRLV+ VA + +Q FLDLIQEGNIGL++A +KFD KFS YA + Sbjct: 83 AAYQLVTANLRLVVKVAMDFQKYWMQNFLDLIQEGNIGLVQAVKKFDPYRQVKFSYYAAY 142 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP-V 560 W++ I + I D ++I + K+ + +++ EP P+ +A++L + Sbjct: 143 WIRAYILKFIMDNWRLVKIGTTQAQRKLFFNLNKEKKLLEAQGFEPEPKLLAQRLNVKES 202 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDF-------IEDKNAVSPLDSAIQANLRETT 613 E + ++ +SLE+P+ ++ DF +E + A + + A L Sbjct: 203 EIIEMGQRLEHGDMSLESPLREDSDEQRKDFLPMLGPGVEQRVAEDEIRQWMAAML---- 258 Query: 614 TRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +L +E +L R +N D TL+E+ +F ++RER+RQIEA ++K++ Sbjct: 259 DKLRLTLNEKELAILDQRL---LNDDPRTLQEIADRFTISRERVRQIEANLLKKMR 311 >gi|254796721|ref|YP_003081557.1| RNA polymerase sigma-32 factor (RpoH) [Neorickettsia risticii str. Illinois] gi|254589969|gb|ACT69331.1| RNA polymerase sigma-32 factor (RpoH) [Neorickettsia risticii str. Illinois] Length = 288 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 123/242 (50%), Gaps = 31/242 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +VEA LRLV+ V ++ N G +DL EGNIGLMKA + F+ LG+ +TYA+WW Sbjct: 46 AAQRLVEAYLRLVVKVTVRFRNYGFPLMDLASEGNIGLMKAIKNFNPTLGHGIATYAIWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK-----IKREPTPEEIAKKLAM 558 +K AI + ++I + K+ R++ N + +I++ L + Sbjct: 106 IKAAINEYVIRSWSIVKIGTTAAQR--KLFFNLRKLKNSGSVAGLDEHQVVGKISEMLEV 163 Query: 559 P---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTT 614 VE + ++L + +SL +G++ +S + D I P A Q A L ET Sbjct: 164 SKNDVEEMERILNV--RDVSLNMQLGEDGSSEVHDLI-------PFPEANQEAVLSETRE 214 Query: 615 R---------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 R + SL R + + R + TL+E+G++F +++ER+RQI A+A++ Sbjct: 215 RQMKNRLLYEAVESLEARHKEIFVARSLSAV--PRTLKELGEKFSISQERVRQIHARAMK 272 Query: 666 KL 667 K+ Sbjct: 273 KV 274 >gi|254456610|ref|ZP_05070039.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] gi|207083612|gb|EDZ61038.1| alternative sigma factor RpoH [Candidatus Pelagibacter sp. HTCC7211] Length = 297 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 123/236 (52%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 51 AAEKLVTSHLRLVAKIAMGYKGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I ++I K K+ +++ N+I R EIA KL Sbjct: 111 IKASIQEYILRSWSLVKIGTTTAQK--KLFFNLKKIKNQIAPQTEGDLRNEHVNEIANKL 168 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + E V + +++ + SL +G ED D++ DK L A Q + + Sbjct: 169 DVSKEEVVSMNRRLSGKEFSLNAQVG-EDGDEWQDWLVDKELDHDLKFAHQEEMEQRKDL 227 Query: 616 VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL-KH 669 + S+ +R + + +N D TLE++ K++ ++RER+RQIE KA KL KH Sbjct: 228 LKNSIKVLNDREREILYSRRLNDDPTTLEDLSKKYKISRERVRQIENKAFEKLQKH 283 >gi|85707639|ref|ZP_01038705.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] gi|85689173|gb|EAQ29176.1| RNA polymerase sigma factor [Erythrobacter sp. NAP1] Length = 298 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 79/254 (31%), Positives = 126/254 (49%), Gaps = 30/254 (11%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A ++V ++LRLV +A Y GL DLI EGN+GLM+ +KF+ G+ Sbjct: 39 RYAEHEDPEAASQLVSSHLRLVAKIAMGYRGYGLPVSDLISEGNVGLMQGVKKFEPDRGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPE 550 + +TYAMWW+K +I I +++ K K+ RRM +++ + P+ Sbjct: 99 RLATYAMWWIKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKKQLEAYEDSDLHPD 156 Query: 551 E---IAKKLAMPVEGVRKVLKITKEPI-----SLETPI--GDEDTSHLGDFIEDKNAVSP 600 + IA L +P + +V+ + + + SL TP+ G++ + D++ D P Sbjct: 157 DVTKIATDLGVPEQ---EVVNMNRRMMMGGDGSLNTPMRNGEDGSGEWQDWLTDDR---P 210 Query: 601 LDSAIQANLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 L A+ E R + SL RE+ +L R TLEE+ + + V+RE Sbjct: 211 LQDETVADAEEAEVRHEMLVEAMDSLNEREQHILTERRLT--EKPQTLEELSQVYDVSRE 268 Query: 655 RIRQIEAKAIRKLK 668 RIRQIE +A KL+ Sbjct: 269 RIRQIEVRAFEKLQ 282 >gi|83859721|ref|ZP_00953241.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852080|gb|EAP89934.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 301 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 77/244 (31%), Positives = 129/244 (52%), Gaps = 18/244 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA A + A +RLVIS+A K+ + GL F DL+ EGNIGLM+AA +F+ + Sbjct: 46 KGDEEALHA---LTTAYMRLVISIAAKFRHYGLPFPDLVSEGNIGLMQAAARFEPEREVR 102 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPEE 551 FSTYA WW++ +I + +R K + RR+ IK + TPE Sbjct: 103 FSTYATWWIRASIQDYVLRNWSIVRTGTTAAQK--SLFFNLRRLRALIKDTSSGQLTPEN 160 Query: 552 ---IAKKLAMPVEGVRKVL-KITKEPISLETPIGDEDTSHLGDFIEDKNA---VSPLDSA 604 +A+ L + + V K+ ++ SL P ++ D + D+N ++ Sbjct: 161 RAYVAQALRVGEDDVEKMASRLAAVDRSLNAPFSEDGEGEWQDLLADENPDPETQVMEDR 220 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 QA + L+ L+ RE+ ++R R +G ++ TLE++G++ +++ER+RQ+E +A+ Sbjct: 221 DQAQRAQWLGEALSRLSEREQLIIRER-RLGEDS-VTLEKLGERLGISKERVRQVEHQAL 278 Query: 665 RKLK 668 KLK Sbjct: 279 NKLK 282 >gi|325518946|gb|EGC98485.1| RNA polymerase factor sigma-32 [Burkholderia sp. TJI49] Length = 311 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 127/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I T+++ K + + R K + TPEEI AK+L + Sbjct: 132 IKAEIHEYILRNWRTVKVAT---TKAQRKLFFNLRSHKKGVQAMTPEEIDGLAKELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|299538362|ref|ZP_07051645.1| RNA polymerase sigma-F factor [Lysinibacillus fusiformis ZC1] gi|298725949|gb|EFI66541.1| RNA polymerase sigma-F factor [Lysinibacillus fusiformis ZC1] Length = 247 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 128/244 (52%), Gaps = 17/244 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 R +++ ++G+ EA +K MVE N RLV S+ +++T RG++ DL Q G IGLMK+ + Sbjct: 1 MRDLIARAQQGDHEA---RKRMVEGNTRLVWSIVQRFTTRGVELEDLFQIGCIGLMKSVD 57 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD KFSTYA+ + I R + D +++ +R+ K+ K + Sbjct: 58 KFDLTYDVKFSTYAVPMIIGEIQRFLRDDGM-VKVSRSIRELNFKIRHATDEFIKKNEHP 116 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSA 604 PT +E+A+ L + E + ++P SL + + D+ L D ++D+ + P D Sbjct: 117 PTIQELAQVLGVTTEEIVTASDALRDPASLHEQLYESEGDSITLMDQMKDEKSEQPFDY- 175 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L+E TR L PRE+ ++ +R+ +D T E+ + +++ ++ ++E K + Sbjct: 176 --IPLKEVLTR----LEPREQSIIYLRYF----SDCTQTEIANRLGISQVQVSRLEKKIL 225 Query: 665 RKLK 668 +LK Sbjct: 226 AQLK 229 >gi|222087729|ref|YP_002546266.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] gi|221725177|gb|ACM28333.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] Length = 286 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 125/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 39 ARNKIATAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPEREVRFSTYASWW 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ R T EEIA L Sbjct: 99 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLARGNTGVTVQSIHEEIAVAL 156 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDF-IEDKNAVSPLDSAIQANL--- 609 + + V+ + +++ SL+ P GD +++ DF I D+ PL +N+ Sbjct: 157 GVSLSDVQTMDARLSSNDASLQAPSISGDAESAERMDFLISDE----PLPDEQVSNMIDG 212 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++R R + TLEE+G +++ER+RQIE++A+ K Sbjct: 213 ERRRVWLASALKHLNEREMKIIRARRLV--EDGATLEELGADLGISKERVRQIESRAMEK 270 Query: 667 LK 668 L+ Sbjct: 271 LR 272 >gi|83592357|ref|YP_426109.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575271|gb|ABC21822.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 306 Score = 100 bits (249), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 76/243 (31%), Positives = 128/243 (52%), Gaps = 21/243 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y + GL DL+ EGN+GLMKA +KF+ G++ +TYAMWW Sbjct: 50 AAHRLVTSHLRLVAKIAMGYRHYGLPVSDLVAEGNMGLMKAVKKFEADRGFRLATYAMWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I + +++ K K+ RR+ K+ + + +PE+ IA +L Sbjct: 110 IKASINEYILNSWSLVKVGTVAAQK--KLFFNLRRLKAKLGVYEEGDLSPEDVKTIATQL 167 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDK--NAVSPLDSAIQANLRETT 613 + V + + P SL P+G++ + D + D+ N + + +L Sbjct: 168 KVTEADVVMMNRRLAGPDASLNVPVGEDQSMDRMDLLMDEGDNQEEVYAAHEEQSLGNRL 227 Query: 614 TR-VLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L++LT RE ++ R+R + TLEE+G ++ V+RER+RQIE +A KL+ Sbjct: 228 LKDALSTLTERERHIITARRLR-----SEPVTLEELGGEYGVSRERVRQIENRAFEKLQT 282 Query: 670 PSR 672 R Sbjct: 283 AVR 285 >gi|322513377|ref|ZP_08066496.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Actinobacillus ureae ATCC 25976] gi|322120867|gb|EFX92727.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Actinobacillus ureae ATCC 25976] Length = 318 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 73/275 (26%), Positives = 147/275 (53%), Gaps = 22/275 (8%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ +S E ++E R E A K+++ +++R VI +A+ Sbjct: 51 LDSYIRMANQYPILSAEQEKELAE--------RYYYDEDLEAAKQLILSHMRFVIHIARG 102 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 103 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 162 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + VE VR++ ++T + + + P Sbjct: 163 TTKAQR--KLFFNLRKNKNRLAWFNEDEIKKVAEDLGVSVEEVREMESRMTGQDLGFDLP 220 Query: 580 IGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGI 634 G++D +IED ++ + + + E T ++ LA+L R + +++ R+ Sbjct: 221 AGEDDDEAYAPSMYIEDNSSNFADELEDEEHTGEATAQLAYALATLDERSQDIIKTRW-- 278 Query: 635 GMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ D TL+++ ++ ++ ER+RQ+E A++K+K Sbjct: 279 -LDEDKATLQDLADKYGISAERVRQLENAALKKIK 312 >gi|297569322|ref|YP_003690666.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfurivibrio alkaliphilus AHT2] gi|296925237|gb|ADH86047.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfurivibrio alkaliphilus AHT2] Length = 363 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 128/233 (54%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++V ANLRLV+ VA + +Q FLDLIQEGNIGL++A +KFD KFS YA + Sbjct: 113 AAYKLVTANLRLVVKVAMDFQKYWMQNFLDLIQEGNIGLVQAVKKFDPYRQVKFSYYAAY 172 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP-V 560 W++ I + I D ++I + K+ + +++ +P P+ +A++L + Sbjct: 173 WIRAYILKFIMDNWRLVKIGTTQAQRKLFFSLNKEKKLLESQGFKPEPKLLAQRLNVKES 232 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-LRETTTRVL-- 617 E + ++ +SLE+P+ ++ DF+ A ++ + A+ +RE +L Sbjct: 233 EVIEMSQRMDNWDMSLESPMREDSGDERKDFL--PVAGPSVEERVAADEVREWMAGILDK 290 Query: 618 --ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +E +LR R + + TL+E+ +F ++RER+RQIEA ++K++ Sbjct: 291 MRRTLNEKELAILRER--LLSDEPATLQEIADRFAISRERVRQIEANLLKKMR 341 >gi|284052567|ref|ZP_06382777.1| RNA polymerase sigma factor SigC [Arthrospira platensis str. Paraca] Length = 232 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 49/96 (51%), Positives = 67/96 (69%), Gaps = 1/96 (1%) Query: 412 EIKSISVETGISISEFRHI-VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 E+K I E +E ++ V +++ + E AK M++ANLRLV+SVAKKY NRGL+ Sbjct: 137 ELKQIMAEGKRCWAELANLSVEELKQVQREGIQAKDHMIKANLRLVVSVAKKYQNRGLEL 196 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 LDLIQEG +GL +A EKFD GY+FSTY+ WW++Q Sbjct: 197 LDLIQEGTLGLERAVEKFDPTRGYRFSTYSYWWIRQ 232 >gi|47028349|gb|AAT09107.1| RpoH-like sigma factor [Rhizobium sp. TAL11145] Length = 289 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 125/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 42 ARNKIATAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPEREVRFSTYASWW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ R T EEIA L Sbjct: 102 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLARGNTGVTVQSIHEEIAVAL 159 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDF-IEDKNAVSPLDSAIQANL--- 609 + + V+ + +++ SL+ P GD +++ DF I D+ PL +N+ Sbjct: 160 GVSLADVQTMDARLSSNDASLQAPSISGDAESAERMDFLISDE----PLPDEQVSNMIDG 215 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++R R + TLEE+G +++ER+RQIE++A+ K Sbjct: 216 ERRRVWLASALKHLNEREMKIIRARRLV--EDGATLEELGADLGISKERVRQIESRAMEK 273 Query: 667 LK 668 L+ Sbjct: 274 LR 275 >gi|85714568|ref|ZP_01045555.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] gi|85698453|gb|EAQ36323.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A] Length = 272 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 119/239 (49%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 22 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 81 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ +KI R + IA++L Sbjct: 82 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMRPDQVKLIARRL 139 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + + V + + SL PI D+ + D++ D+ SP A+ A + Sbjct: 140 GVTEQDVVDMNRRLGGDASLNAPIRDDGEAGEWQDWLVDQ---SPTQEAVMAEHEEFDHR 196 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R T + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 197 RRALTGAMGVLNPRERRIFEARRLA--DEPMTLEDLAAEFNVSRERVRQIEVRAFEKVQ 253 >gi|117925612|ref|YP_866229.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] gi|117609368|gb|ABK44823.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] Length = 290 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 130/232 (56%), Gaps = 12/232 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNR-GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A ++V + LR V S+AK+Y G++F+DL+QEG++GLM+A ++FD G++ +TYAMW Sbjct: 48 AAHKLVTSYLRYVASIAKEYQGYYGIKFMDLVQEGSVGLMQAVKRFDPHKGFRLATYAMW 107 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR--EPTPEEIAKKLAMPV 560 W+K +I + ++I + K+ R+ + ++R EE+ ++ + Sbjct: 108 WIKASIQEFVLHHWSLVKIGTTAAQR--KLFFNLRKSKDTLERLDATQAEEMGQRFGVSG 165 Query: 561 EGVRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 E V ++ +++ SL + G+E + L D ++ + L S + ++ + Sbjct: 166 EAVLEMDARLSGPDDSLNRCLVEGGEEIQNMLADSAPNQE-MRLLASESERLQQQMIKQA 224 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L+ RE+ ++R R I TLE +G++ V+RERIRQ+E +A++KL+ Sbjct: 225 LSFLSEREQMIVRAR--IMCAEPVTLEVLGERLGVSRERIRQLETRALKKLR 274 >gi|240144182|ref|ZP_04742783.1| RNA polymerase sigma-G factor [Roseburia intestinalis L1-82] gi|257203785|gb|EEV02070.1| RNA polymerase sigma-G factor [Roseburia intestinalis L1-82] Length = 259 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 120/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV K+++ DL Q G IGL+K+ + FD +G KFSTYA+ Sbjct: 38 ARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCIGLIKSIDNFDPTIGVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T +S +EPT +EIA + + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIHTKEILSKTENKEPTLDEIAAESGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + DT ++ D I DK N + L + Sbjct: 157 VFALDAIQSPLSLYDPVYTDGGDTLYVMDQISDKKNREENWIEEL----------SLNDA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L L RE +L++RF G T EV + +++ ++ ++E A++ ++H Sbjct: 207 LDRLNERENYILKLRFFEG----KTQMEVADEIHISQAQVSRLEKSALKSIRH 255 >gi|197103875|ref|YP_002129252.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] gi|196477295|gb|ACG76823.1| heat shock sigma factor RpoH [Phenylobacterium zucineum HLK1] Length = 295 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 84/291 (28%), Positives = 141/291 (48%), Gaps = 37/291 (12%) Query: 411 NEIKSISVETGIS--ISEFRHIVSMV---------RKGECEASIAKKEMVEANLRLVISV 459 N + +S E G+S ++E R + R E + A +V ++LRLV + Sbjct: 4 NALAVMSPEGGLSRYLTEIRKFPMLAKDEEFMLAKRWQEHQDPEAAHRLVTSHLRLVAKI 63 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW++ +I I + Sbjct: 64 AMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWWIRASIQEYILRSWSLV 123 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKLAMPVEGVRKV-LKITK 571 ++ K K+ R+ ++I R +IA KL + E V + ++ Sbjct: 124 KMGTTAAQK--KLFFNLRKAKSEISALEEGDLRPEQVRQIATKLGVLDEEVISMNRRLAG 181 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV------LASLTPREE 625 SL +P+ + S D++ D++ +P ++ A E R+ +A LT RE Sbjct: 182 GDASLNSPLRADSESEWQDWLVDED--TPSQESVVAEAEERGIRMELLQEAMAELTDRER 239 Query: 626 RVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L R++ + TLEE+ Q+ V+RER+RQIE +A KL+ R+ Sbjct: 240 HILTERRLK-----DEPTTLEELASQYGVSRERVRQIEVRAFEKLQKSMRA 285 >gi|254419521|ref|ZP_05033245.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] gi|196185698|gb|EDX80674.1| alternative sigma factor RpoH [Brevundimonas sp. BAL3] Length = 286 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 123/242 (50%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 40 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 ++ +I I +++ K K+ R+ ++I + + PE IA KL Sbjct: 100 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQISAFEEGDLHPEHLAAIATKL 157 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS---PLDSAIQANLRETT 613 + E V + + SL P+ + S D++ D AVS L + +R + Sbjct: 158 GVSEEEVTNMNRRLGGDASLNAPLRADGESEWQDWLADDTAVSQETQLADDEEKGIRMSL 217 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 + + LT RE+ +L R + D TLEE+ Q+ V+RER+RQIE +A KL+ Sbjct: 218 LQEAMEELTDREKHILTER---RLKDDPVTLEELAGQYGVSRERVRQIEVRAFEKLQKAM 274 Query: 672 RS 673 R+ Sbjct: 275 RA 276 >gi|78067614|ref|YP_370383.1| RNA polymerase factor sigma-32 [Burkholderia sp. 383] gi|77968359|gb|ABB09739.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. 383] Length = 311 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 85/280 (30%), Positives = 143/280 (51%), Gaps = 28/280 (10%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +D+ ++ N I ++VE E R + R+G S + +V ++LRLV+S+++ Sbjct: 39 IDAYIQAVNRIPLLTVE------EERQYATEFREGNNLDS--ARRLVLSHLRLVVSISRN 90 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD + +YA+ W+K I I T+++ Sbjct: 91 YLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHWIKAEIHEYILRNWRTVKVA 150 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEGVRKV-LKITKEPISLET 578 K + + R K + TPEEI AK+L + E V ++ +++ I+LE Sbjct: 151 T---TKAQRKLFFNLRSHKKGLQAMTPEEIDGLAKELNVKREDVTEMETRLSGGDIALEG 207 Query: 579 PI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVLASLTPREERVLRMRF-- 632 + G+E + + + N + + +A Q + +T + L +L R R++ R+ Sbjct: 208 QVEDGEESYAPIAYLADSHNEPTAVLAARQRDTLQTDGIAQALDALDARSRRIIEARWLH 267 Query: 633 ----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 268 VDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|39998179|ref|NP_954130.1| RNA polymerase sigma factor RpoD [Geobacter sulfurreducens PCA] gi|39985125|gb|AAR36480.1| RNA polymerase sigma factor RpoD [Geobacter sulfurreducens PCA] gi|298507117|gb|ADI85840.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens KN400] Length = 577 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 60/159 (37%), Positives = 92/159 (57%), Gaps = 4/159 (2%) Query: 27 SDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDE 86 S D K++I L +++G++T +E+N LPPD +SSEQ++D ++M M I++VD + Sbjct: 5 STDEVKQLIDLGKEKGFLTYDEVNDLLPPD-ISSEQIDDVMSMFGEMDIDIVDSA--QKV 61 Query: 87 EGSEDSLDLASSASNSSVFLQ-KRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 + + LDL + + A T DPVRMYLREMGS+ LL+REGE+ IAKR Sbjct: 62 KIPKMKLDLEEEEEIEGEQEDFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAKR 121 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 IE G + + +P+T + +I ++L G EI Sbjct: 122 IEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEI 160 >gi|260592476|ref|ZP_05857934.1| RNA polymerase sigma-43 factor [Prevotella veroralis F0319] gi|260535522|gb|EEX18139.1| RNA polymerase sigma-43 factor [Prevotella veroralis F0319] Length = 228 Score = 100 bits (248), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 70/255 (27%), Positives = 129/255 (50%), Gaps = 39/255 (15%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I+ I E +S E + + + ++ G+ +A +++ +ANL+ V+S+A Y N+GL D Sbjct: 8 IEEIVQEQLLSSEEEQTLAAKIKLGDAKAL---EKLTKANLKFVVSLAHHYKNQGLGEDD 64 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 L+ EGNIG+M AA+KFD G +F +YA ++++A+ +I +Q+ ++P Sbjct: 65 LVSEGNIGMMHAAQKFDGTKGIRFVSYAAPYIRKAMEEAIKEQTALYKLP---------- 114 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 K E + E + A+ ++ +PI P+G + L + Sbjct: 115 -----------KDEKSKFERKRTHAISID----------QPI----PVGSSNNFTLQHVL 149 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E+++A + + L + L L RE+R++ +G+ T +T+ E+ + + Sbjct: 150 ENEDAPQADEHLNKELLNFEIQKGLNELNEREKRIIIAIYGLN-GTHYTMAEIAENMGLK 208 Query: 653 RERIRQIEAKAIRKL 667 RER+RQI KA+RKL Sbjct: 209 RERVRQIRNKALRKL 223 >gi|312114652|ref|YP_004012248.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] gi|311219781|gb|ADP71149.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodomicrobium vannielii ATCC 17100] Length = 308 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/256 (30%), Positives = 126/256 (49%), Gaps = 17/256 (6%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E + A +++V ++LRLV +A Y GL ++I EGN+GLM+A ++FD G+ Sbjct: 37 RWQEHEDAKAAQKLVTSHLRLVARIAMGYRGYGLPIGEVISEGNVGLMQAVKRFDPDKGF 96 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW++ AI I +++ K K+ R+ ++++ R Sbjct: 97 RLATYAMWWIRAAIQEYILRSWSLVKMGTTASQK--KLFFNLRKAKSQLQALEEGDLRPD 154 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + IA L +P E V + + SL P+ D ++ D++ D+ A Sbjct: 155 QVKTIATNLGVPEEDVVSMNRRLGGDASLNAPLRADSESGEWQDWLVDEGPNQETQLAES 214 Query: 607 ANL---RETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAK 662 L RE + SL RE R+ R + D TLEE+ +F V+RERIRQIE + Sbjct: 215 EELSRRREYLGAAMDSLNERERRIFTAR---RLADDPLTLEELSSEFNVSRERIRQIEVR 271 Query: 663 AIRKLKHPSRSKKLRS 678 A K++ + L++ Sbjct: 272 AFEKVQKAVQKAALKA 287 >gi|325266382|ref|ZP_08133060.1| DNA-directed RNA polymerase sigma subunit RpoH [Kingella denitrificans ATCC 33394] gi|324982175|gb|EGC17809.1| DNA-directed RNA polymerase sigma subunit RpoH [Kingella denitrificans ATCC 33394] Length = 332 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 92/304 (30%), Positives = 142/304 (46%), Gaps = 49/304 (16%) Query: 385 SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 ++A P G ++ + N I +S E ++E R I KG+ EA+ Sbjct: 45 AFALPVPSGH------GNLEQYIHTVNNIPMLSAEEETRLAE-RQI-----KGDLEAA-- 90 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++F+ G + ++A+ W+ Sbjct: 91 -KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRFEPHHGARLFSFAVHWI 149 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVE 561 K I I +R+ + K+ R M N +K +P+E IA L + V Sbjct: 150 KAEIHEFILRNWRLVRVATTKPQR--KLFFNLRSMRNSLK-ALSPKEAQDIADDLGVKV- 205 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIED--KNAVSPLD---------------SA 604 E + +E + D L D +D NA +P+D A Sbjct: 206 ---------SEVMEMEQRMTGHDIGLLADNQDDDENNAFAPIDWLSDSQHEPSHQLAQKA 256 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A E LA L R R++ R+ + TL E+ +F V+ ERIRQIEAKAI Sbjct: 257 HYALQTEGLQAALAQLDERSRRIVETRW-LHDGQAATLHELAAEFGVSAERIRQIEAKAI 315 Query: 665 RKLK 668 +KL+ Sbjct: 316 QKLR 319 >gi|312797371|ref|YP_004030293.1| RNA polymerase sigma-32 factor [Burkholderia rhizoxinica HKI 454] gi|312169146|emb|CBW76149.1| RNA polymerase sigma-32 factor [Burkholderia rhizoxinica HKI 454] Length = 319 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/249 (31%), Positives = 124/249 (49%), Gaps = 40/249 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 80 AARQLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPRQNVRLVSYAIHW 139 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I I +++ K + + R + + TP+EIA G+ Sbjct: 140 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKQGMQAFTPDEIA--------GL 188 Query: 564 RKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA---- 618 K L + +E ++ +ET + D + G F + + + +P+ A A+ R T VLA Sbjct: 189 AKELNVKREEVTEMETRLAGGDIALEGQFEDGEESFAPI--AYLADSRTEPTTVLASRQR 246 Query: 619 -------------SLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQI 659 SL R R++ R+ G G TL E+ +F V+ ERIRQI Sbjct: 247 DLLQTEGLAEALESLDARSRRIIEARWLQVQDDGSG---GATLHELADEFGVSAERIRQI 303 Query: 660 EAKAIRKLK 668 EA A++K++ Sbjct: 304 EASAMKKMR 312 >gi|299535877|ref|ZP_07049197.1| sporulation sigma factor SigG [Lysinibacillus fusiformis ZC1] gi|298728629|gb|EFI69184.1| sporulation sigma factor SigG [Lysinibacillus fusiformis ZC1] Length = 257 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 127/245 (51%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + ++ GE E ++E+V NLRLV+S+ ++ RG Q DL Q G IGLMKA Sbjct: 22 EMKELFIRLQAGETEI---REELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIGLMKAI 78 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD +FSTYA+ + I R + D +R+ +RD +K ++ + R Sbjct: 79 DHFDLKHNVRFSTYAVPMIIGEIRRHLRDHHA-LRVSRSLRDIAYKAMQAKEQWITDNLR 137 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT EEIA+ + M E V L ++P+SL+ PI + D ++ D + D + VS Sbjct: 138 EPTIEEIAEMIDMKKEDVLFALDAIQDPVSLQEPIYSDGGDAVYMMDQLRDDD-VSEDQW 196 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +++E+ L L R++ ++ RF G T E+ K+ +++ +I ++E A Sbjct: 197 VAYVSVKES----LQKLDERQQMIVAKRFYYG----ETQTEIAKELGISQAQISRLEKNA 248 Query: 664 IRKLK 668 I ++ Sbjct: 249 IETMQ 253 >gi|171320177|ref|ZP_02909239.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] gi|171094591|gb|EDT39643.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MEX-5] Length = 311 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 126/237 (53%), Gaps = 20/237 (8%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W+K Sbjct: 74 RRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPTQNVRLVSYAIHWIK 133 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEG 562 I I +++ K + + R K + TPEEI A++L + E Sbjct: 134 AEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKRED 190 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVL 617 V ++ +++ I+LE + G+E + + + N S + +A Q ++ +T + L Sbjct: 191 VTEMETRLSGGDIALEGQVDDGEESYAPIAYLADSHNEPSAVLAARQRDMLQTDGIAQAL 250 Query: 618 ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 251 EALDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|147677561|ref|YP_001211776.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] gi|146273658|dbj|BAF59407.1| DNA-directed RNA polymerase specialized sigma subunit [Pelotomaculum thermopropionicum SI] Length = 259 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/243 (28%), Positives = 131/243 (53%), Gaps = 10/243 (4%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + +++K + S A+ ++V NL+LV ++ K++ NRG + DL Q G IGLMKA +K Sbjct: 19 REMRELLQKAKAGDSYARDKLVNCNLKLVFNLVKRFQNRGYELEDLFQIGCIGLMKAIDK 78 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD KFSTYA+ + I R + D + I++ +++K ++V + ++ ++ REP Sbjct: 79 FDVSYDVKFSTYAVPMIVGEIRRFLRDDN-PIKVSRSLKEKAYRVQQARDLLTARLGREP 137 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 T E++ +L + E V L+ + P S+ + +D GD I + + + Sbjct: 138 TVGEVSAELGLSREEVVNALEAAQVPASIYETLHQDD----GDPIYLLDQIKGSEEGDVP 193 Query: 608 NLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L + T + +L L R+ ++L RF D T ++ K+ +++ ++ ++E +A++K Sbjct: 194 WLEKITVKELLNKLPERDRQILAWRFF----EDRTQSDIAKRLGLSQVQVSRLERQALKK 249 Query: 667 LKH 669 LK Sbjct: 250 LKE 252 >gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] gi|254040288|gb|ACT57084.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] Length = 302 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 138/289 (47%), Gaps = 49/289 (16%) Query: 415 SISVETGISISEFRH---IVSMVRKGECEASIAKK-----------EMVEANLRLVISVA 460 SI V I +S + H + M+ K E E +AK+ +V ++LRLV+ +A Sbjct: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 Y GL +++ EGNIGLM+A +KFD G++ +TY+MWW+K A+ I ++ Sbjct: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Query: 521 IPVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAMPVEGVRKVLKITK-EPIS 575 I K ++ RR+ ++ PE++ + K L +++ E IS Sbjct: 126 IGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVIS 175 Query: 576 LETPI-GDEDTSHLGDFIEDKNAVSPLDSAI---------------QANLRETTTRVLAS 619 + + GDE + L + DKN+ D + + N R TR ++ Sbjct: 176 MNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 235 LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 >gi|293602894|ref|ZP_06685333.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Achromobacter piechaudii ATCC 43553] gi|292818688|gb|EFF77730.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Achromobacter piechaudii ATCC 43553] Length = 294 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 72/231 (31%), Positives = 129/231 (55%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E++ ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 61 AARELILSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ R + + + IA++L + E Sbjct: 121 IKAEIHEYIIRNWRLVKVATTKAQRKLFFNLRSMRPDGQTLDPDQV-DHIARELNVRRED 179 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRET-TTRVL 617 V ++ ++++ +SLE D+D+ ++ D P L+ A + L+ T T L Sbjct: 180 VSEMEVRLSGREMSLENQDDDDDSFAPIAYLSDDGRQEPTRVLERAARDELQSTGLTTAL 239 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L R R++ R+ + + TL E+ ++F V+ ERIRQIEA A++K++ Sbjct: 240 EALDARSRRIVEARW-LQDDGGATLHELAQEFGVSAERIRQIEAAALKKMR 289 >gi|241206034|ref|YP_002977130.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859924|gb|ACS57591.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 302 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 126/247 (51%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D D++ D + S D I+ + +T Sbjct: 167 KVSEEEVISMNRRLSGDASLNAPIKAAEGDGGQWQDWLVDDHD-SQEDVLIEQDELDTRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMSVLNERERRIFEAR---RLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQD 282 Query: 670 PSRSKKL 676 R + L Sbjct: 283 AVRKEAL 289 >gi|254294740|ref|YP_003060763.1| RNA polymerase factor sigma-32 [Hirschia baltica ATCC 49814] gi|254043271|gb|ACT60066.1| RNA polymerase, sigma 32 subunit, RpoH [Hirschia baltica ATCC 49814] Length = 295 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 76/243 (31%), Positives = 123/243 (50%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV ++LRLV +A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAEKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ RR+ +I+ R EIA +L Sbjct: 109 IRASIQEYILRSWSLVKLGTTAAQK--KLFFNLRRLKGEIQALEEGDLRPENVAEIATRL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E + ++T SL PIG D D++ D N + + Q + E +T Sbjct: 167 NVSETEVISMNRRMTGGDASLNAPIGGADGDGEWMDWLSDDNQQNQAEEYEQND--EFST 224 Query: 615 RV------LASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 R+ + L RE+ ++ R++ + TLEE+ + V+RERIRQIE +A Sbjct: 225 RMSLLETAMEGLNEREKHIIAERRLK-----DEPSTLEELSAVYNVSRERIRQIEVRAFE 279 Query: 666 KLK 668 KL+ Sbjct: 280 KLQ 282 >gi|116253507|ref|YP_769345.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. viciae 3841] gi|115258155|emb|CAK09256.1| putative RNA polymerase sigma-32 factor [Rhizobium leguminosarum bv. viciae 3841] Length = 302 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 126/247 (51%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D D++ D + S D I+ + +T Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKAAEGDGGQWQDWLVDDHD-SQEDVLIEQDELDTRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMSVLNERERRIFEAR---RLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQD 282 Query: 670 PSRSKKL 676 R + L Sbjct: 283 AVRKEAL 289 >gi|115352926|ref|YP_774765.1| RNA polymerase factor sigma-32 [Burkholderia ambifaria AMMD] gi|170701101|ref|ZP_02892077.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria IOP40-10] gi|172061774|ref|YP_001809426.1| RNA polymerase factor sigma-32 [Burkholderia ambifaria MC40-6] gi|115282914|gb|ABI88431.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria AMMD] gi|170134002|gb|EDT02354.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria IOP40-10] gi|171994291|gb|ACB65210.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ambifaria MC40-6] Length = 311 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 126/237 (53%), Gaps = 20/237 (8%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W+K Sbjct: 74 RRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPTQNVRLVSYAIHWIK 133 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEG 562 I I +++ K + + R K + TPEEI A++L + E Sbjct: 134 AEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKRED 190 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVL 617 V ++ +++ I+LE + G+E + + + N S + +A Q ++ +T + L Sbjct: 191 VTEMETRLSGGDIALEGQVDDGEESYAPIAYLADSHNEPSAVLAARQRDMLQTDGIAQAL 250 Query: 618 ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 251 EALDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|5911381|gb|AAD55771.1|AF177466_1 sigma-32 factor RpoH [Methylovorus sp. SS1] Length = 284 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 89/277 (32%), Positives = 148/277 (53%), Gaps = 22/277 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKG-ECEASIAKKEMVEANLRLVISVAK 461 +DS+ + IK+ V +S+ E + + +RKG + EA+ K ++ ++LRLV S+A+ Sbjct: 13 LDSLDQYLRTIKAFPV---LSVEEEYDLATRLRKGTDIEAA---KGLIVSHLRLVASIAR 66 Query: 462 KYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI 521 Y+ GL DLIQEGN+GLMKA +FD G + ++AM W+K I I +++ Sbjct: 67 GYSGYGLPQADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHWIKAEIHEYIVRNWRLVKV 126 Query: 522 P-VHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAM-PVEGVRKVLKITKEPISL 576 + K+ +R+ ++ S+ + +P E IA++L + P E V ++ ISL Sbjct: 127 ATTKAQRKLFFNLRSMKKNSHTL----SPAEVADIARELRVKPEEVVEMESRMGGHEISL 182 Query: 577 ETPIGD--EDTSHLGDFIEDKNA-VSPLDSAIQANLRETT--TRVLASLTPREERVLRMR 631 E D ED ++ED+ S L + +A +T L SL R R+++ R Sbjct: 183 EGNSDDDTEDNFSPIAYLEDQQPEPSELLAEREAEHNQTVGLAHALESLDERSRRIVQAR 242 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + N TL ++ +F V+ ERIRQIE KA++K+K Sbjct: 243 W-LQENNSATLHDLAAEFGVSAERIRQIEQKAMQKMK 278 >gi|218670385|ref|ZP_03520056.1| RNA polymerase factor sigma-32 [Rhizobium etli GR56] Length = 266 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 125/246 (50%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 13 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 72 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 73 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 130 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + ET Sbjct: 131 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHD-SQEDVLIEQDELETRR 189 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 190 RMLSKAMSVLNERERRIFEARR--LAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDA 247 Query: 671 SRSKKL 676 R + L Sbjct: 248 VRKEAL 253 >gi|298369543|ref|ZP_06980860.1| alternative sigma factor RpoH [Neisseria sp. oral taxon 014 str. F0314] gi|298282100|gb|EFI23588.1| alternative sigma factor RpoH [Neisseria sp. oral taxon 014 str. F0314] Length = 287 Score = 99.8 bits (247), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 83/267 (31%), Positives = 142/267 (53%), Gaps = 23/267 (8%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N I +S E S++E + +KG+ EA+ K+++ ++LR+V+S+A+ Y GL Sbjct: 25 NSIPMLSAEEESSLAERQ------QKGDLEAA---KQLILSHLRVVVSIARGYDGYGLNQ 75 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKI 529 DLIQEGNIGLMKA ++++ G + ++A+ W+K I I +R+ + K+ Sbjct: 76 ADLIQEGNIGLMKAVKRYEPSRGARLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKL 135 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-----GDED 584 +R+ R+ N + + +EIA L + + +VL++ + S + I DED Sbjct: 136 FFNLRSMRKSLNALSPKEA-QEIADDLGVKLS---EVLEMEQRMTSHDIGIMADNSDDED 191 Query: 585 TSHLGDFIEDKNAVSPLDSAIQANL---RETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 + D++ D +A A QA+ E LA L R R++ R+ + + T Sbjct: 192 SFAPIDWLADHDAEPSRQLAKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLT 250 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ ++ V+ ERIRQIEAKA++KL+ Sbjct: 251 LHELADEYGVSAERIRQIEAKAMQKLR 277 >gi|209550663|ref|YP_002282580.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536419|gb|ACI56354.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 302 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/243 (31%), Positives = 125/243 (51%), Gaps = 20/243 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDAERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + +T Sbjct: 167 KVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHD-SQEDVLIEQDELDTRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMSVLNERERRIFEAR---RLAEDPVTLEDLSTEFDISRERVRQIEVRAFEKVQD 282 Query: 670 PSR 672 R Sbjct: 283 AVR 285 >gi|254453216|ref|ZP_05066653.1| sigma 32 [Octadecabacter antarcticus 238] gi|198267622|gb|EDY91892.1| sigma 32 [Octadecabacter antarcticus 238] Length = 292 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/253 (29%), Positives = 129/253 (50%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMASKFRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + ++R ++ R A + + R + IA Sbjct: 101 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNLRRVQARLEREAMKRGETLDRHDMRQMIAT 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIED---KNAVSPLDSAIQANL 609 ++ +P+ V + +++ SL ED D +ED + A + +S L Sbjct: 161 EVGVPLRDVEMMEGRLSGSDFSLNATQSSEDEGREWIDALEDDGEQAADAVQNSHDTDTL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ L +L+ RE+ ++R R + TLE +G + +++ER+RQ+EA A K++ Sbjct: 221 RQWLLTALTALSDREQFIVRER--KLRDAPRTLESLGTELSLSKERVRQLEAAAFGKMRK 278 Query: 670 P--SRSKKLRSFL 680 +S+++ SFL Sbjct: 279 SLEGQSQEVHSFL 291 >gi|329849869|ref|ZP_08264715.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] gi|328841780|gb|EGF91350.1| alternative sigma factor RpoH [Asticcacaulis biprosthecum C19] Length = 299 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 125/250 (50%), Gaps = 27/250 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 57 AAHKLVTSHLRLVAKIAMGYRGYGLPVGEVISEGNVGLMQAVKKFDADRGFRLATYAMWW 116 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + +++ K K+ R++ ++I R E+IA KL Sbjct: 117 IKASIQEYVLRSWSLVKMGTTAAQK--KLFFNLRKVKSEISALEEGDLRHEQVEQIATKL 174 Query: 557 AMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + V + + P SL PI E S D++ D VS + A+ E + Sbjct: 175 GVSETDVINMNRRMSSPDSSLNAPIRASEGESEWQDWLVDDKQVS--QETVLADSEEYSQ 232 Query: 615 RV------LASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 R+ + L RE +L R++ ++ TLE++ ++F V+RER+RQIE +A Sbjct: 233 RMGLLEAAMGELNAREREILTERRLK-----DSPTTLEDLAERFGVSRERVRQIEVRAFE 287 Query: 666 KLKHPSRSKK 675 KL+ + K Sbjct: 288 KLQKAMTASK 297 >gi|103487228|ref|YP_616789.1| RNA polymerase factor sigma-32 [Sphingopyxis alaskensis RB2256] gi|98977305|gb|ABF53456.1| RNA polymerase sigma factor RpoH [Sphingopyxis alaskensis RB2256] Length = 300 Score = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 120/250 (48%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KFD G++ +TYAMWW Sbjct: 53 AAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAMWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAMP 559 ++ +I I +++ K K+ RRM N ++ + +PE +AK Sbjct: 113 IRASIQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKNNLEAFEDGDLSPEHVAK----- 165 Query: 560 VEGVRKVLKITKEPI-------------SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + L +T++ + SL P+G++ S D + D PL Sbjct: 166 ---IATDLGVTEDEVVSMNRRMAMGGDTSLNVPMGEDGDSQWQDLLGDD---GPLQDERV 219 Query: 607 ANLRETTTR------VLASLTPREERVLRMRFGIGMNTD--HTLEEVGKQFCVTRERIRQ 658 A +E R L +L RE +L R TD TLE++ + + V+RER+RQ Sbjct: 220 AEAQERDVRHDLLTEALETLNERERHILTER----RLTDDPKTLEDLSQLYDVSRERVRQ 275 Query: 659 IEAKAIRKLK 668 IE +A KL+ Sbjct: 276 IEVRAFEKLQ 285 >gi|126727088|ref|ZP_01742925.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] gi|126703516|gb|EBA02612.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150] Length = 289 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 123/249 (49%), Gaps = 17/249 (6%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + S A +V ++LRL +A Y GL +++ E N+GLM+A +KFD G++ S Sbjct: 37 EHQDSGAAHRLVTSHLRLAAKIAMGYRGYGLPQAEVVSEANVGLMQAVKKFDPEKGFRLS 96 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIA 553 TYAMWW++ +I + +++ K K+ R+ N+I + + PE +A Sbjct: 97 TYAMWWIRASIQEYVLRSWSLVKLGTTSAQK--KLFFNLRKAKNRIGALEEGDLRPENVA 154 Query: 554 KKLA----MPVEGVRKVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQA 607 K + E + +++ SL +G E T+ D++ D +A D Q Sbjct: 155 KIASDLNVTETEVISMNRRMSGGDASLNVQVGGDGEGTAQWQDWLADDSADQAGDYEKQD 214 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L RE + +A L RE+ +L R + TLEE+ + F V+RERIRQIE +A Sbjct: 215 ELDTRRELMAQAMAVLNDREKEILMERR--LQDKPKTLEELSEVFSVSRERIRQIEVRAF 272 Query: 665 RKLKHPSRS 673 KL+ RS Sbjct: 273 EKLQTEMRS 281 >gi|189423258|ref|YP_001950435.1| RNA polymerase, sigma 70 family subunit [Geobacter lovleyi SZ] gi|189419517|gb|ACD93915.1| putative RNA polymerase, sigma 70 family subunit [Geobacter lovleyi SZ] Length = 280 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 117/231 (50%), Gaps = 7/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ +NLR V+ VA +Y + GL+ LDLIQEGNIGLM A KF+ G + +YA+WW Sbjct: 45 AAHTLITSNLRYVVKVASEYRHYGLKMLDLIQEGNIGLMMAVRKFNPYRGVRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ I I ++I R + + +T + R+ E++ L +P Sbjct: 105 IRAYIQNYIVSAWSLVKIGTTQAQRKLFYGLRKTKEALLKLTGRDSDAFEVSSMLHVPDH 164 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIED--KNAVSPLDSAIQAN-LRETTTRVLA 618 V ++ + K +SL I + D + + I D N L Q + L++ L Sbjct: 165 EVVEMEQRLKGEVSLNEEIIEGDGLTILETIADDRMNQEEMLGEYQQEHSLKKAIAHALQ 224 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L +E+ ++ R I + TL+++ F ++RER+RQIE +A+ KLK+ Sbjct: 225 GLNEKEKYIVEHR--ITNDDPLTLQDIADHFSISRERVRQIEERALVKLKN 273 >gi|126649718|ref|ZP_01721954.1| sporulation sigma factor SigG [Bacillus sp. B14905] gi|126593437|gb|EAZ87382.1| sporulation sigma factor SigG [Bacillus sp. B14905] Length = 257 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 127/245 (51%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + ++ GE E ++E+V NLRLV+S+ ++ RG Q DL Q G IGLMKA Sbjct: 22 EMKELFIRLQAGEIEI---REELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIGLMKAI 78 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD +FSTYA+ + I R + D +R+ +RD +K ++ + + R Sbjct: 79 DHFDLKHNVRFSTYAVPMIIGEIRRHLRDHH-ALRVSRSLRDIAYKAMQAKEQWITENLR 137 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT EEIA + M E V L ++P+SL+ PI + D ++ D + D + VS Sbjct: 138 EPTIEEIADMIEMKKEDVLFALDAIQDPMSLQEPIYSDGGDAVYMMDQLRDDD-VSEDQW 196 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +++E+ L L R++ ++ RF G T E+ K+ +++ +I ++E A Sbjct: 197 VAYVSVKES----LQKLDERQQMIVAKRFYYG----ETQTEIAKELGISQAQISRLEKNA 248 Query: 664 IRKLK 668 I ++ Sbjct: 249 IETMQ 253 >gi|94987055|ref|YP_594988.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] gi|94731304|emb|CAJ54667.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Lawsonia intracellularis PHE/MN1-00] Length = 385 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 82/255 (32%), Positives = 136/255 (53%), Gaps = 28/255 (10%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCL 492 V+K C S A ++ ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD Sbjct: 131 VQKKGC--SKAAFRLISSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPDK 188 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTP 549 G KFS YA +W++ I + I D ++I + K+ R K+ E P Sbjct: 189 GIKFSYYAAFWIRAYILKFIMDNWRMVKIGTTQAQR--KLFYNLNRERQKLLAEGFDPDT 246 Query: 550 EEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSP------ 600 +A +L + E + ++ ++ +SL+ +G+E + S + DF+ A++P Sbjct: 247 SSLALRLGVGEEQIIEMQQRLDASDMSLDVTVGEETGNASRI-DFLP---AINPGIEESL 302 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQ 658 I L++ +L L+ +E +L R + TD TL E+G+++ VTRER+RQ Sbjct: 303 AGQEIAILLQDRIKDILPLLSEKEVYILHNR----LLTDDPVTLREIGEKYSVTRERVRQ 358 Query: 659 IEAKAIRKLK-HPSR 672 +EA+ ++KL+ H SR Sbjct: 359 LEARLLQKLRTHLSR 373 >gi|323137119|ref|ZP_08072198.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] gi|322397477|gb|EFX99999.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] Length = 294 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 127/249 (51%), Gaps = 20/249 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E A +E+V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ + Sbjct: 39 EHEDPKAAQELVTSHLRLVAKIAMGYRGYGLPIGEIISEGNVGLMQAVKRFEPDRGFRLA 98 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPE 550 TYAMWW++ +I I +++ K K+ R+ ++I R E Sbjct: 99 TYAMWWIRASIQEYILRSWSLVKMGTTASQK--KLFFNLRKAKSRISAFEEGDMRPENVE 156 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI----EDKNAVSPLDSAIQ 606 +IA +L + + V ++ + SL P+ +E D++ ED+ + L + + Sbjct: 157 KIATRLGVSQQDVIEMNRRMGGDASLNAPLREEGEGEWQDWLVDDSEDQERI--LVAQEE 214 Query: 607 ANLRETTTR-VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAI 664 N R R L L PRE R+ R + D TLE++ ++F V+RER+RQIE +A Sbjct: 215 NNNRLKALRGALDVLNPRERRIFEAR---RLADDPVTLEQLSEEFGVSRERVRQIEVRAF 271 Query: 665 RKLKHPSRS 673 K++ RS Sbjct: 272 EKVQAAVRS 280 >gi|257469126|ref|ZP_05633220.1| RpoD family RNA polymerase sigma factor [Fusobacterium ulcerans ATCC 49185] Length = 116 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 41/78 (52%), Positives = 62/78 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ +NLRLV+++AK Y N+GL F+DLI EGN+GL+ A EKFD G++FSTYA+WW Sbjct: 39 AKNQLILSNLRLVVNIAKGYINKGLSFIDLISEGNLGLIYAIEKFDITKGFRFSTYAVWW 98 Query: 504 VKQAITRSIADQSCTIRI 521 +KQ+I++++ + IRI Sbjct: 99 IKQSISKAVIVKGREIRI 116 >gi|317063372|ref|ZP_07927857.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] gi|313689048|gb|EFS25883.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] Length = 118 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 41/78 (52%), Positives = 62/78 (79%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK +++ +NLRLV+++AK Y N+GL F+DLI EGN+GL+ A EKFD G++FSTYA+WW Sbjct: 41 AKNQLILSNLRLVVNIAKGYINKGLSFIDLISEGNLGLIYAIEKFDITKGFRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRI 521 +KQ+I++++ + IRI Sbjct: 101 IKQSISKAVIVKGREIRI 118 >gi|291538695|emb|CBL11806.1| RNA polymerase, sigma subunit, RpsG/SigG [Roseburia intestinalis XB6B4] Length = 259 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 119/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV K+++ DL Q G IGL+K+ + FD +G KFSTYA+ Sbjct: 38 ARETYIKGNLRLVLSVIKRFSGNHENVDDLFQIGCIGLIKSIDNFDPTIGVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T +S +EPT +EIA + + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIHTKEILSKTENKEPTLDEIAAESGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + DT ++ D I DK N + L + Sbjct: 157 VFALDAIQSPLSLYDPVYTDGGDTLYVMDQISDKKNREENWIEEL----------SLNDA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L L RE +L++RF G T EV + +++ ++ ++E A+ ++H Sbjct: 207 LDRLNERENYILKLRFFEG----KTQMEVADEIHISQAQVSRLEKSALNSIRH 255 >gi|307264154|ref|ZP_07545748.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|306870528|gb|EFN02278.1| RNA polymerase sigma factor rpoD [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 619 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 60/156 (38%), Positives = 93/156 (59%), Gaps = 11/156 (7%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLD 94 I R++GY+TI E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 15 IAQGREQGYLTISEVHDHLPEELVDAEQIEDIIQMINDMGIKVLETAPDTDE------LM 68 Query: 95 LASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 LA + ++ V + K +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 69 LAENIADEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ E P LI + ++ +GT L +++ Sbjct: 129 INEVQCAVAEYPEALTELIGFYAQVEEGTMRLSDLV 164 >gi|116749546|ref|YP_846233.1| sigma-70 region 2 domain-containing protein [Syntrophobacter fumaroxidans MPOB] gi|116698610|gb|ABK17798.1| sigma-70 region 2 domain protein [Syntrophobacter fumaroxidans MPOB] Length = 326 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 125/241 (51%), Gaps = 15/241 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGY 494 KG+ EA +++ ANLRLV+ +A + +Q +DLIQEGN+GLM+A +KFD GY Sbjct: 73 KGDIEAGY---KLITANLRLVVKIAMDFQRYWMQNLMDLIQEGNVGLMQAVKKFDPYRGY 129 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFS YA +W+K I + I D ++I + K+ +R + E +P+ ++ Sbjct: 130 KFSYYASFWIKAYIIKFIMDNWKLVKIGTTQAQRKLFFNLRKEKERLEAQGIEASPKLLS 189 Query: 554 KKLAMP-VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-----QA 607 +L + E + ++ ISL++P+ ++ F+ + P+D I +A Sbjct: 190 HRLDVKESEIIEMDQRLNSWEISLDSPLKEDSEDTHKSFLPSDDL--PVDDQIADREAKA 247 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L + L +E + R + TL+E+G +F ++RER+RQIE++ +KL Sbjct: 248 ILHDKLLLFREQLKGKEAVIFDKR--LLTEEPMTLQEIGDRFGISRERVRQIESRLKKKL 305 Query: 668 K 668 K Sbjct: 306 K 306 >gi|190893168|ref|YP_001979710.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190698447|gb|ACE92532.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] Length = 302 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 125/246 (50%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + ET Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHD-SQEDVLIEQDELETRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 RMLSKAMSVLNERERRIFEARR--LAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDA 283 Query: 671 SRSKKL 676 R + L Sbjct: 284 VRKEAL 289 >gi|260574108|ref|ZP_05842113.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] gi|259023574|gb|EEW26865.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] Length = 292 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 82/260 (31%), Positives = 127/260 (48%), Gaps = 32/260 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMAAKFRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----------EEI 552 +K +I + +R K + +R+ K++RE E + Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNLKRVQAKLEREAAQRGESLDGHQLREMV 158 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKN--AVSPLDSAI-QA 607 A+++ +P+ V + ++ SL ED D +ED A ++ A A Sbjct: 159 AREVGVPLADVEMMEGRLAGSDFSLNATQSSEDEGREWIDALEDDGVQAAEAVEGAHDAA 218 Query: 608 NLRETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 LR +A+L PRE ER LR G G TLE +G + +++ER+RQ+EA Sbjct: 219 RLRGWLVVAMAALNPRERFIVTERKLR---GDG----RTLESLGAELGLSKERVRQLEAA 271 Query: 663 AIRKLKHP--SRSKKLRSFL 680 A KL+ ++++L FL Sbjct: 272 AFAKLRRSLEGQTRELHHFL 291 >gi|169827020|ref|YP_001697178.1| sporulation sigma factor SigG [Lysinibacillus sphaericus C3-41] gi|168991508|gb|ACA39048.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Lysinibacillus sphaericus C3-41] Length = 257 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 127/245 (51%), Gaps = 15/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + + ++ GE E ++E+V NLRLV+S+ ++ RG Q DL Q G IGLMKA Sbjct: 22 EMKELFIRLQAGETEI---REELVMCNLRLVLSIVGRFAYRGEQADDLFQVGCIGLMKAI 78 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 + FD +FSTYA+ + I R + D +R+ +RD +K ++ + + R Sbjct: 79 DHFDLKHNVRFSTYAVPMIIGEIRRHLRDHHA-LRVSRSLRDIAYKAMQAKEQWITENLR 137 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDS 603 EPT EEIA + M E V L ++P+SL+ PI + D ++ D + D + VS Sbjct: 138 EPTIEEIADMIDMKKEDVLFALDAIQDPMSLQEPIYSDGGDAVYMMDQLRDDD-VSEDQW 196 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 +++E+ L L R++ ++ RF G T E+ K+ +++ +I ++E A Sbjct: 197 VAYVSVKES----LQKLDERQQMIVAKRFYYG----ETQTEIAKELGISQAQISRLEKNA 248 Query: 664 IRKLK 668 I ++ Sbjct: 249 IETMQ 253 >gi|190150752|ref|YP_001969277.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|189915883|gb|ACE62135.1| RNA polymerase sigma factor 70 [Actinobacillus pleuropneumoniae serovar 7 str. AP76] Length = 619 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 60/156 (38%), Positives = 93/156 (59%), Gaps = 11/156 (7%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLD 94 I R++GY+TI E++ LP + V +EQ+ED + M+++MGI V++ DE L Sbjct: 15 IAQGREQGYLTISEVHDHLPEELVDAEQIEDIIQMINDMGIKVLETAPDTDE------LM 68 Query: 95 LASSASNSSVFLQKRK-----DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 LA + ++ V + K +S T DPVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 69 LAENIADEDVVEEATKVLSTVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ E P LI + ++ +GT L +++ Sbjct: 129 INEVQCAVAEYPEALTELIGFYAQVEEGTMRLSDLV 164 >gi|90422128|ref|YP_530498.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB18] gi|90104142|gb|ABD86179.1| sigma 32 (RpoH) [Rhodopseudomonas palustris BisB18] Length = 299 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 121/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMHPDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + + V + + SL PI D+ + D++ D SP AI A + Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDH---SPNQEAIMAEHEELDHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R T + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALTGAIGVLNPRERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|240142271|ref|YP_002966781.1| putative RNA polymerase sigma factor protein (Sigma-70) [Methylobacterium extorquens AM1] gi|240012215|gb|ACS43440.1| putative RNA polymerase sigma factor protein (Sigma-70) [Methylobacterium extorquens AM1] Length = 253 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 78/267 (29%), Positives = 124/267 (46%), Gaps = 39/267 (14%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ET +S E +V R C S+ + +V + R+ SVA++++N DL QEG Sbjct: 11 ETLLSPDEESGLVDAYRNDGCRKSLDR--LVRTHARMAFSVARRWSNNEAHMQDLAQEGM 68 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IG+M+AA+KF+ G +F+ Y WW+ +I+ ++ C + +P D++ R R Sbjct: 69 IGIMRAADKFNPSFGKRFAQYCRWWILSSISSRASEVVCVVDMP----DRVFVAHRRKR- 123 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVL-KITKEPISLETPI-GDEDTSHLGDFIEDKN 596 +EG L +S+ P+ GDE + +GD + + Sbjct: 124 ---------------------LEGADAALVGAAVTAVSISEPLGGDEGGATVGDMLV-SD 161 Query: 597 AVSPLDSAIQANL----RETTTRVLASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCV 651 SP +A+Q+ + R + LT RE +L R R T TLE V F + Sbjct: 162 ETSPESAAVQSEMNWYYRTAVQTAMQGLTEREREILSRRRLA---ETPETLEVVADFFDL 218 Query: 652 TRERIRQIEAKAIRKLKHPSRSKKLRS 678 TRERIRQIE A+ K++ R+ R+ Sbjct: 219 TRERIRQIENAAMAKVERNLRAAGFRA 245 >gi|291522675|emb|CBK80968.1| RNA polymerase, sigma subunit, RpsG/SigG [Coprococcus catus GD/7] Length = 259 Score = 99.4 bits (246), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 118/233 (50%), Gaps = 14/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + NLRLV+SV ++++ DL Q G IGL+KA + FD G +FSTYA+ Sbjct: 38 ARERFINGNLRLVLSVIQRFSGTNENVNDLFQVGCIGLIKAIDNFDLTQGVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S IR+ +RD +K + + + REPT EIA++ +P E + Sbjct: 98 IVGEIRRFLRDNSA-IRVSRSLRDTAYKAIYAREALITRNNREPTVMEIAEETGIPKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L + P+SL P+ + D + D + D KN + + N + L Sbjct: 157 VFALDAIQSPMSLYEPVYTDGGDALCIMDQVSDRKNGENSWVENLALN------DAMKRL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + RE R+++MRF G T EV + +++ +I +IE A++ ++ R+ Sbjct: 211 SHRENRIIKMRFYEG----KTQMEVADELAISQAQISRIEKSALQNMRTYLRA 259 >gi|254503566|ref|ZP_05115717.1| RNA polymerase sigma factor, sigma-70 family [Labrenzia alexandrii DFL-11] gi|222439637|gb|EEE46316.1| RNA polymerase sigma factor, sigma-70 family [Labrenzia alexandrii DFL-11] Length = 287 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 144/277 (51%), Gaps = 39/277 (14%) Query: 424 ISEFRHIVS-------MVRKGECEASI---------AKKEMVEANLRLVISVAKKYTNRG 467 +SE RH+V + R+ E E +I A +++ +++RLVI+VA ++ N G Sbjct: 1 MSERRHLVKTAMKAPYLTREEELELAIQWRDNKDEKALEKLSLSHMRLVIAVASRFKNFG 60 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 L DLIQEG++GL++AA +F+ +FSTYA WW++ +I I +R Sbjct: 61 LNIGDLIQEGHVGLLEAAARFEPEREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSSQ 120 Query: 528 KIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPVEGVRKV------LKITKEPISLET 578 K + RR+ K+ TP E+ +K+A + GV++ +++ SL Sbjct: 121 K--ALFFNLRRLRAKLSSNQTPLTDSELHQKIADAI-GVKQSDVAVMNARLSGPDTSLNA 177 Query: 579 PIGDEDTSHL--GDFIEDKNAVSP---LDSAIQANLRET-TTRVLASLTPREERVLRMRF 632 P+ D + S DF+ +A P + I A R T L L+ RE +++R R Sbjct: 178 PVTDTEGSSADRQDFLVS-DAPQPDEIVTENIDAERRNTWLASALDVLSERELKIVRER- 235 Query: 633 GIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ D TLE +GK+ +++ER+RQIE++A++KLK Sbjct: 236 --RLSEDGATLESLGKKLGISKERVRQIESRALQKLK 270 >gi|307564926|ref|ZP_07627446.1| sigma-70, region 4 [Prevotella amnii CRIS 21A-A] gi|307346366|gb|EFN91683.1| sigma-70, region 4 [Prevotella amnii CRIS 21A-A] Length = 228 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 71/229 (31%), Positives = 108/229 (47%), Gaps = 36/229 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +ANL V+S+A +Y +GL DLI EGNIG+M AA+KFD G +F +A + Sbjct: 36 ALEKLTKANLTFVVSIAHQYKEQGLDEDDLISEGNIGMMYAAQKFDGSKGIRFVKFAAPY 95 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++AI +SI +Q+ ++P + NK+ KK A PV Sbjct: 96 IRKAIEKSIKEQTTLYKVP---------------KKENKL--------FEKKRAKPVS-- 130 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +PI P+G + L + I + N DS L + + L R Sbjct: 131 ------LDQPI----PVGSNNKLTLQNLIPNNNNKDTDDSVNSNILNTILMQSINCLNER 180 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 E+ V+ +GI T T+ EV + RER+RQI A+RKL R Sbjct: 181 EKAVITQLYGIN-GTSLTMAEVATSLGLKRERVRQIRNTALRKLYRKMR 228 >gi|302392455|ref|YP_003828275.1| RNA polymerase, sigma subunit, RpoX/SigF [Acetohalobium arabaticum DSM 5501] gi|302204532|gb|ADL13210.1| RNA polymerase, sigma subunit, RpoX/SigF [Acetohalobium arabaticum DSM 5501] Length = 253 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 131/238 (55%), Gaps = 12/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +++K + AK ++V N++LV+ VA ++ N+ + +L Q G+IGL+KA E+FD Sbjct: 22 LLKKAQAGDQKAKDKLVNHNVKLVLKVAHRFANKNYDYEELFQIGSIGLLKAIERFDLER 81 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 KFSTYA+ + I R + D +++ ++ + H++ ++ ++ REPT +EI Sbjct: 82 DVKFSTYAVPLIIGEIKRFLRDDDA-VKVSRSLKRRAHRINEVKESLTAELNREPTIQEI 140 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE--DKNAVSPLDSAIQANLR 610 A+++ + E + L+ +EP S+ +P+ + + G+ IE D+ A S + + + R Sbjct: 141 AEEMEVDKEEIVNALEAVREPTSIYSPVYENE----GNSIELVDQLAASSENQEQEID-R 195 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ L RE +L++RF + T +EV + V++ ++ ++E K I K++ Sbjct: 196 LALREVIDELKTRERLILKLRFF----DEKTQQEVADRIGVSQVQVSRLERKIIDKVR 249 >gi|295675387|ref|YP_003603911.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1002] gi|295435230|gb|ADG14400.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1002] Length = 311 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 78/250 (31%), Positives = 125/250 (50%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI EG Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------EG 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E ++ +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 180 LAKELNVKREEVAEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L PR R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDRLQSDGIASALDALDPRSRRIIEARWLKVADDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|156972625|ref|YP_001443532.1| RNA polymerase factor sigma-32 [Vibrio harveyi ATCC BAA-1116] gi|156524219|gb|ABU69305.1| hypothetical protein VIBHAR_00277 [Vibrio harveyi ATCC BAA-1116] Length = 285 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 82/279 (29%), Positives = 148/279 (53%), Gaps = 28/279 (10%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E ++E H KGE +A+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRSVNSYPMLTPEEERGLAERLHY-----KGEIDAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMP 185 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRM 630 + D+D S+ ++EDK+ S + I+A ET T LASL R +R++R Sbjct: 186 MDDDDNSNSYTAPMFYLEDKS--SDVADNIEAANWETHTNNRLGHALASLDERSQRIVRS 243 Query: 631 RFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++ D TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 244 RW---LDDDKATLQDLADEFGVSAERIRQLEKNAMKKLK 279 >gi|134297011|ref|YP_001120746.1| RNA polymerase factor sigma-32 [Burkholderia vietnamiensis G4] gi|134140168|gb|ABO55911.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia vietnamiensis G4] Length = 331 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 128/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 92 AARKLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 151 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 152 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKR 208 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 209 EEVTEMETRLSGGDIALEGQVEDGEEAYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 268 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 269 ALEALDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 324 >gi|326789987|ref|YP_004307808.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium lentocellum DSM 5427] gi|326540751|gb|ADZ82610.1| RNA polymerase, sigma 32 subunit, RpoH [Clostridium lentocellum DSM 5427] Length = 274 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 79/242 (32%), Positives = 116/242 (47%), Gaps = 55/242 (22%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKK-YTNR--GLQFLDLIQEGNIGLMKAAEKFD 489 +V+ +C S A + ++EAN L+ V+ K YT R + DL+QEG IGL+ AAEK+D Sbjct: 6 LVKLYQCGDSKALERLLEANKGLIYKVSMKFYTERDNAIDQDDLVQEGRIGLIVAAEKYD 65 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 F++YA +W+ Q K+H+ + R M Sbjct: 66 INGDVPFASYAYYWIYQ---------------------KMHRFMYPKRNM---------- 94 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--EDKNAVSPLDSAIQA 607 ++ LK +SL TPIG++ LGD + E + S DS Sbjct: 95 -------------IKSSLKF----VSLNTPIGEDGEMELGDTLGEEQEEFCSVEDSIYHQ 137 Query: 608 NLRETTTRVLA-SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L E + + +LT ++ +VL RFG N HTLEE GK+ VTRER+RQIE ++RK Sbjct: 138 ELAEELRQAMNDNLTLQQRQVLLFRFGFECNV-HTLEETGKEIGVTRERVRQIEVNSLRK 196 Query: 667 LK 668 L+ Sbjct: 197 LR 198 >gi|218885581|ref|YP_002434902.1| RNA polymerase, sigma 70 family subunit [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756535|gb|ACL07434.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 474 Score = 99.0 bits (245), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 132/244 (54%), Gaps = 20/244 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGY 494 +G+ +A+ +V ++LRLV+ +A + R +Q LDLIQEGN+GLM+A KFD G Sbjct: 223 QGDSDAAF---RLVTSHLRLVVKIAMDFQRRWMQNVLDLIQEGNVGLMRAVNKFDPEKGI 279 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFS YA +W+K I + I D ++I + K+ + R+ +P ++ Sbjct: 280 KFSYYAAFWIKAYILKFIMDNWRMVKIGTTQAQRKLFYNLNKERQRLIAQGYDPDATILS 339 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS--------HLGDFIEDKNAVSPLDSA 604 +KL + VE V ++ ++ +SL+ +G++ LG IE+ A +S Sbjct: 340 EKLNVTVEQVIEMEQRLDSSDMSLDITVGEDSGGATRMDFLPALGPGIEETLA----NSE 395 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 I +++ +L L+ +E +L+ R + TL E+G+++ +TRER+RQIEA+ + Sbjct: 396 IARMVQDRVQTILPKLSDKEAYILQHR--LLSEQPVTLREIGEKYDITRERVRQIEARLL 453 Query: 665 RKLK 668 +KL+ Sbjct: 454 QKLR 457 >gi|257095687|ref|YP_003169328.1| RNA polymerase sigma-32 subunit RpoH [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257048211|gb|ACV37399.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 286 Score = 99.0 bits (245), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 125/236 (52%), Gaps = 19/236 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLVIS+A+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 49 AARQLVLSHLRLVISIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPAHGVRLVSFAIHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM-SNKIKREPTP-EEIAKKLAMPVE 561 +K I + +++ + K+ R M +N P +IA +L++ E Sbjct: 109 IKAEIHEYVLKNWRMVKLATTKAQR--KLFFNLRSMKANSEALSPGQVTDIAHRLSVKPE 166 Query: 562 GVRKV-LKITKEPISLETPIGDED-------TSHLGDFIEDKNAVSPLDSAIQANLR-ET 612 V ++ ++T ++L+ GD D S+L D V L++ + L E Sbjct: 167 EVSEMEARLTGHDLALD---GDSDDDEVFAPISYLAD--HSSEPVHVLEARARERLHNEG 221 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LASL PR R++ R+ + + TL E+ +F V+ ERIRQ+E KA++K++ Sbjct: 222 LQGALASLDPRSRRIVEARW-LTDESPATLHELAAEFGVSAERIRQVEVKAMQKMR 276 >gi|331082586|ref|ZP_08331709.1| RNA polymerase sigma-G factor [Lachnospiraceae bacterium 6_1_63FAA] gi|330400205|gb|EGG79847.1| RNA polymerase sigma-G factor [Lachnospiraceae bacterium 6_1_63FAA] Length = 259 Score = 99.0 bits (245), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 130/243 (53%), Gaps = 17/243 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA +++ ++ NLRLV+SV K++++ DL Q G +GL+KA + FD L Sbjct: 31 IKEGDPEA---REQYIKGNLRLVLSVIKRFSSSNENADDLFQIGCVGLIKAIDNFDTTLN 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D + IR+ +RD +K + + +EPT EIA Sbjct: 88 VKFSTYAVPMIIGEIRRYLRDNNA-IRVSRSLRDVAYKAIYAKENYVKQNLKEPTINEIA 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLR 610 +++ + E + L + P+SL P+ E DT ++ D I DK + D+ I+ L+ Sbjct: 147 EEIGIDKEEIVYALDAIQSPVSLYEPVYTEGGDTLYVMDQISDKK--NKEDNWIENIALK 204 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L L RE+ ++ MRF G EE+G +++ ++ ++E A++ ++ Sbjct: 205 EA----LKKLDDREQHIVTMRFYEGKTQMEVAEEIG----ISQAQVSRLEKHALKTMRTY 256 Query: 671 SRS 673 RS Sbjct: 257 LRS 259 >gi|254501465|ref|ZP_05113616.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] gi|222437536|gb|EEE44215.1| alternative sigma factor RpoH [Labrenzia alexandrii DFL-11] Length = 269 Score = 99.0 bits (245), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 75/251 (29%), Positives = 125/251 (49%), Gaps = 17/251 (6%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A + +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G+ Sbjct: 13 RYKEHEDPEAAERLVNSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGF 72 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K AI I +++ K ++ RR+ KI+ + Sbjct: 73 RLATYAMWWIKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGKIQALEEGDLKPH 130 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 +EIA +L + E V + + SL PI + D D++ D++ A Q Sbjct: 131 QVQEIATRLGVSEEEVVSMNRRLGGDASLNAPIRAEADAGEWQDWLVDESDSQETLLANQ 190 Query: 607 ANL---RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAK 662 L R+ + + L RE R+ R ++ D TLE++ +F V+RER+RQIE + Sbjct: 191 EELDMRRKMLSDAMDVLNDRERRIFEAR---RLSEDPMTLEDLSGEFGVSRERVRQIEVR 247 Query: 663 AIRKLKHPSRS 673 A K++ R+ Sbjct: 248 AFEKVQKAVRN 258 >gi|91762259|ref|ZP_01264224.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] gi|91718061|gb|EAS84711.1| RNA polymerase sigma factor [Candidatus Pelagibacter ubique HTCC1002] Length = 293 Score = 99.0 bits (245), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 78/247 (31%), Positives = 130/247 (52%), Gaps = 13/247 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 47 AAEKLVTSHLRLVAKIAMGYRGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT----PE---EIAKKL 556 ++ +I I ++I K K+ +++ N+I + PE EIA KL Sbjct: 107 IRASIQEYILRSWSLVKIGTTTAQK--KLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKL 164 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + +++ + SL +G ED D++ DK L A Q + + Sbjct: 165 DVNKDEVISMNRRLSGKEFSLNAQVG-EDGDEWQDWLVDKELDHDLKFAHQEEMGQRQNL 223 Query: 616 VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL-KHPSRS 673 + S+ ER + + +N + TLE++ K++ ++RERIRQIE KA KL KH S Sbjct: 224 LKDSIKILNEREKEILYSRRLNDEPTTLEDLSKKYKISRERIRQIENKAFEKLQKHMLLS 283 Query: 674 KKLRSFL 680 K ++ L Sbjct: 284 AKSKNLL 290 >gi|294085881|ref|YP_003552641.1| RNA polymerase sigma-32 subunit RpoH [Candidatus Puniceispirillum marinum IMCC1322] gi|292665456|gb|ADE40557.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Puniceispirillum marinum IMCC1322] Length = 312 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 82/255 (32%), Positives = 125/255 (49%), Gaps = 26/255 (10%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ E++ ++V ++LRLV +A Y GL DLI EGN+G+M A +KF+ G++ Sbjct: 49 KGDVESA---HQLVTSHLRLVAKIAMGYRGYGLPVADLISEGNLGMMHAVKKFEPEKGFR 105 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE 551 +TYAMWW+K AI I ++I K K+ RR+ +I+ + PE+ Sbjct: 106 LATYAMWWIKAAIQEYILRSWSLVKIGTTAGQK--KLFFNLRRIKGQIQAIDEGDLKPEQ 163 Query: 552 ---IAKKLAMP-VEGVRKVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSA- 604 IA +L + E + ++ SL P+ E T D++ED A Sbjct: 164 VTHIADELNVTEAEVMSMNQRMAGNDRSLNVPLSRDGEGTGEWQDWLEDDTVDQETSFAE 223 Query: 605 -----IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +ANL + L RE+R+L+ R TLE++ +F V+RERIRQI Sbjct: 224 HEEYSARANL---MMDAMKGLNEREQRILQARRLA--EPPLTLEDLAGEFNVSRERIRQI 278 Query: 660 EAKAIRKLKHPSRSK 674 E +A KL+ R K Sbjct: 279 EVRAFEKLQKAVRDK 293 >gi|297616994|ref|YP_003702153.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144831|gb|ADI01588.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 256 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 71/226 (31%), Positives = 122/226 (53%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E++ NLRLV+SV +++ +RG DL Q G IGL+KA + FD +FSTYA+ Sbjct: 37 AREELIRGNLRLVLSVIQRFNHRGEYVDDLFQVGCIGLIKAIDNFDLEQNVRFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +R+ +RD +K ++ ++ + REPT EIA +L + E V Sbjct: 97 IIGEIRRYLRDNN-PVRVSRSLRDVAYKALQVREQLLAEKSREPTIAEIADRLEVSQEEV 155 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASLTP 622 L +EP+SL PI ++ GD I + +S + + L + R L L+ Sbjct: 156 VFALDAIQEPVSLFEPIYNDG----GDPILVMDQISDDKTTDELWLEGISIREALKKLSE 211 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ +L +RF G EE+G +++ ++ ++E A++ +K Sbjct: 212 REKLILTLRFFEGKTQMEVAEEIG----ISQAQVSRLEKAALKHMK 253 >gi|238924598|ref|YP_002938114.1| sporulation sigma factor SigG [Eubacterium rectale ATCC 33656] gi|238876273|gb|ACR75980.1| sporulation sigma factor SigG [Eubacterium rectale ATCC 33656] Length = 259 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 125/236 (52%), Gaps = 15/236 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ A+++ + NLRLV+SV ++++N DL Q G IGLMK+ + FD +G Sbjct: 31 IKKGD---KAAREKYIRGNLRLVLSVIRRFSNHNENMDDLFQIGCIGLMKSIDNFDPTIG 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + + R + D S RIP +RD ++ +++ ++S K+ EP+ EI+ Sbjct: 88 VKFSTYAVPMIIGEVRRYLRDNSAY-RIPRSLRDTAYQAIKSKEKLSRKLVHEPSLAEIS 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE 611 K +P + L + P+SL P+ + DT ++ D I DK + A NL Sbjct: 147 KDCGIPENDILYALDAIQTPLSLFDPVYTDGGDTLYVMDQISDKKNK---EEAWVKNLVL 203 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L R+ ++++RF G T EV ++ +++ ++ ++E A++ + Sbjct: 204 DDALKLLDDRARQ--IIKLRFFEG----KTQIEVAEEINISQAQVSRLEKNALKNM 253 >gi|213161043|ref|ZP_03346753.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] Length = 383 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 13/144 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDL---E 84 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLLLAE 69 Query: 85 DEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAK 144 + +++ + A++ SSV +S T DPVRMY+REMG++ELL+REGEI IAK Sbjct: 70 NTTSTDEDAEEAAAQVLSSV------ESEIGRTTDPVRMYMREMGTVELLTREGEIDIAK 123 Query: 145 RIEAGRAMMMASLCESPLTFQALI 168 RIE G + S+ E P L+ Sbjct: 124 RIEDGINQVQCSVAEYPEAITYLL 147 Score = 39.3 bits (90), Expect = 2.3, Method: Compositional matrix adjust. Identities = 37/134 (27%), Positives = 63/134 (47%), Gaps = 6/134 (4%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ G E Sbjct: 253 KLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNE 312 Query: 379 LDPHW--VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRK 436 W + A + P E + VA EV L+ +++ I ETG++I + + I + Sbjct: 313 TSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQ---KLRQIEEETGLTIEQVKDINRRMSI 369 Query: 437 GECEASIAKKEMVE 450 GE +A AKKEMVE Sbjct: 370 GEAKARRAKKEMVE 383 >gi|222150148|ref|YP_002551105.1| RNA polymerase factor sigma-32 [Agrobacterium vitis S4] gi|221737130|gb|ACM38093.1| alternative sigma factor RpoH [Agrobacterium vitis S4] Length = 285 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 128/253 (50%), Gaps = 27/253 (10%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR +A+ ++ A++RLVI++A K+ GL DLIQEG IGL++AA +F+ Sbjct: 30 VRWKHGNDQVARNQIAHAHMRLVIAMASKFRGFGLPLGDLIQEGYIGLLEAAARFEPTRD 89 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-------E 546 +FSTYA WW++ ++ I +R K + RR+ K+ + + Sbjct: 90 VRFSTYAGWWIRASMQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAQGDQRLTDQ 147 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLD 602 +EIA L + + V+ + +++ SL+ PI G+E L D+ P Sbjct: 148 AIHQEIATALGVSLADVQSMDARLSSNDTSLQAPISNNGEEGAERLDMLASDE----PTP 203 Query: 603 SAIQANLRETTTRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRER 655 ++ +T R+ +A L RE R++R R ++ D TLEE+G + +++ER Sbjct: 204 DEQVTDMIDTERRLDWLRGAMAHLNEREMRIIRARR---LSEDGATLEELGCELGISKER 260 Query: 656 IRQIEAKAIRKLK 668 +RQIE +A+ KLK Sbjct: 261 VRQIETRAMEKLK 273 >gi|226327186|ref|ZP_03802704.1| hypothetical protein PROPEN_01051 [Proteus penneri ATCC 35198] gi|225204404|gb|EEG86758.1| hypothetical protein PROPEN_01051 [Proteus penneri ATCC 35198] Length = 407 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 65/169 (38%), Positives = 97/169 (57%), Gaps = 9/169 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTKGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NS--NDTDDDAAEAAAQVLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 G + S+ E P L+ D + G L ++I A I P ++ Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGEARLSDLIT--AFIDPNAE 173 >gi|331090618|ref|ZP_08339469.1| hypothetical protein HMPREF9477_00112 [Lachnospiraceae bacterium 2_1_46FAA] gi|330401058|gb|EGG80653.1| hypothetical protein HMPREF9477_00112 [Lachnospiraceae bacterium 2_1_46FAA] Length = 259 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/233 (31%), Positives = 120/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E ++ NLRLV+SV K+++N DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 38 AKEEYIKGNLRLVLSVIKRFSNSNENPDDLFQIGCIGLIKAINNFNTELNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + +EPT +EIA ++ + E + Sbjct: 98 IIGEIRRYMRDNN-SIRVSRSLRDTAYKAIYAKEGYMKTHLKEPTIQEIASEIGISKEEI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 + L + P+SL PI ++ DT ++ D I DK N V L A Sbjct: 157 VQALDAIQMPMSLHEPIYNDGGDTLYVMDQISDKKNKEENWVEELSLA----------EA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++++MRF G T E+ K+ +++ ++ ++E A+ +K Sbjct: 207 MERLGERERKIIQMRFFEG----KTQMEIAKEIHISQAQVSRLEKNALEFMKQ 255 >gi|150389982|ref|YP_001320031.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus metalliredigens QYMF] gi|149949844|gb|ABR48372.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus metalliredigens QYMF] Length = 258 Score = 98.6 bits (244), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 126/241 (52%), Gaps = 14/241 (5%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ M +KG+ +A ++++V NL L+ SV K+++NRG DL Q G+IGL+KA KFD Sbjct: 23 LIQMAQKGDLQA---QEKLVSHNLGLIRSVIKRFSNRGYDREDLFQLGSIGLIKAIRKFD 79 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +FSTYA+ + I R + D I++ ++ +V T ++ + REPT Sbjct: 80 ISFNVRFSTYAVPMIIGEIKRFLRDDGI-IKVSRSLKQTASRVKVTKEKLFKEFGREPTL 138 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQA 607 EIAK L + E + L P L I +D S HL D I + +++ + + Sbjct: 139 HEIAKVLEITKEEIVMALDSNMYPEYLYEVIHQDDGSPIHLIDKISETDSLDDSEVIDKI 198 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E V+ L PRE +++ +R+ D T E+ K +++ ++ +IE K ++ + Sbjct: 199 MLKE----VIGRLEPRERQIIILRYF----KDKTQTEIAKVLGISQVQVSRIEKKVLQTM 250 Query: 668 K 668 K Sbjct: 251 K 251 >gi|225028119|ref|ZP_03717311.1| hypothetical protein EUBHAL_02389 [Eubacterium hallii DSM 3353] gi|224954589|gb|EEG35798.1| hypothetical protein EUBHAL_02389 [Eubacterium hallii DSM 3353] Length = 278 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 124/229 (54%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ V+ NLRLV+SV +++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 57 AREQYVKGNLRLVLSVIQRFSSNHEHADDLFQVGCIGLMKAIDNFDRTLNVKFSTYAVPM 116 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + +++ + R PT EE++KK +P E + Sbjct: 117 ILGEVRRYLRDNN-SIRVSRSLRDTAYKAIYAKEQLTKSMNRTPTIEEVSKKTEIPEEDI 175 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 L P+SL P+ + D L D I DK + D+ I+ +L+E + L Sbjct: 176 IYALDAIATPMSLFEPVYQDGNDPLFLMDQICDKK--NKEDTWIEHLSLQEA----MNQL 229 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + RE ++ RF G T EV + +++ ++ ++E A++ +++ Sbjct: 230 SGREYHIIEKRFFEG----KTQTEVADEISISQAQVSRLEKNALKSIRN 274 >gi|327190963|gb|EGE58017.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CNPAF512] Length = 332 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 77/246 (31%), Positives = 125/246 (50%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 79 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 139 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 196 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + S D I+ + ET Sbjct: 197 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVDDHD-SQEDVLIEQDELETRR 255 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 256 RMLSKAMSVLNERERRIFEARR--LAEEPVTLEDLSAEFDISRERVRQIEVRAFEKVQDA 313 Query: 671 SRSKKL 676 R + L Sbjct: 314 VRKEAL 319 >gi|169351193|ref|ZP_02868131.1| hypothetical protein CLOSPI_01972 [Clostridium spiroforme DSM 1552] gi|169292255|gb|EDS74388.1| hypothetical protein CLOSPI_01972 [Clostridium spiroforme DSM 1552] Length = 258 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 121/225 (53%), Gaps = 12/225 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+++V N++LVIS+ K++ NR DL Q G IGL+KA E F+ KFSTYA+ + Sbjct: 39 KEKLVNDNIKLVISMTKRFYNRSDGCDDLFQVGMIGLIKAIENFNTSYDLKFSTYAVPLI 98 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R + D + I+I ++D +K+++ NK +REPT +E+AKKL + + Sbjct: 99 IGEMKRYLRD-NHQIKISRSLKDIAYKILKIKDEYLNKFQREPTIKELAKKLDIDQSVIV 157 Query: 565 KVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + L T SL+ + + D + L D + D+ A ++ N R L SL+ Sbjct: 158 EALLSTNSVASLQEEVKNSDGNSLKMIDSLSDEKA-----GVLKTNERIDLYDALKSLSQ 212 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +E V++ R+ G++ E+ K+ +++ ++ +IE KA+ L Sbjct: 213 KEHDVIKQRYFEGLSQ----SEIAKELFISQAQVSRIEKKALNTL 253 >gi|254251367|ref|ZP_04944685.1| hypothetical protein BDAG_00552 [Burkholderia dolosa AUO158] gi|124893976|gb|EAY67856.1| hypothetical protein BDAG_00552 [Burkholderia dolosa AUO158] Length = 311 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 127/239 (53%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ ++LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVAEMETRLSGGDVALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ +N D TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARW---LNVDDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|261377878|ref|ZP_05982451.1| alternative sigma factor RpoH [Neisseria cinerea ATCC 14685] gi|269145731|gb|EEZ72149.1| alternative sigma factor RpoH [Neisseria cinerea ATCC 14685] Length = 290 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 75/272 (27%), Positives = 138/272 (50%), Gaps = 31/272 (11%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I +++ +++ E H+ RKG+ A+ K+++ ++LR+V+S+A+ Y GL D Sbjct: 24 IHTVNSIPMLTLDEETHLAERQRKGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQAD 80 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHK 531 LIQEGNIGLMKA ++++ G + ++A+ W+K I I +R+ + K+ Sbjct: 81 LIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFF 140 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 +R+ R+ N + + +EIA L + + E + +E + D + + D Sbjct: 141 NLRSMRKNLNALSPKEA-QEIADDLGVKL----------SEVLEMEQRMTGHDIAIMADN 189 Query: 592 IEDKNAVSPLD---------------SAIQANLRETTTRVLASLTPREERVLRMRFGIGM 636 +D+++ +P+D A A E LA L R R++ R+ + Sbjct: 190 SDDEDSFAPIDWLADHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQD 248 Query: 637 NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL ++ ++ V+ ERIRQIEAKA++KL+ Sbjct: 249 DGGLTLHQLAAEYGVSAERIRQIEAKAMQKLR 280 >gi|254973932|ref|ZP_05270404.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-66c26] gi|255091318|ref|ZP_05320796.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CIP 107932] gi|255312976|ref|ZP_05354559.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-76w55] gi|255515735|ref|ZP_05383411.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-97b34] gi|255648829|ref|ZP_05395731.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-37x79] gi|260682047|ref|YP_003213332.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CD196] gi|260685645|ref|YP_003216778.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile R20291] gi|306518943|ref|ZP_07405290.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-32g58] gi|260208210|emb|CBA60565.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile CD196] gi|260211661|emb|CBE01928.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile R20291] Length = 233 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 124/233 (53%), Gaps = 19/233 (8%) Query: 445 KKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 ++E+++ N+ LV S+A+K+ +G ++ DL+ G IGL+ A KFD G KFS+Y+ Sbjct: 3 REELIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDAEKGAKFSSYSYI 62 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--- 559 +K AI I +QS I H K++K R ++ +K+ REPT EIAK+L + Sbjct: 63 KIKSAILDEIRNQSP---ISKHNLTKVNKYNRVVEKLQSKLLREPTSYEIAKELNVSEKE 119 Query: 560 ---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +E +L I +SL I ++ + D I D+ +P + + E ++ Sbjct: 120 LHDIESNIDMLNI----VSLNYVIFEDTNETVQDVISDREEEAPENIIEEEEKLEILSKA 175 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +++L RE+ +L + + D L+E+GK V+ R+ Q+ K+IR L++ Sbjct: 176 ISNLNEREKLILSLYYY----EDLNLKEIGKVLGVSESRVSQLHRKSIRNLRN 224 >gi|71083311|ref|YP_266030.1| RNA polymerase factor sigma-32 [Candidatus Pelagibacter ubique HTCC1062] gi|71062424|gb|AAZ21427.1| RNA polymerase sigma-32 factor (rpoH) RP303 [Candidatus Pelagibacter ubique HTCC1062] Length = 293 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 77/247 (31%), Positives = 130/247 (52%), Gaps = 13/247 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 47 AAEKLVTSHLRLVAKIAMGYRGYGLPVNEMISEGNVGLMQAVKKFEPEKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT----PE---EIAKKL 556 ++ +I I ++I K K+ +++ N+I + PE EIA KL Sbjct: 107 IRASIQEYILRSWSLVKIGTTTAQK--KLFFNLKKIKNQIAPQSEGDLRPEHVTEIANKL 164 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + +++ + SL +G ED D++ DK L A Q + + Sbjct: 165 DVNKDEVISMNRRLSGKEFSLNAQVG-EDGDEWQDWLVDKELDHDLKFAHQEEMGQRQNL 223 Query: 616 VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL-KHPSRS 673 + S+ ER + + +N + TLE++ K++ ++RER+RQIE KA KL KH S Sbjct: 224 LKDSIKILNEREKEILYSRRLNDEPTTLEDLSKKYKISRERVRQIENKAFEKLQKHMLLS 283 Query: 674 KKLRSFL 680 K ++ L Sbjct: 284 AKSKNLL 290 >gi|239827600|ref|YP_002950224.1| sporulation sigma factor SigF [Geobacillus sp. WCH70] gi|239807893|gb|ACS24958.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. WCH70] Length = 250 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 73/253 (28%), Positives = 127/253 (50%), Gaps = 17/253 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 +T I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 9 QTPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEPDDLFQIGC 65 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R I D T+++ +++ +K+ + Sbjct: 66 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKEMGNKIRKAKDE 124 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S K R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 125 LSKKQGRAPTVTEIADYLEISPEDVVLAQEAIRSPASIHETVYENDGDPITLLDQIADSD 184 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 VS D + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 185 EVSWFDKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVASRLGISQVQV 233 Query: 657 RQIEAKAIRKLKH 669 ++E K ++++K Sbjct: 234 SRLEKKILQQIKE 246 >gi|126697838|ref|YP_001086735.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile 630] gi|255099435|ref|ZP_05328412.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile QCD-63q42] gi|115249275|emb|CAJ67088.1| RNA polymerase sigma-28factor for flagellar operon [Clostridium difficile] Length = 233 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 124/233 (53%), Gaps = 19/233 (8%) Query: 445 KKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 ++E+++ N+ LV S+A+K+ +G ++ DL+ G IGL+ A KFD G KFS+Y+ Sbjct: 3 REELIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDAEKGAKFSSYSYI 62 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--- 559 +K AI I +QS I H K++K R ++ +K+ REPT EIAK+L + Sbjct: 63 KIKSAILDEIRNQSP---ISKHNLTKVNKYNRVVEKLQSKLLREPTSYEIAKELKVSEKE 119 Query: 560 ---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +E +L I +SL I ++ + D I D+ +P + + E ++ Sbjct: 120 LHDIESNIDMLNI----VSLNYVIFEDTNETVQDVISDREEEAPENIIEEEEKLEILSKA 175 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +++L RE+ +L + + D L+E+GK V+ R+ Q+ K+IR L++ Sbjct: 176 ISNLNEREKLILSLYYY----EDLNLKEIGKVLGVSESRVSQLHRKSIRNLRN 224 >gi|255305293|ref|ZP_05349465.1| RNA polymerase sigma factor for flagellar operon [Clostridium difficile ATCC 43255] Length = 233 Score = 98.2 bits (243), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 124/233 (53%), Gaps = 19/233 (8%) Query: 445 KKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 ++E+++ N+ LV S+A+K+ +G ++ DL+ G IGL+ A KFD G KFS+Y+ Sbjct: 3 REELIKENMPLVKSIARKFFIPGKGFEYQDLVNSGVIGLIDAINKFDTEKGAKFSSYSYI 62 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP--- 559 +K AI I +QS I H K++K R ++ +K+ REPT EIAK+L + Sbjct: 63 KIKSAILDEIRNQSP---ISKHNLTKVNKYNRVVEKLQSKLLREPTSYEIAKELKVSEKE 119 Query: 560 ---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +E +L I +SL I ++ + D I D+ +P + + E ++ Sbjct: 120 LHDIESNIDMLNI----VSLNYVIFEDTNETVQDVISDREEEAPENIIEEEEKLEILSKA 175 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +++L RE+ +L + + D L+E+GK V+ R+ Q+ K+IR L++ Sbjct: 176 ISNLNEREKLILSLYYY----EDLNLKEIGKVLGVSESRVSQLHRKSIRNLRN 224 >gi|329910210|ref|ZP_08275256.1| RNA polymerase sigma factor RpoH [Oxalobacteraceae bacterium IMCC9480] gi|327546240|gb|EGF31276.1| RNA polymerase sigma factor RpoH [Oxalobacteraceae bacterium IMCC9480] Length = 298 Score = 98.2 bits (243), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 128/239 (53%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + MV ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 61 AAQGMVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMP 559 +K + I +++ + K+ +R+ + + + TP E +A+ L + Sbjct: 121 IKAEMHEYILKNWRLVKVATTKAQRKLFFNLRSHKTGLDSM----TPAQVEALAQTLNVK 176 Query: 560 VEGVRKV-LKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRET--TT 614 E V ++ +++ I+LE P DED + + D+N + + A Q + ++ + Sbjct: 177 REEVIEMETRLSGRDIALEAPTDDEDDKFAPIAYLSSDRNEPTNVLEAQQYDRLQSDGLS 236 Query: 615 RVLASLTPREERVLRMRF-----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R R++ R+ G G TL E+ K+F V+ ERIRQIEA A++K+K Sbjct: 237 QALNKLDERSRRIVEARWLANDDGSGA----TLHELAKEFGVSAERIRQIEAVALKKMK 291 >gi|326790567|ref|YP_004308388.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium lentocellum DSM 5427] gi|326541331|gb|ADZ83190.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium lentocellum DSM 5427] Length = 239 Score = 98.2 bits (243), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 126/242 (52%), Gaps = 12/242 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H + ++++ + IAK +V+ NL LV S+ ++++NRG DL Q G+IGL+K+ +KF Sbjct: 3 HTLELIQRAQQGDEIAKNILVQENLGLVWSLVRRFSNRGYDMEDLFQIGSIGLLKSIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +KV + ++ REPT Sbjct: 63 DLSFNVKFSTYAVPMIVGEIKRFLRDDGM-IKVSRSLKETAYKVRILKDELIRELNREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 EIA L + VE V + L+ E SL I GD L D I++ V L +++ Sbjct: 122 ISEIAAGLDLQVEEVVEALESNAEIESLNAVIYQGDGKPITLSDKIDE---VPTLQNSLV 178 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + T ++ L P E ++ MR+ D T E+ +++ ++ +IE + ++K Sbjct: 179 DKM--ILTELIERLLPIEREIIHMRYF----EDRTQTEIASALDISQVQVSRIEKRILKK 232 Query: 667 LK 668 ++ Sbjct: 233 MR 234 >gi|206559184|ref|YP_002229944.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia J2315] gi|198035221|emb|CAR51095.1| RNA polymerase sigma-32 factor [Burkholderia cenocepacia J2315] Length = 311 Score = 98.2 bits (243), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|158425877|ref|YP_001527169.1| RNA polymerase factor sigma-32 [Azorhizobium caulinodans ORS 571] gi|158332766|dbj|BAF90251.1| sigma-70 factor [Azorhizobium caulinodans ORS 571] Length = 300 Score = 98.2 bits (243), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 123/239 (51%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ ++I R ++IA KL Sbjct: 109 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQISALEEGDLRPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLG---DFIEDKNA---VSPLDSAIQANLR 610 + + V + + SL P+ ED G D+++D + + ++S N R Sbjct: 167 GVTEQDVVDMNRRLSGDASLNAPL-REDGDGGGEWQDWLQDDHQDQETNLVESEELDNRR 225 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + LA L PRE R+ R ++ D TLEE+ +F V+RER+RQIE +A K++ Sbjct: 226 TALSSALAVLNPRERRIFEAR---RLSEDPVTLEELAAEFGVSRERVRQIEVRAFEKVQ 281 >gi|326794299|ref|YP_004312119.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas mediterranea MMB-1] gi|326545063|gb|ADZ90283.1| RNA polymerase, sigma 70 subunit, RpoD [Marinomonas mediterranea MMB-1] Length = 610 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 63/148 (42%), Positives = 86/148 (58%), Gaps = 8/148 (5%) Query: 25 DFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DG 80 D K++I +++GY+T E+N LP D EQ+E+ VAM+++MGI V D Sbjct: 3 DTQQSRLKELIAKGKEQGYLTFTEVNDHLPDDLSDPEQVEEIVAMINDMGIVVSEYAPDK 62 Query: 81 DDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEI 140 + L EEG DS D ++ ++ D A T DPVRMY+REMG++ELL+R GEI Sbjct: 63 ESLLMEEG--DSTDEEAAEEAAAALAAVEGDVA--RTTDPVRMYMREMGTVELLTRAGEI 118 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALI 168 AIAKRIE G +MASL P L+ Sbjct: 119 AIAKRIEEGTREVMASLSYFPGAVDVLL 146 >gi|260589168|ref|ZP_05855081.1| RNA polymerase sigma-G factor [Blautia hansenii DSM 20583] gi|260540249|gb|EEX20818.1| RNA polymerase sigma-G factor [Blautia hansenii DSM 20583] Length = 266 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 130/242 (53%), Gaps = 17/242 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G+ EA +++ ++ NLRLV+SV K++++ DL Q G +GL+KA + FD L Sbjct: 38 IKEGDPEA---REQYIKGNLRLVLSVIKRFSSSNENADDLFQIGCVGLIKAIDNFDTTLN 94 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D + IR+ +RD +K + + +EPT EIA Sbjct: 95 VKFSTYAVPMIIGEIRRYLRDNNA-IRVSRSLRDVAYKAIYAKENYVKQNLKEPTINEIA 153 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLR 610 +++ + E + L + P+SL P+ E DT ++ D I DK + D+ I+ L+ Sbjct: 154 EEIGIDKEEIVYALDAIQSPVSLYEPVYTEGGDTLYVMDQISDKK--NKEDNWIENIALK 211 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L L RE+ ++ MRF G EE+G +++ ++ ++E A++ +++ Sbjct: 212 EA----LKKLDDREQHIVTMRFYEGKTQMEVAEEIG----ISQAQVSRLEKHALKTMRNY 263 Query: 671 SR 672 R Sbjct: 264 LR 265 >gi|294788977|ref|ZP_06754217.1| alternative sigma factor RpoH [Simonsiella muelleri ATCC 29453] gi|294483079|gb|EFG30766.1| alternative sigma factor RpoH [Simonsiella muelleri ATCC 29453] Length = 289 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 84/291 (28%), Positives = 152/291 (52%), Gaps = 24/291 (8%) Query: 385 SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 ++A P G ++ + N I +S+E ++E R + +G+ EA+ Sbjct: 4 AFALPIPSGH------GSLEQYIHTVNAIPMLSLEEETKLAE-RQL-----RGDIEAA-- 49 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++F+ G + ++A+ W+ Sbjct: 50 -KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRFEPVHGARLFSFAVHWI 108 Query: 505 KQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 K I I +RI + K+ +R+ R+ N + + +EIA L + + V Sbjct: 109 KAEIHEFILRNWRLVRIATTKPQRKLFFNLRSMRKSLNALSPKEA-QEIADDLGVKLTEV 167 Query: 564 RKV-LKITKEPISL--ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RETTTRVL 617 ++ ++T ++L E+ +ED+ D++ D ++ A QA+ E L Sbjct: 168 MEMEQRMTGNDVALLAESDDDNEDSFAPIDWLADNDSEPSQQIAKQAHYALQTEGLQNAL 227 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A L R R++ R+ + + TL ++ ++ V+ ERIRQIEAKA++KL+ Sbjct: 228 AQLDERSRRIVETRW-LADDGGLTLHDLAAEYGVSAERIRQIEAKAMQKLR 277 >gi|107023748|ref|YP_622075.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia AU 1054] gi|116690835|ref|YP_836458.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia HI2424] gi|170734160|ref|YP_001766107.1| RNA polymerase factor sigma-32 [Burkholderia cenocepacia MC0-3] gi|254247164|ref|ZP_04940485.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] gi|105893937|gb|ABF77102.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia AU 1054] gi|116648924|gb|ABK09565.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia HI2424] gi|124871940|gb|EAY63656.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] gi|169817402|gb|ACA91985.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia cenocepacia MC0-3] Length = 311 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKSMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|86747581|ref|YP_484077.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris HaA2] gi|86570609|gb|ABD05166.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] Length = 299 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 121/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMHPDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + + SL PI D+ + D++ D+ SP A+ A E R Sbjct: 167 GVTEQDVIDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDQ---SPNQEAVMAEHEELDHR 223 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALNGAIGVLNPRERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|221211178|ref|ZP_03584157.1| alternative sigma factor RpoH [Burkholderia multivorans CGD1] gi|221168539|gb|EEE01007.1| alternative sigma factor RpoH [Burkholderia multivorans CGD1] Length = 281 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 42 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 102 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKR 158 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 159 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 218 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 219 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 274 >gi|118588309|ref|ZP_01545718.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118439015|gb|EAV45647.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 294 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 75/251 (29%), Positives = 123/251 (49%), Gaps = 17/251 (6%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A + +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G+ Sbjct: 39 RYKEHEDPEAAERLVNSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K AI I +++ K ++ RR+ KI+ + Sbjct: 99 RLATYAMWWIKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGKIQALDEGDLKPH 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 EIA KL + E V + + SL P+ + D D++ D++ A Q Sbjct: 157 QVSEIATKLGVSEEEVVSMNRRLGGDASLNAPVRAEADAGEWQDWLVDESDSQETLLANQ 216 Query: 607 ANL---RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAK 662 L R+ + L RE R+ R ++ D TLE++ +F V+RER+RQIE + Sbjct: 217 EELDMRRKMLNDAMDVLNERERRIFEAR---RLSEDPMTLEDLSGEFGVSRERVRQIEVR 273 Query: 663 AIRKLKHPSRS 673 A K++ R+ Sbjct: 274 AFEKVQKAVRN 284 >gi|27382448|ref|NP_773977.1| RNA polymerase factor sigma-32 [Bradyrhizobium japonicum USDA 110] gi|1834373|emb|CAA70697.1| rpoH2 [Bradyrhizobium japonicum] gi|27355619|dbj|BAC52602.1| sigma32-like transcription factor [Bradyrhizobium japonicum USDA 110] Length = 299 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 118/239 (49%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHQLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ +KI R IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKINALDEGDLRPDQVATIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + + V + + SL PI D+ + D++ D +P A+ A + Sbjct: 167 GVTDQDVIDMNRRLGGDASLNAPIRDDGEAGEWQDWLVDN---TPNQEAMMAEHEEYDHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RDALNGAMGVLNPRERRIFEARRLA--DEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|327314688|ref|YP_004330125.1| sigma-70, region 4 [Prevotella denticola F0289] gi|326944846|gb|AEA20731.1| sigma-70, region 4 [Prevotella denticola F0289] Length = 228 Score = 97.8 bits (242), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 73/261 (27%), Positives = 127/261 (48%), Gaps = 41/261 (15%) Query: 409 IRNE--IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 I NE I+ I+ +S E R + ++ G+ A +++ +ANL+ V+S+A +Y NR Sbjct: 2 IANEKYIEEIAGGQPLSDVEERTLAERIKVGDAHAL---EKLTKANLKYVVSLAHQYRNR 58 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL DLI EGNIG+M AA++FD G +F +A ++++A+ +I +Q+ R+P + + Sbjct: 59 GLGEDDLISEGNIGMMHAAQRFDGARGVRFVVFAAPYIRKAMEEAIKEQAALYRLPRNEK 118 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + R+ ++ S+ I + PV P+G + Sbjct: 119 N------RSEQKRSHAI-----------SIDQPV------------------PVGSSNNF 143 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L + +E+ NA + Q L + L L RE +V+ +G+ +T+ E Sbjct: 144 TLQNVLENDNAPHADEQLNQEILSAEIQKGLGVLNERERQVITCLYGLS-GIHYTMAEAA 202 Query: 647 KQFCVTRERIRQIEAKAIRKL 667 + + RER+RQI A+RKL Sbjct: 203 EHMGLKRERVRQIRDGALRKL 223 >gi|195970121|ref|NP_387362.2| RNA polymerase factor sigma-32 [Sinorhizobium meliloti 1021] gi|307302477|ref|ZP_07582234.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] gi|307316193|ref|ZP_07595637.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|8131943|gb|AAF73147.1|AF149031_2 sigma factor RpoH2 [Sinorhizobium meliloti] gi|10129889|dbj|BAB13518.1| sigma factor [Sinorhizobium meliloti] gi|187904236|emb|CAC47835.2| RNA polymerase sigma factor (Sigma-32) [Sinorhizobium meliloti 1021] gi|306898033|gb|EFN28775.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|306903147|gb|EFN33737.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] Length = 288 Score = 97.8 bits (242), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 126/240 (52%), Gaps = 21/240 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ +++RLVIS+A K+ + GL DL+QEG+IGL++AA +F+ +FSTYA WW Sbjct: 40 ARNKIAMSHMRLVISMAAKFRSFGLPMGDLVQEGHIGLLEAAARFEPSREVRFSTYATWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSN---KIKREPTPEEIAKKLAM 558 ++ ++ + +R K + R R++ ++ + EEIA L + Sbjct: 100 IRASMQDYVLRNWSIVRGGTSSAQKALFFNLRRLRARLAQGDRQLTSQAMHEEIAAALGV 159 Query: 559 PVEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL------ 609 + V+ + +++ SL+ PI GD D DF+ + +PL ++L Sbjct: 160 SLADVQTMDARLSGNDASLQAPIGSGDPDAGARLDFLASE---APLPDEQVSDLIDGERA 216 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L L+ RE +++R R + D TLEE+G +++ER+RQIE +A+ KL+ Sbjct: 217 RRWLQVALGELSEREMKIIRARR---LTEDGATLEELGVALGISKERVRQIETRALEKLR 273 >gi|113866384|ref|YP_724873.1| RNA polymerase factor sigma-32 [Ralstonia eutropha H16] gi|113525160|emb|CAJ91505.1| DNA-directed RNA polymerase sigma subunit (RpoH) [Ralstonia eutropha H16] Length = 308 Score = 97.8 bits (242), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 124/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 69 AARQMVMSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 128 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R+ ++ ++ TPE+ VE Sbjct: 129 IKAEIHEYVLKNWRMVKVATTKAQRKLFFNLRSHKQGAHTF----TPEQ--------VEA 176 Query: 563 VRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV----- 616 V + L + E + +ET + D + G + + +P+ A A+ TRV Sbjct: 177 VARELNVKPEEVMEMETRLSGGDLALEGQIDDGEEEFAPI--AYLADNHNEPTRVLEAKR 234 Query: 617 ------------LASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 235 HDRMQVEGLEEALGKLDERSRRIIEARWLHVEDDGSGGSTLH---ELADEFGVSAERIRQ 291 Query: 659 IEAKAIRKLK 668 IEA A++K+K Sbjct: 292 IEAAAMKKMK 301 >gi|153005080|ref|YP_001379405.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter sp. Fw109-5] gi|152028653|gb|ABS26421.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. Fw109-5] Length = 241 Score = 97.8 bits (242), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 74/241 (30%), Positives = 120/241 (49%), Gaps = 58/241 (24%) Query: 429 HIVSM-VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 H +++ RKG+ A K+++V NL V+++A+K ++ DLIQEGN+GLM+A EK Sbjct: 35 HALALRARKGDVRA---KQKLVRHNLAFVVAIARKQRRGTVRLDDLIQEGNVGLMRAVEK 91 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD G +FSTYA+WW++ I + + + T+R Sbjct: 92 FDPHAGTRFSTYAVWWIRAYIGKYLKEARSTVR--------------------------- 124 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQ 606 P G + + +SL++ I +E D +HL + IED + P D+ +Q Sbjct: 125 -----------PQSGT-----VAQPDLSLDSAIDEEGDATHL-ERIED-DGPGPEDTYLQ 166 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMN-----TDHTLEEVGKQFCVTRERIRQIEA 661 A E + V +L +R+ + + I N TLEE+GK++ V+RER+RQ+E Sbjct: 167 A---EGDSDVRDALGKVRKRIGELGWDIVHNRLEQDQPRTLEEIGKRWGVSRERVRQVEL 223 Query: 662 K 662 K Sbjct: 224 K 224 >gi|47570318|ref|ZP_00240965.1| RNA polymerase sigma-G factor [Bacillus cereus G9241] gi|47553027|gb|EAL11431.1| RNA polymerase sigma-G factor [Bacillus cereus G9241] Length = 257 Score = 97.8 bits (242), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 1 RNKVEICGVDTAKLPVLXNDEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 57 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 58 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 116 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 117 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 176 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 177 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 231 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 232 EIG----ISQAQVSRLEKSAIKQM 251 >gi|161523666|ref|YP_001578678.1| RNA polymerase factor sigma-32 [Burkholderia multivorans ATCC 17616] gi|189351565|ref|YP_001947193.1| RNA polymerase factor sigma-32 [Burkholderia multivorans ATCC 17616] gi|160341095|gb|ABX14181.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia multivorans ATCC 17616] gi|189335587|dbj|BAG44657.1| RNA polymerase sigma-32 factor [Burkholderia multivorans ATCC 17616] Length = 311 Score = 97.8 bits (242), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EDVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|167585406|ref|ZP_02377794.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia ubonensis Bu] Length = 311 Score = 97.4 bits (241), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|229013088|ref|ZP_04170253.1| RNA polymerase sigma-G factor [Bacillus mycoides DSM 2048] gi|229061509|ref|ZP_04198853.1| RNA polymerase sigma-G factor [Bacillus cereus AH603] gi|229168644|ref|ZP_04296366.1| RNA polymerase sigma-G factor [Bacillus cereus AH621] gi|228614800|gb|EEK71903.1| RNA polymerase sigma-G factor [Bacillus cereus AH621] gi|228717743|gb|EEL69393.1| RNA polymerase sigma-G factor [Bacillus cereus AH603] gi|228748342|gb|EEL98202.1| RNA polymerase sigma-G factor [Bacillus mycoides DSM 2048] Length = 259 Score = 97.4 bits (241), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 137/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D ++D+ + L+E R L RE+ ++R RF G E Sbjct: 179 DPIFVMDQLKDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKSAIKQM 253 >gi|163784595|ref|ZP_02179438.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] gi|159880134|gb|EDP73795.1| RNA polymerase sigma factor RpoS [Hydrogenivirga sp. 128-5-R1-1] Length = 154 Score = 97.4 bits (241), Expect = 7e-18, Method: Composition-based stats. Identities = 55/144 (38%), Positives = 89/144 (61%), Gaps = 3/144 (2%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K I+ IS E +++ +++G+ +A ++V+ANLR VI+VAK Y G+ F + Sbjct: 14 LKQIADIPLISPEEEKNLAKKIKEGDKQAL---DKLVKANLRFVINVAKNYIGYGVPFQE 70 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI GNIGL++AA++FD G +F +YA+WW+KQ+I ++I Q IRIP + ++ Sbjct: 71 LISAGNIGLIEAAKRFDPDRGVRFISYAIWWIKQSIFQTIQQQKDLIRIPHRTSNMAVRI 130 Query: 533 VRTARRMSNKIKREPTPEEIAKKL 556 + + K+ REPT +EI KL Sbjct: 131 DKVYLELKEKLGREPTYKEIKSKL 154 >gi|298715063|emb|CBJ27770.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family [Ectocarpus siliculosus] Length = 737 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 70/260 (26%), Positives = 129/260 (49%), Gaps = 29/260 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ---FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A++++V NL LV+S+A KY LIQEG IGL++AAE++D G++F+TYA Sbjct: 479 ARQKLVVCNLALVVSLANKYKRSHFDCGCLQTLIQEGTIGLIRAAERYDPSKGFRFTTYA 538 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +WW++ + S+ + I +P+ ++++ + V R+ ++ + REPT EE+A ++ + Sbjct: 539 IWWIEARLRVSVQTEERFIHVPMWVKNQYNTVHRSVPKLRKSLGREPTSEELAAQVE--I 596 Query: 561 EGVRKVLKITKE-------------------PISLETPIGDEDTSHLGDFIE--DKNAVS 599 + KV+ K P+ + TP+ D S + D ++ D + S Sbjct: 597 DTNSKVVVTPKRVEELETWVSFHRKHESLDVPLEVSTPV-PADCSTIEDGVKAPDPSTES 655 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + IQ + E+ + L+ + ++LRM+ G+G +E+ + + + Sbjct: 656 TSELEIQRDFLESC--LCQDLSKIQRKILRMKVGLGGEKGKNRQEISRALKMPFNNVISE 713 Query: 660 EAKAIRKLKHPSRSKKLRSF 679 E KA KL+ R SF Sbjct: 714 ERKAFYKLRGLQRGGGYPSF 733 >gi|330993273|ref|ZP_08317209.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] gi|329759675|gb|EGG76183.1| RNA polymerase sigma-32 factor [Gluconacetobacter sp. SXCC-1] Length = 298 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 123/251 (49%), Gaps = 32/251 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA+ ++V ++LRLV +A Y GL +LI EGNIG+M+A +FD G++ Sbjct: 42 KGDTEAA---HKLVTSHLRLVAKIAMGYRGYGLPVGELISEGNIGMMQAVRRFDPDRGFR 98 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPT 548 +TYAMWW++ AI I ++I K K+ RR+ +++ R Sbjct: 99 LATYAMWWIRAAIQEYILHSWSLVKIGTTAAQK--KLFFNLRRLKGQMQAIDDGDLRPEQ 156 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKN-------AVSP 600 +IA+ L +P + V + + P SL P+ + D++ D N A S Sbjct: 157 VNKIAQSLGVPEQDVVNMNRRLAAPDHSLNAPLRMDGEGEWQDWLVDDNDNQEETLAQSE 216 Query: 601 LDSAIQANLRETTTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 S QA L L +L RE +L R++ + TLE++ + ++RER+R Sbjct: 217 EYSGRQALL----ANALKTLNERERHILTERRLK-----DEPATLEDLSHVYNISRERVR 267 Query: 658 QIEAKAIRKLK 668 QIE +A KL+ Sbjct: 268 QIEVRAFEKLQ 278 >gi|209886261|ref|YP_002290118.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] gi|209874457|gb|ACI94253.1| alternative sigma factor RpoH [Oligotropha carboxidovorans OM5] Length = 299 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 119/248 (47%), Gaps = 21/248 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ +KI E + IAK+L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALEDGDMHEDQVKLIAKRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA------NL 609 + V + + SL PI D+ + D++ D SP I A + Sbjct: 167 GVTERDVIDMNRRLGGDASLNAPIRDDGEPGEWQDWLVD---TSPNQETIMAESEEYDHR 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R T + L PRE R+ R TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RNALTGAMGVLNPRERRIFEARRLA--EEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQA 281 Query: 670 PSRSKKLR 677 +S R Sbjct: 282 AVKSTVAR 289 >gi|291525265|emb|CBK90852.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium rectale DSM 17629] gi|291529276|emb|CBK94862.1| RNA polymerase, sigma subunit, RpsG/SigG [Eubacterium rectale M104/1] Length = 259 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 125/236 (52%), Gaps = 15/236 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++KG+ A+++ + NLRLV+SV ++++N DL Q G IGLMK+ + FD +G Sbjct: 31 IKKGD---KAAREKYIRGNLRLVLSVIRRFSNHNENMDDLFQIGCIGLMKSIDNFDPTIG 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + + R + D S RIP +RD ++ +++ ++S K+ +P+ EI+ Sbjct: 88 VKFSTYAVPMIIGEVRRYLRDNSAY-RIPRSLRDTAYQAIKSKEKLSRKLVHDPSLAEIS 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE 611 K +P + L + P+SL P+ + DT ++ D I DK + A NL Sbjct: 147 KDCGIPENDILYALDAIQTPLSLFDPVYTDGGDTLYVMDQISDKKNK---EEAWVKNLVL 203 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L R+ ++++RF G T EV ++ +++ ++ ++E A++ + Sbjct: 204 DDALKLLDDRARQ--IIKLRFFEG----KTQIEVAEEINISQAQVSRLEKNALKNM 253 >gi|149187051|ref|ZP_01865358.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] gi|148829340|gb|EDL47784.1| RNA polymerase sigma factor [Erythrobacter sp. SD-21] Length = 319 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 79/261 (30%), Positives = 125/261 (47%), Gaps = 30/261 (11%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S A ++V ++LRLV +A Y GL DLI EGN+GLM+ +KF+ G++ +TYAM Sbjct: 67 SEAAAQLVTSHLRLVSKIAMGYRGYGLPVSDLISEGNVGLMQGVKKFEADRGFRLATYAM 126 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-KREPTP------EEIAK 554 WW+K +I I +++ K K+ RRM + E T ++IA Sbjct: 127 WWIKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKKNLDAYEDTDLHPDDVQKIAT 184 Query: 555 KLAMPVEGVRKVLKITKEPI-----SLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQA 607 L +P + +V+ + + + SL P+ G+E + D++ D PL A Sbjct: 185 DLGVPEQ---EVVNMNRRMMMGGDGSLNVPMRNGEEGSGEWMDWLTDDR---PLQDETVA 238 Query: 608 NLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + E R + +L RE+ +L R TLEE+ + + V+RERIRQIE Sbjct: 239 DAEEKEVRHEMLGEAMEALNEREQHILTERRLT--ENPQTLEELSQVYNVSRERIRQIEV 296 Query: 662 KAIRKLKHPSRSKKLRSFLDG 682 +A KL+ ++ L G Sbjct: 297 RAFEKLQKAMKAIAGERLLPG 317 >gi|260892756|ref|YP_003238853.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ammonifex degensii KC4] gi|260864897|gb|ACX52003.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ammonifex degensii KC4] Length = 245 Score = 97.4 bits (241), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 72/228 (31%), Positives = 121/228 (53%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +V ANL LV V +++ +G + DL Q G IGL+KA ++FD G FSTYA+ Sbjct: 26 ARELLVRANLGLVGKVVRRFAGQGREGEDLFQIGCIGLLKAIDRFDPQRGTCFSTYAVAT 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +V+RT + + REP+ EIA+ L + VE V Sbjct: 86 ILGEIRRFLRDDG-MLKVSRSLKETSRRVIRTRASLKMALGREPSVAEIAESLGIAVEEV 144 Query: 564 RKVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L+ K P L+ P+ E L D + + S L++ +LRE+ R L Sbjct: 145 VMALEAGKAPAFLQEPLAGEGEEALCWEDCLSSEKEESWLET---LSLRESLRR----LP 197 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++ RF G +T EEV KQ +++ ++ ++E A++KL+ Sbjct: 198 AREREIIWWRFFAG----YTQEEVAKQLGISQAQVSRLERNALQKLRE 241 >gi|149183910|ref|ZP_01862298.1| sporulation sigma factor SigG [Bacillus sp. SG-1] gi|148848374|gb|EDL62636.1| sporulation sigma factor SigG [Bacillus sp. SG-1] Length = 227 Score = 97.4 bits (241), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 59/175 (33%), Positives = 98/175 (56%), Gaps = 8/175 (4%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ G+ A ++++V NLRLV+SV +++ N Sbjct: 14 RNKVEICGVDTSKLPVLKNEEMRKLFREMQAGDISA---REKLVNGNLRLVLSVIQRFNN 70 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD +FSTYA+ + I R + D + IR+ + Sbjct: 71 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVRFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 129 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 RD +K ++ ++ + +EPT EEIAK L +P E + + ++P+SL PI Sbjct: 130 RDIAYKALQVREKLMGETSKEPTAEEIAKVLDVPHEDIVFAMDAIQDPVSLFEPI 184 >gi|259416055|ref|ZP_05739975.1| RNA polymerase sigma-32 factor [Silicibacter sp. TrichCH4B] gi|259347494|gb|EEW59271.1| RNA polymerase sigma-32 factor [Silicibacter sp. TrichCH4B] Length = 292 Score = 97.4 bits (241), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 124/249 (49%), Gaps = 18/249 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL +S+A K+ G DLIQE +GLMKAAEKFD G +FSTYA+WW+K + Sbjct: 45 LITAYMRLAVSMASKFRRYGAPMNDLIQEAGLGLMKAAEKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + +MR ++ R A ++ R + +A+++ + Sbjct: 105 IQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLEREAESDGVELDRHKLHQMVAEEIGV 164 Query: 559 PVEGVRKV-LKITKEPISLET-PIGDEDTSHLGDFIEDKNAVSPLDSAI---QANLRETT 613 P+ V + ++ SL DED D +ED + + A + LRE Sbjct: 165 PLRDVEMMDGRLAGADFSLNAVQSADEDGREWIDALEDDSEQAAERVAADHDRRQLREWL 224 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP--S 671 L L RE ++R R TLE +G + +++ER+RQ+EA A K++ Sbjct: 225 VTALNGLNERERFIVRER--KLREESRTLESLGNELGLSKERVRQLEAAAFLKMRKSLEG 282 Query: 672 RSKKLRSFL 680 +S+++++FL Sbjct: 283 QSREVQNFL 291 >gi|221199969|ref|ZP_03573012.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2M] gi|221206876|ref|ZP_03579888.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2] gi|221173531|gb|EEE05966.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2] gi|221180208|gb|EEE12612.1| alternative sigma factor RpoH [Burkholderia multivorans CGD2M] Length = 311 Score = 97.4 bits (241), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 75/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPAQNVRLVSYAIHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPV 560 +K I I +++ K + + R K + TPEEI A++L + Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKR 188 Query: 561 EGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTR 615 E V ++ +++ I+LE + G+E + + + N + + +A Q ++ +T + Sbjct: 189 EEVTEMETRLSGGDIALEGQVEDGEESYAPIAYLADSHNEPTAVLAARQRDMLQTDGIAQ 248 Query: 616 VLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 249 ALDALDARSRRIIEARWLHVDDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|325860122|ref|ZP_08173248.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] gi|325482407|gb|EGC85414.1| RNA polymerase sigma factor RpoD family protein [Prevotella denticola CRIS 18C-A] Length = 228 Score = 97.4 bits (241), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 73/261 (27%), Positives = 127/261 (48%), Gaps = 41/261 (15%) Query: 409 IRNE--IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR 466 I NE I+ I+ +S E R + ++ G+ A +++ +ANL+ V+S+A +Y NR Sbjct: 2 IANEKYIEEIAGGQPLSDVEERTLAERIKVGDAHAL---EKLTKANLKYVVSLAHQYRNR 58 Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 GL DLI EGNIG+M AA++FD G +F +A ++++A+ +I +Q+ R+P + + Sbjct: 59 GLGEDDLISEGNIGMMHAAQRFDGTRGVRFVVFAAPYIRKAMEEAIKEQAVLYRLPRNEK 118 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS 586 + R+ ++ S+ I + PV P+G + Sbjct: 119 N------RSEQKRSHAI-----------SIDQPV------------------PVGSSNNF 143 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L + +E+ NA + Q L + L L RE +V+ +G+ +T+ E Sbjct: 144 TLQNVLENDNAPHADEQLNQEILSAEIQKGLGVLNERERQVITCLYGLS-GIHYTMAEAA 202 Query: 647 KQFCVTRERIRQIEAKAIRKL 667 + + RER+RQI A+RKL Sbjct: 203 EHMGLKRERVRQIRDGALRKL 223 >gi|308273291|emb|CBX29894.1| RNA polymerase sigma-32 factor [uncultured Desulfobacterium sp.] Length = 298 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 76/236 (32%), Positives = 128/236 (54%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A E+V +NLRLV+ +A ++ +Q LDLIQEGNIGLM+A KFD KFS YA + Sbjct: 55 AAYEIVTSNLRLVVKIALEFQRIWMQNLLDLIQEGNIGLMQAVRKFDPYKNVKFSYYASF 114 Query: 503 WVKQAITRSIADQSCTIRIPVH--MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP- 559 W+K I + I D ++I R K+ + + + ++ +P P+ ++++L + Sbjct: 115 WIKAYILKFIMDNWRLVKIGTTQGQRKLFFKLKKEKQDLIDQ-GFDPKPKLLSERLGVTE 173 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFI-------EDKNAVSPLDSAIQANLRET 612 E V ++ +SL TP+ D+ S +FI E++ A +D+ I + + E Sbjct: 174 KEIVDMDQRLDGWDVSLNTPLSDDSDSEKIEFISYDSDSAEEQVAKKQMDNLIYSKIDE- 232 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L +T RE + +R I + TL+E+G ++ ++RER+RQ+E I K++ Sbjct: 233 -FRKL--MTKRENEIFDLR--IFSDNPVTLQEIGDRYGISRERVRQLEKNIITKMR 283 >gi|222149598|ref|YP_002550555.1| RNA polymerase factor sigma-32 [Agrobacterium vitis S4] gi|221736580|gb|ACM37543.1| alternative sigma factor RpoH [Agrobacterium vitis S4] Length = 300 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 119/238 (50%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K ++ RR+ KI+ + EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGKIQAIEEGDLKPDQVTEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET-- 612 + E V + + SL PI + ++ D++ D + S D+ I+ + ET Sbjct: 167 KVSEEEVISMNRRLSGDASLNAPIRASEGESGQWQDWLVDDHD-SQEDTLIEQDELETRR 225 Query: 613 --TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +R + L RE R+ R TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 NMLSRAMGVLNDRERRIFAARR--LAEEPVTLEELSSEFDISRERVRQIEVRAFEKVQ 281 >gi|30263905|ref|NP_846282.1| sporulation sigma factor SigG [Bacillus anthracis str. Ames] gi|47778237|ref|YP_020684.2| sporulation sigma factor SigG [Bacillus anthracis str. 'Ames Ancestor'] gi|165872304|ref|ZP_02216941.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0488] gi|167641114|ref|ZP_02399369.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0193] gi|170688856|ref|ZP_02880059.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0465] gi|170708817|ref|ZP_02899253.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0389] gi|177654919|ref|ZP_02936636.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0174] gi|190565736|ref|ZP_03018655.1| RNA polymerase sigma-G factor [Bacillus anthracis Tsiankovskii-I] gi|196035947|ref|ZP_03103349.1| RNA polymerase sigma-G factor [Bacillus cereus W] gi|196045922|ref|ZP_03113151.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB108] gi|206976720|ref|ZP_03237624.1| RNA polymerase sigma-G factor [Bacillus cereus H3081.97] gi|217961324|ref|YP_002339892.1| sporulation sigma factor SigG [Bacillus cereus AH187] gi|218233406|ref|YP_002368703.1| sporulation sigma factor SigG [Bacillus cereus B4264] gi|218905033|ref|YP_002452867.1| RNA polymerase sigma-G factor [Bacillus cereus AH820] gi|225865885|ref|YP_002751263.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB102] gi|227813187|ref|YP_002813196.1| RNA polymerase sigma-G factor [Bacillus anthracis str. CDC 684] gi|228916541|ref|ZP_04080107.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229140552|ref|ZP_04269107.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST26] gi|229152101|ref|ZP_04280296.1| RNA polymerase sigma-G factor [Bacillus cereus m1550] gi|229157482|ref|ZP_04285559.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 4342] gi|229174570|ref|ZP_04302100.1| RNA polymerase sigma-G factor [Bacillus cereus MM3] gi|229198015|ref|ZP_04324729.1| RNA polymerase sigma-G factor [Bacillus cereus m1293] gi|229602177|ref|YP_002868139.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0248] gi|254721437|ref|ZP_05183226.1| sporulation sigma factor SigG [Bacillus anthracis str. A1055] gi|30258549|gb|AAP27768.1| RNA polymerase sigma-G factor [Bacillus anthracis str. Ames] gi|47551942|gb|AAT33159.2| RNA polymerase sigma-G factor [Bacillus anthracis str. 'Ames Ancestor'] gi|164711980|gb|EDR17520.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0488] gi|167510894|gb|EDR86285.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0193] gi|170126302|gb|EDS95193.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0389] gi|170667211|gb|EDT17971.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0465] gi|172080430|gb|EDT65517.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0174] gi|190562655|gb|EDV16621.1| RNA polymerase sigma-G factor [Bacillus anthracis Tsiankovskii-I] gi|195991596|gb|EDX55562.1| RNA polymerase sigma-G factor [Bacillus cereus W] gi|196023362|gb|EDX62040.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB108] gi|206745030|gb|EDZ56433.1| RNA polymerase sigma-G factor [Bacillus cereus H3081.97] gi|217067470|gb|ACJ81720.1| RNA polymerase sigma-G factor [Bacillus cereus AH187] gi|218161363|gb|ACK61355.1| RNA polymerase sigma-G factor [Bacillus cereus B4264] gi|218537241|gb|ACK89639.1| RNA polymerase sigma-G factor [Bacillus cereus AH820] gi|225788717|gb|ACO28934.1| RNA polymerase sigma-G factor [Bacillus cereus 03BB102] gi|227002358|gb|ACP12101.1| RNA polymerase sigma-G factor [Bacillus anthracis str. CDC 684] gi|228585494|gb|EEK43598.1| RNA polymerase sigma-G factor [Bacillus cereus m1293] gi|228608875|gb|EEK66167.1| RNA polymerase sigma-G factor [Bacillus cereus MM3] gi|228625932|gb|EEK82682.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 4342] gi|228631450|gb|EEK88084.1| RNA polymerase sigma-G factor [Bacillus cereus m1550] gi|228643113|gb|EEK99389.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST26] gi|228843120|gb|EEM88202.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229266585|gb|ACQ48222.1| RNA polymerase sigma-G factor [Bacillus anthracis str. A0248] Length = 259 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNDEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 179 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKSAIKQM 253 >gi|254439883|ref|ZP_05053377.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] gi|198255329|gb|EDY79643.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] Length = 292 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 128/253 (50%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMASKFRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + ++R ++ R A + + R + IA Sbjct: 101 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNLRRVQARLEREAMKRGETLDRHDMRQMIAT 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIED---KNAVSPLDSAIQANL 609 ++ +P+ V + +++ SL ED D +ED + A + +S L Sbjct: 161 EVGVPLRDVEMMEGRLSGSDFSLNATQSSEDEGREWIDALEDDGEQAAETVQNSHDTDTL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ L +L+ RE+ ++R R + TLE +G + +++ER+RQ+EA A K++ Sbjct: 221 RQWLLTALTALSDREQFIVRER--KLRDAPRTLESLGTELGLSKERVRQLEAAAFGKMRK 278 Query: 670 P--SRSKKLRSFL 680 +S ++ +FL Sbjct: 279 SLEGQSHEVHNFL 291 >gi|30021992|ref|NP_833623.1| sporulation sigma factor SigG [Bacillus cereus ATCC 14579] gi|206971353|ref|ZP_03232304.1| RNA polymerase sigma-G factor [Bacillus cereus AH1134] gi|218899057|ref|YP_002447468.1| RNA polymerase sigma-G factor [Bacillus cereus G9842] gi|228902409|ref|ZP_04066563.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 4222] gi|228909729|ref|ZP_04073552.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 200] gi|228922656|ref|ZP_04085956.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228940992|ref|ZP_04103550.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954180|ref|ZP_04116208.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960121|ref|ZP_04121785.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228966857|ref|ZP_04127901.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar sotto str. T04001] gi|229019106|ref|ZP_04175941.1| RNA polymerase sigma-G factor [Bacillus cereus AH1273] gi|229025350|ref|ZP_04181768.1| RNA polymerase sigma-G factor [Bacillus cereus AH1272] gi|229047588|ref|ZP_04193178.1| RNA polymerase sigma-G factor [Bacillus cereus AH676] gi|229071403|ref|ZP_04204625.1| RNA polymerase sigma-G factor [Bacillus cereus F65185] gi|229081156|ref|ZP_04213666.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-2] gi|229104466|ref|ZP_04235133.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-28] gi|229111373|ref|ZP_04240926.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-15] gi|229129181|ref|ZP_04258154.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-Cer4] gi|229146475|ref|ZP_04274846.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST24] gi|229162839|ref|ZP_04290796.1| RNA polymerase sigma-G factor [Bacillus cereus R309803] gi|229180179|ref|ZP_04307523.1| RNA polymerase sigma-G factor [Bacillus cereus 172560W] gi|229192073|ref|ZP_04319042.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10876] gi|296504397|ref|YP_003666097.1| sporulation sigma factor SigG [Bacillus thuringiensis BMB171] gi|29897548|gb|AAP10824.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 14579] gi|206734125|gb|EDZ51296.1| RNA polymerase sigma-G factor [Bacillus cereus AH1134] gi|218543268|gb|ACK95662.1| RNA polymerase sigma-G factor [Bacillus cereus G9842] gi|228591399|gb|EEK49249.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10876] gi|228603388|gb|EEK60865.1| RNA polymerase sigma-G factor [Bacillus cereus 172560W] gi|228620721|gb|EEK77590.1| RNA polymerase sigma-G factor [Bacillus cereus R309803] gi|228637108|gb|EEK93567.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST24] gi|228654418|gb|EEL10283.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-Cer4] gi|228672149|gb|EEL27440.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-15] gi|228678908|gb|EEL33118.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-28] gi|228702200|gb|EEL54676.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-2] gi|228711694|gb|EEL63647.1| RNA polymerase sigma-G factor [Bacillus cereus F65185] gi|228723835|gb|EEL75190.1| RNA polymerase sigma-G factor [Bacillus cereus AH676] gi|228735935|gb|EEL86512.1| RNA polymerase sigma-G factor [Bacillus cereus AH1272] gi|228742206|gb|EEL92371.1| RNA polymerase sigma-G factor [Bacillus cereus AH1273] gi|228792956|gb|EEM40514.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228799637|gb|EEM46590.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805500|gb|EEM52091.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818671|gb|EEM64738.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228837085|gb|EEM82426.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228850018|gb|EEM94849.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 200] gi|228857153|gb|EEN01659.1| RNA polymerase sigma-G factor [Bacillus thuringiensis IBL 4222] gi|296325449|gb|ADH08377.1| sporulation sigma factor SigG [Bacillus thuringiensis BMB171] gi|326941673|gb|AEA17569.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar chinensis CT-43] Length = 259 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 179 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKSAIKQM 253 >gi|71909448|ref|YP_287035.1| RNA polymerase factor sigma-32 [Dechloromonas aromatica RCB] gi|71849069|gb|AAZ48565.1| RNA polymerase, sigma 32 subunit, RpoH [Dechloromonas aromatica RCB] Length = 286 Score = 97.1 bits (240), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/254 (30%), Positives = 127/254 (50%), Gaps = 40/254 (15%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LRLVIS+A+ Y GL DLIQEGNIGLMKA ++FD G + Sbjct: 45 GDVEAA---RQLVLSHLRLVISIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPSRGVRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT-----PEE 551 ++AM W+K I I +++ + K+ R M + + T E Sbjct: 102 VSFAMHWIKAEIHEYILKNWRLVKVATTKAQR--KLFFNLRSMKSGYEGIDTLSGTQAAE 159 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +A +L GV++ E + +ET + D + G+ + + A +P+D A+ R Sbjct: 160 VAARL-----GVKQ-----DEVVEMETRLSGRDIALDGNPDDGEEAFAPID--YLADSRY 207 Query: 612 TTTRV-----------------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 TRV L +L PR R++ R+ + TL ++ +F V+ E Sbjct: 208 EPTRVLENKAIARLQDEGLHEALEALDPRSRRIIEARW-LHDGETATLHDLADEFDVSAE 266 Query: 655 RIRQIEAKAIRKLK 668 RIRQIE KA++K++ Sbjct: 267 RIRQIEVKALQKMR 280 >gi|77464172|ref|YP_353676.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides 2.4.1] gi|126463015|ref|YP_001044129.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17029] gi|221640041|ref|YP_002526303.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides KD131] gi|332559048|ref|ZP_08413370.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] gi|77388590|gb|ABA79775.1| sigma factor RpoH2 (Sigma-32 group [Rhodobacter sphaeroides 2.4.1] gi|126104679|gb|ABN77357.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17029] gi|221160822|gb|ACM01802.1| RNA polymerase, sigma 32 subunit, RpoH precursor [Rhodobacter sphaeroides KD131] gi|332276760|gb|EGJ22075.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] Length = 292 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 78/261 (29%), Positives = 128/261 (49%), Gaps = 34/261 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A KY G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMASKYRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A + + E +A Sbjct: 101 IKASIQDYVMRNWSLVRTGSTSSQKALFFNMRRVQARLEREASQRGEALDAHQLREMVAH 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIEDKNAVSP------LDSAIQ 606 + +P+ V + +++ SL T D++ D +ED +A + LD+ Sbjct: 161 DVGVPLSDVEMMEGRLSGSDFSLNATQSADDEGREWIDALEDDSAQAAEVVEGSLDA--- 217 Query: 607 ANLRETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A LR + L RE ER LR + TLE +G++ +++ER+RQ+EA Sbjct: 218 ARLRGWLVSAMQQLNARERFIVTERKLR-------DVPRTLESLGEELKLSKERVRQLEA 270 Query: 662 KAIRKLKHP--SRSKKLRSFL 680 A K++ ++S+++ FL Sbjct: 271 AAFAKMRRSLEAQSREVHHFL 291 >gi|298293645|ref|YP_003695584.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] gi|296930156|gb|ADH90965.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] Length = 293 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/241 (31%), Positives = 126/241 (52%), Gaps = 28/241 (11%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A++RL I++A+++ N GL DLIQEG+IGLM+AA +F+ +F+TYA WW++ A Sbjct: 45 LIHAHMRLAIAIARRFRNYGLPMPDLIQEGHIGLMEAASRFETTHEVRFATYASWWIRAA 104 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR------EPTPEE----IAKKLA 557 I + +R K + RR+ +++R E T EE IA+KL Sbjct: 105 IQDYVLRNWSIVRGGTSSGQK--ALFFNLRRVRARLERANGGAGETTREEMHRSIAEKLG 162 Query: 558 MP-VEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPL-DSAIQANL---- 609 + +E R ++ +SL P+ G+ED + D + A PL D + + Sbjct: 163 VSEIEVARMDARLNVPDLSLNAPLSFGEEDGAERMDQL---VAADPLPDEQVSMEIDGER 219 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 R L L RE R++ R + D TLE +G++ +++ER+RQIE++AI KL Sbjct: 220 RRRWLQGALRGLNEREFRIIEARR---LTEDSETLEVLGERLGISKERVRQIESRAIEKL 276 Query: 668 K 668 + Sbjct: 277 R 277 >gi|318041080|ref|ZP_07973036.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like protein [Synechococcus sp. CB0101] Length = 279 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 128/235 (54%), Gaps = 25/235 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQF----LDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A + +V ANLRLV++VA +Y R +DL+Q GN+GL++AAEK+D GYKFSTY Sbjct: 50 ALQRIVTANLRLVVTVALRYIRRLKHLAHDPMDLVQAGNLGLLRAAEKYDPTRGYKFSTY 109 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN--KIKREP-TPEEIAKKL 556 WW++Q+I R + + S +IRIPV++ V A R + ++ P + E++A+ L Sbjct: 110 GYWWIRQSINRYLQEHSGSIRIPVNL-------VSLANRADSLQSLRSHPMSVEQLAEAL 162 Query: 557 AMPVEGVRKVLKITK--EPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + + I +SL+ + G + L D + D + PL I + R Sbjct: 163 QESPQRLLYAMAIQHRSNTVSLDQQLSGSDGDMTLLDTVTDDH--QPL---ITDDYRWMH 217 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ TP E V+++R+ G + + EV + ++++++++E A+ KL+ Sbjct: 218 SQLQHLSTP-ELTVIQLRY--GEDKQRSFAEVARLIGRSKDQVQRLERHALTKLR 269 >gi|73540031|ref|YP_294551.1| RNA polymerase factor sigma-32 [Ralstonia eutropha JMP134] gi|72117444|gb|AAZ59707.1| Sigma-70 region 2 [Ralstonia eutropha JMP134] Length = 309 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 131/240 (54%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 70 AARQLVMSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPNQGVRLVSYAMHW 129 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMP 559 +K I + +++ + K+ +R+ ++ S+ TPE+I A+ L + Sbjct: 130 IKAEIHEYVLKNWRMVKVATTKAQRKLFFNLRSHKQGSHTF----TPEQIEAVARDLNVK 185 Query: 560 VEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKN-AVSPLDSAIQANLR-ETTT 614 E V ++ +++ ++LE + G+E+ + + ++ N L++ Q ++ E Sbjct: 186 PEEVMEMETRMSGGDLALEGQVDDGEEEFAPIAYLADNHNEPTRVLEAKRQDRMQVEGLE 245 Query: 615 RVLASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ +N + TL E+ +F V+ ERIRQIE A++K+K Sbjct: 246 EALARLDERSRRIIEARW---LNVEDDGSGGATLHELADEFGVSAERIRQIEVAAMKKMK 302 >gi|15889716|ref|NP_355397.1| RNA polymerase factor sigma-32 [Agrobacterium tumefaciens str. C58] gi|15157628|gb|AAK88182.1| RNA polymerase sigma-32 factor [Agrobacterium tumefaciens str. C58] Length = 300 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 127/249 (51%), Gaps = 20/249 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + ++ D++ D + S I+ + ET Sbjct: 167 QVSEEEVISMNRRLHGDASLNAPIKASEGESGQWQDWLVDDHE-SQEAVLIEQDELETRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMGVLNERERRIFEAR---RLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQE 282 Query: 670 PSRSKKLRS 678 + + L + Sbjct: 283 AVQKEALEA 291 >gi|84499725|ref|ZP_00998013.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84392869|gb|EAQ05080.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 292 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 122/246 (49%), Gaps = 30/246 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V A +RL IS+A KY G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLVTAYMRLAISMASKYRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR K+ R A + + + +A Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAKLEREALGRGETLDKHQLHQLVAM 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN---- 608 ++ +P+ V+ + +++ SL T DE+ D IED + A++A+ Sbjct: 161 EVGVPLRDVQMMDGRLSGSDFSLNATQSVDEEGREWIDTIEDDGVQAA--EAVEADHDRE 218 Query: 609 -LRETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 LR ++ L RE ER LR + TLE +G++ +++ER+RQ+EA Sbjct: 219 TLRLWLAEAMSDLNDRETLIVTERKLR-------DAPRTLESLGQELGLSKERVRQLEAA 271 Query: 663 AIRKLK 668 A +K++ Sbjct: 272 AFKKMR 277 >gi|260431476|ref|ZP_05785447.1| RNA polymerase sigma-32 factor [Silicibacter lacuscaerulensis ITI-1157] gi|260415304|gb|EEX08563.1| RNA polymerase sigma-32 factor [Silicibacter lacuscaerulensis ITI-1157] Length = 292 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 126/260 (48%), Gaps = 32/260 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A ++ R + IA Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAASDGVELDRHQLHQMIAA 160 Query: 555 KLAMPVEGVRKVL-KITKEPISLET-PIGDEDTSHLGDFIEDKNAVSPLDSAIQA----- 607 ++ +P+ V + ++ SL DED D +ED DSA A Sbjct: 161 EIGVPLRDVEMMHGRLAGSDFSLNAVQSADEDGREWIDALED-------DSAQAAELVEH 213 Query: 608 -----NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 LRE + +L RE ++R R + TLE +G++ +++ER+RQ+EA Sbjct: 214 GHDTRQLREWLITAMQALNERERFIVRER--KLRDPARTLESLGQELGLSKERVRQLEAA 271 Query: 663 AIRKLKHP--SRSKKLRSFL 680 A K++ +S++++ FL Sbjct: 272 AFAKMRKSLEGQSREVQHFL 291 >gi|83592446|ref|YP_426198.1| RNA polymerase factor sigma-32 [Rhodospirillum rubrum ATCC 11170] gi|83575360|gb|ABC21911.1| Sigma 32 (RpoH) [Rhodospirillum rubrum ATCC 11170] Length = 299 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 121/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPMGEVISEGNVGLMQAVKRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPE---EIAKKL 556 ++ AI I +++ K K+ R+M +++ + P+ +IA KL Sbjct: 109 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRKMKGQLQLMDEGDMHPDKVTQIATKL 166 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKN---AVSPLDSAIQANLRET 612 +P + V + + P SL P+ + D++ D++ + +S R Sbjct: 167 GVPEQDVINMNRRLSSPDHSLNAPVRMDGDGEWQDWLVDESDDQETTLAESQEMGQRRAL 226 Query: 613 TTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L SL RE +L R+R + TLE++ + + ++RER+RQIE +A KL+ Sbjct: 227 LSGALKSLNERERHILTQRRLR-----DDPVTLEDLSQHYGISRERVRQIEVRAFEKLQ 280 >gi|167755749|ref|ZP_02427876.1| hypothetical protein CLORAM_01264 [Clostridium ramosum DSM 1402] gi|167704688|gb|EDS19267.1| hypothetical protein CLORAM_01264 [Clostridium ramosum DSM 1402] Length = 258 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 117/228 (51%), Gaps = 14/228 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K +V N +LV+S+A+++ R DL Q G IGL+KA E F+ G KFSTYA+ + Sbjct: 39 KDRLVNDNTKLVLSMARRFYGREDSMDDLFQVGMIGLIKAIENFNTSFGLKFSTYAVPLI 98 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R + D + I+I +RD +KV++ K+ REPT E+A +L + V Sbjct: 99 IGEMKRYLRD-NHQIKISRSIRDLAYKVLKVKDSYITKLNREPTINELANELEVEPSAVI 157 Query: 565 KVLKITKEPISLETPIGDEDTSHLG---DFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L T SL+ + ++D ++L +DK VS + I L SL Sbjct: 158 EALLSTNSVSSLQEEVKNDDGNNLKMIDSITDDKTVVSRTNETIDL------YDALKSLN 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +E RV++ R+ G++ E+ K+ +++ ++ +IE KA+ L + Sbjct: 212 QKEHRVIKQRYFEGLSQ----SEIAKELFISQAQVSRIERKALDNLHN 255 >gi|301155494|emb|CBW14960.1| RNA polymerase, sigma 32 (sigma H) factor [Haemophilus parainfluenzae T3T1] Length = 280 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 78/276 (28%), Positives = 145/276 (52%), Gaps = 25/276 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ ++ NE ++ E S++E + G+ EA+ K++V ++LR VI VA+ Sbjct: 15 IEGYIRAANEYPMLTAEEEKSLAE-----RLYYDGDIEAA---KKLVLSHLRFVIHVARG 66 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 67 YSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 126 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ E + +A +L + E V ++ ++T + + P Sbjct: 127 TTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKEDVIEMESRMTGADVGFDLP 184 Query: 580 IGDEDTSHLGD-FIEDK--NAVSPLDSAIQANLRETTTR----VLASLTPREERVLRMRF 632 D+D +++ ++EDK N + L+S N E T LA+L R + +++ R+ Sbjct: 185 TDDDDEAYVPSLYLEDKSSNFAAELES---ENFEEQATEKLGTALANLDERSQEIIKARW 241 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL ++ ++ V+ ERIRQ+EA A++KLK Sbjct: 242 LD--DEKATLHDLAAKYNVSAERIRQLEANALKKLK 275 >gi|126739146|ref|ZP_01754840.1| RNA polymerase sigma-32 factor [Roseobacter sp. SK209-2-6] gi|126719763|gb|EBA16471.1| RNA polymerase sigma-32 factor [Roseobacter sp. SK209-2-6] Length = 292 Score = 97.1 bits (240), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 123/243 (50%), Gaps = 24/243 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLTNAYMRLAISMAAKFNRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + ++R ++ R A +++ R ++IA Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKTLFFNLRRVQAQLERRAYADGHRLDRHQLHQKIAS 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLET-PIGDEDTSHLGDFIEDKNAVSPLDSAIQA----- 607 ++ +P+ V + +++ SL D D D +ED++A + A Q Sbjct: 161 EIGVPLRDVEMMDGRLSGSDFSLNANQASDNDGREWIDALEDEHA----EGAEQVEGTHD 216 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 LR+ + SLT RE ++ R TLE++G++ +++ER+RQ+EA A++ Sbjct: 217 RRQLRQWLVEAMQSLTERERFIIVAR--KLQEPFRTLEDLGQELNLSKERVRQLEAAALK 274 Query: 666 KLK 668 K++ Sbjct: 275 KMR 277 >gi|307246764|ref|ZP_07528832.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307255748|ref|ZP_07537551.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307257933|ref|ZP_07539687.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307260200|ref|ZP_07541909.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306852339|gb|EFM84576.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306861308|gb|EFM93299.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306863580|gb|EFM95509.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306865745|gb|EFM97624.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 11 str. 56153] Length = 316 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 148/285 (51%), Gaps = 42/285 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E ++E R E A K+++ +++R VI +A+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAE--------RYYYDEDVEAAKQLILSHMRFVIHIARG 100 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 101 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 160 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + +E VR++ ++T + + + P Sbjct: 161 TTKAQR--KLFFNLRKNKNRLAWFNEEEIQKVAEDLGVSLEEVREMESRMTGQDLGFDLP 218 Query: 580 IGDED-------------TSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVLASLTPRE 624 +G++D +S+ D +ED+ Q N + T LA+L R Sbjct: 219 VGEDDDEVYTPSMYLEDNSSNFADDLEDE----------QYNGQATAQLAYALATLDERS 268 Query: 625 ERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +++ R+ ++ + TL+++ +++ ++ ER+RQ+E A++K+K Sbjct: 269 QDIIKTRW---LDEEKATLQDLAEKYGISAERVRQLENAALKKIK 310 >gi|300690868|ref|YP_003751863.1| RNA polymerase sigma70 factor [Ralstonia solanacearum PSI07] gi|299077928|emb|CBJ50567.2| RNA polymerase sigma70 factor [Ralstonia solanacearum PSI07] Length = 876 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V D + L + Sbjct: 262 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLND 321 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 322 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 380 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 381 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 419 >gi|150398305|ref|YP_001328772.1| RNA polymerase factor sigma-32 [Sinorhizobium medicae WSM419] gi|150029820|gb|ABR61937.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium medicae WSM419] Length = 288 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 127/240 (52%), Gaps = 21/240 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ +++RLVIS+A K+ + GL DL+QEG+IGL++AA +F+ +FSTYA WW Sbjct: 40 ARNKIAMSHMRLVISMAAKFRSFGLPMGDLVQEGHIGLLEAAARFEPSREVRFSTYATWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSN---KIKREPTPEEIAKKLAM 558 ++ ++ + +R K + R R++ ++ + EEIA + + Sbjct: 100 IRASMQDYVLRNWSIVRGGTSSAQKALFFNLRRLRARLAQGDRQLTSQAVHEEIAAAIGV 159 Query: 559 PVEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL------ 609 + V+ + +++ SL+ PI GD D DF+ + +PL ++L Sbjct: 160 SLADVQTMDARLSGNDASLQAPIGGGDPDAGARLDFLASE---APLPDEQVSDLIDGERA 216 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L L+ RE +++R R ++ D TLEE+G +++ER+RQIE +A+ KL+ Sbjct: 217 RRWLHVALGELSEREMKIIRARR---LSEDGATLEELGVALGISKERVRQIETRALEKLR 273 >gi|220904711|ref|YP_002480023.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219869010|gb|ACL49345.1| putative RNA polymerase, sigma 70 family subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 433 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 124/231 (53%), Gaps = 17/231 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +V ++LRLV+ +A + R +Q LDL+QEGN+GLM+A KFD G KFS YA +W+K Sbjct: 191 LVSSHLRLVVRIAMDFQRRWMQNVLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASFWIKA 250 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 I + I D ++I ++ K+ + R+ +P ++++L + E + + Sbjct: 251 YILKFIMDNWRMVKIGTTQVQRKLFYNLNRERQKLIMQGYDPDAAMLSERLGVTEEQINE 310 Query: 566 V-LKITKEPISLETPIGDEDTS--------HLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + ++ +SL +G++ LG IED A + + +++ L+ + Sbjct: 311 MDQRLASTDMSLNAQVGEDSGGATRMDFLPALGPGIEDSLASTEIAGIVRSKLKT----I 366 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + L +E+ +L R + + TL E+G+++ +TRER+RQ+EA+ + K+ Sbjct: 367 MPKLNEKEQYILHNR--LLSDEPITLREIGERYNITRERVRQLEARLVEKI 415 >gi|158312828|ref|YP_001505336.1| FliA/WhiG family RNA polymerase sigma factor [Frankia sp. EAN1pec] gi|158108233|gb|ABW10430.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Frankia sp. EAN1pec] Length = 376 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 118/231 (51%), Gaps = 10/231 (4%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F +VS+ +G+ E + + ++V +L LV +A+++ NRG DL+Q IGL+K+ + Sbjct: 135 FVRLVSLP-EGDPERAALRDQLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVD 193 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G +FSTYA + I R D+ IR+P +++ + + +S + R Sbjct: 194 RFDPERGVEFSTYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQSLGRS 253 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDS 603 PT EIA+ L M E V + L+ +SL+ P GD++ + D + ++ +S Sbjct: 254 PTVSEIARHLEMSEEEVLEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQD-----ES 308 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M E+G Q V+R Sbjct: 309 LEGVEYRESLKPLLEKLPPREKRILLLRFFGNMTQSQIANELGISQMHVSR 359 >gi|56477911|ref|YP_159500.1| RNA polymerase sigma factor RpoD [Aromatoleum aromaticum EbN1] gi|56313954|emb|CAI08599.1| DNA-dependent RNA polymerase sigma subunits (Sigma70/32) [Aromatoleum aromaticum EbN1] Length = 663 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 57/158 (36%), Positives = 88/158 (55%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I L ++RGY+T E++ LP D +EQ+E +A +NMGI V D ++ D Sbjct: 47 KTLITLGKERGYLTYAEISDHLPDDVADAEQIEGIIATFNNMGIRVFDEAPAAEDLLMSD 106 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 ++ + + ++ S D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 107 AVPSSVDEDVAEEEAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 166 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ D++ + E+ID Sbjct: 167 GLRHMVQAISACPTTIAEMLEITDKVARDEMRIDELID 204 >gi|325293796|ref|YP_004279660.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] gi|1710644|sp|P50507|RP32_AGRTU RecName: Full=RNA polymerase sigma-32 factor gi|1143324|dbj|BAA09439.1| sigma-32 homolog [Agrobacterium tumefaciens] gi|325061649|gb|ADY65340.1| RNA polymerase sigma-32 factor [Agrobacterium sp. H13-3] Length = 300 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/249 (30%), Positives = 127/249 (51%), Gaps = 20/249 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVKEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + ++ D++ D + S I+ + ET Sbjct: 167 QVSEEEVISMNRRLHGDASLNAPIKASEGESGQWQDWLVDDHE-SQEAVLIEQDELETRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+LA L RE R+ R + D TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 RMLAKAMGVLNDRERRIFEAR---RLAEDPVTLEELSSEFDISRERVRQIEVRAFEKVQE 282 Query: 670 PSRSKKLRS 678 + + L + Sbjct: 283 AVQKEALEA 291 >gi|304320253|ref|YP_003853896.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] gi|303299155|gb|ADM08754.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503] Length = 304 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 79/249 (31%), Positives = 127/249 (51%), Gaps = 20/249 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E A + ++ ++LRLV +A Y GL ++I EGN+GLM+A +KFD G+ Sbjct: 43 RFKEHEDPDAAQRLITSHLRLVAKIAMGYRGYGLPTGEVISEGNVGLMQAVKKFDPDKGF 102 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE 550 + STYAMWW++ +I I ++I K K+ R++ +I + + PE Sbjct: 103 RLSTYAMWWIRASIQEYILRSWSLVKIGTTAAQK--KLFFNLRKLKGQIDAVDEGDMRPE 160 Query: 551 E---IAKKLAMPVEGVRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDS 603 E IA +L + + V + ++ SL +P+ GD + D++ D+NAV+ Sbjct: 161 EVELIATRLGVTEDEVISMNRRMAGSDNSLNSPMRSDGD-GGAEWQDWLVDENAVNAESQ 219 Query: 604 AIQANLRETTTRVL----ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ + ET +L L RE +L R TLEE+ ++ V+RERIRQI Sbjct: 220 LVKDDEFETRMELLQEAMVDLNDRERHILTERRLT--ENPKTLEELSGEYGVSRERIRQI 277 Query: 660 EAKAIRKLK 668 E +A KL+ Sbjct: 278 EVRAFEKLQ 286 >gi|84515923|ref|ZP_01003284.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510365|gb|EAQ06821.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 277 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 77/256 (30%), Positives = 129/256 (50%), Gaps = 24/256 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLITAYMRLAISMASKFKRYGAPMNDLIQEASVGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----------EEI 552 +K +I + +R K + RR+ +++RE E+I Sbjct: 86 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREAAAEGLHLETHELHEKI 143 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIED---KNAVSPLDSAIQA 607 A ++ +P+ V+ + +++ SL ED D +ED + A +S Sbjct: 144 AIEVGVPLHDVQMMDGRLSGSDFSLNATQSMEDEGREWIDALEDDAPQAAEKVENSHDTD 203 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 LR+ L +L RE+ ++R R + D TLE +G + +++ER+RQ+EA A K Sbjct: 204 TLRQWLVTALTALNDREQFIVRER---KLRDDPRTLESLGSELGLSKERVRQLEAAAFGK 260 Query: 667 LKHP--SRSKKLRSFL 680 ++ ++S +++SF Sbjct: 261 MRKSLEAQSTEVQSFF 276 >gi|148261701|ref|YP_001235828.1| RNA polymerase factor sigma-32 [Acidiphilium cryptum JF-5] gi|326405194|ref|YP_004285276.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] gi|146403382|gb|ABQ31909.1| RNA polymerase, sigma 32 subunit, RpoH [Acidiphilium cryptum JF-5] gi|325052056|dbj|BAJ82394.1| RNA polymerase sigma factor RpoH [Acidiphilium multivorum AIU301] Length = 296 Score = 97.1 bits (240), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 125/249 (50%), Gaps = 21/249 (8%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E A ++V ++LRLV +A Y GL +LI EGN+G+M+A ++FD G++ +TY Sbjct: 37 EDQAAAHKLVTSHLRLVAKIAMGYRGYGLPLGELISEGNVGMMQAVKRFDPERGFRLATY 96 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR------EPTP-EEI 552 AMWW++ AI I +++ K K+ RR+ +++ +P E+I Sbjct: 97 AMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIEDGDMQPEQVEKI 154 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIED-----KNAVSPLDSAIQ 606 A+ L +P + V + ++T SL PI + D++ D + A+ D Sbjct: 155 ARVLGVPEQDVVSMNRRLTAPDHSLNAPIRMDGEGEWQDWLVDDADSQEEAIG--DHEEM 212 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIR 665 R L +L RE +L R + D TLE++ +Q+ ++RER+RQIE +A Sbjct: 213 TGRRALLATALKTLNDRERHILIQR---RLKDDPTTLEDLSQQYNISRERVRQIEVRAFE 269 Query: 666 KLKHPSRSK 674 KL+ +++ Sbjct: 270 KLQKSMKAQ 278 >gi|163803403|ref|ZP_02197278.1| RNA polymerase sigma factor [Vibrio sp. AND4] gi|159172807|gb|EDP57652.1| RNA polymerase sigma factor [Vibrio sp. AND4] Length = 285 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 79/279 (28%), Positives = 147/279 (52%), Gaps = 28/279 (10%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ + ++E H KGE +A+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRSANSYPMLTADEERGLAERLHY-----KGEIDAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMP 185 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRM 630 + D+D S+ ++EDK+ S + I+A E T LASL R +R++R Sbjct: 186 MDDDDNSNSYTAPMVYLEDKS--SDVADNIEAANWEAHTNNRLGHALASLDERSQRIVRS 243 Query: 631 RFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++ D TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 244 RW---LDDDKSTLQDLADEFGVSAERIRQLEKNAMKKLK 279 >gi|222872026|gb|EEF09157.1| predicted protein [Populus trichocarpa] Length = 425 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 63/164 (38%), Positives = 93/164 (56%), Gaps = 13/164 (7%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSE 90 K +IKL + RGY+T E+N LP D V SE ++ VA L+++GI V E +E Sbjct: 38 LKALIKLGKSRGYLTYAEINDHLPDDMVDSETIDTLVATLNDIGIAV-----YEQAPDAE 92 Query: 91 DSL--DLASSASNSSVFLQKRK------DSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 L D A SA++ ++ + DS T DPVRMY+REMG++ELL+REGEI I Sbjct: 93 TLLLNDNAPSATSEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI 152 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIEAG M+ ++ P+T ++ + + + + E +D Sbjct: 153 AKRIEAGLKDMVMAISACPVTISEILASAERVANEEIKIDEFVD 196 >gi|121488755|emb|CAJ18262.1| sigma 70-type sigma factor [Chlorobium phaeobacteroides] Length = 165 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 51/166 (30%), Positives = 91/166 (54%), Gaps = 1/166 (0%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D EG G +KAA++ D G+KF +YA+WW +Q+ +++A+QS +R+P++ ++K Sbjct: 1 DXXNEGXXGXIKAAKRXDETRGFKFISYAVWWXRQSXLQALAEQSRIVRLPLNRVGTLNK 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + ++ + +R+P E+A L M + V LKI +S++ P D + L D Sbjct: 61 ISKAYXQLEQEFERDPNTRELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDV 120 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN 637 +++ + P + +L R L+ L PRE V+R F IGM+ Sbjct: 121 LQNDGHL-PDHGLNKDSLTLEVERSLSVLXPREADVIRSYFXIGMD 165 >gi|325579283|ref|ZP_08149239.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus parainfluenzae ATCC 33392] gi|325159518|gb|EGC71652.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus parainfluenzae ATCC 33392] Length = 293 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/276 (28%), Positives = 146/276 (52%), Gaps = 25/276 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ NE ++ E S++E + G+ EA+ K++V ++LR VI VA+ Sbjct: 28 IEAYIRAANEYPMLTAEEEKSLAE-----RLYYDGDIEAA---KKLVLSHLRFVIHVARG 79 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 80 YSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 139 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ E + +A +L + E V ++ ++T + + P Sbjct: 140 TTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKEDVIEMESRMTGADVGFDLP 197 Query: 580 IGDEDTSHLGD-FIEDK--NAVSPLDSAIQANLRETTTR----VLASLTPREERVLRMRF 632 D+D +++ ++EDK N + L+S N E T LA+L R + +++ R+ Sbjct: 198 TDDDDEAYVPSLYLEDKSSNFAAELES---ENFEEQATEKLGTALANLDERSQDIIKARW 254 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL ++ ++ V+ ERIRQ+EA A++KLK Sbjct: 255 LD--DEKATLHDLAAKYNVSAERIRQLEANALKKLK 288 >gi|304311558|ref|YP_003811156.1| RNA polymerase sigma factor [gamma proteobacterium HdN1] gi|301797291|emb|CBL45511.1| RNA polymerase sigma factor [gamma proteobacterium HdN1] Length = 285 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/234 (29%), Positives = 121/234 (51%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V A+LR V+ VA+ Y GLQ DL+QEGN+GLMKA ++FD +G + ++A+ W Sbjct: 50 AARQLVLAHLRFVVHVARGYNGYGLQLSDLVQEGNVGLMKAVKRFDPTMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+ +R + + IA +L + E Sbjct: 110 IKAEIHEFILRNWRIVKIATTKSQRKLFFNLRSHKRRLGVLSGDEV-NMIATELNVSPED 168 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT----R 615 VR++ ++ + + P+ DE S + + ++ P A + TT Sbjct: 169 VREMEGRLAAHDTAFDAPVDADDESASQAPVYYLEDASMDPAHQLEDAQWTDNTTDRLQL 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + SL R +L+ R+ N D TL ++ Q+ V+ ERIRQ+EA A++K+K Sbjct: 229 AMNSLDERSRDILQQRW---FNDDKATLHDLAAQYSVSAERIRQLEANAMKKIK 279 >gi|90407357|ref|ZP_01215542.1| RpoD protein [Psychromonas sp. CNPT3] gi|90311508|gb|EAS39608.1| RpoD protein [Psychromonas sp. CNPT3] Length = 282 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/269 (27%), Positives = 141/269 (52%), Gaps = 16/269 (5%) Query: 409 IRNEIKSISVETGISISEFRHIVS-MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRG 467 I I+S++ +S SE + + + +G+ +A+ K++V ++LR V +AK Y G Sbjct: 16 IEAYIQSVNKFAMLSASEEKALAERLFYEGDLDAA---KKLVMSHLRFVAYIAKSYAGYG 72 Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMR 526 L DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + ++I + Sbjct: 73 LAIADLIQEGNVGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEYVIRNWRVVKIATTKAQ 132 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT 585 K+ +R A++ ++ E +A L + + V ++ ++ S + D+D Sbjct: 133 RKLFFNLRKAKKRLGWFSKDEV-ENVANNLNVSTKDVLEMESRLNGHDYSFDLTGDDDDE 191 Query: 586 SHLG--DFIEDKNAVSPLDSAI---QANLRETTTRVLASLTPREERVLRMRFGIGMN-TD 639 + ++EDKNA L + Q+N++ L+SL R + ++ R+ +N Sbjct: 192 NCFAPVQYLEDKNADVALLVEVENSQSNMKRQLHSALSSLDERSQDIISSRW---LNEPK 248 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL ++ ++ ++ ER+RQ+EA AI+KL+ Sbjct: 249 ATLHDLAARYSISAERVRQLEANAIKKLQ 277 >gi|163747420|ref|ZP_02154772.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] gi|161379273|gb|EDQ03690.1| RNA polymerase sigma factor [Oceanibulbus indolifex HEL-45] Length = 298 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/242 (32%), Positives = 118/242 (48%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ NKI R EIA +L Sbjct: 109 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNKIGALEEGDLRPENVTEIATQL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + E V +++ SL +G E T D++ED++A D A + L R Sbjct: 167 GVTEAEVVSMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYAERDELETRR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L L RE+ +L R + TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 EMLADALDVLNDREKDILTQRR--LSDETVTLEDLSTQYDVSRERIRQIEVRAFEKLQKR 284 Query: 671 SR 672 R Sbjct: 285 MR 286 >gi|297539272|ref|YP_003675041.1| RNA polymerase sigma-32 subunit RpoH [Methylotenera sp. 301] gi|297258619|gb|ADI30464.1| RNA polymerase, sigma 32 subunit, RpoH [Methylotenera sp. 301] Length = 285 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 80/237 (33%), Positives = 128/237 (54%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LRLV S+A+ Y GL DLIQEGNIGLMKA ++FD G + ++AM W Sbjct: 49 AARQLIVSHLRLVASIARGYNGYGLPQSDLIQEGNIGLMKAVKRFDPERGVRLVSFAMHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAM- 558 +K + I ++I + K+ +R+ + N ++ P E IAK+L + Sbjct: 109 IKAEMHEYIVRNWRMVKIATTKAQRKLFFNLRSMKTGLNSLQ----PAEVAHIAKELNVK 164 Query: 559 PVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDS--AIQANLRETT 613 P E + ++ ISLE I DE S + ++ D+ + PL++ + Q + ETT Sbjct: 165 PEEVLEMEARLNGHEISLEANIDDDSDEQYSPIA-YLPDE-GLEPLEALESKQIEIAETT 222 Query: 614 --TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R RV+ R+ + TL E+ +F V+ ERIRQIE KA++K+K Sbjct: 223 GLANALQNLDDRSRRVVEARW-LQDQGGKTLHELADEFGVSAERIRQIEQKAMQKMK 278 >gi|219112653|ref|XP_002178078.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217410963|gb|EEC50892.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 358 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 125/250 (50%), Gaps = 30/250 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGL--QF--LDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 AK ++V +NLR+V SV Y GL Q+ D++QEG I L++AAEKF+ G+KFSTY Sbjct: 100 AKNQLVTSNLRMVQSVVNTYIRNGLTAQYNAGDMMQEGIIALIRAAEKFEPDRGWKFSTY 159 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM+WV+ ++ RS QS I +P + + ++++ R M + R+P+ E+ ++ + Sbjct: 160 AMYWVRASVKRSQIYQSRVITVPQRLHENHKRLLKVEREMEADLGRKPSRIELGAEIGLS 219 Query: 560 --------------VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 + + + L +K P+S GD L + I K + DS Sbjct: 220 KLQVDRCFAAMEQRCQSLDQKLSNSKRPMS-----GDTSKDTLMEIIGSKTEGNDFDSLN 274 Query: 606 QANLRETTTRVLA-SLTPREERVLRMRFGI------GMNTDHTLEEVGKQFCVTRERIRQ 658 + LRE L L P E +L +R+G + T+ E+ + + +++R+ Sbjct: 275 RIFLREDLIETLHRHLDPAEVELLLLRYGFKEVASSKLGGQPTIAELSRTVGLKPDKVRR 334 Query: 659 IEAKAIRKLK 668 + ++++ LK Sbjct: 335 MINRSLKHLK 344 >gi|163941643|ref|YP_001646527.1| sporulation sigma factor SigG [Bacillus weihenstephanensis KBAB4] gi|229134713|ref|ZP_04263522.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST196] gi|163863840|gb|ABY44899.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|228648759|gb|EEL04785.1| RNA polymerase sigma-G factor [Bacillus cereus BDRD-ST196] gi|322510150|gb|ADX05464.1| RNA polymerase sigma-G factor [Bacillus mycoides] Length = 292 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 137/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 36 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 92 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 93 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 151 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 152 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 211 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D ++D+ + L+E R L RE+ ++R RF G E Sbjct: 212 DPIFVMDQLKDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 266 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 267 EIG----ISQAQVSRLEKSAIKQM 286 >gi|42782996|ref|NP_980243.1| sporulation sigma factor SigG [Bacillus cereus ATCC 10987] gi|49186753|ref|YP_030005.1| sporulation sigma factor SigG [Bacillus anthracis str. Sterne] gi|49478441|ref|YP_037965.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141585|ref|YP_085244.1| sporulation sigma factor SigG [Bacillus cereus E33L] gi|118479123|ref|YP_896274.1| sporulation sigma factor SigG [Bacillus thuringiensis str. Al Hakam] gi|196038711|ref|ZP_03106019.1| RNA polymerase sigma-G factor [Bacillus cereus NVH0597-99] gi|222097349|ref|YP_002531406.1| sporulation sigma factor sigg [Bacillus cereus Q1] gi|228928952|ref|ZP_04091984.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935219|ref|ZP_04098045.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228947623|ref|ZP_04109913.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228987048|ref|ZP_04147173.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229092950|ref|ZP_04224083.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-42] gi|229123417|ref|ZP_04252621.1| RNA polymerase sigma-G factor [Bacillus cereus 95/8201] gi|229186144|ref|ZP_04313313.1| RNA polymerase sigma-G factor [Bacillus cereus BGSC 6E1] gi|254683387|ref|ZP_05147247.1| sporulation sigma factor SigG [Bacillus anthracis str. CNEVA-9066] gi|254739809|ref|ZP_05197502.1| sporulation sigma factor SigG [Bacillus anthracis str. Kruger B] gi|254750999|ref|ZP_05203038.1| sporulation sigma factor SigG [Bacillus anthracis str. Vollum] gi|254757943|ref|ZP_05209970.1| sporulation sigma factor SigG [Bacillus anthracis str. Australia 94] gi|301055394|ref|YP_003793605.1| RNA polymerase sigma-G factor [Bacillus anthracis CI] gi|42738923|gb|AAS42851.1| RNA polymerase sigma-G factor [Bacillus cereus ATCC 10987] gi|49180680|gb|AAT56056.1| RNA polymerase sigma-G factor [Bacillus anthracis str. Sterne] gi|49329997|gb|AAT60643.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51975054|gb|AAU16604.1| RNA polymerase sigma-G factor [Bacillus cereus E33L] gi|118418348|gb|ABK86767.1| RNA polymerase, sigma subunit, RpsG/SigG [Bacillus thuringiensis str. Al Hakam] gi|196030434|gb|EDX69033.1| RNA polymerase sigma-G factor [Bacillus cereus NVH0597-99] gi|221241407|gb|ACM14117.1| RNA polymerase sigma-G factor [Bacillus cereus Q1] gi|228597320|gb|EEK54971.1| RNA polymerase sigma-G factor [Bacillus cereus BGSC 6E1] gi|228660193|gb|EEL15829.1| RNA polymerase sigma-G factor [Bacillus cereus 95/8201] gi|228690454|gb|EEL44238.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-42] gi|228772642|gb|EEM21083.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228812143|gb|EEM58474.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228824384|gb|EEM70190.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830759|gb|EEM76364.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|300377563|gb|ADK06467.1| RNA polymerase sigma-G factor [Bacillus cereus biovar anthracis str. CI] gi|324327802|gb|ADY23062.1| sporulation sigma factor SigG [Bacillus thuringiensis serovar finitimus YBT-020] Length = 289 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 33 RNKVEICGVDTAKLPVLKNDEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 89 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 90 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 148 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 149 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 208 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 209 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 263 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 264 EIG----ISQAQVSRLEKSAIKQM 283 >gi|293391709|ref|ZP_06636043.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter actinomycetemcomitans D7S-1] gi|290952243|gb|EFE02362.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter actinomycetemcomitans D7S-1] Length = 616 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 92/158 (58%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP + V ++Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLIAQGKEQGYLTYAEVNDSLPEELVDADQIEDIIQMINDMGIQVLETAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D D+ A+ L + R+TD PVRMY+REMGS+ELL+REGEI IAKRIE Sbjct: 70 NITDE-DVVEEATQ---VLSSVEAELGRTTD-PVRMYMREMGSVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + +++ P LI D + +G L ++I Sbjct: 125 EGINEVQSAIAAYPEAITYLIEQYDLVENGGVRLADLI 162 >gi|86137868|ref|ZP_01056444.1| RNA polymerase sigma factor [Roseobacter sp. MED193] gi|85825460|gb|EAQ45659.1| RNA polymerase sigma factor [Roseobacter sp. MED193] Length = 298 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/254 (30%), Positives = 125/254 (49%), Gaps = 29/254 (11%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ + Sbjct: 43 EKEDSGAAHRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPEEIAKK 555 TYAMWW++ +I + +++ + K+ +R A+ R+ + + PE +AK Sbjct: 103 TYAMWWIRASIQEYVLRSWSMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAK- 161 Query: 556 LAMPVEGVRKVLKITKEPI------------SLETPIGD--EDTSHLGDFIEDKNAVSPL 601 + L +T++ + SL +G E T D++ED++A Sbjct: 162 -------IAHDLGVTEDEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAG 214 Query: 602 DSAIQANL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 D + L RE + L L RE+ +L R + N TLEE+ Q+ V+RERIRQ Sbjct: 215 DYEARDELEARRELLGQALEVLNDREKDILTKRR-LAENV-QTLEELSAQYSVSRERIRQ 272 Query: 659 IEAKAIRKLKHPSR 672 IE +A KL+ R Sbjct: 273 IEVRAFEKLQKKMR 286 >gi|255505890|ref|ZP_05348671.3| RNA polymerase sigma-F factor [Bryantella formatexigens DSM 14469] gi|255265373|gb|EET58578.1| RNA polymerase sigma-F factor [Bryantella formatexigens DSM 14469] Length = 238 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 66/229 (28%), Positives = 123/229 (53%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++VE NL LV ++AK++T RG DL Q G+IGL+KA + F+ KFSTYA+ Sbjct: 18 AREQLVEENLGLVFTIAKRFTGRGTDVEDLFQIGSIGLLKAIDNFNLSYDVKFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ + ++ K+ REPT EE++ ++ + E + Sbjct: 78 IAGEIRRFLRDDGM-LKVSRSLKETAGRAAAAREQLEKKLGREPTMEELSGEVGITREEI 136 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP--LDSAIQANLRETTTRVLAS 619 ++ E SL P+ GD +L D IE+K +++ LD+ + T V+ Sbjct: 137 VLAMEAAAEVESLHRPVYQGDGTAIYLEDRIEEKESMNEKVLDNMV-------LTEVMEK 189 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L P E+ ++ MR+ D T +V + T+ ++ ++E K ++K++ Sbjct: 190 LEPEEQFLIIMRY----FKDKTQSQVAELLGRTQVQVSRMEKKILKKMR 234 >gi|323099956|gb|ADX23556.1| RNA polymerase sigma-G factor [Bacillus mycoides] Length = 292 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 36 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 92 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 93 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 151 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 152 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 211 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 212 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 266 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 267 EIG----ISQAQVSRLEKSAIKQM 286 >gi|229075660|ref|ZP_04208642.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-18] gi|229098374|ref|ZP_04229319.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-29] gi|229117400|ref|ZP_04246776.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-3] gi|228666010|gb|EEL21476.1| RNA polymerase sigma-G factor [Bacillus cereus Rock1-3] gi|228684991|gb|EEL38924.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-29] gi|228707436|gb|EEL59627.1| RNA polymerase sigma-G factor [Bacillus cereus Rock4-18] Length = 289 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 33 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 89 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 90 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 148 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 149 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 208 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 209 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 263 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 264 EIG----ISQAQVSRLEKSAIKQM 283 >gi|317056324|ref|YP_004104791.1| Sig B/F/G subfamily RNA polymerase sigma-28 subunit [Ruminococcus albus 7] gi|315448593|gb|ADU22157.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ruminococcus albus 7] Length = 256 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 119/225 (52%), Gaps = 9/225 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++++ NLRLV+SV +KY+ DL Q G +GL+KA + FD L +FSTYA+ Sbjct: 38 AREKLIKGNLRLVLSVLQKYSGGKENPDDLFQVGVVGLIKAIDNFDVGLNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D IR+ MRD ++V++ R + +REP+ +EIA+ + Sbjct: 98 ILGEIKRYMRDFR-PIRVSRSMRDLAYRVMQAKERFIAEKQREPSIDEIAEITNEKRADI 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L+ +P+S+ P+ + L I D+ S DS+ L T L L PR Sbjct: 157 VTALESVTDPVSIYEPVYTDGGDPL--CIADQICDSTDDSSWLEEL--TMKEALKELRPR 212 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ +L +RF G HT EV + +++ ++ ++E A+ K+K Sbjct: 213 EKNILFLRFFKG----HTQVEVAHEIGISQAQVSRLEKNALNKIK 253 >gi|288917890|ref|ZP_06412250.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EUN1f] gi|288350679|gb|EFC84896.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EUN1f] Length = 392 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 118/231 (51%), Gaps = 10/231 (4%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F +VS+ +G+ E + + ++V +L LV +A+++ NRG DL+Q IGL+K+ + Sbjct: 151 FARLVSLP-EGDPERAALRDQLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVD 209 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G +FSTYA + I R D+ IR+P +++ + + +S + R Sbjct: 210 RFDPERGVEFSTYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQSLGRS 269 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDS 603 PT EIA+ L M E V + L+ +SL+ P GD++ + D + ++ +S Sbjct: 270 PTVSEIARHLEMTEEEVLEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQD-----ES 324 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M E+G Q V+R Sbjct: 325 LEGVEYRESLKPLLEKLPPREKRILLLRFFGNMTQSQIANELGISQMHVSR 375 >gi|296114957|ref|ZP_06833602.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] gi|295978475|gb|EFG85208.1| RNA polymerase factor sigma-32 [Gluconacetobacter hansenii ATCC 23769] Length = 299 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/250 (28%), Positives = 125/250 (50%), Gaps = 20/250 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA+ ++V ++LRLV +A Y GL +LI EGNIG+M+A +FD G++ Sbjct: 43 KGDTEAA---HKLVTSHLRLVAKIAMGYRGYGLPVGELISEGNIGMMQAVRRFDPERGFR 99 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE 551 +TYAMWW++ AI I ++I K K+ RR+ +++ + PE+ Sbjct: 100 LATYAMWWIRAAIQEYILHSWSLVKIGTTAAQK--KLFFNLRRLKGQMQAIDDGDLQPEQ 157 Query: 552 ---IAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFI---EDKNAVSPLDSA 604 IAK L +P + V + + P SL P+ + D++ D + ++ Sbjct: 158 VDKIAKSLGVPEQDVVNMNRRLSAPDHSLNAPLRTDSEGEWQDWLVDDHDNQEQTLAENE 217 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 + + + SL RE +L R + D TLE++ + ++RER+RQIE +A Sbjct: 218 EYSGRKALLANAMQSLNERERHILTER---RLKDDPATLEDLSHVYNISRERVRQIEVRA 274 Query: 664 IRKLKHPSRS 673 K+++ ++ Sbjct: 275 FEKVQNAMKA 284 >gi|86359605|ref|YP_471497.1| RNA polymerase factor sigma-32 [Rhizobium etli CFN 42] gi|86283707|gb|ABC92770.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN 42] Length = 287 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 124/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 40 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ R T +EIA L Sbjct: 100 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLARGDTQLTLQSIHQEIAAAL 157 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANL---- 609 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ Sbjct: 158 GVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 214 Query: 610 --RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 215 RRRVWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 271 Query: 667 LK 668 L+ Sbjct: 272 LR 273 >gi|307546061|ref|YP_003898540.1| RNA polymerase sigma factor RpoD [Halomonas elongata DSM 2581] gi|307218085|emb|CBV43355.1| RNA polymerase sigma factor RpoD [Halomonas elongata DSM 2581] Length = 615 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 57/150 (38%), Positives = 89/150 (59%), Gaps = 11/150 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++G++T E+N LP D +Q+ED + M+++MGINVV+ E ED Sbjct: 12 KELIARGKEQGFLTYAEVNDHLPEDIADPDQVEDIIGMINDMGINVVE------EAPDED 65 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTD-----DPVRMYLREMGSIELLSREGEIAIAKRI 146 +L +A +++ S + A +D DPVRMY+REMG++ELL+REGEI IAKRI Sbjct: 66 TLMMADQSTDESAAEEAVAALAAVESDVGRTTDPVRMYMREMGTVELLTREGEIEIAKRI 125 Query: 147 EAGRAMMMASLCESPLTFQALIIWRDELND 176 E G +M++L P +++ D D Sbjct: 126 EEGTREVMSALAYLPGAVDSILEAYDATQD 155 >gi|154503257|ref|ZP_02040317.1| hypothetical protein RUMGNA_01081 [Ruminococcus gnavus ATCC 29149] gi|153796251|gb|EDN78671.1| hypothetical protein RUMGNA_01081 [Ruminococcus gnavus ATCC 29149] Length = 238 Score = 96.7 bits (239), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 132/244 (54%), Gaps = 16/244 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++ K A++++VE N+ L+ V K++ RG++ DL Q G+IGL+KA +KF Sbjct: 3 HTIALIEKSHNGDKEAREQLVEENIGLIWCVVKRFYGRGIEAEDLFQIGSIGLIKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +++ +T +M++ + REPT Sbjct: 63 DLSYDVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELSYRIFQTREKMTDGLGREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSP--LDSA 604 EE+++++ + E + + ++ + E SL PI ++ S + D +E+K LD Sbjct: 122 LEELSQEMGVEKEELVQAMEASGEVESLYRPIHQKEGSEISLLDKLEEKEHREEKILDRM 181 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + L L L +E ++ +R+ + T VGK+ +++ ++ ++E K I Sbjct: 182 LLGQL-------LEKLDGQERTLIYLRY----FAEKTQSAVGKEMGISQVQVSRMEKKII 230 Query: 665 RKLK 668 + L+ Sbjct: 231 QNLR 234 >gi|228973923|ref|ZP_04134498.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980512|ref|ZP_04140822.1| RNA polymerase sigma-G factor [Bacillus thuringiensis Bt407] gi|228779332|gb|EEM27589.1| RNA polymerase sigma-G factor [Bacillus thuringiensis Bt407] gi|228785789|gb|EEM33793.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar thuringiensis str. T01001] Length = 289 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 33 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 89 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 90 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 148 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 149 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 208 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 209 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 263 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 264 EIG----ISQAQVSRLEKSAIKQM 283 >gi|209519627|ref|ZP_03268417.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. H160] gi|209499913|gb|EDZ99978.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. H160] Length = 311 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 125/250 (50%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI +G Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------DG 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + + L + +E ++ +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 180 LARELNVKREEVAEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L PR R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDRLHSDGIASALDALDPRSRRIIEARWLKVADDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|228992638|ref|ZP_04152564.1| RNA polymerase sigma-G factor [Bacillus pseudomycoides DSM 12442] gi|228998684|ref|ZP_04158271.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock3-17] gi|229006186|ref|ZP_04163872.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock1-4] gi|228755027|gb|EEM04386.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock1-4] gi|228761152|gb|EEM10111.1| RNA polymerase sigma-G factor [Bacillus mycoides Rock3-17] gi|228766970|gb|EEM15607.1| RNA polymerase sigma-G factor [Bacillus pseudomycoides DSM 12442] Length = 259 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 134/265 (50%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI G Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 + + +DK + L+E R L RE+ ++R RF G Sbjct: 179 DPIFVMDQLSDDKQRDEQWVEELA--LKEGMKR----LNDREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 233 EEIG----ISQAQVSRLEKSAIKQM 253 >gi|170742915|ref|YP_001771570.1| RNA polymerase factor sigma-32 [Methylobacterium sp. 4-46] gi|168197189|gb|ACA19136.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium sp. 4-46] Length = 293 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 127/239 (53%), Gaps = 19/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 41 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPERDVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E +EI +++A + Sbjct: 101 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTDERVGDEIHRRIATAI 158 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVS--PLDSAIQANLRE 611 R+ + +++ +SL PI DE ++ DF+ D + + + A+ R Sbjct: 159 GVSREDVALMDARLSGPDMSLNAPITDEGDASAERVDFLVDTSPLPDEAVSDAVDGERRL 218 Query: 612 TTTR-VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T R L L+ RE R+L R + D TLE +G + +++ER+RQIE +A+ KL+ Sbjct: 219 TWLRQALTVLSERELRILHER---RLAEDQATLEALGHRLGISKERVRQIENRALEKLR 274 >gi|229031535|ref|ZP_04187535.1| RNA polymerase sigma-G factor [Bacillus cereus AH1271] gi|228729824|gb|EEL80804.1| RNA polymerase sigma-G factor [Bacillus cereus AH1271] Length = 289 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 78/264 (29%), Positives = 135/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 33 RNKVEICGVDTAKLPVLKNDEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 89 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D IR+ + Sbjct: 90 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDND-PIRVSRSL 148 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 149 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 208 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 209 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 263 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 264 EIG----ISQAQVSRLEKSAIKQM 283 >gi|51246044|ref|YP_065928.1| RNA polymerase sigma-B factor [Desulfotalea psychrophila LSv54] gi|50877081|emb|CAG36921.1| probable RNA polymerase sigma-B factor [Desulfotalea psychrophila LSv54] Length = 332 Score = 96.3 bits (238), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 123/237 (51%), Gaps = 20/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A +V +NLRLV+ VA + +Q F+DLIQEGN+GL++A +KFD G KFS YA + Sbjct: 80 AAYTLVSSNLRLVVKVAMDFQKYWMQNFMDLIQEGNVGLVQATKKFDPYRGVKFSYYAAY 139 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PV 560 W++ + + I D ++I + K+ + +++ +P P+ +A++L + Sbjct: 140 WIRAYVLKFIMDNWRLVKIGTTQAQRKLFFSLNKEKKLLESQGFDPKPKLLAERLNVREK 199 Query: 561 EGVRKVLKITKEPISLETPI----GDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETT 613 E + ++ +SLE+P+ DE S L G IE A I+ L E Sbjct: 200 EVIEMGQRMDNWDVSLESPVRSDSDDEQKSFLPSNGPGIESVVA----GKEIKVKLTELI 255 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L +E +L R + TD TL+ + +F ++RER+RQIE ++K+K Sbjct: 256 DVLKVNLNDKERMILEKR----LLTDEPLTLQNIADKFGISRERVRQIEVNLLKKMK 308 >gi|315498780|ref|YP_004087584.1| RNA polymerase, sigma 32 subunit, rpoh [Asticcacaulis excentricus CB 48] gi|315416792|gb|ADU13433.1| RNA polymerase, sigma 32 subunit, RpoH [Asticcacaulis excentricus CB 48] Length = 344 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 118/240 (49%), Gaps = 21/240 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 102 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPDKGFRLATYAMWW 161 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K AI + +++ K K+ R++ ++I R +IA KL Sbjct: 162 IKAAIQEYVLRSWSLVKMGTTAAQK--KLFFNLRKVKSEISALEEGDMRHEQVAQIATKL 219 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + + V + + P SL P+ E S D++ D + +P + A+ E Sbjct: 220 GVSEDDVISMNRRMSSPDSSLNAPLRVSEGDSEWQDWLADDS--TPSQETVLADSEEYKL 277 Query: 615 RV------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + L RE +L R TLE++ +F V+RER+RQIE +A KL+ Sbjct: 278 RMSLLEEAMGELNERERAILTARR--LQENPTTLEDLADRFGVSRERVRQIEVRAFEKLQ 335 >gi|162457339|ref|YP_001619706.1| RNA polymerase sigma factor rpoD [Sorangium cellulosum 'So ce 56'] gi|161167921|emb|CAN99226.1| RNA polymerase sigma factor rpoD [Sorangium cellulosum 'So ce 56'] Length = 443 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 124/229 (54%), Gaps = 11/229 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ANLRLV+ +A +Y +DLIQEGNIGLM+A +++D G K S+YA WW++ Sbjct: 204 LVTANLRLVVKLAYEYRRAYKNIMDLIQEGNIGLMQAVKRYDPYRGVKLSSYAAWWIRAY 263 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R I + +++ + K+ + + + + EPT EIAK+L++ + V + Sbjct: 264 ILRFILNNWRLVKLGTTQAQRKLFFNLNKEKAKLSAMGIEPTAAEIAKRLSVEEKEVVDM 323 Query: 567 -LKITKEPISLETPIGDEDTSHLGDF-IEDKNAVSPLDSAIQAN-----LRETTTRVLAS 619 ++ SL+ P+GD + + + + SP D+A +A+ + + ++ + Sbjct: 324 DRRLASGEASLDAPVGDLEGRTIPRVELLVSSGASP-DTAFEASEMGMLVHDRLSKFRET 382 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ + R + TL+E+G +F ++RER+RQ+EA+ KL+ Sbjct: 383 LKGKDVIIFDKR--MAAEDPLTLQELGNEFGISRERVRQLEARLQSKLR 429 >gi|160871836|ref|ZP_02061968.1| alternative sigma factor RpoH [Rickettsiella grylli] gi|159120635|gb|EDP45973.1| alternative sigma factor RpoH [Rickettsiella grylli] Length = 290 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 18/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ NLR V+ +A+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 50 AAKKLIITNLRFVVHIAQTYMGYGLALADLIQEGNIGLMKAVKRFDPKVGVRLISFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I I ++I + K+ R+M ++ + E +A L + E Sbjct: 110 IKAEIQEFILRNWRIVKIATTKAQR--KLFFNLRKMKKRLGWFNQNEIEAVAHDLGVKPE 167 Query: 562 GVRKV-LKITKEPISLETPIGDEDTS----------HLGDFIEDKNAVSPLDSAIQANLR 610 VR++ ++ +SL+ D + + H D D + ++ ++N Sbjct: 168 TVREMEFRLASNDMSLDISHDDPNEAKSTRYPLLDIHFEDNRYDPARLLEASNSTESN-H 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + + L L RE+ ++R R+ M TL+E+ +++ V+ ERIRQ+E KA++ L+H Sbjct: 227 DNLYKALTQLDEREQNIIRDRW--LMEPKMTLQELAQRYHVSAERIRQLEQKAMKALRH 283 >gi|254511947|ref|ZP_05124014.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] gi|221535658|gb|EEE38646.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium KLH11] Length = 298 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/248 (30%), Positives = 123/248 (49%), Gaps = 29/248 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPEEIAKKLAMPVE 561 ++ +I + +++ + K+ +R A+ R+ + + PE +A+ Sbjct: 109 IRASIQEYVLRSWSMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAR------- 161 Query: 562 GVRKVLKITKEPI------------SLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQA 607 + + L +T+E + SL +G E T D++ED++A D + Sbjct: 162 -IAEDLGVTEEEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARD 220 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L RE L L RE+ +L R M+ TLEE+ Q+ V+RERIRQIE +A Sbjct: 221 ELEARRELLAAALDVLNDREKDILTQRR--LMDQVVTLEELSTQYNVSRERIRQIEVRAF 278 Query: 665 RKLKHPSR 672 KL+ R Sbjct: 279 EKLQKKMR 286 >gi|197116970|ref|YP_002137397.1| RNA polymerase sigma-32 factor RpoH [Geobacter bemidjiensis Bem] gi|197086330|gb|ACH37601.1| RNA polymerase sigma-32 factor RpoH [Geobacter bemidjiensis Bem] Length = 285 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 121/241 (50%), Gaps = 14/241 (5%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+G+ EA+ ++ ANLR V+ +A +Y + G++ LDLIQEGNIGLM A KFD G Sbjct: 39 REGDLEAA---HRLITANLRFVVKIAGEYRSYGMKMLDLIQEGNIGLMMAVRKFDPDKGV 95 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 + +YA+WW++ I I ++I + K+ + A++ + E A Sbjct: 96 RLISYAVWWIRAYIQNHIISAWSLLKIGTTQAQRKLFFKLNQAKQAIVNMTGEGDLHAAA 155 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + R++ + + +SL+ + + + G F+E + + A +ETT Sbjct: 156 ISLDVKDNEAREMEQRLRGELSLDVEMFEGEGG--GTFLESLPDLRQNQEEMLAERQETT 213 Query: 614 ------TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L +L +E+ V+ R + TL+E+ F ++RER+RQIE A++K+ Sbjct: 214 ILERNVASALENLNEKEKFVIEQR--VAAEDPMTLQEIADHFSISRERVRQIEEGALKKM 271 Query: 668 K 668 K Sbjct: 272 K 272 >gi|303232785|ref|ZP_07319470.1| putative RNA polymerase sigma-B factor [Atopobium vaginae PB189-T1-4] gi|302481271|gb|EFL44346.1| putative RNA polymerase sigma-B factor [Atopobium vaginae PB189-T1-4] Length = 287 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 122/227 (53%), Gaps = 7/227 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V +L L +A K+ NRG DLIQ IGL+KA ++FD G +F+T+A Sbjct: 59 ARNQLVLNHLNLARFLASKFKNRGESLDDLIQVATIGLIKAIDRFDIDRGLEFTTFATPT 118 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+S ++R+P +++ KV + ++ K++ P+ EEIA++L + V+ V Sbjct: 119 ILGEIKRHFRDRSWSVRVPRRLQELSSKVSQATDMLTEKLQHSPSVEEIARELDVSVDEV 178 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + ++ ++ +SL+ P D D + D A S D + + ++ + T Sbjct: 179 LEAMESSRAYSSVSLDVPTVDNDDGSAATSVLDTYA-SVDDDLESCDDKLVLQEIIKNCT 237 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++++RMRF GM T E+ + V++ ++ ++ +RKL+ Sbjct: 238 EREQQIIRMRFLDGM----TQVEIADKLQVSQVQVSRLLRNTLRKLQ 280 >gi|111225338|ref|YP_716132.1| SigH putative RNA polymerase sigma factor [Frankia alni ACN14a] gi|111152870|emb|CAJ64617.1| SigH putative RNA polymerase sigma factor [Frankia alni ACN14a] Length = 299 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 113/222 (50%), Gaps = 9/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ E + + ++V +L LV +A+++ NRG DL+Q IGL+K+ ++FD G + Sbjct: 66 EGDAERAAIRDQLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVE 125 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA + I R D+ IR+P +++ + + +S + R PT EIA+ Sbjct: 126 FSTYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQTLGRSPTVSEIARH 185 Query: 556 LAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 L M E V + L+ +SL+ P GD++ + D + ++ +S RE+ Sbjct: 186 LQMSEEDVLEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQD-----ESLEGVEYRES 240 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M E+G Q V+R Sbjct: 241 LKPLLEKLPPREKRILLLRFFGNMTQSQIATELGISQMHVSR 282 >gi|300023529|ref|YP_003756140.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] gi|299525350|gb|ADJ23819.1| RNA polymerase, sigma 32 subunit, RpoH [Hyphomicrobium denitrificans ATCC 51888] Length = 296 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 123/255 (48%), Gaps = 15/255 (5%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R + E S A +++V ++LRLV +A Y GL ++I EGN+GLM+A ++FD G+ Sbjct: 41 RWQQHEDSDAAEKLVTSHLRLVARIAMGYRGYGLPIGEVISEGNVGLMQAVKRFDPEKGF 100 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW++ +I I +++ K K+ RR ++++ R Sbjct: 101 RLATYAMWWIRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRAKSQLQALDDGDLRPE 158 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + IA KL +P E V + + SL PI + ++ D++ D Sbjct: 159 HVKAIATKLGVPEEDVVSMNRRLGGDASLNAPIRAESESGEWQDWLVDDTPTQEDRLVED 218 Query: 607 ANLRETTTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 LR + + L+ L RE RV R TLEE+ +F V+RERIRQIE +A Sbjct: 219 EELRRRKSYLSSALSVLNDRERRVFEQRR--LAEEPATLEELSAEFGVSRERIRQIEVRA 276 Query: 664 IRKLKHPSRSKKLRS 678 K++ S R+ Sbjct: 277 FEKVQKAVTSTARRA 291 >gi|255019642|ref|ZP_05291721.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus caldus ATCC 51756] gi|254970865|gb|EET28348.1| RNA polymerase, sigma 70 subunit, RpoD family [Acidithiobacillus caldus ATCC 51756] Length = 285 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 128/247 (51%), Gaps = 23/247 (9%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ +R G+ A+ +V A++ LV ++A+ Y N+GL DL+QEG +GLM+A ++F Sbjct: 46 VIAQIRSGD---EAARATLVSAHMPLVRAIARSYRNKGLSQEDLVQEGYMGLMRAMDRFQ 102 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 LG +FS+YA WW+++A+ R++ ++ IR+P ++ +H + K E Sbjct: 103 EGLGTRFSSYATWWIREAMQRALI-RARFIRLPDYLAKSLHA-------LQQKSLDEVDG 154 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED--KNAVSPL-----D 602 + + GVR + + DE+ + IE N SP D Sbjct: 155 HDAQRAQRREALGVRDSTMRALDFADVRVCSLDEEMADGPSRIEQVVGNVASPAQDYDRD 214 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++++A LRE L L ++ V+ RFG+ + TLE + ++ V+RE +RQ++ + Sbjct: 215 ASVRA-LREH----LKLLNEKQREVMIYRFGLHGDAPMTLEAIAERLGVSREAVRQLQVR 269 Query: 663 AIRKLKH 669 A+ +L+ Sbjct: 270 ALLRLRQ 276 >gi|39933444|ref|NP_945720.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris CGA009] gi|192288802|ref|YP_001989407.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris TIE-1] gi|39647290|emb|CAE25811.1| RNA polymerase sigma 32 subunit, RpoH, stress response sigma factor [Rhodopseudomonas palustris CGA009] gi|192282551|gb|ACE98931.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] Length = 299 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 121/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHQLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IA +L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDLHPDQVKLIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + + SL PI D+ + D++ D+ SP A+ A E R Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDQ---SPSQEAVMAEHEELDQR 223 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALNGAIQVLNPRERRIFEARR--LADEPMTLEDLASEFGVSRERVRQIEVRAFEKVQ 280 >gi|83746507|ref|ZP_00943558.1| RNA polymerase sigma factor rpoD [Ralstonia solanacearum UW551] gi|83726838|gb|EAP73965.1| RNA polymerase sigma factor rpoD [Ralstonia solanacearum UW551] Length = 504 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 5/159 (3%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +IKL + RGY+T E+N LP D V +E M+ VA L+++GI V D + L + Sbjct: 262 KALIKLGKSRGYLTYAEINDHLPDDMVDAESMDTLVATLNDIGIAVYEQAPDAETLLLND 321 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + + + L R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 322 NAPSVTTEEEAEEEAEAALSTVDSEFGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIE 380 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AG M+ ++ P+T ++ + + + + E ID Sbjct: 381 AGLKDMVMAISACPVTISEILAMGERVANDEAKIDEYID 419 >gi|255262130|ref|ZP_05341472.1| RNA polymerase sigma-32 factor [Thalassiobium sp. R2A62] gi|255104465|gb|EET47139.1| RNA polymerase sigma-32 factor [Thalassiobium sp. R2A62] Length = 292 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/262 (29%), Positives = 131/262 (50%), Gaps = 20/262 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R CE S+ + ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G Sbjct: 34 RDERCEQSLHR--LITAYMRLAISMASKFKRYGAPMNDLIQEASLGLMKAADKFDPDRGV 91 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKR 545 +FSTYA+WW+K +I + +R + ++R ++ R A ++ R Sbjct: 92 RFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNLRRVQARLEREAATAGEELDR 151 Query: 546 EPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIE---DKNAVSP 600 + IA ++ +P+ V + +++ SL ED D +E D+ A + Sbjct: 152 HQMRQMIATEVGVPLHDVEMMEGRLSGSDYSLNATQSSEDEGREWIDALEDDSDQAAENV 211 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + LR L++L+ RE+ ++ R I T TLE +G + +++ERIRQ+E Sbjct: 212 ENDHDTETLRSWLVTALSALSHREQYIVTER-KIKDQT-RTLESLGHELGLSKERIRQLE 269 Query: 661 AKAIRKLKHP--SRSKKLRSFL 680 A A K++ +S++L F Sbjct: 270 AAAFIKMRKSLEGQSRELHHFF 291 >gi|152980759|ref|YP_001354832.1| RNA polymerase sigma-32 factor [Janthinobacterium sp. Marseille] gi|151280836|gb|ABR89246.1| RNA polymerase sigma-32 factor [Janthinobacterium sp. Marseille] Length = 298 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/241 (32%), Positives = 129/241 (53%), Gaps = 26/241 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD G + +Y+M W Sbjct: 61 AAQKLVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYSMHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMP 559 +K + I +++ + K+ +R+ + + + TP +E+AK L + Sbjct: 121 IKAEMHEYILKNWRLVKVATTKAQRKLFFNLRSHKTGLDSM----TPDQVDELAKTLNVK 176 Query: 560 VEGVRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLR-ET 612 E V ++ +++ I+LE P DED ++L +++ V L+S L+ E Sbjct: 177 REEVIEMETRLSGRDIALEAPTDDEDDKFAPIAYLSSDMQEPTKV--LESQQFDRLQTEG 234 Query: 613 TTRVLASLTPREERVLRMRF-----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + L L R R++ R+ G G TL E+ +F V+ ERIRQIEA A++K+ Sbjct: 235 LSNALGKLDARSRRIVEARWLANDDGSGA----TLHELADEFGVSAERIRQIEAVALKKM 290 Query: 668 K 668 K Sbjct: 291 K 291 >gi|255263634|ref|ZP_05342976.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] gi|255105969|gb|EET48643.1| alternative sigma factor RpoH [Thalassiobium sp. R2A62] Length = 298 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/248 (31%), Positives = 122/248 (49%), Gaps = 17/248 (6%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S + ++V ++LRL +A Y GL ++I E N+GLM+A +KFD G++ S Sbjct: 43 ENEDSKSAHKLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRLS 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPE 550 TYAMWW++ AI + +++ K K+ R+ ++I R E Sbjct: 103 TYAMWWIRAAIQEYVLRSWSMVKLGTTSAQK--KLFFNLRKAKSRIGALEDGDLRPEHVE 160 Query: 551 EIAKKLAMPVEGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQA 607 IA L + + V + +++ SL +G E T D++ED++A D + Sbjct: 161 RIANDLGVNEQEVINMNRRLSGGDASLNAQVGSEGEGTMQWQDWLEDEDADQAGDYEAKD 220 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L RE ++ L RE+ +L R + TLEE+ Q+ V+RERIRQIE +A Sbjct: 221 ELDSRRELLADAMSVLNDREKDILMQRR--LQDKAITLEELSGQYDVSRERIRQIEVRAF 278 Query: 665 RKLKHPSR 672 KL+ R Sbjct: 279 EKLQKKMR 286 >gi|146338455|ref|YP_001203503.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. ORS278] gi|146191261|emb|CAL75266.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Bradyrhizobium sp. ORS278] Length = 299 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 121/245 (49%), Gaps = 21/245 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + S A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ + Sbjct: 43 EHDDSDAAHKLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPE 550 TYAMWW+K +I I +++ K K+ R+ +KI R + Sbjct: 103 TYAMWWIKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDLRPDQVK 160 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA-- 607 IAK+L + + V + + SL PI D+ + D++ D SP AI A Sbjct: 161 LIAKRLGVTDQDVIDMNRRLGGDASLNAPIRDDGEAGEWQDWLVD---TSPNQEAIMAEH 217 Query: 608 ----NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + R+ + L RE R+ R + TLE++ +F V+RER+RQIE +A Sbjct: 218 EEYDHRRQALNGAIGVLNARERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRA 275 Query: 664 IRKLK 668 K++ Sbjct: 276 FEKVQ 280 >gi|261868195|ref|YP_003256117.1| RNA polymerase sigma factor RpoD [Aggregatibacter actinomycetemcomitans D11S-1] gi|261413527|gb|ACX82898.1| RNA polymerase sigma factor RpoD (Sigma-70) [Aggregatibacter actinomycetemcomitans D11S-1] Length = 616 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 62/158 (39%), Positives = 92/158 (58%), Gaps = 9/158 (5%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP + V ++Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLIVQGKEQGYLTYAEVNDSLPEELVDADQIEDIIQMINDMGIQVLETAPDADDLMLNE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 D D+ A+ L + R+TD PVRMY+REMGS+ELL+REGEI IAKRIE Sbjct: 70 NITDE-DVVEEATQ---VLSSVEAELGRTTD-PVRMYMREMGSVELLTREGEIDIAKRIE 124 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + +++ P LI D + +G L ++I Sbjct: 125 EGINEVQSAIAAYPEAITYLIEQYDLVENGGVRLADLI 162 >gi|91974840|ref|YP_567499.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisB5] gi|91681296|gb|ABE37598.1| RNA polymerase sigma factor RpoH [Rhodopseudomonas palustris BisB5] Length = 299 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 120/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IA +L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMHPDQVKLIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + + SL PI D+ + D++ D+ SP A+ A E R Sbjct: 167 GVTEQDVIDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDQ---SPSQEAVMAEHEELDHR 223 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALNGAIGVLNPRERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|254510133|ref|ZP_05122200.1| RNA polymerase sigma-32 factor [Rhodobacteraceae bacterium KLH11] gi|221533844|gb|EEE36832.1| RNA polymerase sigma-32 factor [Rhodobacteraceae bacterium KLH11] Length = 292 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 124/255 (48%), Gaps = 22/255 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE-----------I 552 +K +I + +R K + RR+ +++RE E I Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREAATEGLDLDRHQLHQMI 158 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLET-PIGDEDTSHLGDFIED---KNAVSPLDSAIQA 607 A ++ +P+ V + ++ SL DED D +ED + A S S Sbjct: 159 AAEIGVPLRDVEMMEGRLAGSDFSLNAVQSADEDGREWIDALEDDREQAAESVEHSHDTQ 218 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LR+ + +L RE ++R R TLE +G++ +++ER+RQ+EA A K+ Sbjct: 219 QLRDWLVTAMQALNDRERFIVRER--KLREPARTLESLGQELGLSKERVRQLEAAAFTKM 276 Query: 668 KH--PSRSKKLRSFL 680 + ++S++++ F Sbjct: 277 RKNLEAQSREVQHFF 291 >gi|77919976|ref|YP_357791.1| RNA polymerase, sigma (32) factor [Pelobacter carbinolicus DSM 2380] gi|77546059|gb|ABA89621.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter carbinolicus DSM 2380] Length = 286 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/252 (30%), Positives = 129/252 (51%), Gaps = 18/252 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 EFR R EA+ ++++ ANLR V+ +A +Y GL+ LD+IQEGNIGLMKA Sbjct: 31 EFRLTQDYHRNQNIEAA---QQLICANLRFVVKIAHEYRGYGLKLLDIIQEGNIGLMKAV 87 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD G +F TYA+WW++ I I ++I K K+ ++ + I+R Sbjct: 88 KKFDPDRGLRFITYAVWWIRAYIHNFIIRNWSLVKIGTTQAQK--KLFFKLNQVRSAIQR 145 Query: 546 EPTPEE---IAKKLAMPVEGVRKVL-KITKEPISLETPIGD-EDTSHLGDFIEDKNAVSP 600 E+ IA++L + + V + ++ SL+ + + ED + L +++ + Sbjct: 146 MTGSEDTKAIARELNVRDDEVEDMARRMAGRDTSLDMRLVEGEDFTLLDSLADERESQEE 205 Query: 601 LDSAIQANLRETTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 L I+ ++ TT L L RE R++ R I TL+ + F ++RER+ Sbjct: 206 L--LIKQQEKQITTSHIHGALQELNDRERRIVEER--ILQEEPRTLQALADDFGISRERV 261 Query: 657 RQIEAKAIRKLK 668 RQ+E A+ K++ Sbjct: 262 RQLEKNALEKIR 273 >gi|302389825|ref|YP_003825646.1| RNA polymerase, sigma subunit, RpoX/SigF [Thermosediminibacter oceani DSM 16646] gi|302200453|gb|ADL08023.1| RNA polymerase, sigma subunit, RpoX/SigF [Thermosediminibacter oceani DSM 16646] Length = 241 Score = 96.3 bits (238), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 120/228 (52%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK E+V NL LV S+ K++TNRG + DL Q G+IGL+KA EKFD+ KFSTYA+ Sbjct: 20 AKSELVSLNLGLVWSIVKRFTNRGYEIEDLFQIGSIGLLKAIEKFDFSYNVKFSTYAVPM 79 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D I++ +RD K+ R++ ++ REPT E+A++L E + Sbjct: 80 IIGEIRRYIRDDR-PIKMTRSLRDFSIKIQNAKERLAKELNREPTIAELAEELGATPEEL 138 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVLASLT 621 L+ + ISL ED S + +++ N+ D Q +T L+ L Sbjct: 139 VVGLEAAQPIISLNDVAFQEDGSPIY-YMDQLNS----DEHHQNQWLDTIALKEALSKLD 193 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E +++ +R+ D T EV K +T+ ++ ++E K + K+++ Sbjct: 194 KLERQIIILRYF----KDKTQTEVAKILGITQVQVSRLERKILAKIRN 237 >gi|220921709|ref|YP_002497010.1| RNA polymerase factor sigma-32 [Methylobacterium nodulans ORS 2060] gi|219946315|gb|ACL56707.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium nodulans ORS 2060] Length = 293 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 126/239 (52%), Gaps = 19/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 41 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPERDVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E +EI ++A + Sbjct: 101 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTDERVGDEIHSRIATAI 158 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVS--PLDSAIQANLRE 611 R+ + +++ +SL PI DE ++ DF+ D + + + A+ R Sbjct: 159 GVSREDVALMDARLSGPDMSLNAPITDEGDASAERVDFLVDTSPLPDEAVSDAVDGERRL 218 Query: 612 TTTR-VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T R L L+ RE R+L R + D TLE +G + +++ER+RQIE +A+ KL+ Sbjct: 219 TWLRQALTVLSERELRILHER---RLAEDQATLEALGHRLGISKERVRQIENRALEKLR 274 >gi|126728120|ref|ZP_01743936.1| RNA polymerase sigma-32 factor [Sagittula stellata E-37] gi|126711085|gb|EBA10135.1| RNA polymerase sigma-32 factor [Sagittula stellata E-37] Length = 277 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 127/253 (50%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLIQAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ + ++ IA Sbjct: 86 IKASIQDYVMRNWSMVRTGSTSSQKALFFNMRRVQARLEREAQAIGAQLDSHQLRHMIAS 145 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP---LDSAIQANL 609 ++ +P+ V + +++ SL ED D +ED +A +S L Sbjct: 146 EIGVPLRDVEMMEGRLSGSDFSLNATQSVEDEGREWIDTLEDDSAHGAEIVENSHDTECL 205 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ + + SL RE ++R R + TLE +G + +++ER+RQ+EA A K++ Sbjct: 206 RDWLVQAMGSLNERERFIVRER--KLRDEPRTLESLGNELGLSKERVRQLEAAAFGKMRK 263 Query: 670 P--SRSKKLRSFL 680 ++S +++ FL Sbjct: 264 ALEAQSGEVQHFL 276 >gi|46371303|gb|AAS90418.1| stationary phase sigma factor [Azotobacter chroococcum] Length = 172 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 94/157 (59%) Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 I +Q+ TIR+P+H+ +++ +R AR ++ K+ EP+ EEIA L PV V+++L + + Sbjct: 1 IMNQTGTIRLPIHVVKELNVYLRAARELTQKLDHEPSAEEIANLLEKPVAEVKRMLGLNE 60 Query: 572 EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMR 631 S++ +G + L D + + P D +L ++ + L LT ++ V+ R Sbjct: 61 RVTSVDVSLGPDSDRTLLDVLTEDRPSDPCDLLQDDDLSQSIDQWLFDLTDKQREVVVRR 120 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 FG+ + TLEEVG++ +TRER+RQI+ +A+++L+ Sbjct: 121 FGLRGHESCTLEEVGQEIGLTRERVRQIQVEALKRLR 157 >gi|326569916|gb|EGE19966.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC8] Length = 371 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 16/240 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 128 GDVEAT---RLLVMSHLRFVIHIARSYSGYGLSQADLIQEGNLGLMKAVKRFDPNKGVRL 184 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K+ +R+ ++ SN++ + IA Sbjct: 185 VSFAVHWIKAEIHEFVIKNWRIVKVATTKAHRKLFFNLRSLKKSSNQLTLDEAT-AIAND 243 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRET 612 L + V+ V ++ ++T S E D+D F+ED AV+P D +A+ E Sbjct: 244 LNVTVKQVLEMESRLTSYDASFEAQDSDDDEGRYAPQLFLED--AVNPADVVEEADWEEN 301 Query: 613 TTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TT L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ K+K Sbjct: 302 TTTALKDAMETLDERSRDIITQRWLADQKS--TLHELAATYNISAERVRQIEKNAMNKIK 359 >gi|134096067|ref|YP_001101142.1| sigma H factor [Herminiimonas arsenicoxydans] gi|133739970|emb|CAL63021.1| RNA polymerase sigma-32 factor [Herminiimonas arsenicoxydans] Length = 298 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/239 (32%), Positives = 124/239 (51%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD G + +Y+M W Sbjct: 61 AAQKLVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYSMHW 120 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMP 559 +K + I +++ + K+ +R+ + + + TP E +AK L + Sbjct: 121 IKAEMHEYILKNWRLVKVATTKAQRKLFFNLRSHKTGLDAM----TPDQVEALAKTLNVK 176 Query: 560 VEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLR-ETTT 614 E V ++ +++ I+LE P DED ++ P L+S L+ E + Sbjct: 177 REEVIEMETRLSGRDIALEAPTDDEDDKFAPIAYLSSDSQEPTRVLESQRYDRLQTEGLS 236 Query: 615 RVLASLTPREERVLRMRF-----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L PR R++ R+ G G TL E+ +F V+ ERIRQIE A++K+K Sbjct: 237 SALGKLDPRSRRIVEARWLANDDGSGA----TLHELANEFGVSAERIRQIETVALKKMK 291 >gi|238917256|ref|YP_002930773.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872616|gb|ACR72326.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 258 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/229 (29%), Positives = 124/229 (54%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+S+ ++++ G DL Q G IG++KA + FD L +FSTYA+ Sbjct: 38 ARETFIKGNLRLVLSIVQRFSQSGENLDDLFQIGCIGMIKAIDNFDISLNVQFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S TIR+ ++D +K + T + K +EP+ EIA+++ + + Sbjct: 98 IIGEIKRFLRDNS-TIRVSRSLKDTAYKAITTRETLMKKNLKEPSITEIAEEIGISKADI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 L+ ISL P+ ++ DT ++ D ++DK D ++ L+E R L Sbjct: 157 VIALEAVTPSISLYEPVFNDGGDTLYVIDQVKDKKNTE--DRWVRNIALQEAINR----L 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +PRE +++ +RF + T EV K +++ ++ ++E A+R +K Sbjct: 211 SPRERQIIILRFFDCL----TQTEVAKGLGISQAQVSRLEKCALRDMKR 255 >gi|303237309|ref|ZP_07323879.1| sigma-70, region 4 [Prevotella disiens FB035-09AN] gi|302482696|gb|EFL45721.1| sigma-70, region 4 [Prevotella disiens FB035-09AN] Length = 235 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 121/247 (48%), Gaps = 38/247 (15%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 IK I+ E +S E + + ++ G+ +A +++ ++NL+ V+S+A +Y NRGL D Sbjct: 10 IKDIANEQLLSDKEEQELAKQIKIGDAKAL---EKLTKSNLKFVVSIAHQYKNRGLGEDD 66 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIG+M AA+KFD G +F +A ++++A+ +I +Q T + V +D+ Sbjct: 67 LISEGNIGMMYAAQKFDGTKGTRFVKFAAPYIRKAMEEAINEQLETFK--VQNKDEKKPR 124 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 RTA R+S +PI P G T L + Sbjct: 125 KRTAHRVS-----------------------------IDQPI----PAGSNGTFTLQTIL 151 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 E+ N+ ++ + +RE + ++ L R+ +V+ + + I +T++E + Sbjct: 152 ENANSQHADENLTKQIVREEIKKAMSVLDARQRKVISLLYAIKDEEAYTMQETADIMDIK 211 Query: 653 RERIRQI 659 RER+RQI Sbjct: 212 RERVRQI 218 >gi|154503856|ref|ZP_02040916.1| hypothetical protein RUMGNA_01682 [Ruminococcus gnavus ATCC 29149] gi|153795455|gb|EDN77875.1| hypothetical protein RUMGNA_01682 [Ruminococcus gnavus ATCC 29149] Length = 259 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 120/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV K++++ DL Q G +GLMKA + FD KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIKRFSSSSENADDLFQIGCVGLMKAVDHFDPSRLVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + K +EPT +EIA+++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIYAKEGFVKKYSKEPTVQEIAEEIGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + DT ++ D + DK N V L + Sbjct: 157 VFALDAIQMPVSLHEPVYSDGGDTLYIMDQVSDKKNREENWVEEL----------SLEAA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++++RF G T EV +Q +++ ++ ++E A++ +K Sbjct: 207 MERLNERERFIIQLRFFEG----KTQMEVAEQIQISQAQVSRLEKNALKIMKQ 255 >gi|153873537|ref|ZP_02002087.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] gi|152069997|gb|EDN67913.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] Length = 288 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 126/235 (53%), Gaps = 14/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V+ +A Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AARTLVMSHLRFVMHIAHNYRGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R+A++ + ++ E +AK L + + Sbjct: 111 IRAEIHEYILRNWRIVKVATTKSQRKLFFNLRSAKKRLGWLTQDEV-ETVAKDLGVSPKD 169 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD---FIEDKNAVSPLDSAIQANLRETTTR-- 615 VR++ L++ +S + P+ D+D + + ++ED N P D Q+ + R Sbjct: 170 VREMELRLNSYDLSFDMPVDADDDNAEILSPVGYLED-NRYDPADLVEQSEWKTHGHRQL 228 Query: 616 --VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R + +L+ R+ T TL+E+ + V+ ERIRQIE A++KLK Sbjct: 229 HQALAKLDVRSQDILQKRWLSENKT--TLQELANHYKVSAERIRQIENNALKKLK 281 >gi|86139299|ref|ZP_01057869.1| RNA polymerase sigma factor [Roseobacter sp. MED193] gi|85824143|gb|EAQ44348.1| RNA polymerase sigma factor [Roseobacter sp. MED193] Length = 292 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/253 (28%), Positives = 127/253 (50%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLTNAYMRLAISMAVKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAIWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K ++ + +R + +MR ++ R A ++ + ++IA Sbjct: 101 IKASVQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQTQLERQANAQGQRLDKHQLHQQIAS 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSP---LDSAIQANL 609 ++ +P+ V + +++ SL E + + +ED +A + S L Sbjct: 161 EIGVPIRDVEMMDGRLSGADFSLNAARSTEAEGQEWIEILEDDSAQAAELVERSHDHRKL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ + L+ RE+R++ R N TLE +G++ +++ER+RQ+EA A +K++ Sbjct: 221 RKWLVEAMQGLSGREQRIVVAR--KLSNPPRTLEALGRELSLSKERVRQLEAGAFQKMRK 278 Query: 670 P--SRSKKLRSFL 680 +RS+++ L Sbjct: 279 TLDTRSREVHKLL 291 >gi|99080297|ref|YP_612451.1| RNA polymerase factor sigma-32 [Ruegeria sp. TM1040] gi|99036577|gb|ABF63189.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. TM1040] Length = 292 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 74/251 (29%), Positives = 126/251 (50%), Gaps = 22/251 (8%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL +S+A K+ G DLIQE +GLMKAAEKFD G +FSTYA+WW+K + Sbjct: 45 LITAYMRLAVSMASKFRRYGAPMNDLIQEAGLGLMKAAEKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + +MR ++ R A ++ R + +A+++ + Sbjct: 105 IQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLEREAAGEGVELDRHKLMQMVAEEIGV 164 Query: 559 PVEGVRKV-LKITKEPISLET-PIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-----LRE 611 P+ V + ++ SL DED D +ED + + ++A+ LRE Sbjct: 165 PLRDVEMMDGRLAGADFSLNAVQSADEDGREWIDALEDDSEQAA--DRVEADHDRRQLRE 222 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP- 670 L L RE ++R R TLE +G + +++ER+RQ+EA A K++ Sbjct: 223 WLLSALNGLNERERFIVRER--KLREEARTLESLGNELGLSKERVRQLEAAAFSKMRKSL 280 Query: 671 -SRSKKLRSFL 680 +S+++++FL Sbjct: 281 EGQSREVQNFL 291 >gi|229086468|ref|ZP_04218640.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-44] gi|228696785|gb|EEL49598.1| RNA polymerase sigma-G factor [Bacillus cereus Rock3-44] Length = 259 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 134/265 (50%), Gaps = 21/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI---GD 582 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI G Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 + + +DK + L+E R L RE+ ++R RF G Sbjct: 179 DPIFVMDQLSDDKQRDEQWVEELA--LKEGMKR----LNDREKMIIRKRFFQGKTQMEVA 232 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 233 EEIG----ISQAQVSRLEKSAIKQM 253 >gi|303327038|ref|ZP_07357480.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Desulfovibrio sp. 3_1_syn3] gi|302863026|gb|EFL85958.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Desulfovibrio sp. 3_1_syn3] Length = 352 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 126/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 A +V ++LRLV+ +A + R +Q LDL+QEGN+GLM+A KFD G KFS YA + Sbjct: 106 AAFRLVSSHLRLVVRIAMDFQRRWMQNVLDLVQEGNVGLMRAVNKFDPDKGIKFSYYASF 165 Query: 503 WVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 W+K I + I D ++I ++ K+ + R+ +P ++++L + + Sbjct: 166 WIKAYILKFIMDNWRMVKIGTTQVQRKLFYNLNRERQKLIAQGYDPDAAMLSERLGVTED 225 Query: 562 GVRKV-LKITKEPISLETPIGDED--------TSHLGDFIEDKNAVSPLDSAIQANLRET 612 + ++ ++ +SL +G++ LG IED A + +++ L+ Sbjct: 226 QINEMDQRLASTDLSLNVQVGEDSGGASRMDFLPALGPGIEDTLASDEIAGLVRSRLKT- 284 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ L +E +L+ R + TD TL E+G+++ VTRER+RQ+EA+ + K++ Sbjct: 285 ---IMPKLNEKEVYILQNR----LLTDEPVTLREIGERYNVTRERVRQLEARLLEKIRQ 336 >gi|326564381|gb|EGE14609.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 12P80B1] Length = 371 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 16/240 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 128 GDVEAA---RLLVMSHLRFVIHIARSYSGYGLSQADLIQEGNLGLMKAVKRFDPNKGVRL 184 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K+ +R+ ++ SN++ + IA Sbjct: 185 VSFAVHWIKAEIHEFVIKNWRIVKVATTKAHRKLFFNLRSLKKSSNQLTLDEAT-AIAND 243 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRET 612 L + V+ V ++ ++T S E D+D F+ED AV+P D +A+ E Sbjct: 244 LNVTVKQVLEMESRLTSYDASFEAQDSDDDEGRYAPQLFLED--AVNPADVVEEADWEEN 301 Query: 613 TTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TT L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ K+K Sbjct: 302 TTTALKDAMETLDERSRDIITQRWLADQKS--TLHELAATYNISAERVRQIEKNAMNKIK 359 >gi|85704163|ref|ZP_01035266.1| RNA polymerase sigma-32 factor [Roseovarius sp. 217] gi|85671483|gb|EAQ26341.1| RNA polymerase sigma-32 factor [Roseovarius sp. 217] Length = 277 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 121/244 (49%), Gaps = 26/244 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----------EEI 552 +K +I + +R K + RR+ +++RE E I Sbjct: 86 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREAMANGQQLDGYQLREMI 143 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQAN-- 608 A ++ +P+ V + +++ SL ED D +ED+ A D ++ + Sbjct: 144 AHEVGVPLRDVEMMEGRLSGSDFSLNATQSAEDEGREWIDTLEDEGARG--DEIVERHHD 201 Query: 609 ---LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAI 664 LR+ LA L RE ++R R + D TLE +G++ +++ER+RQ+EA A Sbjct: 202 MHALRDWLADALARLNERERFIVRER---KLRDDPRTLESLGEELNLSKERVRQLEAAAF 258 Query: 665 RKLK 668 +K++ Sbjct: 259 QKMR 262 >gi|148257972|ref|YP_001242557.1| RNA polymerase factor sigma-32 [Bradyrhizobium sp. BTAi1] gi|146410145|gb|ABQ38651.1| RNA polymerase, sigma 32 subunit, RpoH [Bradyrhizobium sp. BTAi1] Length = 299 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 123/243 (50%), Gaps = 17/243 (6%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + S A +++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ + Sbjct: 43 EHDDSDAAQKLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEE---I 552 TYAMWW+K +I I +++ K + + R+S + + P++ I Sbjct: 103 TYAMWWIKASIQEYILRSWSLVKMGTTANQKKLFFNLRKAKSRISALDEGDLHPDQVKLI 162 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQA---- 607 AK+L + + V + + SL PI D+ + D++ D SP AI A Sbjct: 163 AKRLGVTDQDVVDMNRRLGGDASLNAPIRDDGEAGEWQDWLVD---TSPNQEAIMAEHEE 219 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + R+ + L RE R+ R + TLE++ +F V+RER+RQIE +A Sbjct: 220 YDHRRQALNGAIGVLNARERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRAFE 277 Query: 666 KLK 668 K++ Sbjct: 278 KVQ 280 >gi|167644630|ref|YP_001682293.1| RNA polymerase factor sigma-32 [Caulobacter sp. K31] gi|167347060|gb|ABZ69795.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter sp. K31] Length = 295 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/253 (30%), Positives = 127/253 (50%), Gaps = 22/253 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + S A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G+ Sbjct: 39 RWKEHQDSEAAHKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDKGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW++ +I I +++ K K+ R+ ++I + P+ Sbjct: 99 RLATYAMWWIRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQIAAFQDGDLHPD 156 Query: 551 E---IAKKLA-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 + IA KL + E + ++ SL P+ + S D++ D N VS + Sbjct: 157 QVSYIATKLGVLDSEVISMNRRLGGPDASLNAPLRADGESEWQDWLADDNQVS--QETVV 214 Query: 607 ANLRETTTRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQI 659 A +E + R+ + LT RE +L R + D TLE++ ++ V+RER+RQI Sbjct: 215 AENQEKSMRMTLLEEAMVELTDRERHILTER---RLKDDPTTLEDLATEYGVSRERVRQI 271 Query: 660 EAKAIRKLKHPSR 672 E +A KL+ R Sbjct: 272 EVRAFEKLQKSMR 284 >gi|226939164|ref|YP_002794235.1| RNA polymerase factor sigma-32 [Laribacter hongkongensis HLHK9] gi|226714088|gb|ACO73226.1| RpoH [Laribacter hongkongensis HLHK9] Length = 282 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/231 (31%), Positives = 121/231 (52%), Gaps = 9/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++F+ G + ++A+ W Sbjct: 49 AARQLVMSHLRVVVSIARGYAGYGLPQADLIQEGNIGLMKAVKRFEPERGVRLFSFAIHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I I +R+ + K+ R M E +IA L + E Sbjct: 109 IKAEIHEFILRNWRLVRVATTKPQR--KLFFNLRSMKQGFSALSDTEARQIADDLGVKPE 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN---LRETTTRVL 617 VR++ +++ + ISL +E+ D++ D + +QA RE + L Sbjct: 167 EVREMETRMSGQDISLLAEDNEEEGFAPIDWLADTRSEPTKQLEMQAYERLQREGIEQAL 226 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR R++ R+ + + TL ++ +F V+ ERIRQIE KA++K+K Sbjct: 227 QALDPRSRRIIEARW-LADDGGLTLHDLAAEFGVSAERIRQIEVKALKKMK 276 >gi|149202416|ref|ZP_01879389.1| RNA polymerase sigma-32 factor [Roseovarius sp. TM1035] gi|149144514|gb|EDM32545.1| RNA polymerase sigma-32 factor [Roseovarius sp. TM1035] Length = 277 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 119/243 (48%), Gaps = 24/243 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----------EEI 552 +K +I + +R K + RR+ +++RE E I Sbjct: 86 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREALANGEQLDGYQLREMI 143 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS-HLGDFIEDKNA----VSPLDSAIQ 606 A ++ +P+ V + +++ SL ED D +ED A + D + Sbjct: 144 AHEVGVPLRDVEMMEGRLSGSDFSLNATQSSEDEGRQWIDTLEDDGARGDEIVERDHDMH 203 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIR 665 A LR L+ L RE ++R R + D TLE +G++ +++ER+RQ+EA A + Sbjct: 204 A-LRTWLADALSRLNDRERFIVRER---KLRDDPRTLESLGEELNLSKERVRQLEAAAFQ 259 Query: 666 KLK 668 K++ Sbjct: 260 KMR 262 >gi|307251409|ref|ZP_07533324.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306856577|gb|EFM88718.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 4 str. M62] Length = 316 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 147/285 (51%), Gaps = 42/285 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E ++E R E A K+++ +++R VI +A+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAE--------RYYYDEDVEAAKQLILSHMRFVIHIARG 100 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 101 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAIHWVKAEIHEYVLKNWRIVKVA 160 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + E VR++ ++T + + + P Sbjct: 161 TTKAQR--KLFFNLRKNKNRLAWFNEEEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLP 218 Query: 580 IGDED-------------TSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVLASLTPRE 624 +G++D +S+ D +ED+ Q N + T LA+L R Sbjct: 219 VGEDDDEVYTPSMYLEDNSSNFADDLEDE----------QYNGQATAQLAYALATLDERS 268 Query: 625 ERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +++ R+ ++ + TL+++ +++ ++ ER+RQ+E A++K+K Sbjct: 269 QDIIKTRW---LDEEKATLQDLAEKYGISAERVRQLENAALKKIK 310 >gi|152976264|ref|YP_001375781.1| sporulation sigma factor SigG [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025016|gb|ABS22786.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 259 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/264 (29%), Positives = 136/264 (51%), Gaps = 19/264 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNDEMRKLFREMQSGETSA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEFVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE-- 583 RD +K ++ ++ + +EPT +IA+ L + E + L ++P+SL PI ++ Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAQVLDVTHEEIVFALDAIQDPVSLFEPIYNDGG 178 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 D + D + D+ + L+E R L RE+ ++R RF G E Sbjct: 179 DPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVAE 233 Query: 644 EVGKQFCVTRERIRQIEAKAIRKL 667 E+G +++ ++ ++E AI+++ Sbjct: 234 EIG----ISQAQVSRLEKSAIKQM 253 >gi|320353914|ref|YP_004195253.1| RNA polymerase sigma 32 subunit RpoH [Desulfobulbus propionicus DSM 2032] gi|320122416|gb|ADW17962.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfobulbus propionicus DSM 2032] Length = 328 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 127/245 (51%), Gaps = 16/245 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCL 492 VR E A +V +NLRLV+ VA + +Q F+DLIQEGN+GL++A +KFD Sbjct: 60 VRFQETGDPDAAYRLVSSNLRLVVKVAMDFQKYWMQNFMDLIQEGNVGLVQATKKFDPYR 119 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G KFS YA +W++ I + I D ++I + K+ + +++ +P + Sbjct: 120 GVKFSYYAAYWIRAYILKFIMDNWRLVKIGTTQAQRKLFFSLNKEKKLLESQGFKPEVKL 179 Query: 552 IAKKLAMP-VEGVRKVLKITKEPISLETPI----GDEDTS---HLGDFIEDKNAVSPLDS 603 +A++L + E + ++ +SLE P+ DE + H G IE+ A + Sbjct: 180 LAERLNVKESEVIEMGQRMDNWDVSLEAPVRSDSEDEQKNFLPHEGPGIEEMVASQEMRE 239 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L + +TR L +E+ +L R + + TL+ + +F ++RER+RQIE+ Sbjct: 240 RLAGILADLSTR----LNEKEQVILTTR--LLSDEPKTLQTIADEFNISRERVRQIESNL 293 Query: 664 IRKLK 668 ++KL+ Sbjct: 294 LKKLR 298 >gi|170691517|ref|ZP_02882682.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia graminis C4D1M] gi|170143722|gb|EDT11885.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia graminis C4D1M] Length = 311 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 124/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI EG Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGSF----TPDEI--------EG 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E ++ +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 180 LAKELNVKREEVAEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDKLQSDGIATALEALDARSRRIIEARWLKVQDDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|229815207|ref|ZP_04445543.1| hypothetical protein COLINT_02253 [Collinsella intestinalis DSM 13280] gi|229809217|gb|EEP44983.1| hypothetical protein COLINT_02253 [Collinsella intestinalis DSM 13280] Length = 261 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 71/215 (33%), Positives = 115/215 (53%), Gaps = 10/215 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V ++L LV +A K+ NRG DLIQ G +GL+KA ++FD G +F+T+A Sbjct: 31 AREKLVMSHLNLVRFIANKFKNRGEPIDDLIQVGYLGLLKAIDRFDPSRGLEFTTFATPT 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + ++++++R PT EIA L V+ V Sbjct: 91 IMGEIKRHFRDKGWSVRVPRRLQELSAKVNQATDTLTSQLQRSPTIAEIADYLDATVDEV 150 Query: 564 RKVLK--ITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + ++ +SLE P G D+DT + D+ A D A + R LAS Sbjct: 151 LEAMESSSAYSSVSLEAPSGADDDDTPS----VIDRYATEDSDLAFTDD-RIIIEEALAS 205 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +PRE V+ MRF GM E++G Q V+R Sbjct: 206 FSPRERDVIEMRFLKGMTQIEIAEKLGISQVQVSR 240 >gi|118578560|ref|YP_899810.1| RNA polymerase sigma-32 subunit RpoH [Pelobacter propionicus DSM 2379] gi|118501270|gb|ABK97752.1| RNA polymerase, sigma 32 subunit, RpoH [Pelobacter propionicus DSM 2379] Length = 292 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 68/230 (29%), Positives = 113/230 (49%), Gaps = 7/230 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V +NLR V+ +A +Y N G++ LDLIQEGNIGLM A KF+ + +YA+WW Sbjct: 45 AAHTLVTSNLRYVVKIASEYRNYGMKMLDLIQEGNIGLMMAVRKFNPYRKIRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ I I I+I R + + +T + + EIA L +P Sbjct: 105 IRAYIQNYIVSAWSLIKIGTTQAQRKLFYGLRKTKEALLRMTGSDNDAAEIASMLQVPDH 164 Query: 562 GVRKVLKITKEPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANL--RETTTRVLA 618 V + + K +SL+ I + D + L +D+ L Q L ++ + + Sbjct: 165 EVIDMEQRLKGEVSLDCQIVESDGLTFLETIADDRMNQEELLGENQQELQVKQRVIKAME 224 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +E ++ R I + TL+++ F ++RER+RQ+E +A+ KLK Sbjct: 225 GLNEKERYIVEHR--ITSDEPLTLQDIASHFSISRERVRQLEERALAKLK 272 >gi|253578148|ref|ZP_04855420.1| sporulation sigma factor SigG [Ruminococcus sp. 5_1_39B_FAA] gi|251850466|gb|EES78424.1| sporulation sigma factor SigG [Ruminococcus sp. 5_1_39BFAA] Length = 259 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 124/232 (53%), Gaps = 14/232 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ N DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 ARELYIKGNLRLVLSVIRRFQNSSENADDLFQIGCIGLIKAIDNFDTTLQVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T + +EPT EIA+++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKAIYTRENYMKQHLKEPTVTEIAQEIGIEKEMI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 L + P+SL P+ E DT ++ D I DK + + I+ LRE R L Sbjct: 157 VYALDAIQNPVSLFEPVYTEGGDTLYVMDQISDKK--NKEERWIENLALREAMQR----L 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 RE+ ++ +RF G T EV ++ +++ ++ ++E A++ +++ R Sbjct: 211 NSREKHIIELRFYEG----KTQMEVAQEIGISQAQVSRLEKNALKSMRNYLR 258 >gi|83859148|ref|ZP_00952669.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] gi|83852595|gb|EAP90448.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633] Length = 296 Score = 95.9 bits (237), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/247 (30%), Positives = 129/247 (52%), Gaps = 16/247 (6%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E S A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G+ Sbjct: 40 RWQEHEDSDAAHQLVTSHLRLVAKIAMGYRGYGLPIAEVISEGNVGLMQAVKKFDPDKGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW++ +I I +++ K K+ RRM ++++ R Sbjct: 100 RLATYAMWWIRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKSQMRALDEGDLRPD 157 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 EEIA KL + + V + + P SL P+ + + D++ D +A D + Sbjct: 158 QVEEIATKLGVTDDDVISMNRRLSGPDASLNAPMRADGEAEWQDWLADDDADDAEDELAE 217 Query: 607 AN---LRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ +R T + + +L RE+ +++ R TLE++ + + V+RERIRQIE + Sbjct: 218 SDEFSMRMTLLQEAMGALNEREQNIIQERRLT--EEPKTLEDLAQVYGVSRERIRQIEVR 275 Query: 663 AIRKLKH 669 A KL++ Sbjct: 276 AFEKLQN 282 >gi|209965454|ref|YP_002298369.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958920|gb|ACI99556.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 307 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/231 (28%), Positives = 119/231 (51%), Gaps = 16/231 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +++RL + +A KY GL DLI E NIGL+KA ++FD G++ +TYA+WW++ Sbjct: 51 LVRSHMRLAVKIASKYARSGLPMGDLISEANIGLVKAVQRFDPDRGFRLATYALWWIRAE 110 Query: 508 ITRSIADQSCTIR--IPVHMRDKIHKVVRTARRMS--NKIKREPTPEEIAKKLAMPVEGV 563 + + ++ ++ + +T RR+ ++I + + +A +L V+ V Sbjct: 111 VQTYVLHNWSMLKGGNTAALKRLFFNLRQTQRRLGIQDRIMSDEEADRVADELGASVDEV 170 Query: 564 RKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RETTTRVLAS 619 R++ P+ SL P+G++ D + D+ + A ++ L + L + Sbjct: 171 REMEHRFATPVTSLNVPVGEDGDHEALDLLADETETVEVRLAEKSELAVRKALMVDALGA 230 Query: 620 LTPREERVLRMRFGIGMN-TDH--TLEEVGKQFCVTRERIRQIEAKAIRKL 667 L RE + + N TD TLE + +Q+ V++ERIRQIE+ A +K+ Sbjct: 231 LGDRERHIF-----VSRNLTDQPVTLETLAQQYGVSKERIRQIESGAYKKV 276 >gi|186475070|ref|YP_001856540.1| RNA polymerase factor sigma-32 [Burkholderia phymatum STM815] gi|184191529|gb|ACC69494.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia phymatum STM815] Length = 311 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 123/249 (49%), Gaps = 40/249 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 SARKLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I I +++ K + + R + + TP+EI +G+ Sbjct: 132 IKAEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKQGLQSFTPDEI--------DGL 180 Query: 564 RKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA---- 618 K L + +E ++ +ET + D + G + + A +P+ A A+ T VLA Sbjct: 181 AKELNVKREEVAEMETRLSGGDVALEGQVEDGEEAFAPI--AYLADSHSEPTAVLAARQR 238 Query: 619 -------------SLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQI 659 SL R R++ R+ G G +T H E+ +F V+ ERIRQI Sbjct: 239 DRLHSDGIASALESLDSRSRRIIEARWLQVEDDGSGGSTLH---ELADEFGVSAERIRQI 295 Query: 660 EAKAIRKLK 668 EA A++K++ Sbjct: 296 EASAMKKMR 304 >gi|165977273|ref|YP_001652866.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190151190|ref|YP_001969715.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303252711|ref|ZP_07338873.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307248906|ref|ZP_07530917.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307262328|ref|ZP_07543976.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307264539|ref|ZP_07546123.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|165877374|gb|ABY70422.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189916321|gb|ACE62573.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302648450|gb|EFL78644.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306854601|gb|EFM86793.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306867991|gb|EFM99819.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306870138|gb|EFN01898.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 316 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 147/285 (51%), Gaps = 42/285 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E ++E R E A K+++ +++R VI +A+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAE--------RYYYDEDVEAAKQLILSHMRFVIHIARG 100 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 101 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 160 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + E VR++ ++T + + + P Sbjct: 161 TTKAQR--KLFFNLRKNKNRLAWFNEEEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLP 218 Query: 580 IGDED-------------TSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVLASLTPRE 624 +G++D +S+ D +ED+ Q N + T LA+L R Sbjct: 219 VGEDDDEVYTPSMYLEDNSSNFADDLEDE----------QYNGQATAQLAYALATLDERS 268 Query: 625 ERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +++ R+ ++ + TL+++ +++ ++ ER+RQ+E A++K+K Sbjct: 269 QDIIKTRW---LDEEKATLQDLAEKYGISAERVRQLENAALKKIK 310 >gi|312194695|ref|YP_004014756.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EuI1c] gi|311226031|gb|ADP78886.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia sp. EuI1c] Length = 393 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 118/231 (51%), Gaps = 10/231 (4%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F +V + +G+ E + + ++V +L LV +A+++ NRG DL+Q IGL+K+ + Sbjct: 152 FARLVELP-EGDAERAAIRDQLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVD 210 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G +FSTYA + I R D+ IR+P +++ + + +S K+ R Sbjct: 211 RFDPERGVEFSTYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQKLGRS 270 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDS 603 PT EIA L M E V + L+ +SL+ P GD+++ + D + ++ +S Sbjct: 271 PTVAEIAAHLEMTEEEVLEGLESANAYSAVSLDAPDSGDDESPAVADTLGVQD-----ES 325 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M E+G Q V+R Sbjct: 326 LEGVEYRESLKPLLEKLPPREKRILLLRFFGNMTQSQIAIELGISQMHVSR 376 >gi|146276534|ref|YP_001166693.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17025] gi|145554775|gb|ABP69388.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17025] Length = 292 Score = 95.5 bits (236), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 76/258 (29%), Positives = 130/258 (50%), Gaps = 28/258 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A KY G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMASKYRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A + ++ E +A Sbjct: 101 IKASIQDYVMRNWSLVRTGSTSSQKALFFNMRRVQARLEREASQRGEQLDAHQLRELVAH 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIEDKNAVSP--LDSAIQA-NL 609 + +P+ V + +++ SL T D++ D +ED +A + ++ ++ A L Sbjct: 161 DVGVPLSDVEMMEGRLSGSDFSLNATQSADDEGREWIDALEDDSAQASEVVEGSLDAERL 220 Query: 610 RETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 R + L RE ER LR + TLE +G++ +++ER+RQ+EA A Sbjct: 221 RGWLVVAMQQLNARERFIVTERKLR-------DVPRTLESLGEELKLSKERVRQLEAAAF 273 Query: 665 RKLKHP--SRSKKLRSFL 680 K++ ++S+++ FL Sbjct: 274 AKMRRSLEAQSREVHHFL 291 >gi|91781700|ref|YP_556906.1| RNA polymerase factor sigma-32 [Burkholderia xenovorans LB400] gi|91685654|gb|ABE28854.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia xenovorans LB400] Length = 307 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 77/250 (30%), Positives = 124/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 68 SARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 127 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI EG Sbjct: 128 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------EG 175 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E +S +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 176 LAKELNVKREEVSEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 233 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 234 RDKLQSDGIASALDALDARSRRIIEARWLKVEDDGSGGSTLH---ELADEFGVSAERIRQ 290 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 291 IEASAMKKMR 300 >gi|187479755|ref|YP_787780.1| RNA polymerase factor sigma-32 [Bordetella avium 197N] gi|115424342|emb|CAJ50895.1| RNA polymerase sigma-32 factor [Bordetella avium 197N] Length = 307 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 129/231 (55%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +E+V ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 73 SARELVLSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 132 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ R + + E + IA++L + E Sbjct: 133 IKAEIHEYIIRNWRLVKVATTKAQRKLFFNLRSMRPDGHTLDTEQV-DHIARELNVRRED 191 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLR-ETTTRVL 617 V ++ ++++ +SLE D+D ++ D+ P L+ + +L+ + + + Sbjct: 192 VSEMEVRLSGRDLSLENQDDDDDGYAPIAYLSDECREEPTRVLERKARDDLQGKGLSDAI 251 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR R++ R+ + TL E+ +F V+ ERIRQIEA A++K++ Sbjct: 252 TALDPRSRRIVEARW-LQDEGGATLHELAAEFGVSAERIRQIEAAALKKMR 301 >gi|218777994|ref|YP_002429312.1| RNA polymerase, sigma 70 family subunit [Desulfatibacillum alkenivorans AK-01] gi|218759378|gb|ACL01844.1| putative RNA polymerase, sigma 70 family subunit [Desulfatibacillum alkenivorans AK-01] Length = 328 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 130/246 (52%), Gaps = 18/246 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCL 492 VR E + A +V ANLRLV+ +A ++ +Q LDLIQEGNIGLM+AA KFD Sbjct: 65 VRVQEFDDPDAAYRLVTANLRLVVKIALEFQRVWMQNLLDLIQEGNIGLMQAARKFDPYK 124 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFS Y+ +W+K I + I D ++I + K+ ++ ++ + +P P+ Sbjct: 125 NVKFSYYSSFWIKAYILKFIMDNWRLVKIGTTQAQRKLFFKLKKEKQKLLEEGFDPKPKL 184 Query: 552 IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA------ 604 +++KL + + + ++ +SL+ P+ D+ S +F+ +P +SA Sbjct: 185 LSEKLGVSERDIIDMDQRLNNWDLSLDAPVKDDSDSERIEFLS-----TPSESAEDQVAR 239 Query: 605 --IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ LRE +L RE + R + ++ TL+++G + ++RER+RQ+E+ Sbjct: 240 KEMETILREKIDIFRKTLKERELEIFDER--VFSDSPVTLQQIGDRHGISRERVRQVESG 297 Query: 663 AIRKLK 668 ++KLK Sbjct: 298 VVKKLK 303 >gi|254468686|ref|ZP_05082092.1| alternative sigma factor RpoH [beta proteobacterium KB13] gi|207087496|gb|EDZ64779.1| alternative sigma factor RpoH [beta proteobacterium KB13] Length = 281 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 125/235 (53%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LRLVI +A+ Y+ GL DL+QEGNIGLMKA ++FD G + ++AM+W Sbjct: 49 AARQLIMSHLRLVIKIARSYSGYGLNQADLVQEGNIGLMKAVKRFDPSRGVRLVSFAMYW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++ + K+ +R+ ++ +K+E +EIAK+L + Sbjct: 109 IKAEIQEFVVRNWRLVKTATTKAQRKLFFNLRSMKKTLQPLKQEEI-KEIAKELNVKESD 167 Query: 563 VRKV-LKITKEPISLETPIGDEDTS----HLGDFIEDKNAVSPLDSAI----QANLRETT 613 V+++ + I+L+ DED +++D+NA P+ I ++N Sbjct: 168 VKEMEYRFNGNEIALD--YQDEDNEDEVFRPISYLQDENA-DPVKQLISKESESNNLSAL 224 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + S+ R +L R+ + TL E+ + V+ ERIRQIE A++KLK Sbjct: 225 SNAIKSIDERSRYILESRW-LNEEKSKTLHELADELGVSAERIRQIEQNALKKLK 278 >gi|295688294|ref|YP_003591987.1| RNA polymerase sigma 32 factor subunit RpoH [Caulobacter segnis ATCC 21756] gi|295430197|gb|ADG09369.1| RNA polymerase, sigma 32 subunit, RpoH [Caulobacter segnis ATCC 21756] Length = 295 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 125/245 (51%), Gaps = 24/245 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 ++ +I I +++ K K+ R+ ++I + + PE+ IA KL Sbjct: 108 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQIAAFQEGDLRPEQVSAIATKL 165 Query: 557 A-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP-------LDSAIQAN 608 + E + +++ SL P+ + S D++ D+ VS + +++ + Sbjct: 166 GVLDSEVISMNRRLSGPDASLNAPLRSDSESEWQDWLADEEQVSQETRVAEDEEKSLRMS 225 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E + LT RE +L R + D TLEE+ Q+ V+RER+RQIE +A KL Sbjct: 226 LLE---EAMVELTDRERHILTER---RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKL 279 Query: 668 KHPSR 672 + R Sbjct: 280 QKTMR 284 >gi|237749576|ref|ZP_04580056.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes OXCC13] gi|229380938|gb|EEO31029.1| RNA polymerase sigma-32 factor [Oxalobacter formigenes OXCC13] Length = 299 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 124/236 (52%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LRLV S+A+ Y GL DLIQEGNIGLMKA ++FD +G + +YA+ W Sbjct: 62 AAQELVLSHLRLVASIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPKMGVRLVSYAIHW 121 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ + + + RE +A+KL + E Sbjct: 122 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKSGNEAMTREQI-RSLAEKLNVKDEE 180 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLR-ETTTRVL 617 V ++ +++ I+LET D+D + P L++ L+ E L Sbjct: 181 VSEMETRLSGHDIALETQHDDDDDNFAPIAYLSSEQTEPTRVLEAKQHDRLQSEGLAEAL 240 Query: 618 ASLTPREERVLRMRF-----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +R++ R+ G G TL ++ ++F V+ ERIRQIEA A++K+K Sbjct: 241 DKLDDRSKRIIEARWLKNDDGSGA----TLHDLAEEFGVSAERIRQIEAAALKKMK 292 >gi|323498063|ref|ZP_08103069.1| RNA polymerase factor sigma-32 [Vibrio sinaloensis DSM 21326] gi|323316871|gb|EGA69876.1| RNA polymerase factor sigma-32 [Vibrio sinaloensis DSM 21326] Length = 285 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 75/243 (30%), Positives = 129/243 (53%), Gaps = 19/243 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE EA+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 45 GEIEAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I R + ++ +R+ E E +AK Sbjct: 102 VSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVAK 159 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDED--TSHLGD--FIEDKNAVSPLDSAIQANL 609 +L + VR++ ++ + + E P D+D +S+ ++EDK A D+ AN Sbjct: 160 ELGVEPAEVREMESRLAAQDSTFEMPTDDDDSVSSYTAPVLYLEDK-ASDVADNVEAANW 218 Query: 610 RETTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 T LASL R + ++R R+ + TL+E+ + + V+ ERIRQ+E A++ Sbjct: 219 EAHTNNRLSLALASLDERSQHIVRSRWLD--DNKSTLQELAETYSVSAERIRQLEKNAMK 276 Query: 666 KLK 668 KLK Sbjct: 277 KLK 279 >gi|163815157|ref|ZP_02206538.1| hypothetical protein COPEUT_01315 [Coprococcus eutactus ATCC 27759] gi|158449566|gb|EDP26561.1| hypothetical protein COPEUT_01315 [Coprococcus eutactus ATCC 27759] Length = 260 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/228 (32%), Positives = 121/228 (53%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ E +E NLRLV+SV +++ + DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 ARDEFIEGNLRLVLSVIQRFGSSNENPDDLFQVGCIGLIKALDNFDRSLNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + R + D + IR+ +RD +K + + +EPT EEIA+++++P E + Sbjct: 98 IIGECRRYLRDNN-AIRVSRSLRDIAYKAIYAKENLQKTRDKEPTIEEIAEEISIPKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L P+SL P+ E DT ++ D I+D + L +LRE R L Sbjct: 157 VMSLDAISAPLSLYEPVYQEGGDTLYIMDQIKDGKSREEL-WVENLDLREAMGR----LC 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE+ ++R+RF G T EV ++ +++ ++ ++E AI+ L+ Sbjct: 212 DREKNIVRLRFFEG----KTQTEVAEEISISQAQVSRLEKNAIKSLRR 255 >gi|329936108|ref|ZP_08285907.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329304426|gb|EGG48305.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 310 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 124/238 (52%), Gaps = 13/238 (5%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + + +V +L LV +A++Y NRG DL Q IGL+K+ ++FD G Sbjct: 76 LKDGSPEYAELRNRLVRMHLPLVEHLARRYRNRGEPLDDLTQVATIGLIKSVDRFDPDRG 135 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA V I R D+ +R+P +++ + +S + R PT E+A Sbjct: 136 VEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQQHGRSPTVHELA 195 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLR 610 +KLA+ E V + L+ +SL+ P D+D + D + D+ A+ ++ +A+LR Sbjct: 196 EKLAISEEEVLEGLESANAYSTLSLDVPDTDDDAPAVADRLGADEAALESVE--YRASLR 253 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L L PRE+R+L +RF M +EVG +++ + ++ A+ + KL+ Sbjct: 254 ----LLLEDLPPREKRILLLRFFGNMTQSQIAQEVG----ISQMHVSRLLARTLAKLR 303 >gi|296161515|ref|ZP_06844320.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. Ch1-1] gi|295888159|gb|EFG67972.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. Ch1-1] Length = 311 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 77/248 (31%), Positives = 123/248 (49%), Gaps = 42/248 (16%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W+K Sbjct: 74 RRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIK 133 Query: 506 QAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I I +++ + K+ +R+ ++ TP+EI EG+ Sbjct: 134 AEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------EGLA 181 Query: 565 KVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS---- 619 K L + +E +S +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 182 KELNVKREEVSEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQRD 239 Query: 620 -------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIE 660 L R R++ R+ G G +T H E+ +F V+ ERIRQIE Sbjct: 240 KLQSDGIASALDALDARSRRIIEARWLKVEDDGSGGSTLH---ELADEFGVSAERIRQIE 296 Query: 661 AKAIRKLK 668 A A++K++ Sbjct: 297 ASAMKKMR 304 >gi|294011928|ref|YP_003545388.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] gi|292675258|dbj|BAI96776.1| RNA polymerase sigma-32 factor [Sphingobium japonicum UT26S] Length = 304 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 127/251 (50%), Gaps = 26/251 (10%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + S A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G+ Sbjct: 43 RYAEHQDSEAAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEPDRGF 102 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW++ +I I +++ K K+ RRM N I+ + P+ Sbjct: 103 RLATYAMWWIRASIQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKNNIEAFEDGDLHPD 160 Query: 551 EIAKKLAMPVEGVRK--VLKITKE-----PISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 ++ KK+A + GV + V+ + + SL P+ ++ D++ D + PL Sbjct: 161 DV-KKIATDL-GVTEEDVISMNRRMAMGGDTSLNVPMREDGEGQWQDWLADSD---PLQD 215 Query: 604 AIQANLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 A+ +E+ R + L RE+ +L R TLEE+ + + V+RER+R Sbjct: 216 ERVADRQESELRHDMLVEAMDDLNDREKHILAERRLA--EEPKTLEELSQVYGVSRERVR 273 Query: 658 QIEAKAIRKLK 668 QIE +A KL+ Sbjct: 274 QIEVRAFEKLQ 284 >gi|254000081|ref|YP_003052144.1| RNA polymerase sigma-70 subunit RpoD [Methylovorus sp. SIP3-4] gi|313202040|ref|YP_004040698.1| RNA polymerase sigma-70 subunit RpoD [Methylovorus sp. MP688] gi|253986760|gb|ACT51617.1| RNA polymerase, sigma 70 subunit, RpoD [Methylovorus sp. SIP3-4] gi|312441356|gb|ADQ85462.1| RNA polymerase, sigma 70 subunit, RpoD [Methylovorus sp. MP688] Length = 638 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 59/158 (37%), Positives = 88/158 (55%), Gaps = 21/158 (13%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD---------GDD 82 K +I L ++RGY+T E+N LP D SEQ++ + M+++MGI V + D Sbjct: 28 KSLIVLGKERGYLTYAEINDHLPDDVQDSEQIDGIIGMINDMGIQVYEETPDAEALLMSD 87 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 ED+++ A A ++ DS T DPVRMY+REMG+++LL+REGEI I Sbjct: 88 APPPVADEDAVEEAEQALSTV-------DSEFGRTTDPVRMYMREMGTVDLLTREGEIEI 140 Query: 143 AKRIEAGRAMMMASLCESPLTFQALI-----IWRDELN 175 AKRIE G M+ ++ P T L+ + +DEL+ Sbjct: 141 AKRIEDGLKHMVQAIAACPTTIAELLAMVEKVEKDELS 178 >gi|256396809|ref|YP_003118373.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] gi|256363035|gb|ACU76532.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] Length = 353 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/230 (30%), Positives = 115/230 (50%), Gaps = 11/230 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + E+V+ +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 120 EGSTERKQIRDELVQMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDTERGVE 179 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + +R PT E+A+ Sbjct: 180 FSTYATPTVIGEIKRHFRDKGWAVRVPRRLQELRLSLTSATSELSQRNRRSPTVAELAEY 239 Query: 556 LAMPVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRE 611 L + E V + L+ +L + GDED+ + D + + D A++ RE Sbjct: 240 LKISEEEVLEGLESANAYSTLSLDVSEGGDEDSPAVADSLGSE------DEALEGVEYRE 293 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIE 660 + +L L PRE+++L +RF M EE+G Q V+R R +E Sbjct: 294 SLKPLLEQLPPREKKILLLRFFGNMTQSQIAEEIGISQMHVSRLLARTLE 343 >gi|188591091|ref|YP_001795691.1| RNA polymerase factor sigma-32 [Cupriavidus taiwanensis LMG 19424] gi|170937985|emb|CAP62969.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Cupriavidus taiwanensis LMG 19424] Length = 309 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 129/237 (54%), Gaps = 16/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 70 AARRLVMSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 129 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R+ ++ + E E +A++L + E Sbjct: 130 IKAEIHEYVLKNWRMVKVATTKAQRKLFFNLRSHKQGGHTFTPEQV-EAVARELNVKPEE 188 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKN-AVSPLDSAIQANLR-ETTTRVL 617 V ++ +++ ++LE + G+E+ + + ++ N +++ Q ++ E L Sbjct: 189 VMEMETRLSGGDLALEGQVDDGEEEFAPIAYLADNHNEPTRVMEAKRQDRMQVEGLEEAL 248 Query: 618 ASLTPREERVLRMRFGIGMNTD------HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A L R R++ R+ +N + TL E+ +F V+ ERIRQIEA A++K+K Sbjct: 249 AKLDERSRRIIEARW---LNVEDDGSGGATLHELADEFGVSAERIRQIEAAAMKKMK 302 >gi|303251140|ref|ZP_07337324.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307253519|ref|ZP_07535389.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302649991|gb|EFL80163.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306859020|gb|EFM91063.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 316 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 147/285 (51%), Gaps = 42/285 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E ++E R E A K+++ +++R VI +A+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAE--------RYYYDEDVEAAKQLILSHMRFVIHIARG 100 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 101 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 160 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + E VR++ ++T + + + P Sbjct: 161 TTKAQR--KLFFNLRKNKNRLAWFNEEEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLP 218 Query: 580 IGDED-------------TSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVLASLTPRE 624 +G++D +S+ D +ED+ Q N + T LA+L R Sbjct: 219 VGEDDDEVYTPSMYLEDNSSNFADDLEDE----------QYNGQATAQLAYALATLDKRS 268 Query: 625 ERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +++ R+ ++ + TL+++ +++ ++ ER+RQ+E A++K+K Sbjct: 269 QDIIKTRW---LDEEKATLQDLAEKYGISAERVRQLENAALKKIK 310 >gi|46143484|ref|ZP_00135165.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126209296|ref|YP_001054521.1| RNA polymerase factor sigma-32 [Actinobacillus pleuropneumoniae L20] gi|126098088|gb|ABN74916.1| RNA polymerase sigma-32 factor [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 316 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 72/285 (25%), Positives = 147/285 (51%), Gaps = 42/285 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E ++E R E A K+++ +++R VI +A+ Sbjct: 49 LDSYIRMANQYPILTAEQEKELAE--------RYYYDEDVEAAKQLILSHMRFVIHIARG 100 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 101 YLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 160 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ N++ E +++A+ L + E VR++ ++T + + + P Sbjct: 161 TTKAQR--KLFFNLRKNKNRLAWFNEEEIQKVAEDLGVSPEEVREMESRMTGQDLGFDLP 218 Query: 580 IGDED-------------TSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVLASLTPRE 624 +G++D +S+ D +ED+ Q N + T LA+L R Sbjct: 219 VGEDDDEVYTPSMYLEDNSSNFADDLEDE----------QYNGQATAQLAYALATLDERS 268 Query: 625 ERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +++ R+ ++ + TL+++ +++ ++ ER+RQ+E A++K+K Sbjct: 269 QDIIKTRW---LDEEKATLQDLAEKYGISAERVRQLENAALKKIK 310 >gi|241206826|ref|YP_002977922.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|86450985|gb|ABC96760.1| putative RNA polymerase sigma factor [Rhizobium leguminosarum bv. trifolii TA1] gi|240860716|gb|ACS58383.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 287 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 124/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 40 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ + T +EIA L Sbjct: 100 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLAKGDTQLTLQSIHQEIAAAL 157 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANL---- 609 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ Sbjct: 158 GVSLSDVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 214 Query: 610 --RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 215 RRRVWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 271 Query: 667 LK 668 L+ Sbjct: 272 LR 273 >gi|115522843|ref|YP_779754.1| RNA polymerase factor sigma-32 [Rhodopseudomonas palustris BisA53] gi|115516790|gb|ABJ04774.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris BisA53] Length = 299 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 119/239 (49%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHHLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P++ IA +L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDMHPDQVKLIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + + SL PI D+ + D++ D SP A+ A E R Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDH---SPSQEAVMAEHEELDHR 223 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALNGAIGVLNPRERRIFEARR--LADDPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|288962386|ref|YP_003452681.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] gi|288914652|dbj|BAI76137.1| RNA polymerase sigma-32 factor [Azospirillum sp. B510] Length = 293 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 115/239 (48%), Gaps = 12/239 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+ +A Y GL DLI EGN+GLM A +KF+ G++ STYAMWW Sbjct: 49 AAHRLVTSHLRLVVKIAGGYRGYGLPLSDLIAEGNLGLMTAVKKFEPERGFRLSTYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPE---EIAKKLAM 558 +K +I I ++I K + R R++ + P+ IA LA+ Sbjct: 109 IKASIQDYILRSWSLVKIGTTAAQKKLFFSLGRLKRKLGEYGGGDLHPDSVTSIATDLAV 168 Query: 559 PVEGVRKVLKITKEPI-SLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTT-- 614 P + V + + P+ SL P+ E D+ D + D + R+ + Sbjct: 169 PEDDVVAMNRRLSAPVASLNAPMSAEGDSGEWQDLLADDRPSVEESLVERGEARQRSALL 228 Query: 615 -RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L RE +L R ++ TLE++ ++ V+RERIRQIE +A K+ +R Sbjct: 229 HEAMGVLNDRERDILTSRR--LSDSPLTLEDLSVRYGVSRERIRQIEERAFEKVARQTR 285 >gi|169831385|ref|YP_001717367.1| FliA/WhiG family RNA polymerase sigma factor [Candidatus Desulforudis audaxviator MP104C] gi|169638229|gb|ACA59735.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Candidatus Desulforudis audaxviator MP104C] Length = 257 Score = 95.5 bits (236), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 138/253 (54%), Gaps = 19/253 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E R ++ + ++G+ +A++ ++ ANL+LV +V +++ RG DL Q G IGL+KA Sbjct: 19 ETRRLLRLSQQGDV---LARETLINANLKLVCNVIRRFEGRGYDPDDLFQIGCIGLIKAI 75 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD KFSTYA+ + I R + D + +R+ +++ K T ++ ++ R Sbjct: 76 DKFDLRFKVKFSTYAVPMIIGEIRRFLRDDT-PLRVSRSLKELAWKAQSTREQLQVRLDR 134 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISL-ETPIGDE-DTSHLGDFIEDK--NAVSPL 601 +PT E+A++L +P E + L+ + P SL E DE D H+ D +++K N + + Sbjct: 135 DPTIGELAEELGIPREELVGALEAAQSPTSLYEVLHQDEGDPIHVMDQVQNKEENEGAWV 194 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + R +L SL R+ R++ RF D T EV + +++ ++ ++E Sbjct: 195 E-------RIALQELLDSLPERDRRIVVWRFF----EDKTQAEVARNLGLSQVQVSRLER 243 Query: 662 KAIRKLKHPSRSK 674 +A+RKLK +R+K Sbjct: 244 EALRKLKSMARAK 256 >gi|78224050|ref|YP_385797.1| sigma 32 (RpoH) [Geobacter metallireducens GS-15] gi|78195305|gb|ABB33072.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter metallireducens GS-15] Length = 279 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 118/233 (50%), Gaps = 14/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ANLR V+ VA +Y + G++ LDLIQEGNIGLM A KFD G + +YA+WW Sbjct: 45 AAHRLITANLRFVVKVAAEYKSYGMKMLDLIQEGNIGLMMAVRKFDPHKGIRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRIPV-----HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 ++ I I ++I + K+++ RR++ E T + K + Sbjct: 105 IRAYIQNYIISAWSLLKIGTTQAQKKLFFKLNQAKNAIRRLTGGDDTEATALSLHVKESE 164 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED--KNAVSPLDSAIQAN-LRETTTR 615 +E +++ + SL+ + D + + D + D +N L +A+ L T+ Sbjct: 165 VIEMDQRM----RGDYSLDAELVDGEGLTMLDTLVDERQNQEEALAEQQEASRLHGQVTQ 220 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L +E V+ R + + TL+E+ F ++RER+RQIE A++K+K Sbjct: 221 ALERLNEKERYVVENR--VTADEPLTLQEIADHFAISRERVRQIEEGALKKIK 271 >gi|29829555|ref|NP_824189.1| RNA polymerase sigma factor, sigH [Streptomyces avermitilis MA-4680] gi|29606663|dbj|BAC70724.1| putative RNA polymerase sigma factor, sigH [Streptomyces avermitilis MA-4680] Length = 391 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/225 (30%), Positives = 114/225 (50%), Gaps = 10/225 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 M+ G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD Sbjct: 156 MLPDGSPEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPER 215 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G +FSTYA V I R D+ +R+P +++ + +S + R PT E+ Sbjct: 216 GVEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQQHGRSPTVHEL 275 Query: 553 AKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NL 609 A+KLA+ E V + L+ +SL+ P D+++ + D + + D A++ Sbjct: 276 AEKLAISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEY 329 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 330 RESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 374 >gi|217969486|ref|YP_002354720.1| RNA polymerase factor sigma-32 [Thauera sp. MZ1T] gi|217506813|gb|ACK53824.1| RNA polymerase, sigma 32 subunit, RpoH [Thauera sp. MZ1T] Length = 283 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 74/234 (31%), Positives = 128/234 (54%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR+V+++A+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 48 AARQLVMSHLRVVVAIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFAIHW 107 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAM- 558 +K I I ++I + K+ +R ++ S+ ++ P E IA +L + Sbjct: 108 IKAEIHEYILKNWRLVKIATTKAQRKLFFNLRGMKQDSSTLQ----PAEVRSIAAQLGVK 163 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDTSHLG-DFIEDKNA--VSPLDSAIQANLRETTTR 615 P E V +++ I L+ DED ++ D +A ++ A A L+++ R Sbjct: 164 PEEVVEMETRLSGRDIPLDAGSDDEDERFAPIAYLPDPHAEPSEQVEQAQLARLQDSGLR 223 Query: 616 -VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LASL R +++ R+ + TL E+ ++ V+ ERIRQIEAKA++K++ Sbjct: 224 DALASLDERSRAIVQRRW-LAEGDSATLHELAAEYGVSAERIRQIEAKAMQKMR 276 >gi|291545415|emb|CBL18523.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus sp. SR1/5] Length = 259 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 70/232 (30%), Positives = 121/232 (52%), Gaps = 12/232 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ N DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 ARELYIKGNLRLVLSVIRRFQNSSENPDDLFQIGCIGLIKAIDNFDTTLQVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T + +EPT EIA ++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDIAYKTIYTRENYMRQHLKEPTIAEIADEIGIDKEMI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + P+SL P+ E DT ++ D I DK + + +LR+ R L Sbjct: 157 VYAMDAIQSPVSLFEPVYSEGGDTLYVMDQISDKKNLEE-NWVEDISLRDAMNR----LG 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 RE ++ +RF G T EV + +++ ++ ++E A+R +++ R+ Sbjct: 212 ERERHIIDLRFYEG----KTQMEVADEIGISQAQVSRLEKHALRSMRNYLRN 259 >gi|300313436|ref|YP_003777528.1| RNA polymerase sigma-32 factor protein [Herbaspirillum seropedicae SmR1] gi|300076221|gb|ADJ65620.1| RNA polymerase sigma-32 factor protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 125/239 (52%), Gaps = 22/239 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 62 AAQKMVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPAQNVRLVSYAMHW 121 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMP 559 +K I I +++ + K+ +R+ + + + TP E +AK L + Sbjct: 122 IKAEIHEYILKNWRLVKVATTKAQRKLFFNLRSHKEGLDAM----TPAQVEALAKTLDVK 177 Query: 560 VEGVRKV-LKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQAN--LRETTT 614 E V ++ +++ I+LE+P DED + + D + + + A Q + E Sbjct: 178 REEVIEMETRLSGRDIALESPTDDEDDKFAPIAYLSSDNSEPTRVIEAKQYDRLQSEGLE 237 Query: 615 RVLASLTPREERVLRMRF-----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L R R++ R+ G G TL E+ +F V+ ERIRQIEA A++K+K Sbjct: 238 AALSKLDERSRRIVEARWLANDDGSGA----TLHELADEFGVSAERIRQIEAVALKKMK 292 >gi|316931591|ref|YP_004106573.1| RNA polymerase sigma 32 subunit RpoH [Rhodopseudomonas palustris DX-1] gi|315599305|gb|ADU41840.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris DX-1] Length = 299 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 120/239 (50%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHQLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 +K +I I +++ K K+ R+ +KI + + P+ IA +L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--KLFFNLRKAKSKISALDEGDLHPDHVKLIASRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + + V + + SL PI D+ + D++ D+ SP A+ A E R Sbjct: 167 GVTEQDVVDMNRRLGGDASLNAPIRDDGEPGEWQDWLVDQ---SPSQEAVLAEHEELDQR 223 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE R+ R + TLE++ +F V+RER+RQIE +A K++ Sbjct: 224 RAALNGAIQVLNPRERRIFEARR--LADEPMTLEDLAAEFGVSRERVRQIEVRAFEKVQ 280 >gi|315646368|ref|ZP_07899486.1| sporulation sigma factor SigF [Paenibacillus vortex V453] gi|315278011|gb|EFU41331.1| sporulation sigma factor SigF [Paenibacillus vortex V453] Length = 251 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 67/253 (26%), Positives = 132/253 (52%), Gaps = 17/253 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 +T + +E + ++++ + G+ ++A+ +V N+RLV SV +++ NRG + DL Q G Sbjct: 10 QTYLDDAEVKRLIALSQSGD---NVARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGC 66 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +KV + Sbjct: 67 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKEMANKVRKKRDE 125 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S ++ R PT +E+A++L + E V + K P S+ + D D L D I D++ Sbjct: 126 LSKQLDRLPTVKEVAEELGVTPEEVVFAQEANKPPTSIHETVFENDGDPITLMDQIADES 185 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 D + + LT RE ++ +R+ D T EV + +++ ++ Sbjct: 186 QERWFD-------KLALNEAIGGLTERERLIVYLRY----YRDQTQSEVASRLGISQVQV 234 Query: 657 RQIEAKAIRKLKH 669 ++E K ++ +++ Sbjct: 235 SRLEKKILQSIRN 247 >gi|148645062|gb|ABR01056.1| RpoD [uncultured Geobacter sp.] Length = 72 Score = 95.1 bits (235), Expect = 3e-17, Method: Composition-based stats. Identities = 42/71 (59%), Positives = 58/71 (81%) Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KF++ GYKFSTY WW++QAITR+J DQ+ TIRIPVHM + I+K++RT+R++ + Sbjct: 1 KAVDKFEYQRGYKFSTYXTWWIRQAITRAJXDQARTIRIPVHMIETINKLIRTSRQLVQE 60 Query: 543 IKREPTPEEIA 553 I REP PEEIA Sbjct: 61 IGREPMPEEIA 71 >gi|116254340|ref|YP_770178.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. viciae 3841] gi|115258988|emb|CAK10097.1| putative rpoH sigma factor [Rhizobium leguminosarum bv. viciae 3841] Length = 304 Score = 95.1 bits (235), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 124/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 57 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 116 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ + T +EIA L Sbjct: 117 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLAKGDTQLTLQSIHQEIAAAL 174 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANL---- 609 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ Sbjct: 175 GVSLSDVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 231 Query: 610 --RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 232 RRRVWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 288 Query: 667 LK 668 L+ Sbjct: 289 LR 290 >gi|163794484|ref|ZP_02188455.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] gi|159180208|gb|EDP64731.1| RNA polymerase sigma-32 factor [alpha proteobacterium BAL199] Length = 298 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 82/286 (28%), Positives = 139/286 (48%), Gaps = 36/286 (12%) Query: 410 RNEIKSISVETGIS--ISEFRHIVSMVRKGECEASIAK-----------KEMVEANLRLV 456 R + SISVE +S + E R M+ GE E +AK ++V ++LRLV Sbjct: 5 RANLPSISVEGNLSRYLQEIRKF-PMLEPGE-EYVLAKSWREHDDVESAHKLVTSHLRLV 62 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 +A Y GL +LI EGN+G+M+A ++FD G++ +TYAMWW++ +I I Sbjct: 63 AKIAMGYRGYGLPLAELISEGNVGMMQAVKRFDPERGFRLATYAMWWIRASIQEYILHSW 122 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE---IAKKLAMPVEGVRKVLKI 569 +++ K K+ RR+ +++ + +PE IA+KL + V + + Sbjct: 123 SLVKMGTTAAQK--KLFFNLRRLKGQMQAIEDGDLSPERVTAIAEKLDVSEADVVSMNRR 180 Query: 570 TKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RETTTRVLASLTPREE 625 P SL P+ + D++ D+ + A L R + +L RE Sbjct: 181 LASPDHSLNAPLRQDGEGEWQDWLVDEGQNQEVSFAEDEELSKRRRLLNVAMETLNDRER 240 Query: 626 RVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L R+R + TLE++ +++ ++RER+RQIE +A KL+ Sbjct: 241 HILTERRLR-----DNPTTLEDLSQEYDISRERVRQIEVRAFEKLQ 281 >gi|4103482|gb|AAD01786.1| sigma-E factor [Myxococcus xanthus] Length = 280 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 125/236 (52%), Gaps = 14/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLI--QEGNIGLMKAAEKFDWCLGYKFSTYAM 501 A +V NLRLV+ +A +Y L LDL+ QEGNIGLM+A +K+D G K S+YA Sbjct: 30 AAYRLVAWNLRLVVKLAHEYHRNPLSLLDLVLVQEGNIGLMQAVKKYDPERGVKLSSYAA 89 Query: 502 WWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++ I R I D +++ + K+ +R + E +P+ +A++L + Sbjct: 90 WWIRAYILRYIMDNWKMVKLGTTEAQRKLFFKLRQEQEKLIAQGFEASPKLLAERLNVTE 149 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLD-----SAIQANLRET 612 + V ++ ++ + +S++ P+G++D S D N++ P D ++A RE Sbjct: 150 QDVVEMDQRLGHDEMSIDAPLGNDDDSRTTRADRYLPSNSM-PADERLGAEQLKALFREK 208 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L +E + R + + TL+++G ++ V+RER RQIEA I +++ Sbjct: 209 LSEFARTLEGKERFIFESR--LVSDEPLTLQDIGDKYGVSRERARQIEAALINRMR 262 >gi|297562622|ref|YP_003681596.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296847070|gb|ADH69090.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 267 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 116/229 (50%), Gaps = 16/229 (6%) Query: 435 RKGECEASIAKK-----EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 R GE EA ++ E+VE +L LV +A+++ NRG DL Q IGL+K+ ++FD Sbjct: 28 RLGELEADSEERRRIRDELVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFD 87 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 G +FSTYA + I R D+ +R+P +++ + + +S + R PT Sbjct: 88 LERGVEFSTYATPTIVGEIKRHFRDKGWAVRVPRRLQELKLSLTKAVSDLSQREGRSPTV 147 Query: 550 EEIAKKLAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A L M E V + L+ +SL+ P GDED + D ++ +D +++ Sbjct: 148 AELAAHLQMTEEEVLEGLESANAYSTVSLDAPDSGDEDAPAVAD------SLGIVDESLE 201 Query: 607 A-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M +E+G Q V+R Sbjct: 202 GVEYRESLKPLLEQLPPREKRILLLRFFGNMTQSQIAQELGISQMHVSR 250 >gi|326571483|gb|EGE21498.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC7] Length = 371 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 16/240 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 128 GDVEAA---RLLVMSHLRFVIHIARSYSGYGLSQADLIQEGNLGLMKAVKRFDPNKGVRL 184 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K+ +R+ ++ SN++ + IA Sbjct: 185 VSFAVHWIKAEIHEFVIKNWRIVKVATTKAHRKLFFNLRSLKKSSNQLTLDEAT-AIAND 243 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRET 612 L + V+ V ++ ++T S E D+D F+ED AV+P D +A+ E Sbjct: 244 LNVTVKQVLEMESRLTSYDASFEAQDSDDDEGRYAPQLFLED--AVNPADVVEEADWEEN 301 Query: 613 TTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TT L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ K+K Sbjct: 302 TTTALKDAMETLDERSRDIITQRWLADQKS--TLHELAATYNISAERVRQIEKNAMNKIK 359 >gi|209551384|ref|YP_002283301.1| RNA polymerase factor sigma-32 [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209537140|gb|ACI57075.1| RNA polymerase, sigma 32 subunit, RpoH [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 287 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 124/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 40 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ + T +EIA L Sbjct: 100 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLAKGDTQLTLQSIHQEIAAAL 157 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANL---- 609 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ Sbjct: 158 GVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 214 Query: 610 --RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 215 RRRVWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 271 Query: 667 LK 668 L+ Sbjct: 272 LR 273 >gi|150397812|ref|YP_001328279.1| RNA polymerase factor sigma-32 [Sinorhizobium medicae WSM419] gi|150029327|gb|ABR61444.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium medicae WSM419] Length = 301 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 121/251 (48%), Gaps = 28/251 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ RR+ +I+ + PE EIA L Sbjct: 109 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALDEGDLKPEQVKEIATTL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQA------- 607 + + V + + SL PI + D+ D++ D+N D+ Q Sbjct: 167 KVSEDEVISMNRRLSGDASLNAPIKASEGDSGQWQDWLVDEN-----DNQEQILIEQDEL 221 Query: 608 -NLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIR 665 N R L L RE R+ R + D TLE++ +F ++RER+RQIE +A Sbjct: 222 DNRRALLANALKVLNDRERRIFEAR---RLTEDPITLEDLSTEFDISRERVRQIEVRAFE 278 Query: 666 KLKHPSRSKKL 676 K++ R L Sbjct: 279 KVQEAVRKAAL 289 >gi|326386899|ref|ZP_08208513.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] gi|326208579|gb|EGD59382.1| RNA polymerase factor sigma-32 [Novosphingobium nitrogenifigens DSM 19370] Length = 300 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 117/240 (48%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KFD G++ +TYAMWW Sbjct: 52 AAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPDRGFRLATYAMWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPEE---IAKKL 556 +K +I I +++ K K+ RRM ++ + P++ IA L Sbjct: 112 IKASIQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKKNLEAFEDSDLHPDDVKKIATDL 169 Query: 557 AMPVEGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 +P V + + + SL P+ ++ D++ D+ PL A+ E Sbjct: 170 GVPEADVVSMNRRMMMGGDASLNVPLREDGEGSWQDWLADER---PLQDEAVADAEEAQV 226 Query: 615 R------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + L RE +L R + + TLEE+ + + V+RER+RQIE +A KL+ Sbjct: 227 RHDLLVEAMQDLNDRERHILIDRRLV--DEPKTLEELSQVYHVSRERVRQIEVRAFEKLQ 284 >gi|302877701|ref|YP_003846265.1| RNA polymerase, sigma 32 subunit, RpoH [Gallionella capsiferriformans ES-2] gi|302580490|gb|ADL54501.1| RNA polymerase, sigma 32 subunit, RpoH [Gallionella capsiferriformans ES-2] Length = 284 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/232 (31%), Positives = 127/232 (54%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR+V+SVA+ Y GL DLIQEGNIGLMKA + +D G + ++A+ W Sbjct: 49 AARQLVLSHLRVVVSVARGYAGYGLPQADLIQEGNIGLMKAVKHYDPEFGVRLVSFALHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I + ++I + K+ +R+ ++ +K + EIA++L + Sbjct: 109 IRAEINEFVVRNWRMVKIATTKAQRKLFFNLRSLKQGLESLKPKQI-SEIAEQLNVSEHD 167 Query: 563 VRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSP---LDSAIQANLR-ETTTR 615 V ++ + ++L+ P G D+DT ++ D P L+S+ +LR + R Sbjct: 168 VIEMEARFAGHEVALD-PAGSDDDDTYAPIQYLADSEEHEPSNILESSEGLSLRTQGLAR 226 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LASL R R++ R+ + + + TL ++ +F V+ ERIRQIE KA+ K+ Sbjct: 227 ALASLDDRSRRIVEARW-LSEDQNATLHDLAAEFKVSAERIRQIEQKAMSKM 277 >gi|222086841|ref|YP_002545375.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] gi|221724289|gb|ACM27445.1| alternative sigma factor RpoH [Agrobacterium radiobacter K84] Length = 302 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 124/253 (49%), Gaps = 24/253 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDEGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + E V + + SL PI + ++ D++ D + Q L R Sbjct: 167 KVSEEEVISMNRRLSGDASLNAPIKASEGESGQWQDWLVDDHESQEAVLIEQDELDTRRR 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R ++ L RE R+ R ++ D TLE++ +F ++RER+RQIE +A K++ Sbjct: 227 MLARAMSVLNDRERRIFEAR---RLSEDPVTLEDLSSEFDISRERVRQIEVRAFEKVQEA 283 Query: 671 ------SRSKKLR 677 R+K LR Sbjct: 284 VQKDALERAKALR 296 >gi|296112758|ref|YP_003626696.1| RNA polymerase sigma factor 32 [Moraxella catarrhalis RH4] gi|295920452|gb|ADG60803.1| RNA polymerase sigma factor 32 [Moraxella catarrhalis RH4] gi|326561004|gb|EGE11369.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 7169] gi|326566767|gb|EGE16906.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 103P14B1] gi|326567391|gb|EGE17506.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis BC1] gi|326575234|gb|EGE25162.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis CO72] gi|326576679|gb|EGE26586.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 101P30B1] gi|326577646|gb|EGE27523.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis O35E] Length = 371 Score = 95.1 bits (235), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 16/240 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 128 GDVEAA---RLLVMSHLRFVIHIARSYSGYGLSQADLIQEGNLGLMKAVKRFDPNKGVRL 184 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K+ +R+ ++ SN++ + IA Sbjct: 185 VSFAVHWIKAEIHEFVIKNWRIVKVATTKAHRKLFFNLRSLKKSSNQLTLDEAT-AIAND 243 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRET 612 L + V+ V ++ ++T S E D+D F+ED AV+P D +A+ E Sbjct: 244 LNVTVKQVLEMESRLTSYDASFEAQDSDDDEGRYAPQLFLED--AVNPADVVEEADWEEN 301 Query: 613 TTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TT L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ K+K Sbjct: 302 TTTALKDAMETLDERSRDIITQRWLADQKS--TLHELAATYNISAERVRQIEKNAMNKIK 359 >gi|149915381|ref|ZP_01903908.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] gi|149810670|gb|EDM70511.1| RNA polymerase sigma factor [Roseobacter sp. AzwK-3b] Length = 292 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 79/248 (31%), Positives = 123/248 (49%), Gaps = 25/248 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-----------EEI 552 +K +I + +R K + RR+ +I+RE E I Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARIEREAMAKGEQLDGHQLREMI 158 Query: 553 AKKLAMP---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK----NAVSPLDSAI 605 A ++ +P VE + L T ++ + DE + D IED+ + + D + Sbjct: 159 AHEVGVPLRDVEMMEGRLSGTDFSLNATQSVEDEGREWI-DTIEDEGPRGDQLVEQDHDL 217 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 A LRE ++ L RE ++R R + TLE +G++ +++ER+RQ+EA A + Sbjct: 218 MA-LREWLGDAMSKLNDRERFIVRER--KLRDVPRTLESLGEELNLSKERVRQLEAAAFQ 274 Query: 666 KL-KHPSR 672 K+ KH R Sbjct: 275 KMRKHLER 282 >gi|297202300|ref|ZP_06919697.1| RNA polymerase sigma-F factor [Streptomyces sviceus ATCC 29083] gi|297148082|gb|EDY54214.2| RNA polymerase sigma-F factor [Streptomyces sviceus ATCC 29083] Length = 381 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 115/224 (51%), Gaps = 10/224 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G Sbjct: 147 MKDGSPEYAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRG 206 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA V I R D+ +R+P +++ + +S + R PT E+A Sbjct: 207 VEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELA 266 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 +KLA+ E V + L+ +SL+ P D+++ + D + + D A++ R Sbjct: 267 EKLAISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYR 320 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 E+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 321 ESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 364 >gi|33520062|ref|NP_878894.1| RNA polymerase factor sigma-32 [Candidatus Blochmannia floridanus] gi|33504408|emb|CAD83301.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia floridanus] Length = 283 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 124/234 (52%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMK+ +F+ L + ++A+ W Sbjct: 50 AAKKLIVSHLRFVIHVARNYSGYGLSQADLIQEGNIGLMKSIRRFNPELDVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + ++I R + +T +R+ E E +AK L + + Sbjct: 110 IKSEIHEYVLKNWRIVKIATTKAQRKLFFNLRKTKQRLG--WFNEGEIEMVAKTLHVTCK 167 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTRV 616 VR++ ++ + ++LE P DED ++ +++DK + + + Sbjct: 168 DVREMESRMAAQDMTLEQPYLDEDDKNILSIPMLYLQDKITIIDDEEEWIDQVSNKLNIA 227 Query: 617 LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R + ++R R+ +N D+ TL+E+ Q+ ++ ERIRQ+E A++K+K Sbjct: 228 LNTLDKRSQHIIRARW---LNADNKTTLQELANQYGISAERIRQLEKNAMKKMK 278 >gi|290957490|ref|YP_003488672.1| sigma factor [Streptomyces scabiei 87.22] gi|260647016|emb|CBG70115.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 388 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 112/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 157 GSVEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 216 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A+KL Sbjct: 217 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQQHGRSPTVHELAEKL 276 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 A+ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 277 AISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 330 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 331 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 371 >gi|27884311|dbj|BAC55891.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus] Length = 318 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 112/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 87 GSAEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 146 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 147 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAERL 206 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 207 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L +L PRE+R+L +RF M +EVG Q V+R Sbjct: 261 KPLLEALPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 301 >gi|326201325|ref|ZP_08191197.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium papyrosolvens DSM 2782] gi|325988893|gb|EGD49717.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium papyrosolvens DSM 2782] Length = 248 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 72/241 (29%), Positives = 128/241 (53%), Gaps = 11/241 (4%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++++ K + A+ +VE N+ LV S+ K++ NRG + DL Q G+IGL+KA KFD Sbjct: 9 VLTLIIKAKAGDKQAQSVLVERNVGLVWSIVKRFQNRGYEVDDLFQIGSIGLIKAINKFD 68 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R I D I++ +++ K T MS ++ REPT Sbjct: 69 TSYDVKFSTYAVPMIIGEIKRFIRDDGI-IKVSRSLKEISSKARITKEIMSKELGREPTI 127 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA 607 EIA+++ + E + ++ P SL + IGD D S L D I+ + +D + Sbjct: 128 NEIAQRMNISPEELVMAIEAGCTPESLYSTIGDGDNSPILLIDRIDAADNNCEVDLIDKI 187 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +R+ +L +L RE +++ +R+ + T ++ K +++ ++ +IE K +R + Sbjct: 188 AIRQ----ILDTLDTRERQIIILRYF----KEKTQVQIAKLLGISQVQVSRIEKKILRDI 239 Query: 668 K 668 K Sbjct: 240 K 240 >gi|259417918|ref|ZP_05741837.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] gi|259346824|gb|EEW58638.1| alternative sigma factor RpoH [Silicibacter sp. TrichCH4B] Length = 298 Score = 94.7 bits (234), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 122/250 (48%), Gaps = 18/250 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV-- 560 ++ +I I +++ + K+ +R A+ ++ E KK+A + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPEAVKKIATDLGV 168 Query: 561 ---EGVRKVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL +G + T D++ED+ A D Q L RE Sbjct: 169 TEDEVISMNRRMSGGDASLNAMVGGDGDSTMQWQDWLEDEGADQAGDYEAQDELQARREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ L RE+ +L R + TLEE+ Q+ V+RERIRQIE +A KL+ Sbjct: 229 LAEAMSVLNDREKDILTQRRLA--DQAKTLEELSVQYDVSRERIRQIEVRAFEKLQ---- 282 Query: 673 SKKLRSFLDG 682 KK+R G Sbjct: 283 -KKMRELAAG 291 >gi|209542656|ref|YP_002274885.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|209530333|gb|ACI50270.1| RNA polymerase, sigma 32 subunit, RpoH [Gluconacetobacter diazotrophicus PAl 5] Length = 295 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 124/245 (50%), Gaps = 20/245 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA+ A +V ++LRLV +A Y GL +LI EGNIG+M+A +FD G++ Sbjct: 42 KGDTEAAHA---LVTSHLRLVAKIAMGYRGYGLPLGELISEGNIGMMQAVRRFDPDRGFR 98 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE 551 +TYAMWW++ AI I +++ K K+ RR+ +++ + PE+ Sbjct: 99 LATYAMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIDDGDLKPEQ 156 Query: 552 ---IAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDK--NAVSPLDSAI 605 IA+ L +P + V + + P SL P+ + D++ D+ N L Sbjct: 157 VNKIAESLGVPEQDVINMNRRLSAPDHSLNAPLRADSEGEWQDWLVDEHDNQEQTLAENE 216 Query: 606 QANLRETTT-RVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 + + R+ + +L RE +L R + D TLEE+ + ++RER+RQIE +A Sbjct: 217 EFSGRKALLDNAMKTLNDRERHILTER---RLKDDPATLEELSHTYNISRERVRQIEVRA 273 Query: 664 IRKLK 668 K++ Sbjct: 274 FEKVQ 278 >gi|56695321|ref|YP_165669.1| RNA polymerase factor sigma-32 [Ruegeria pomeroyi DSS-3] gi|56677058|gb|AAV93724.1| RNA polymerase sigma-32 factor [Ruegeria pomeroyi DSS-3] Length = 292 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 74/253 (29%), Positives = 129/253 (50%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A + R + IA Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAATDGLALDRHQLHQMIAS 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN---L 609 ++ +P+ V + +++ SL T DE+ + +ED++ + A + + L Sbjct: 161 EIGVPLRDVEMMEGRLSGSDFSLNATQASDEEGREWIEALEDESEQAAELVAHRHDTEQL 220 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ + +L RE ++R R + TLE +G + +++ER+RQ+EA A K++ Sbjct: 221 RDWLIEAMQALNERERFIVRER--KLRDEPRTLESLGDELGLSKERVRQLEAAAFAKMRK 278 Query: 670 P--SRSKKLRSFL 680 +RS++++ FL Sbjct: 279 SLEARSREVQHFL 291 >gi|298708236|emb|CBJ48299.1| rpoD [Ectocarpus siliculosus] Length = 381 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 78/265 (29%), Positives = 130/265 (49%), Gaps = 44/265 (16%) Query: 440 EASIAKKEMVEANLRLVISVAKKY--TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A++ + + LV SVA +Y +R L DL QEGN+GL++A EKFD G +FS Sbjct: 109 EGRKAQRTLALCHQGLVRSVAYRYKQVSRNLSLDDLTQEGNVGLLEAVEKFDSTKGTRFS 168 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE-PTPEEIAKKL 556 +YA++ +K ++ R+IAD+ +R+PVH +D +++ + + + + PT ++A L Sbjct: 169 SYAVFRIKASVLRAIADKDRLVRVPVHAQDAAMRILAASHALQLESGGDVPTDAQLAVAL 228 Query: 557 AMPVEGV---RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS-------------- 599 MP V RK L L I D D L + + Sbjct: 229 GMPEASVALYRKSL--------LPQNIADLDNPALPSSPQGRGGSGAAGGGSLGGRVGGE 280 Query: 600 --PLDSA--IQANL--RETTTRVLASLTPREERVLRMRFGIGMNTDH----------TLE 643 P +++ QA++ R+ + A L+P EER LR+RFG+G T + Sbjct: 281 QWPWEASQLAQAHVVRRDMMRAMQACLSPTEERALRLRFGLGGAEKEGAVADGGGALTFK 340 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+G+ ++ E IR++ ++I KL+ Sbjct: 341 EIGRTMELSAEGIRKMVFRSIAKLQ 365 >gi|327441148|dbj|BAK17513.1| DNA-directed RNA polymerase specialized sigma subunit [Solibacillus silvestris StLB046] Length = 256 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 121/232 (52%), Gaps = 13/232 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 I ++++V NLRLV+S+ +Y RG Q DL Q G IGL+KA + FD +FSTYA+ Sbjct: 36 IVREQLVFCNLRLVLSIVGRYAYRGEQADDLFQVGCIGLLKAIDNFDLKHNVRFSTYAVP 95 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + I R + D +R+ +RD +K ++ + + EPT E++A+ + M E Sbjct: 96 MIMGEIRRHLRDHH-ALRVSRSLRDIAYKAMKAKEQFIAEHLTEPTIEQLAQAIEMKKED 154 Query: 563 VRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 V L ++P+SL+ PI + D + D I+DK +I +L+E+ + L Sbjct: 155 VLFALDAIQDPMSLQEPIYSDGGDAIFMIDQIKDKVTEEHWVGSI--SLQESMKK----L 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 R++ ++ RF +G T E+ + +++ +I ++E A+ +K R Sbjct: 209 NSRQKMIIEKRFFLG----ETQTEIAQSLGISQAQISRLEKSAVELMKRDFR 256 >gi|307728369|ref|YP_003905593.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1003] gi|307582904|gb|ADN56302.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1003] Length = 311 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 124/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI +G Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------DG 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E ++ +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 180 LAKELNVKREEVAEMETRLSGGDVALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDKLQSDGIATALEALDARSRRIIEARWLKVQDDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|119715950|ref|YP_922915.1| sigma-70 region 2 domain-containing protein [Nocardioides sp. JS614] gi|119536611|gb|ABL81228.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nocardioides sp. JS614] Length = 270 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 65/218 (29%), Positives = 113/218 (51%), Gaps = 11/218 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +L LV A+++ NRG DL+Q G IGL+K+ ++FD G +FSTYA + Sbjct: 49 LVHLHLPLVEHCARRFRNRGEPLEDLVQVGTIGLIKSVDRFDADRGVEFSTYATPTIIGE 108 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R D+ IR+P +++ ++ + ++ + R PTP E+A + VE + + + Sbjct: 109 IKRYFRDKGWAIRVPRRLQELRMQISTASAELTQSLGRSPTPRELAGAIGCTVEEIVEGI 168 Query: 568 KITKEPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASLTPR 623 + + +L T GD++T+ + D A+ D ++ +RE+ +L L PR Sbjct: 169 ESSNAYSTLSLDATDDGDDNTASMLD------AIGVDDEGLEHVEIRESLKPLLDRLEPR 222 Query: 624 EERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIE 660 E+++L +RF M EE+G Q V+R R +E Sbjct: 223 EKKILLLRFFKNMTQSQIAEEIGVSQMHVSRLLNRTLE 260 >gi|253999699|ref|YP_003051762.1| RNA polymerase sigma-32 subunit RpoH [Methylovorus sp. SIP3-4] gi|253986378|gb|ACT51235.1| RNA polymerase, sigma 32 subunit, RpoH [Methylovorus sp. SIP3-4] Length = 284 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 128/243 (52%), Gaps = 31/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LRLV S+A+ Y+ GL DLIQEGN+GLMKA +FD G + ++AM W Sbjct: 49 AAKGLIVSHLRLVASIARGYSGYGLPQADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ S+ + +P+E+A Sbjct: 109 IKAEIHEYIVRNWRLVKVATTKAQRKLFFNLRSMKKNSHTL----SPDEVAD-------- 156 Query: 563 VRKVLKI-TKEPISLETPIGDEDTSHLGD-------------FIEDKNA-VSPLDSAIQA 607 + + LK+ +E + +E+ +G + S G+ ++ED+ S L + +A Sbjct: 157 IARELKVKPEEVVEMESRMGGHEISLEGNSDDDSEDSFSPIAYLEDQQPEPSELLAEREA 216 Query: 608 NLRETT--TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +T L SL R R+++ R+ + N TL ++ +F V+ ERIRQIE KA++ Sbjct: 217 EHNQTVGLAHALESLDDRSRRIVQARW-LQENNSATLHDLAAEFGVSAERIRQIEQKAMQ 275 Query: 666 KLK 668 K+K Sbjct: 276 KMK 278 >gi|239623454|ref|ZP_04666485.1| RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239521485|gb|EEQ61351.1| RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 258 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/229 (28%), Positives = 121/229 (52%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++N DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSNSQENIDDLFQIGCIGLIKAIDNFDITQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + +++ +EPT EIA+++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKALYAREQLTRVNSKEPTLVEIAQEIGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV--LAS 619 L + P+SL P+ + D ++ D I DK ++ N E + V + Sbjct: 157 TYALDAIQTPVSLYEPVYTDGGDPLYVMDQISDK-------KNLEENWVEDLSLVEAMKR 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++ MRF G T EV ++ +++ ++ ++E A++ +K Sbjct: 210 LPERERHIIDMRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKSMK 254 >gi|160935677|ref|ZP_02083052.1| hypothetical protein CLOBOL_00567 [Clostridium bolteae ATCC BAA-613] gi|158441421|gb|EDP19131.1| hypothetical protein CLOBOL_00567 [Clostridium bolteae ATCC BAA-613] Length = 258 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/229 (28%), Positives = 120/229 (52%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++N DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSNSQENIDDLFQIGCIGLIKAIDNFDITQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + +++ +EPT EIA+++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKALYAREQLTRTNSKEPTLMEIAQEIGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV--LAS 619 L + P+SL P+ + D + D I DK ++ N E + V + Sbjct: 157 TYALDAIQTPVSLYEPVYTDGGDPLFVMDQISDK-------KNLEENWVEDLSLVEAMKR 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++ MRF G T EV ++ +++ ++ ++E A++ +K Sbjct: 210 LPERERHIIDMRFFEG----KTQTEVAQEIHISQAQVSRLEKNALKSMK 254 >gi|297158639|gb|ADI08351.1| RNA polymerase sigma factor, sigma L [Streptomyces bingchenggensis BCW-1] Length = 276 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 121/242 (50%), Gaps = 9/242 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S S F + ++ R E + + ++E NL LV A ++ +R D++Q G IGL Sbjct: 30 LSRSLFLRLAALDRD-SVEHTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGL 88 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA ++FD G +F T+AM V I R D S ++R+P +++ + +T+ +S Sbjct: 89 IKAIDRFDCERGVEFPTFAMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELSQ 148 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVS 599 K+ R PT E+A L + E V L + SL++P ++D + D+ Sbjct: 149 KLDRSPTVTELATALGVSEEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE 206 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIR 657 DSA++ RE+ +LA L PRE +++ +RF M EEVG Q V+R R Sbjct: 207 --DSALEGVEYRESLKPLLAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTR 264 Query: 658 QI 659 + Sbjct: 265 TL 266 >gi|269961508|ref|ZP_06175871.1| RNA polymerase sigma -32 factor [Vibrio harveyi 1DA3] gi|269833737|gb|EEZ87833.1| RNA polymerase sigma -32 factor [Vibrio harveyi 1DA3] Length = 285 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 146/278 (52%), Gaps = 26/278 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E ++E H GE +A+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRSVNSYPMLTPEEERGLAERLHY-----NGEIDAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMP 185 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRM 630 + D+D+++ ++EDK+ S + I+A ET T LASL R +R++R Sbjct: 186 MDDDDSANSYTAPMVYLEDKS--SDVADNIEAANWETHTNNRLGHALASLDERSQRIVRS 243 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 244 RWLD--DEKATLQDLADEFGVSAERIRQLEKNAMKKLK 279 >gi|190893879|ref|YP_001980421.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] gi|190699158|gb|ACE93243.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT 652] Length = 287 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 125/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 40 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ + T +EIA L Sbjct: 100 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLAKGDTQLTLQSIHQEIAAAL 157 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ + Sbjct: 158 GVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 214 Query: 614 TR------VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 215 RRRIWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 271 Query: 667 LK 668 L+ Sbjct: 272 LR 273 >gi|282861039|ref|ZP_06270104.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282563697|gb|EFB69234.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 323 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 92 GSAEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 151 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 152 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQYGRSPTVHELAERL 211 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 212 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 265 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 266 KPLLEGLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 306 >gi|302343327|ref|YP_003807856.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] gi|301639940|gb|ADK85262.1| RNA polymerase, sigma 32 subunit, RpoH [Desulfarculus baarsii DSM 2075] Length = 346 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 79/241 (32%), Positives = 127/241 (52%), Gaps = 30/241 (12%) Query: 444 AKKEMVEANLRLVISVA---KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A +V +NLRLV+ +A ++Y R L LDLIQEGN+GL++A +KFD G KFS YA Sbjct: 97 AAAMLVTSNLRLVVKIAMEHQRYWMRNL--LDLIQEGNMGLLQAVQKFDPFRGIKFSYYA 154 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTPEEIAKKLA 557 +W+K I + I D +R+ + K+ RR K++ + P P + ++L Sbjct: 155 SFWIKAYILKFIMDNWRLVRVGTTQAQR--KLFYKLRREKEKLQAQGVTPGPRLLGQRLG 212 Query: 558 MPVEGVRKV-LKITKEPISLETPIGDE-DTSHLGDFIEDKNAV-SPLDSAIQ----ANLR 610 + + V + ++ +SL+ P+ D+ D +H KN + SP +A Q + LR Sbjct: 213 VSEKDVVDMEQRLDSWELSLDAPVRDDSDDTH-------KNLLPSPRPTAEQDLADSELR 265 Query: 611 ETTTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + R L +L +E+ +L R + TL EVG + V+RERIRQ++ + + K Sbjct: 266 QLFHRKLMEFRQTLDDKEQDILDNR--LLAENPQTLSEVGDRHGVSRERIRQLQVRLMEK 323 Query: 667 L 667 L Sbjct: 324 L 324 >gi|119899581|ref|YP_934794.1| RNA polymerase factor sigma-32 [Azoarcus sp. BH72] gi|119671994|emb|CAL95908.1| RNA polymerase sigma-32 factor [Azoarcus sp. BH72] Length = 284 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 70/231 (30%), Positives = 125/231 (54%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR+V+++A+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 49 AARQLVMSHLRVVVAIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFAIHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVE 561 +K I I ++I + K+ +R+ ++ + + R+ E +A +L + P E Sbjct: 109 IKAEIHEYILKNWRLVKIATTKAQRKLFFNLRSLKQDTGTLNRDEV-EAVATQLGVKPEE 167 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRETTTR-VL 617 V +++ I ++ DED A P L+ A +A+L++T + L Sbjct: 168 VVEMETRLSGRDIPIDGGNDDEDERFAPIAYLPAPAAEPSEVLERAERAHLQDTGLKQAL 227 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L R ++ R+ + TL E+ ++ V+ ERIRQIEAKA++K++ Sbjct: 228 GALDERSRTIVERRW-LTDGDSATLHELAAEYGVSAERIRQIEAKAMQKMR 277 >gi|222053896|ref|YP_002536258.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. FRC-32] gi|221563185|gb|ACM19157.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. FRC-32] Length = 283 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 114/247 (46%), Gaps = 39/247 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +NLR V+ +A +Y G++ LDLIQEGN+GLM A KF+ G++ +YA+WW Sbjct: 45 AAHKLITSNLRFVVKIAGEYRAYGMKMLDLIQEGNVGLMMAVRKFNPHKGFRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I I ++I + R++ K+ + AK + G Sbjct: 105 IRAYIQNHIISAWSLLKI---------GTTQAQRKLFFKLNQ-------AKSAIRNMTGG 148 Query: 564 RKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSP-------------------LDS 603 + + T E + + ET + + D GDF D ++ L Sbjct: 149 GEDFQATAEALDVKETEVAEMDQRMRGDFFLDAQVITGEGLTMLESLPDERRNQEELLAE 208 Query: 604 AIQANLRE-TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A ++ L E L L +E V+ R + + TL+E+ F ++RER+RQIE Sbjct: 209 AQESALLEKQVASALTCLNEKERYVIEQR--VSAESPLTLQEIADHFSISRERVRQIEEG 266 Query: 663 AIRKLKH 669 A++K+K Sbjct: 267 ALKKMKQ 273 >gi|225024603|ref|ZP_03713795.1| hypothetical protein EIKCOROL_01480 [Eikenella corrodens ATCC 23834] gi|224942617|gb|EEG23826.1| hypothetical protein EIKCOROL_01480 [Eikenella corrodens ATCC 23834] Length = 283 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 78/244 (31%), Positives = 133/244 (54%), Gaps = 20/244 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 43 QGDLEAA---KKLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPNRGAR 99 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEE--- 551 ++A+ W+K I I +R+ + K+ +R+ R+ N + +PEE Sbjct: 100 LFSFAVHWIKAEIHEFILRNWRMVRVATTKPQRKLFFNLRSMRKSMNAL----SPEEAQT 155 Query: 552 IAKKLAMPVEGVRKV-LKITKEPISL--ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-- 606 IA L + ++ V ++ ++T + I+L + DED+ D++ D + P Q Sbjct: 156 IADDLGVKMDEVLEMEQRMTGKDIALLPDNSDSDEDSYAPIDWLADTRS-EPTQQIAQKA 214 Query: 607 --ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 A E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIEAKAI Sbjct: 215 RYAMQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHELAAEYGVSAERIRQIEAKAI 273 Query: 665 RKLK 668 +KL+ Sbjct: 274 QKLR 277 >gi|307328850|ref|ZP_07608020.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306885515|gb|EFN16531.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 276 Score = 94.7 bits (234), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 113/228 (49%), Gaps = 8/228 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 K EA + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G + Sbjct: 43 KDSAEAGYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVE 102 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM V I R D S ++R+P +++ + + + +S ++ R PT E+A Sbjct: 103 FPTFAMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQRLDRSPTVPELATA 162 Query: 556 LAMPVEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L + E V L + SL++P ++D + D+ DSA++ RE+ Sbjct: 163 LGVSEEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DSALEGVEYRES 218 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 +LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 219 LKPLLAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 266 >gi|313201748|ref|YP_004040406.1| RNA polymerase sigma-32 subunit RpoH [Methylovorus sp. MP688] gi|312441064|gb|ADQ85170.1| RNA polymerase, sigma 32 subunit, RpoH [Methylovorus sp. MP688] Length = 290 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 128/243 (52%), Gaps = 31/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LRLV S+A+ Y+ GL DLIQEGN+GLMKA +FD G + ++AM W Sbjct: 55 AAKGLIVSHLRLVASIARGYSGYGLPQADLIQEGNVGLMKAVRRFDPDRGVRLVSFAMHW 114 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ S+ + +P+E+A Sbjct: 115 IKAEIHEYIVRNWRLVKVATTKAQRKLFFNLRSMKKNSHTL----SPDEVAD-------- 162 Query: 563 VRKVLKI-TKEPISLETPIGDEDTSHLGD-------------FIEDKNA-VSPLDSAIQA 607 + + LK+ +E + +E+ +G + S G+ ++ED+ S L + +A Sbjct: 163 IARELKVKPEEVVEMESRMGGHEISLEGNSDDDSEDSFSPIAYLEDQQPEPSELLAEREA 222 Query: 608 NLRETT--TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +T L SL R R+++ R+ + N TL ++ +F V+ ERIRQIE KA++ Sbjct: 223 EHNQTVGLAHALESLDDRSRRIVQARW-LQENNSATLHDLAAEFGVSAERIRQIEQKAMQ 281 Query: 666 KLK 668 K+K Sbjct: 282 KMK 284 >gi|83950005|ref|ZP_00958738.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83837904|gb|EAP77200.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 277 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 119/240 (49%), Gaps = 18/240 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A KY G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLINAYMRLAISMASKYRRYGAPLNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K I + +R + +MR ++ R A ++ E IA Sbjct: 86 IKAGIQDYVMRNWSMVRTGSTSSQKALFFNMRRVRAQIEREAEASGTRLDGHQLREMIAT 145 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP---LDSAIQANL 609 ++ +P+ V + +++ +SL ED D +ED + + Q L Sbjct: 146 EVGVPLRDVEMMEGRLSGSDLSLNATQSTEDEGREWIDALEDDGPRAEEMVEEDHDQRVL 205 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R LA+L RE +LR R ++ + TLE +G++ +++ER+RQ+EA A+ K++ Sbjct: 206 RLWLRDALAALNDRERFILRHR---KLSEEVRTLESLGEELGLSKERVRQLEAAALVKMR 262 >gi|261405990|ref|YP_003242231.1| sporulation sigma factor SigF [Paenibacillus sp. Y412MC10] gi|329929773|ref|ZP_08283449.1| RNA polymerase sigma-F factor [Paenibacillus sp. HGF5] gi|261282453|gb|ACX64424.1| RNA polymerase, sigma 28 subunit, SigF [Paenibacillus sp. Y412MC10] gi|328935751|gb|EGG32212.1| RNA polymerase sigma-F factor [Paenibacillus sp. HGF5] Length = 251 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 67/253 (26%), Positives = 131/253 (51%), Gaps = 17/253 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 +T + +E + ++++ + G+ ++A+ +V N+RLV SV +++ NRG + DL Q G Sbjct: 10 QTYLDDAEVKRLIALSQSGD---NVARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGC 66 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +KV + Sbjct: 67 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKEMANKVRKKRDE 125 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S ++ R PT +E+A++L + E V + K P S+ + D D L D I D + Sbjct: 126 LSKQLDRLPTVKEVAEELGVTPEEVVFAQEANKPPTSIHETVFENDGDPITLMDQIADDS 185 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 D + + LT RE ++ +R+ D T EV + +++ ++ Sbjct: 186 QERWFD-------KLALNEAIGGLTERERLIVYLRY----YRDQTQSEVATRLGISQVQV 234 Query: 657 RQIEAKAIRKLKH 669 ++E K ++ +++ Sbjct: 235 SRLEKKILQSIRN 247 >gi|86158019|ref|YP_464804.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|197122674|ref|YP_002134625.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|220917457|ref|YP_002492761.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] gi|85774530|gb|ABC81367.1| sigma 32 (RpoH) [Anaeromyxobacter dehalogenans 2CP-C] gi|196172523|gb|ACG73496.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. K] gi|219955311|gb|ACL65695.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter dehalogenans 2CP-1] Length = 241 Score = 94.4 bits (233), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 113/235 (48%), Gaps = 57/235 (24%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 RKGE A K+++V NL V+++A+K ++ DLIQEGN+GLM+A EKFD G Sbjct: 41 ARKGEVSA---KQKLVRHNLAFVVAIARKQRRGTVRLDDLIQEGNVGLMRAVEKFDPHAG 97 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA+WW++ I + + + T+R Sbjct: 98 TRFSTYAVWWIRAYIGKYLKEARSTVR--------------------------------- 124 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRET 612 P G + + +SL++ I +E D +HL + IED + P D+ + E Sbjct: 125 -----PQSGT-----VAQPDLSLDSAIDEEGDATHL-ERIED-DGPGPEDTYLSG---EG 169 Query: 613 TTRVLASLTPREERVLRMRFGIGMN-----TDHTLEEVGKQFCVTRERIRQIEAK 662 V +L +R+ + + I N TLEE+GK++ V+RER+RQ+E K Sbjct: 170 DREVRDALGKVRKRIGELGWDIVHNRLEQDQPRTLEEIGKRWGVSRERVRQVELK 224 >gi|209965020|ref|YP_002297935.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] gi|209958486|gb|ACI99122.1| RNA polymerase sigma-32 factor [Rhodospirillum centenum SW] Length = 294 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 68/244 (27%), Positives = 120/244 (49%), Gaps = 21/244 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGN+G+M+A ++FD G++ +TYAMWW Sbjct: 50 AAHRLVTSHLRLVAKIAMGYRGYGLPLSELISEGNVGMMQAVKRFDPDRGFRLATYAMWW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ AI I +++ K K+ R++ +++ T +IA+ L Sbjct: 110 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRKLKGQMQAIDEGDLHPETVRKIAETL 167 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 +P V + + P SL P+ + D++ D++ + + L + Sbjct: 168 DVPESDVVNMNRRLASPDHSLNAPLRVDGEGEWQDWLVDESESQEIRLGEREELGKRKAL 227 Query: 613 TTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +L RE +L R+R + TLE++ +Q+ ++RER+RQIE +A KL+ Sbjct: 228 LAEAMKTLNDRERHILVERRLR-----DNPTTLEDLSQQYGISRERVRQIEVRAFEKLQK 282 Query: 670 PSRS 673 RS Sbjct: 283 AIRS 286 >gi|188587460|ref|YP_001919005.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179352147|gb|ACB86417.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 273 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 67/225 (29%), Positives = 119/225 (52%), Gaps = 8/225 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E++ NLRLV+SV K+ NRG DL Q G +GL+KA + FD G KFSTYA+ Sbjct: 38 AKQELINGNLRLVLSVINKFKNRGENLDDLFQVGCLGLVKAVDNFDPKQGVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S +R+ ++ + + ++ + EPT EE+A +L + E + Sbjct: 98 IMGEIKRYLRDDS-PMRVSRSLKLLGQEAAKAKEKLRKEKPYEPTIEELASELNISREEL 156 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + L + EP+SL P+ + T + + K+ L++ ++ N+ T +A L R Sbjct: 157 VEALNSSSEPLSLYDPVYSDSTDPVLLVDQIKDEEERLENWVE-NM--TLKEAIAKLPER 213 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ RF G T EV + +++ ++ ++E A+ +L+ Sbjct: 214 QRNIVNRRFFKG----QTQVEVSDELNISQAQVSRLEKSALLQLR 254 >gi|327191758|gb|EGE58760.1| RNA polymerase factor sigma-32 [Rhizobium etli CNPAF512] Length = 319 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 125/242 (51%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A++RLVIS+A K+ N GL DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 72 ARNQIAMAHMRLVISMAGKFRNFGLPMSDLVQEGYVGLLEAAARFEPERDVRFSTYASWW 131 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ + T +EIA L Sbjct: 132 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRAKLAKGDTQLTLQSIHQEIAAAL 189 Query: 557 AMPVEGVRKV-LKITKEPISLETP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + + V+ + +++ SL+ P GD +++ DF+ + PL +N+ + Sbjct: 190 GVSLADVQTMDARLSGNDASLQAPSVSGDAESAEKMDFLVSDD---PLPDEQVSNMIDGE 246 Query: 614 TR------VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE +++ R + D TLEE+G +++ER+RQIE++A+ K Sbjct: 247 RRRIWLASALKHLNEREMKIISAR---RLAEDGATLEELGADLGISKERVRQIESRAMEK 303 Query: 667 LK 668 L+ Sbjct: 304 LR 305 >gi|254462386|ref|ZP_05075802.1| alternative sigma factor RpoH [Rhodobacterales bacterium HTCC2083] gi|206678975|gb|EDZ43462.1| alternative sigma factor RpoH [Rhodobacteraceae bacterium HTCC2083] Length = 298 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 122/249 (48%), Gaps = 17/249 (6%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + + A +MV ++LRL +A Y GL +++ E N+GLM+A ++FD G++ S Sbjct: 43 EKQDTAAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVVSEANVGLMQAVKRFDPEKGFRLS 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIA 553 TYAMWW++ AI I +++ K K+ R+ N+I + + PE +A Sbjct: 103 TYAMWWIRAAIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKNRIGALEEGDMRPENVA 160 Query: 554 KKL----AMPVEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQA 607 + E + +++ SL +G E T D++ED++A D + Sbjct: 161 RIAHDLGVTETEVISMNRRMSGGDASLNAQVGSEGEGTMQWQDWLEDEDADQAGDYEARD 220 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L RE + L RE+ +L R + TLE++ Q+ V+RERIRQIE +A Sbjct: 221 ELEARREMLADAMDVLNDREKDILVQRR--LSDKPVTLEDLSGQYDVSRERIRQIEVRAF 278 Query: 665 RKLKHPSRS 673 KL+ RS Sbjct: 279 EKLQERMRS 287 >gi|99080404|ref|YP_612558.1| RNA polymerase factor sigma-32 [Ruegeria sp. TM1040] gi|99036684|gb|ABF63296.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. TM1040] Length = 299 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 123/250 (49%), Gaps = 18/250 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV-- 560 ++ +I I +++ + K+ +R A+ ++ E+ KK+A + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPEVVKKIATDLGV 168 Query: 561 ---EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL +G + T D++ED++A D + L RE Sbjct: 169 TEDEVISMNRRMSGGDASLNAMVGSDGDSTMQWQDWLEDEDADQAGDYEARDELQARREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 ++ L RE+ +L R TLEE+ Q+ V+RERIRQIE +A KL+ Sbjct: 229 LAEAMSVLNDREKDILTQRRLA--EQAKTLEELSVQYDVSRERIRQIEVRAFEKLQ---- 282 Query: 673 SKKLRSFLDG 682 KK+R G Sbjct: 283 -KKMRELAAG 291 >gi|290769931|gb|ADD61700.1| putative protein [uncultured organism] Length = 259 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 122/237 (51%), Gaps = 22/237 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV +++ N DL Q G IGL+KA + FD L KFSTYA+ Sbjct: 38 ARELYIKGNLRLVLSVIRRFQNSSENPDDLFQIGCIGLIKAIDNFDTTLQVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + T + +EPT EIA ++ + E + Sbjct: 98 IVGEIRRYLRDNN-SIRVSRSLRDIAYKTIYTRENYMRQHLKEPTIAEIADEIGIDKEMI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 + + P+SL P+ E DT ++ D I DK N V + +LR+ R Sbjct: 157 VYAMDAIQSPVSLFEPVYSEGGDTLYVMDQISDKKNREENWVEDI------SLRDAMNR- 209 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L RE ++ +RF G T EV + +++ ++ ++E A+R +++ R+ Sbjct: 210 ---LGERERHIIDLRFYEG----KTQMEVADEIGISQAQVSRLEKHALRSMRNYLRN 259 >gi|291613119|ref|YP_003523276.1| RNA polymerase, sigma 32 subunit, RpoH [Sideroxydans lithotrophicus ES-1] gi|291583231|gb|ADE10889.1| RNA polymerase, sigma 32 subunit, RpoH [Sideroxydans lithotrophicus ES-1] Length = 289 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 75/237 (31%), Positives = 127/237 (53%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR+V+SVA+ Y GL DLIQEGNIGLMKA +++D G + ++A+ W Sbjct: 49 AARQLVLSHLRVVVSVARGYAGYGLPQADLIQEGNIGLMKAVKRYDATRGVRLVSFALHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT-PE---EIAKKLAMP 559 ++ I + ++I + K+ R M + EP P+ EIA++L + Sbjct: 109 IRAEIHEYVVRNWRLVKIATTKSQR--KLFFNLRSMKQGL--EPLKPQQVREIAQQLNVS 164 Query: 560 VEGVRKV-LKITKEPISLETPIGDEDTSHLG-DFIEDKNAVSP---LDSAIQANLRET-T 613 V ++ + ++LE G+ED S+ ++ D P L++A + +L Sbjct: 165 ERDVVEMEARFAGHEVALEPLSGEEDESYAPISYLADNAEHEPSYILEAAEREHLHTAGL 224 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + LASL R R++ R+ + +H TL E+ +F V+ ERIRQIE KA+ K++ Sbjct: 225 AQALASLDERSRRIVEARW-LRDEEEHAATLHELADEFKVSAERIRQIEQKALSKMQ 280 >gi|239930292|ref|ZP_04687245.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291438640|ref|ZP_06578030.1| sigma L factor [Streptomyces ghanaensis ATCC 14672] gi|291341535|gb|EFE68491.1| sigma L factor [Streptomyces ghanaensis ATCC 14672] Length = 300 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 68/216 (31%), Positives = 110/216 (50%), Gaps = 8/216 (3%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+AM V Sbjct: 79 LIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTFAMPTVVGE 138 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R D S ++R+P +++ + +T+ +S K+ R PT E+A L + E V L Sbjct: 139 IKRFFRDTSWSVRVPRRLQELRLALTKTSDELSQKLDRSPTVTELATALGVSEEDVVDGL 198 Query: 568 KI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPRE 624 + SL++P ++D + D+ D+A++ RE+ +LA L PRE Sbjct: 199 AVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPLLAKLPPRE 254 Query: 625 ERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 R++ +RF M EEVG Q V+R R + Sbjct: 255 RRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 290 >gi|296133159|ref|YP_003640406.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola sp. JR] gi|296031737|gb|ADG82505.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermincola potens JR] Length = 260 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 125/227 (55%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NL+LV ++ +++ NRG + DL Q G IGL+KA +KFD KFSTYA+ Sbjct: 35 AREKLVNCNLKLVFNLVQRFCNRGYEPEDLFQIGTIGLIKAIDKFDLSYDVKFSTYAVPL 94 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +++ +++ +K+ R ++S + R+PT EIAK++ M E + Sbjct: 95 IIGEIRRFLRDDN-PVKVSRSVKETANKINRAREKLSASLGRDPTISEIAKEVGMEREEI 153 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR--VLASLT 621 ++ ++ P S+ + +D GD I +A++ S + E VL L Sbjct: 154 VNAMEASQLPTSIYETLYQDD----GDPIYVMDAITG-SSGDEGQWFEHMALKDVLQKLP 208 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE++VL +RF D T +V + +++ ++ +IE +A++ ++ Sbjct: 209 EREKKVLLLRFF----EDKTQTQVAEILGISQVQVSRIERQALKTIR 251 >gi|210608669|ref|ZP_03287946.1| hypothetical protein CLONEX_00125 [Clostridium nexile DSM 1787] gi|210152926|gb|EEA83932.1| hypothetical protein CLONEX_00125 [Clostridium nexile DSM 1787] Length = 259 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 123/233 (52%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++ ++ NLRLV+SV K++TN DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 38 AKEQYIKGNLRLVLSVIKRFTNSNENPDDLFQIGCIGLIKAINNFNTELDVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + REPT +EI++++ + E + Sbjct: 98 IIGEIRRYMRDNN-SIRVSRSLRDTAYKAIYAKEGYMKRNLREPTLQEISEEIGIAKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 + + P+SL P+ ++ D ++ D I DK N + L A+QA Sbjct: 157 VFAMDAIQAPMSLNEPVYNDGGDALYVMDQISDKKNKEENWIEEL--ALQA--------A 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE+ ++R+RF G T EV + +++ ++ ++E A++ ++ Sbjct: 207 MEHLGEREKYIIRLRFFEG----RTQMEVAEDIDISQAQVSRLEKHALKVMRQ 255 >gi|254453399|ref|ZP_05066836.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] gi|198267805|gb|EDY92075.1| alternative sigma factor RpoH [Octadecabacter antarcticus 238] Length = 298 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 118/238 (49%), Gaps = 17/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I + +++ K K+ R+ N+I R + IA L Sbjct: 109 IRASIQEYVLRSWSMVKLGTTSAQK--KLFFNLRKAKNRIGALEEGDLRPENVQRIATDL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + E V +++ SL +G E T D++ED++A D + L R Sbjct: 167 GVTEAEVVSMNRRMSGGDASLNATVGSDGEGTMQWQDWLEDESADQAGDYEARDELTQRR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + L RE+ +L M+ + T TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 ELMAEAMEVLNDREKDIL-MQRRLAEKT-VTLEDLSGQYSVSRERIRQIEVRAFEKLQ 282 >gi|26249650|ref|NP_755690.1| hypothetical protein c3819 [Escherichia coli CFT073] gi|26110078|gb|AAN82264.1|AE016767_24 Putative conserved protein [Escherichia coli CFT073] Length = 368 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|110678526|ref|YP_681533.1| RNA polymerase factor sigma-32 [Roseobacter denitrificans OCh 114] gi|109454642|gb|ABG30847.1| RNA polymerase sigma-32 factor [Roseobacter denitrificans OCh 114] Length = 292 Score = 94.4 bits (233), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 75/263 (28%), Positives = 130/263 (49%), Gaps = 20/263 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R CE S+ + ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G Sbjct: 34 RDERCEKSLHR--LITAYMRLAISMASKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGV 91 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKR 545 +FSTYA+WW+K +I + +R + +MR ++ R + + R Sbjct: 92 RFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLERESAASGEPLDR 151 Query: 546 EPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDS 603 + I+ ++ +P+ V + +++ SL ED D +ED +A + Sbjct: 152 HQLRQMISTEIGVPLHDVEMMEGRLSGSDYSLNATQSTEDEGREWIDALEDDSAQAAETV 211 Query: 604 AIQAN---LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + LR + + L RE ++R R + TLE +G++ +++ER+RQ+E Sbjct: 212 EHHHDTEQLRAWLLQAMNDLNERERFIVRER--KLRDAPRTLESLGQELNLSKERVRQLE 269 Query: 661 AKAIRKLKHP--SRSKKLRSFLD 681 A A K++ ++S+++ FLD Sbjct: 270 AAAFGKMRKSLENQSREVLYFLD 292 >gi|326563747|gb|EGE13998.1| RNA polymerase factor sigma-32 [Moraxella catarrhalis 46P47B1] Length = 371 Score = 94.4 bits (233), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 123/240 (51%), Gaps = 16/240 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 128 GDVEAA---RLLVMSHLRFVIHIARSYSGYGLSQADLIQEGNLGLMKAVKRFDPNKGVRL 184 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K+ +R+ ++ SN++ + IA Sbjct: 185 VSFAVHWIKAEIHEFVIKNWRIVKVATTKAHRKLFFNLRSLKKSSNQLTLDEAT-AIAND 243 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRET 612 L + V+ V ++ ++T S E D+D F+ED AV+P D +A+ E Sbjct: 244 LNVTVKQVLEMESRLTSYDASFEAQDSDDDEGRYAPQLFLED--AVNPADVVEEADWEEN 301 Query: 613 TTRVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TT L L R ++ R+ + TL E+ + ++ ER+RQIE A+ K+K Sbjct: 302 TTTALKDAMEILDERSRDIITQRWLADQKS--TLHELAATYNISAERVRQIEKNAMNKIK 359 >gi|323524659|ref|YP_004226812.1| RNA polymerase sigma-32 subunit RpoH [Burkholderia sp. CCGE1001] gi|323381661|gb|ADX53752.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia sp. CCGE1001] Length = 311 Score = 94.4 bits (233), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 76/250 (30%), Positives = 124/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 AARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP+EI +G Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDEI--------DG 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E ++ +ET + D + G + + + +P+ A A+ T VLAS Sbjct: 180 LAKELNVKREEVAEMETRLSGGDIALEGQVEDGEESYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDKLQSDGIATALEALDARSRRIIEARWLKVQDDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|91227498|ref|ZP_01261835.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|262392915|ref|YP_003284769.1| RNA polymerase sigma factor RpoH [Vibrio sp. Ex25] gi|269968648|ref|ZP_06182645.1| RNA polymerase sigma -32 factor [Vibrio alginolyticus 40B] gi|91188522|gb|EAS74814.1| RNA polymerase sigma factor [Vibrio alginolyticus 12G01] gi|262336509|gb|ACY50304.1| RNA polymerase sigma factor RpoH [Vibrio sp. Ex25] gi|269826735|gb|EEZ81072.1| RNA polymerase sigma -32 factor [Vibrio alginolyticus 40B] Length = 285 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 78/269 (28%), Positives = 143/269 (53%), Gaps = 22/269 (8%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ ++ E R + + KGE EA+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNSYPMLTADEERELAERLHYKGEIEAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + P ++D+S+ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMPTDEDDSSNA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S + I+A E T LASL R +R++R R+ + Sbjct: 195 YTAPMLYLEDKS--SDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLD--DEK 250 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLK 279 >gi|254230128|ref|ZP_04923524.1| alternative sigma factor RpoH [Vibrio sp. Ex25] gi|151937373|gb|EDN56235.1| alternative sigma factor RpoH [Vibrio sp. Ex25] Length = 284 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 78/269 (28%), Positives = 143/269 (53%), Gaps = 22/269 (8%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ ++ E R + + KGE EA+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNSYPMLTADEERELAERLHYKGEIEAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + P ++D+S+ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMPTDEDDSSNA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S + I+A E T LASL R +R++R R+ + Sbjct: 195 YTAPMLYLEDKS--SDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLD--DEK 250 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 251 ATLQDLADEFGVSAERIRQLEKNAMKKLK 279 >gi|163735266|ref|ZP_02142701.1| RNA polymerase sigma-32 factor [Roseobacter litoralis Och 149] gi|161391480|gb|EDQ15814.1| RNA polymerase sigma-32 factor [Roseobacter litoralis Och 149] Length = 284 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 75/263 (28%), Positives = 130/263 (49%), Gaps = 20/263 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R CE S+ + ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G Sbjct: 26 RDERCEKSLHR--LITAYMRLAISMASKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGV 83 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKR 545 +FSTYA+WW+K +I + +R + +MR ++ R + + R Sbjct: 84 RFSTYAVWWIKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLERESAASGEPLDR 143 Query: 546 EPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSPLDS 603 + I+ ++ +P+ V + +++ SL ED D +ED +A + Sbjct: 144 HQLRQMISTEIGVPLHDVEMMEGRLSGSDYSLNATQSTEDEGREWIDALEDDSAQAAETV 203 Query: 604 AIQAN---LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 + LR + + L RE ++R R + TLE +G++ +++ER+RQ+E Sbjct: 204 EHHHDTEQLRAWLLQAMNDLNERERFIVRER--KLRDAPRTLESLGQELSLSKERVRQLE 261 Query: 661 AKAIRKLKH--PSRSKKLRSFLD 681 A A K++ ++S+++ FLD Sbjct: 262 AAAFGKMRKNLENQSREVLYFLD 284 >gi|254384657|ref|ZP_04999996.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194343541|gb|EDX24507.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 334 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 112/222 (50%), Gaps = 10/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 102 EGSVERAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVE 161 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 162 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAER 221 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 222 LGISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRES 275 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 276 LKPLLEGLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 317 >gi|182436064|ref|YP_001823783.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776688|ref|ZP_08235953.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178464580|dbj|BAG19100.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326657021|gb|EGE41867.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 318 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 87 GSAEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 146 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 147 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAERL 206 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 207 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 260 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 261 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 301 >gi|162148038|ref|YP_001602499.1| RNA polymerase factor sigma-32 [Gluconacetobacter diazotrophicus PAl 5] gi|161786615|emb|CAP56197.1| putative RNA polymerase sigma-32 factor [Gluconacetobacter diazotrophicus PAl 5] Length = 325 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 124/245 (50%), Gaps = 20/245 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ EA+ A +V ++LRLV +A Y GL +LI EGNIG+M+A +FD G++ Sbjct: 72 KGDTEAAHA---LVTSHLRLVAKIAMGYRGYGLPLGELISEGNIGMMQAVRRFDPDRGFR 128 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE 551 +TYAMWW++ AI I +++ K K+ RR+ +++ + PE+ Sbjct: 129 LATYAMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIDDGDLKPEQ 186 Query: 552 ---IAKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDK--NAVSPLDSAI 605 IA+ L +P + V + + P SL P+ + D++ D+ N L Sbjct: 187 VNKIAESLGVPEQDVINMNRRLSAPDHSLNAPLRADSEGEWQDWLVDEHDNQEQTLAENE 246 Query: 606 QANLRETTT-RVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 + + R+ + +L RE +L R + D TLEE+ + ++RER+RQIE +A Sbjct: 247 EFSGRKALLDNAMKTLNDRERHILTERR---LKDDPATLEELSHTYNISRERVRQIEVRA 303 Query: 664 IRKLK 668 K++ Sbjct: 304 FEKVQ 308 >gi|294630218|ref|ZP_06708778.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] gi|292833551|gb|EFF91900.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] Length = 302 Score = 94.0 bits (232), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 70/226 (30%), Positives = 113/226 (50%), Gaps = 12/226 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 73 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 132 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 133 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVAELAAVLGVS 192 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA-NLRETTT 614 E V L + SL++P ++D L D + + DSA++ RE+ Sbjct: 193 EEDVVDGLAVGNAYTASSLDSPAPEDDGGEGSLADRLGYE------DSALEGVEYRESLK 246 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 +LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 247 PLLAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 292 >gi|308205503|gb|ADO18993.1| RNA polymerase sigma factor [Nostoc flagelliforme str. Sunitezuoqi] Length = 158 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 48/148 (32%), Positives = 94/148 (63%), Gaps = 1/148 (0%) Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +P+H+ +K++K+ + R +S + R+PT EIA++L + E R+ ++ ++ +SLE + Sbjct: 1 MPIHINEKLNKIKKIQRELSQSLGRKPTVVEIAEELKVKPEQAREYIQADRKLVSLEMRV 60 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 G+E + L + + D+ +SPL+ + +R+ +LASL P + VL +RFG+ + Sbjct: 61 GNEQETELSELLADEK-ISPLEELNSSLMRQNIKELLASLAPIQREVLTLRFGLENDHQL 119 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L ++G++ ++RERIRQ+E KA+ L+ Sbjct: 120 SLTQIGERLNLSRERIRQLEHKALSILR 147 >gi|219125233|ref|XP_002182890.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217405684|gb|EEC45626.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 312 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 81/277 (29%), Positives = 135/277 (48%), Gaps = 29/277 (10%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA-KKY----TNRGLQFLDLIQ 475 G+S E R +V+ R+ AK ++V ANL LV +V ++Y T+ G+ +LIQ Sbjct: 44 GLSNKELRRVVNDYRR-------AKHDLVTANLGLVHAVVNQQYGSLKTHTGITKEELIQ 96 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 EG++GL++AAE FD G +FSTYA+ W+K ++ S + +R+P + K +K+ Sbjct: 97 EGSLGLLRAAELFDPERGLRFSTYAVVWIKGVLSNSHLPE--LVRLPAREKTKWNKIQTI 154 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGV----------RKVLKITKEPISLETPIGDEDT 585 R + PT EE+A M V+ V R +L + E S D T Sbjct: 155 QREVETANGVVPTVEELATLTGMTVQEVVQTTRRMQQARSILSLDFEYSSHSRSGADTAT 214 Query: 586 SH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 S L + ++A + +QA++ R +L RE R+LR+R+G+ +L Sbjct: 215 SSAALANQECPEDAKLAARTQLQADVIAAMAR---NLDAREARLLRLRYGLADGQTRSLA 271 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 E ++ R +QI + KL+ + ++ L +L Sbjct: 272 ECADAMGLSPTRTQQIAQTCLSKLRQAAEAESLEEYL 308 >gi|303241077|ref|ZP_07327586.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302591337|gb|EFL61076.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 246 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 129/250 (51%), Gaps = 33/250 (13%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +++K + A+ +VE N+ LV S+ K++ NRG + D+ Q G IGL+KA +KFD Sbjct: 12 LIKKAKSGDKQAQSILVERNVGLVWSIVKRFQNRGYETDDIYQIGCIGLIKAIKKFDDSF 71 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------- 544 KFSTYA+ + I R I D D I KV R+ + +SNKI+ Sbjct: 72 DVKFSTYAVPMIIGEIKRFIRD------------DGIIKVSRSLKELSNKIRVTKEIMMK 119 Query: 545 ---REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVS 599 REP+ EI+ ++ + E + ++ P SL +GD DTS L D + +++ Sbjct: 120 ELGREPSISEISLRMDVAAEELVMAMEANCSPESLYNTVGDSDTSTVLLIDKLNNESNDE 179 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +D + +LR VL +L PRE++++ +R+ + T ++ K +++ ++ +I Sbjct: 180 EVDLVDKIDLR----LVLNTLKPREKQIIILRYF----KEKTQVQIAKMLGISQVQVSRI 231 Query: 660 EAKAIRKLKH 669 E K + ++K Sbjct: 232 EKKILDEIKK 241 >gi|254441831|ref|ZP_05055324.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] gi|198251909|gb|EDY76224.1| alternative sigma factor RpoH [Octadecabacter antarcticus 307] Length = 298 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 73/238 (30%), Positives = 118/238 (49%), Gaps = 17/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPTAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I + +++ K K+ R+ N+I R + IA L Sbjct: 109 IRASIQEYVLRSWSMVKLGTTSAQK--KLFFNLRKAKNRIGALEEGDLRPENVQRIANDL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + E V +++ SL +G E T D++ED++A D + L R Sbjct: 167 GVTEAEVVSMNRRMSGGDASLNATVGSDGEGTMQWQDWLEDESADQAGDYEDRDELQQRR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + L RE+ +L M+ + T TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 ELMAEAMDVLNDREKDIL-MQRRLAEKT-VTLEDLSGQYSVSRERIRQIEVRAFEKLQ 282 >gi|319788352|ref|YP_004147827.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoxanthomonas suwonensis 11-1] gi|317466864|gb|ADV28596.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoxanthomonas suwonensis 11-1] Length = 292 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 119/243 (48%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GLQ DLIQEGNIGLMKA ++FD LG + ++A+ W Sbjct: 57 AARELVHSHLRFVVHVARGYNGYGLQLGDLIQEGNIGLMKAVKRFDPDLGVRLVSFAVHW 116 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I I +++ + R++ +++ T + A V V Sbjct: 117 IRAEIHEFILKNWRIVKV---------ATTKAQRKLFFNLRKAKT--RLGWMNAAEVSAV 165 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV------ 616 K L ++ +E + +E+ + D ED+ P +A ++ E ++ Sbjct: 166 AKDLNVSEREVLEMESRLSGRDIGFDAPADEDEEHAPPSPAAYLVSMDEDPSQALEREDS 225 Query: 617 -----------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 LASL R ++ R+ + + TL+E+ ++ V+ ERIRQIEA A++ Sbjct: 226 EGHKLDLLRDGLASLDARSRDIIARRW-LDDESKVTLQELADEYGVSAERIRQIEANAMK 284 Query: 666 KLK 668 K++ Sbjct: 285 KMR 287 >gi|188090484|gb|ACD49476.1| RNA polymerase sigma factor [Xanthomonas hyacinthi] Length = 284 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 57/142 (40%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 Q L+ ++ +G L EI+ Sbjct: 123 VQTLLEDYEQHKEGKKRLAEIV 144 >gi|163758761|ref|ZP_02165848.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] gi|162284051|gb|EDQ34335.1| RNA polymerase sigma factor [Hoeflea phototrophica DFL-43] Length = 300 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 124/239 (51%), Gaps = 20/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K ++ R++ +KI+ R EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKVKSKIQAVEDGDLRPDQVAEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + ++ D++ D++ S D ++ + E+ Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKASEGESGQWQDWLVDESD-SQEDMLVEQDELESRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L S L RE+R+ R + D TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 AMLKSALEVLNEREKRIFEAR---RLRDDPITLEDLSGEFDISRERVRQIEVRAFEKVQ 281 >gi|210633875|ref|ZP_03297890.1| hypothetical protein COLSTE_01807 [Collinsella stercoris DSM 13279] gi|210159044|gb|EEA90015.1| hypothetical protein COLSTE_01807 [Collinsella stercoris DSM 13279] Length = 261 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 70/220 (31%), Positives = 117/220 (53%), Gaps = 20/220 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V ++L LV +A K+ NRG DL+Q G +GL+KA ++FD G +F+T+A Sbjct: 31 AREKLVMSHLNLVRFIANKFKNRGEPIDDLVQVGYLGLLKAIDRFDPARGLEFTTFATPT 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + ++++++R PT EIA+ L V+ V Sbjct: 91 IMGEIKRHFRDKGWSVRVPRRLQELSAKVNQATDTLTSQLQRSPTIAEIAEYLDATVDEV 150 Query: 564 RKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN--LRETTTRV--- 616 + ++ +SLE P G +ED +A S +D + L T R+ Sbjct: 151 LEAMESSSAYSSVSLEAPSG----------MEDDDAPSVIDRYATEDEELAFTDDRIIIE 200 Query: 617 --LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 LAS +PRE V+ MRF GM E++G Q V+R Sbjct: 201 EALASFSPREREVIEMRFLQGMTQIEIAEKLGISQVQVSR 240 >gi|270487763|ref|ZP_06204837.1| putative RNA polymerase sigma factor RpoD [Yersinia pestis KIM D27] gi|270336267|gb|EFA47044.1| putative RNA polymerase sigma factor RpoD [Yersinia pestis KIM D27] Length = 402 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 Score = 51.2 bits (121), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 2/143 (1%) Query: 320 KLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA-QSYGIKRDVFLERHQGRE 378 KL ++ L + D LV + + R+ E +++L + + + F+ E Sbjct: 250 KLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNE 309 Query: 379 LDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGE 438 W + A + W + + + + +++ I ETG++I + + I + GE Sbjct: 310 TSDTWFNAAVAMGKP-WSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGE 368 Query: 439 CEASIAKKEMVEANLRLVISVAK 461 +A AKKEMVEANLRLVIS+AK Sbjct: 369 AKARRAKKEMVEANLRLVISIAK 391 >gi|308069565|ref|YP_003871170.1| RNA polymerase sigma-F factor (stage II sporulation protein AC) (sporulation sigma factor) [Paenibacillus polymyxa E681] gi|305858844|gb|ADM70632.1| RNA polymerase sigma-F factor (Stage II sporulation protein AC) (Sporulation sigma factor) [Paenibacillus polymyxa E681] Length = 251 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 128/246 (52%), Gaps = 17/246 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + ++++ + G+ EA ++ +V +N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 16 AEVKQLIALSQSGDNEA---RETLVNSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKS 72 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD KFSTYA+ + I R + D T+++ +++ +KV + +S ++ Sbjct: 73 VDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKETANKVRKMKDELSKRLN 131 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 R PT +E+A +L + E V + K P S+ + D D L D I D++ D Sbjct: 132 RLPTVKEVADELGVTPEDVVFAQEANKPPTSIHETVFENDGDPITLMDQIADESQERWFD 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + + L+ RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 -------KLALNEAIGGLSERERLIVYLRY----YRDQTQSEVASRLGISQVQVSRLEKK 240 Query: 663 AIRKLK 668 ++ ++ Sbjct: 241 ILQLIR 246 >gi|209696299|ref|YP_002264230.1| RNA polymerase factor sigma-32 [Aliivibrio salmonicida LFI1238] gi|208010253|emb|CAQ80584.1| RNA polymerase sigma-32 factor [Aliivibrio salmonicida LFI1238] Length = 286 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 78/278 (28%), Positives = 140/278 (50%), Gaps = 26/278 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS L+ N ++VE ++E H K E EA+ KE++ ++LR V+ VA+ Sbjct: 16 IDSYLRSVNRYPMLTVEKERDLAERLHY-----KEEIEAA---KELILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPLADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + + +R+ E E +AK L + VR++ ++ + + E P Sbjct: 128 TTKAQRKLFFNLRKNKKRLGWFNNGE--VEAVAKDLGVSPSEVREMESRLAAQDSTFEAP 185 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRM 630 D+D ++EDK S + +++ + E T +A+L R + +++ Sbjct: 186 TEDDDRDMAFTAPVYYLEDKQ--SDIAHSLEEDNWEDYTNNRLANAIATLDDRSQHIVQS 243 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ T TL+E+ + V+ ERIRQ+E A++KLK Sbjct: 244 RWLTDEKT--TLQELANTYSVSAERIRQLEKNAMKKLK 279 >gi|254464548|ref|ZP_05077959.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] gi|206685456|gb|EDZ45938.1| alternative sigma factor RpoH [Rhodobacterales bacterium Y4I] Length = 298 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 75/246 (30%), Positives = 123/246 (50%), Gaps = 14/246 (5%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A+ A K MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ + Sbjct: 44 EQDAASAHK-MVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 TYAMWW++ +I I +++ + K+ +R A+ ++ E K++ Sbjct: 103 TYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPENVKRI 162 Query: 557 AMPV-----EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL 609 A + E + +++ SL +G E T D++ED++A D + L Sbjct: 163 ATDLGVTEDEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDEL 222 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 RE L L RE+ +L R M+ TLE++ Q+ V+RERIRQIE +A K Sbjct: 223 EARRELLAEALDVLNDREKDILTQRR--LMDQAVTLEDLSAQYNVSRERIRQIEVRAFEK 280 Query: 667 LKHPSR 672 L+ R Sbjct: 281 LQKKMR 286 >gi|170765503|ref|ZP_02900314.1| RNA polymerase sigma factor RpoD [Escherichia albertii TW07627] gi|170124649|gb|EDS93580.1| RNA polymerase sigma factor RpoD [Escherichia albertii TW07627] Length = 613 Score = 94.0 bits (232), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 56/138 (40%), Positives = 88/138 (63%), Gaps = 3/138 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D +E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAE 69 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 ++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 NTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGI 127 Query: 151 AMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 128 NQVQCSVAEYPEAITYLL 145 >gi|332977445|gb|EGK14221.1| DNA-directed RNA polymerase sigma subunit SigF [Desmospora sp. 8437] Length = 254 Score = 94.0 bits (232), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 127/249 (51%), Gaps = 17/249 (6%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S +E + ++ +KG+ EA + +V+ N+RLV SV +++ NRG + DL Q G IGL Sbjct: 13 LSDTEVKELIQKSQKGDTEA---RDRLVQHNIRLVWSVVQRFLNRGYEAEDLFQIGCIGL 69 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA +KFD KFSTYA+ + I R + D +++ +++ +++ + M+ Sbjct: 70 LKAVDKFDLAYDVKFSTYAVPMIIGEIQRFLRDDGM-VKVSRSLKELSNRIRKVKDEMTK 128 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 + R PT +E+++++ + E + + + P S+ + D D L D I D+ Sbjct: 129 GLGRSPTIQELSEEMGVTPEEIVFAQEANRTPTSIHETVYENDGDPITLMDQIADEEEEG 188 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 D R + L RE ++ +RF D T EV ++ +++ ++ ++ Sbjct: 189 WFD-------RMALKEAIRQLEERERLIVYLRF----FKDQTQSEVAQRLGISQVQVSRL 237 Query: 660 EAKAIRKLK 668 E K IR+++ Sbjct: 238 EKKIIRRMR 246 >gi|322421263|ref|YP_004200486.1| RNA polymerase sigma 32 subunit RpoH [Geobacter sp. M18] gi|320127650|gb|ADW15210.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M18] Length = 284 Score = 94.0 bits (232), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 114/232 (49%), Gaps = 12/232 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ +NLR V+ +A +Y + G++ LDLIQEGNIGLM A KFD G + +YA+WW Sbjct: 45 AAHKLITSNLRFVVKIAGEYRSYGMKMLDLIQEGNIGLMMAVRKFDPAKGVRLISYAVWW 104 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I ++I + K+ + A++ + E A L + Sbjct: 105 IRAYIQNHIISAWSLLKIGTTQAQRKLFFKLNQAKQAIINMTGEGDLHAAAISLDVKDTE 164 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT------TRV 616 R++ + + +SL+ + D + G F+E + + A +ETT Sbjct: 165 AREMEQRLRGELSLDVEMFDGEG---GTFLETLPDLRQNQEEMLAERQETTILEQGVASA 221 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L +E V+ R + TL+E+ F ++RER+RQIE A++K+K Sbjct: 222 LGHLNEKERFVIERR--VAAEEPLTLQEIADHFSISRERVRQIEEGALKKMK 271 >gi|188090488|gb|ACD49478.1| RNA polymerase sigma factor [Xanthomonas hyacinthi] gi|188090490|gb|ACD49479.1| RNA polymerase sigma factor [Xanthomonas hyacinthi] Length = 284 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 57/142 (40%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 Q L+ ++ +G L EI+ Sbjct: 123 VQTLLEDYEQHKEGKKRLAEIV 144 >gi|241758558|ref|ZP_04756675.1| alternative sigma factor RpoH [Neisseria flavescens SK114] gi|241321301|gb|EER57461.1| alternative sigma factor RpoH [Neisseria flavescens SK114] Length = 287 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 129/240 (53%), Gaps = 11/240 (4%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G Sbjct: 43 QKGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGA 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIA 553 + ++A+ W+K I I +R+ + K+ +R+ R+ N + + +EIA Sbjct: 100 RLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QEIA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 L + + V ++ ++T I + DED D++ D +A + QA+ Sbjct: 159 NDLGVKLSEVLEMEQRMTGHDIGIMAENNDDEDNFAPIDWLADHDAEPSRQLSKQAHYAL 218 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIEAKA++KL+ Sbjct: 219 QTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLR 277 >gi|239980906|ref|ZP_04703430.1| RNA polymerase sigma factor, sigma L [Streptomyces albus J1074] gi|291452768|ref|ZP_06592158.1| sigma L [Streptomyces albus J1074] gi|291355717|gb|EFE82619.1| sigma L [Streptomyces albus J1074] Length = 340 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 113/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 111 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 170 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+A L + Sbjct: 171 AMPTVIGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELAHALGVS 230 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 231 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 286 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 287 LAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 330 >gi|126666520|ref|ZP_01737498.1| RNA polymerase sigma factor RpoD [Marinobacter sp. ELB17] gi|126628908|gb|EAZ99527.1| RNA polymerase sigma factor RpoD [Marinobacter sp. ELB17] Length = 616 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 61/158 (38%), Positives = 93/158 (58%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K +I +++GY+T E+N LP D +Q+ED + M+++MGI V D D L + Sbjct: 11 KDLIARGKEQGYLTYAEVNDHLPEDIADPDQVEDIIRMINDMGIQVSEVAPDADTLIMTD 70 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G DS ++ + ++ L + A R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 71 G--DSTADEAATAEAAAALAAVESDAGRTTD-PVRMYMREMGTVELLTREGEIVIAKRIE 127 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G +MA++ P T +I D + + L +I+ Sbjct: 128 EGIRDVMAAVAHFPGTTGTVIQGYDRIVENEGRLSDIV 165 >gi|121488741|emb|CAJ18254.1| sigma 70-type sigma factor [Chlorobaculum limnaeum] Length = 149 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 47/150 (31%), Positives = 86/150 (57%), Gaps = 1/150 (0%) Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD G+KF +YA+WW++Q+I +++A+QS +R+P++ ++K+ + ++ + +R+P Sbjct: 1 FDETRGFKFISYAVWWIRQSILQALAEQSRIVRLPLNRVGTLNKISKAYSQLEQEYERDP 60 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +E+A L M + V LKI +S++ P D + L D +++ + P + Sbjct: 61 NTKELANLLDMDSQDVADTLKIAGRHVSVDAPFAQGDDNRLLDVLQNDGHM-PDHGLNRD 119 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMN 637 +L R L+ L PRE V+R FGIGM+ Sbjct: 120 SLTLEVERSLSVLAPREADVIRSYFGIGMD 149 >gi|307293092|ref|ZP_07572938.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] gi|306881158|gb|EFN12374.1| RNA polymerase, sigma 32 subunit, RpoH [Sphingobium chlorophenolicum L-1] Length = 304 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 77/251 (30%), Positives = 126/251 (50%), Gaps = 26/251 (10%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E S A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G+ Sbjct: 43 RYAEHADSEAAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEPDRGF 102 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW++ +I I +++ K K+ RRM N I+ + P+ Sbjct: 103 RLATYAMWWIRASIQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKNNIEAFEDGDLHPD 160 Query: 551 EIAKKLAMPVEGVRK--VLKITKE-----PISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 ++ KK+A + GV + V+ + + SL P+ ++ D++ D + PL Sbjct: 161 DV-KKIATDL-GVTEEDVISMNRRMAMGGDTSLNVPMREDGEGQWQDWLADTD---PLQD 215 Query: 604 AIQANLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 A+ +E+ R + L RE+ +L R TLEE+ + + V+RER+R Sbjct: 216 ERVADRQESELRHDMLVEAMDDLNDREKHILAERRLA--EEPKTLEELSQVYGVSRERVR 273 Query: 658 QIEAKAIRKLK 668 QIE +A KL+ Sbjct: 274 QIEVRAFEKLQ 284 >gi|325263641|ref|ZP_08130375.1| RNA polymerase sigma-F factor [Clostridium sp. D5] gi|324031350|gb|EGB92631.1| RNA polymerase sigma-F factor [Clostridium sp. D5] Length = 238 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 127/240 (52%), Gaps = 8/240 (3%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H +++++K A++++VE N+ LV V K++ RG + DL Q G+IGL+KA +KF Sbjct: 3 HTIALIKKSHDGDKKAREQLVEENVGLVWCVVKRFYGRGTEAEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K+ +T ++ + REPT Sbjct: 63 DLSYEVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELSYKIFQTREALTGSLGREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EE+A + + E + + ++ E SL PI ++ + + ++ + I + Sbjct: 122 LEELANTMNVDKEEIVQAMEAGGEVESLYKPIHQKEGNEI-RLVDKLEEKERKEEKILDH 180 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++L SL E +++ +R+ D T +VGK+ +++ ++ ++E + I L+ Sbjct: 181 M--LLAQLLESLDKEERQLIYLRY----FADETQSQVGKKLGISQVQVSRMEKRIIENLR 234 >gi|39995761|ref|NP_951712.1| RNA polymerase sigma-32 factor [Geobacter sulfurreducens PCA] gi|39982525|gb|AAR33985.1| RNA polymerase sigma-32 factor [Geobacter sulfurreducens PCA] gi|298504771|gb|ADI83494.1| RNA polymerase sigma-32 factor RpoH [Geobacter sulfurreducens KN400] Length = 284 Score = 93.6 bits (231), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 77/271 (28%), Positives = 131/271 (48%), Gaps = 15/271 (5%) Query: 404 DSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY 463 DS+ EI+ V T E+R V + EA+ ++ +NLR V+ +A +Y Sbjct: 10 DSLTVYLREIRKFPVLT--PEEEYRFAVKFYEDKDLEAA---HSLITSNLRFVVKIAAEY 64 Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 + GL+ LDLIQEGN+GLM A KF+ G + +YA+WW++ I I ++I Sbjct: 65 RSYGLKMLDLIQEGNVGLMMAVRKFNPYKGIRLISYAVWWIRAYIQNHIISAWSLLKIGT 124 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEGVRKVLKITKEPISLETPI 580 K K+ + N IK ++I A L + V ++ + + L+ I Sbjct: 125 TQAQK--KLFFKLNQAKNAIKGLTGTDDIEATATSLHVKESEVLEMDQRMRGDFYLDAEI 182 Query: 581 GDEDTSHLGDFIED--KNAVSPLDSAIQAN-LRETTTRVLASLTPREERVLRMRFGIGMN 637 + D + + + D +N L ++ L++ L L +E ++ R + + Sbjct: 183 KNGDGLTILETLADERQNQEDTLAELQESELLKQHIAGALGKLNEKERFIVEQR--VTAD 240 Query: 638 TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T TL+E+ +F ++RER+RQIE A+RK+K Sbjct: 241 TPLTLQEIADRFSISRERVRQIEEAALRKIK 271 >gi|126734879|ref|ZP_01750625.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] gi|126715434|gb|EBA12299.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] Length = 277 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/256 (29%), Positives = 127/256 (49%), Gaps = 24/256 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLITAYMRLAISMASKFKRYGAPMNDLIQEASVGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE-----------I 552 +K +I + +R K + RR+ +++RE E I Sbjct: 86 IKASIQDYVMRNWSMVRTGSTSSQK--SLFFNMRRVQARLEREAAAEGRVMDKQEMRELI 143 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIED---KNAVSPLDSAIQA 607 A ++ +P+ V + +++ SL ED D +ED + A + + Sbjct: 144 AIEVGVPLHDVEMMEGRLSGSDFSLNATQSVEDEGREWIDALEDDGPQAAETVEHTHDND 203 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 LR+ L++L RE+ ++R R + D TLE +G + +++ER+RQ+EA A K Sbjct: 204 TLRQWLLTALSNLNDREQFIVRER---KLREDPRTLESLGTELGLSKERVRQLEAAAFGK 260 Query: 667 LKHP--SRSKKLRSFL 680 ++ S+S ++ +F Sbjct: 261 MRKSLESQSSEVHAFF 276 >gi|56696293|ref|YP_166650.1| RNA polymerase factor sigma-32 [Ruegeria pomeroyi DSS-3] gi|56678030|gb|AAV94696.1| RNA polymerase sigma-32 factor [Ruegeria pomeroyi DSS-3] Length = 298 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/238 (31%), Positives = 114/238 (47%), Gaps = 17/238 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW++ A Sbjct: 53 MVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRAA 112 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKLAMPV 560 I I +++ K K+ R+ KI R IA L + Sbjct: 113 IQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKAKIGALEEGDLRPENVARIAHDLGVSE 170 Query: 561 EGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---RETTT 614 + V + +++ SL +G E T D++ED++A D + L RE Sbjct: 171 DDVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAADYEARDELEARRELLA 230 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L L RE+ VL R + TLE++ Q+ V+RERIRQIE +A KL+ R Sbjct: 231 SALDVLNEREKDVLTQRRLLDQTV--TLEDLSAQYNVSRERIRQIEVRAFEKLQKRMR 286 >gi|318060190|ref|ZP_07978913.1| RNA polymerase sigma factor, sigH [Streptomyces sp. SA3_actG] gi|318078835|ref|ZP_07986167.1| RNA polymerase sigma factor, sigH [Streptomyces sp. SA3_actF] Length = 356 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 425 SEFRHIVSMVRKGECEASIA---KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 SE R + +R E E++ + +V +L LV +A+++ NRG DL Q IGL Sbjct: 110 SEARALFVQLRTLEPESAAYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGL 169 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +K+ ++FD G +FSTYA V I R D+ +R+P +++ + +S Sbjct: 170 IKSVDRFDPERGVEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTSATAELSQ 229 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVS 599 + R PT E+A++L++ E V + L+ +SL+ P D+++ + D + + Sbjct: 230 QHGRSPTVHELAQRLSISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE---- 285 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 D A++ RE+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 286 --DEALEGVEYRESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 339 >gi|320008631|gb|ADW03481.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 320 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 112/222 (50%), Gaps = 10/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 88 EGSAEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVE 147 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 148 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAER 207 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 208 LGISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRES 261 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 262 LKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 303 >gi|330818365|ref|YP_004362070.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia gladioli BSR3] gi|327370758|gb|AEA62114.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia gladioli BSR3] Length = 311 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/237 (31%), Positives = 124/237 (52%), Gaps = 20/237 (8%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W+K Sbjct: 74 RRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPNQNVRLVSYAIHWIK 133 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEG 562 I I +++ K + + R K + TPEEI A++L + E Sbjct: 134 AEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKRED 190 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVL 617 V ++ +++ I+LE + G+E + + + N + + ++ Q + +T + L Sbjct: 191 VAEMETRLSGGDIALEGQVDDGEESFAPIAYLADSHNEPTAVIASRQRDRLQTDGISEAL 250 Query: 618 ASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 SL R R++ R+ G G +T H L +F V+ ERIRQIEA A++K++ Sbjct: 251 ESLDARSRRIIEARWLNVEDDGSGGSTLHDL---AAEFGVSAERIRQIEASAMKKMR 304 >gi|144897893|emb|CAM74757.1| RNA polymerase sigma-32 factor [Magnetospirillum gryphiswaldense MSR-1] Length = 288 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 121/245 (49%), Gaps = 23/245 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ++LRLV +A Y GL +LI EGN+G+M+A ++FD G++ +TYAMWW Sbjct: 49 AADRLITSHLRLVAKIAMGYRGYGLPLGELISEGNVGMMQAVKRFDPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-------EPTPEEIAKKL 556 ++ A+ I +++ K K+ R++ +++ + T IA KL Sbjct: 109 IRAAVQEYILHSWSLVKMGTTAAQK--KLFFNLRKLKGQMQAMDEGDLPQETVTSIATKL 166 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKN------AVSPLDSAIQANL 609 +P V + + P SL P+ + D++ D++ + I++ L Sbjct: 167 NVPENDVINMNRRLASPDHSLNAPVRMDGEGEWQDWLVDESDDQETELADRQERGIRSKL 226 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L +L RE +L R + D TLE++ +Q+ ++RER+RQIE +A KL+ Sbjct: 227 LST---ALDTLNERERSILSQR---RLTEDPATLEDLSQQYGISRERVRQIEVRAFEKLQ 280 Query: 669 HPSRS 673 R+ Sbjct: 281 KSIRA 285 >gi|239977584|sp|P0CAW9|RP32_CAUCR RecName: Full=RNA polymerase sigma-32 factor gi|239977655|sp|B8H3C3|RP32_CAUCN RecName: Full=RNA polymerase sigma-32 factor gi|1262200|gb|AAC43981.1| RpoH [Caulobacter vibrioides] gi|1588870|prf||2209377A heat shock sigma factor 32 Length = 295 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 125/245 (51%), Gaps = 24/245 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE---EIAKKL 556 ++ +I I +++ K K+ R+ ++I + + P+ +IA KL Sbjct: 108 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKL 165 Query: 557 A-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP-------LDSAIQAN 608 + E + +++ SL P+ + S D++ D+ VS + +++ + Sbjct: 166 GVLDSEVISMNRRLSGPDASLNAPLRADGESEWQDWLADEEQVSQETRVAEDEEKSLRMS 225 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E + LT RE +L R + D TLEE+ Q+ V+RER+RQIE +A KL Sbjct: 226 LLE---EAMVELTDRERHILTER---RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKL 279 Query: 668 KHPSR 672 + R Sbjct: 280 QKTMR 284 >gi|282858710|ref|ZP_06267864.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] gi|282588514|gb|EFB93665.1| sigma-70 region 2 [Prevotella bivia JCVIHMP010] Length = 228 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/255 (26%), Positives = 122/255 (47%), Gaps = 39/255 (15%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I++I ET ++ E R + ++ G+ +A +++ +ANL V+S+A +Y +GL D Sbjct: 8 IENIIGETILTNEEERQLADRIKVGDAKAL---EKLTKANLTFVVSIAHQYKEQGLDEND 64 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI EGNIG+M AA+KFD G +F +A ++++A+ +I +Q+ ++P + +++ + Sbjct: 65 LISEGNIGMMYAAQKFDGTKGVRFVNFAASYIRKAMEDAIKEQTALYKVPKNEKNRFEQ- 123 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 + A+ +S L PV P+G + L + I Sbjct: 124 -KRAKAIS---------------LDQPV------------------PVGSNNNFTLQNVI 149 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 + + + D L + + L RE V+ +G+ T+ EV + + Sbjct: 150 VNGDTANTDDDVTTNMLNTALKQSMKFLNERETAVITQLYGLD-GVHFTMAEVAETLGLK 208 Query: 653 RERIRQIEAKAIRKL 667 RERIRQI A+RKL Sbjct: 209 RERIRQIRNTALRKL 223 >gi|162449128|ref|YP_001611495.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161159710|emb|CAN91015.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 275 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 122/230 (53%), Gaps = 16/230 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++EA L V+++A +Y GL D++QEGNIGL+KAAE+FD G + +TYA +W Sbjct: 42 AGRRLIEACLPFVMTIALEYRRWGLPMEDIVQEGNIGLLKAAERFDPDRGCRLATYAAYW 101 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I +A +R+ K R A R+ K E P +A+ + E Sbjct: 102 IRAEIREHVARGYRIVRL------GSSKSERRALRIYRKTH-EKDPAVLAELSGLSEERA 154 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR----VLA 618 ++L + +SLE ++ + + +A +P D A A+ R +R V+ Sbjct: 155 AELLPLLMARDVSLERSPTEDGIAPVERLA--SSAHTPEDEACDADERAQLSRALLQVVN 212 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+PRE ++ R+ ++ TLE++G F V++ER+RQIE +A ++++ Sbjct: 213 ELSPRERSIMNQRWLT--DSPVTLEQLGADFGVSKERVRQIEERAKKRMR 260 >gi|318060769|ref|ZP_07979492.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG] gi|318078700|ref|ZP_07986032.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF] gi|333025872|ref|ZP_08453936.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|332745724|gb|EGJ76165.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 367 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 138 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 197 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+AK L + Sbjct: 198 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELAKALGVS 257 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 + V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 258 EDDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 313 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 314 LAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 357 >gi|188090486|gb|ACD49477.1| RNA polymerase sigma factor [Xanthomonas hyacinthi] Length = 284 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 57/142 (40%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 Q L+ ++ +G L EI+ Sbjct: 123 VQTLLEDYEQHKEGKKRLAEIV 144 >gi|239982221|ref|ZP_04704745.1| RNA polymerase sigma factor, sigH [Streptomyces albus J1074] Length = 287 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 67/221 (30%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 56 GGPEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEF 115 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A+KL Sbjct: 116 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTSATAELSQRHGRSPTVHELAEKL 175 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 176 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 229 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 230 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 270 >gi|307943602|ref|ZP_07658946.1| RNA polymerase sigma-32 factor [Roseibium sp. TrichSKD4] gi|307773232|gb|EFO32449.1| RNA polymerase sigma-32 factor [Roseibium sp. TrichSKD4] Length = 291 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/232 (32%), Positives = 122/232 (52%), Gaps = 19/232 (8%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 ++ RLVISVA K+ N GL DLIQEG++GL++AA +F+ +FSTYA WW++ +I Sbjct: 48 SHTRLVISVASKFRNFGLPLGDLIQEGHVGLLEAAARFEPEREVRFSTYATWWIRASIQD 107 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI---KREPTPEEIAKKLA-----MPVEG 562 I +R K + RR+ K+ ++ T E+ +K+A P + Sbjct: 108 YILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLSGNQQNLTDSELHQKIADAIGVKPADV 165 Query: 563 VRKVLKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS- 619 +++ SL P+ D + +S DF+ +A P D ++ E + LAS Sbjct: 166 ATMNARLSGPDTSLNAPVTDSEGSSSDRQDFLVS-DAPQPDDIVSESIDTERRRKWLASA 224 Query: 620 ---LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT RE +++R R TLE +G++ +++ER+RQIE++A+ KLK Sbjct: 225 MTVLTDRELKIVRERRLT--EEGATLESLGQKLGISKERVRQIESRAMEKLK 274 >gi|255068324|ref|ZP_05320179.1| alternative sigma factor RpoH [Neisseria sicca ATCC 29256] gi|261365915|ref|ZP_05978798.1| alternative sigma factor RpoH [Neisseria mucosa ATCC 25996] gi|255047443|gb|EET42907.1| alternative sigma factor RpoH [Neisseria sicca ATCC 29256] gi|288565493|gb|EFC87053.1| alternative sigma factor RpoH [Neisseria mucosa ATCC 25996] Length = 287 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 131/240 (54%), Gaps = 11/240 (4%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G Sbjct: 43 QKGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGA 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 + ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 100 RLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QDIA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 L + + V ++ ++T I++ DED+ D++ D +A + QA+ Sbjct: 159 DDLGVKLSEVMEMEQRMTGHDIAIMADNNDDEDSFAPIDWLADHDAEPSRQLSKQAHYAL 218 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIEAKA++KL+ Sbjct: 219 QTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLR 277 >gi|1184690|gb|AAB01724.1| RNA polymerase sigma 32 subunit [Caulobacter crescentus CB15] Length = 295 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 125/245 (51%), Gaps = 24/245 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE---EIAKKL 556 ++ +I I +++ K K+ R+ ++I + + P+ +IA KL Sbjct: 108 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKL 165 Query: 557 A-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP-------LDSAIQAN 608 + E + +++ SL P+ + S D++ D+ VS + +++ + Sbjct: 166 GVLDSEVISMNRRLSGPDASLNAPLRRDGESEWQDWLADEEQVSQETRVAEDEEKSLRMS 225 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E + LT RE +L R + D TLEE+ Q+ V+RER+RQIE +A KL Sbjct: 226 LLE---EAMVELTDRERHILTER---RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKL 279 Query: 668 KHPSR 672 + R Sbjct: 280 QKTMR 284 >gi|295837881|ref|ZP_06824814.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295826719|gb|EDY46528.2| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 286 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 57 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 116 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+AK L + Sbjct: 117 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELAKALGVS 176 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 + V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 177 EDDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 232 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 233 LAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 276 >gi|291447660|ref|ZP_06587050.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|291350607|gb|EFE77511.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 318 Score = 93.6 bits (231), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 86/298 (28%), Positives = 139/298 (46%), Gaps = 22/298 (7%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNF-VACEVDSILKIRNEIKSISVETGI 422 G+ R + Q R PH V A D PEG F VA E S + ++ Sbjct: 18 GVVRPAGIPEQQAR---PHPVDGA-DGPEG----FDVAVEQQSQAERAGQMSEHGHHDPH 69 Query: 423 SISEFRHIVSMVRK---GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 S R + +R+ G E + + +V +L LV +A+++ NRG DL Q I Sbjct: 70 DRSGARALFFELRELPDGSPEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATI 129 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL+K+ ++FD G +FSTYA V I R D+ +R+P +++ + + Sbjct: 130 GLIKSVDRFDPDRGVEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAEL 189 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNA 597 S + R PT E+A++L + E V + L+ +SL+ P D+++ + D + + Sbjct: 190 SQQHGRSPTVHELAERLGISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE-- 247 Query: 598 VSPLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 D A++ RE+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 248 ----DEALEGVEYRESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 301 >gi|229592968|ref|YP_002875087.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens SBW25] gi|229364834|emb|CAY52873.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas fluorescens SBW25] Length = 616 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 56/137 (40%), Positives = 85/137 (62%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++GY+T E+N LP D EQ+ED + M+++MGINV + +D D Sbjct: 12 KELIVLGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFEAAPDKDSLMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|333024500|ref|ZP_08452564.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] gi|332744352|gb|EGJ74793.1| putative RNA polymerase sigma-F factor [Streptomyces sp. Tu6071] Length = 356 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 119/236 (50%), Gaps = 13/236 (5%) Query: 425 SEFRHIVSMVRKGECEASIA---KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 SE R + +R E E++ + +V +L LV +A+++ NRG DL Q IGL Sbjct: 110 SEARALFVQLRTLEPESAAYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGL 169 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +K+ ++FD G +FSTYA V I R D+ +R+P +++ + +S Sbjct: 170 IKSVDRFDPERGVEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTSATAELSQ 229 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVS 599 + R PT E+A++L++ E V + L+ +SL+ P D+++ + D + + Sbjct: 230 QHGRSPTVHELAQRLSISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE---- 285 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 D A++ RE+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 286 --DEALEGVEYRESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 339 >gi|261380105|ref|ZP_05984678.1| alternative sigma factor RpoH [Neisseria subflava NJ9703] gi|284797325|gb|EFC52672.1| alternative sigma factor RpoH [Neisseria subflava NJ9703] Length = 287 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 129/240 (53%), Gaps = 11/240 (4%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G Sbjct: 43 QKGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGA 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIA 553 + ++A+ W+K I I +R+ + K+ +R+ R+ N + + +EIA Sbjct: 100 RLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QEIA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 L + + V ++ ++T I + DED D++ D +A + QA+ Sbjct: 159 DDLGVKLSEVLEMEQRMTGHDIGIMAENNDDEDNFAPIDWLADHDAEPSRQLSKQAHYAL 218 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIEAKA++KL+ Sbjct: 219 QTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLR 277 >gi|257453679|ref|ZP_05618966.1| RNA polymerase factor sigma-32 [Enhydrobacter aerosaccus SK60] gi|257448913|gb|EEV23869.1| RNA polymerase factor sigma-32 [Enhydrobacter aerosaccus SK60] Length = 393 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 78/267 (29%), Positives = 131/267 (49%), Gaps = 20/267 (7%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N + I + T E H +G+ EA+ + +V ++LR VI +A+ Y+ GL Sbjct: 126 NAVHQIPILTAEQEQELAH--RYTDEGDVEAA---RLLVMSHLRFVIHIARSYSGYGLPQ 180 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKI 529 DLIQEGN+GLMKA ++FD G + ++A+ W+K I + +++ K+ Sbjct: 181 GDLIQEGNVGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVATTKAHRKL 240 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 +R+ ++ +N++ E E IAK L + V+ V ++ ++T S E DED Sbjct: 241 FFNLRSLKKTNNQLTLEEA-EAIAKDLNVTVKQVLEMESRLTSYDASFEAQSDDEDEGRY 299 Query: 589 GD--FIEDKNAVSPLDSAIQANLRETTTRVLA----SLTPREERVLRMRFGIGMNTDH-T 641 F+ED A P D A+ E L L R +++ R+ +N T Sbjct: 300 APQYFLED--AADPADMVEDADWEENNNSALMEAMEDLDDRSRDIVQQRW---LNEQKAT 354 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+ ++ ++ ER+RQIE A+ K+K Sbjct: 355 LHELAAEYNISAERVRQIEKNAMDKIK 381 >gi|254465185|ref|ZP_05078596.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacterales bacterium Y4I] gi|206686093|gb|EDZ46575.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacterales bacterium Y4I] Length = 292 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 77/256 (30%), Positives = 127/256 (49%), Gaps = 32/256 (12%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW+K + Sbjct: 45 LINAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + +MR ++ R AR + + ++IA ++ + Sbjct: 105 IQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLEREARSSGVPLDQHQLHQKIATEIGV 164 Query: 559 PVEGVRKV-LKITKEPISLET-PIGDEDTSHLGDFIEDKNAVSPLDSAIQA-----NLRE 611 P+ V + +++ SL DE+ D +ED S + +Q LR+ Sbjct: 165 PLRDVEMMEGRLSGADFSLNAVQSTDEEGREWIDALEDD--ASQAEDLVQERHDRRQLRK 222 Query: 612 TTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L +L RE ER LR R TLE +G + +++ER+RQ+EA A +K Sbjct: 223 WLVTALQALNDRERFIITERKLRDR-------PRTLESLGTELGLSKERVRQLEAGAFQK 275 Query: 667 LKHP--SRSKKLRSFL 680 ++ S+S++++ L Sbjct: 276 MRKSLESQSREVQKLL 291 >gi|16127328|ref|NP_421892.1| RNA polymerase factor sigma-32 [Caulobacter crescentus CB15] gi|221236131|ref|YP_002518568.1| RNA polymerase factor sigma-32 [Caulobacter crescentus NA1000] gi|13424754|gb|AAK25060.1| heat shock sigma factor RpoH [Caulobacter crescentus CB15] gi|220965304|gb|ACL96660.1| RNA polymerase sigma-32 factor [Caulobacter crescentus NA1000] Length = 298 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/245 (30%), Positives = 125/245 (51%), Gaps = 24/245 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 51 AAHKMVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPEKGFRLATYAMWW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPE---EIAKKL 556 ++ +I I +++ K K+ R+ ++I + + P+ +IA KL Sbjct: 111 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQIAAFQEGDLHPDQVSQIATKL 168 Query: 557 A-MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP-------LDSAIQAN 608 + E + +++ SL P+ + S D++ D+ VS + +++ + Sbjct: 169 GVLDSEVISMNRRLSGPDASLNAPLRADGESEWQDWLADEEQVSQETRVAEDEEKSLRMS 228 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E + LT RE +L R + D TLEE+ Q+ V+RER+RQIE +A KL Sbjct: 229 LLE---EAMVELTDRERHILTER---RLKDDPTTLEELAAQYGVSRERVRQIEVRAFEKL 282 Query: 668 KHPSR 672 + R Sbjct: 283 QKTMR 287 >gi|254515828|ref|ZP_05127888.1| alternative sigma factor RpoH [gamma proteobacterium NOR5-3] gi|219675550|gb|EED31916.1| alternative sigma factor RpoH [gamma proteobacterium NOR5-3] Length = 303 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 123/234 (52%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V +A+ Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 69 AARELVMSHLRFVAHIARSYRGYGLSEADLIQEGNVGLMKAVKRFDPTKGVRLVSFAVHW 128 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+A++ + + + +A L + V+ Sbjct: 129 IKAEIHEYILRNWRIVKIATTKAQRKLFFNLRSAKKSLAWLSADEA-QAVANDLGVDVQE 187 Query: 563 VRKV-LKITKEPISLETPIG---DEDTSHLGDFIEDKNAVSPL---DSAIQANLRETTTR 615 V ++ +++ ++ + P G DE ++ED++A + DS QA+ + Sbjct: 188 VHRMEGRLSSHDVAFDAPAGSDDDEGWQAPQYYLEDRSADPAIDVEDSEWQADSQAQLHA 247 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A L R +L R+ + D TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 248 AIADLDERSRNILAQRW---LTDDKATLHELAAEYGVSAERIRQLEQAAMKKIR 298 >gi|270158013|ref|ZP_06186670.1| RNA polymerase sigma-32 factor RpoH [Legionella longbeachae D-4968] gi|289163720|ref|YP_003453858.1| RNA polymerase sigma-32 factor [Legionella longbeachae NSW150] gi|269990038|gb|EEZ96292.1| RNA polymerase sigma-32 factor RpoH [Legionella longbeachae D-4968] gi|288856893|emb|CBJ10704.1| RNA polymerase sigma-32 factor [Legionella longbeachae NSW150] Length = 284 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 80/285 (28%), Positives = 137/285 (48%), Gaps = 29/285 (10%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +D+ + N+I +S+E I+ +E H +G+ EA+ + +V A+LR V Sbjct: 11 NLPVGSIDAYIHRVNQIPMLSLEEEIACAERFH-----SEGDLEAA---RRLVLAHLRYV 62 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 63 VRVARGYLGYGLPLNDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 122 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKVLKITKEPI 574 ++I + K+ R+M N++ E +A L + E VL + + Sbjct: 123 RIVKIATTKAQR--KLFFNLRQMKNRLGWMSHEEVSAVANDLGVSRE---DVLVMEQRLN 177 Query: 575 SLETPIGDEDTSHLGDFI-----------EDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 +++TP D +F +D + + DSA RE L L R Sbjct: 178 AMDTPYDAPDADDHDEFYTAPERYLFNTNDDPSVMLENDSASDQG-REKLMFALEQLDER 236 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L+ R+ TL ++ K++ V+ ER+RQ+E A++KLK Sbjct: 237 SQDILQQRW--LSEEKLTLHDLAKKYGVSAERVRQLEKNAMKKLK 279 >gi|160878636|ref|YP_001557604.1| FliA/WhiG family RNA polymerase sigma factor [Clostridium phytofermentans ISDg] gi|160427302|gb|ABX40865.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium phytofermentans ISDg] Length = 238 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/241 (31%), Positives = 124/241 (51%), Gaps = 14/241 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + ++R + +A+ +V N+ LV S+ +++ RG + DL Q G+IGLMKA +KFD Sbjct: 4 LDLIRLSKQGDKVARDRVVTENVGLVWSIVRRFMGRGHEAEDLFQIGSIGLMKAIDKFDL 63 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 KFSTYA+ + I R + D I++ +++ K+ + +K REPT E Sbjct: 64 SYDVKFSTYAVPMITGEIKRFLRDDGM-IKVSRSLKETAGKIRLMRETLESKNGREPTIE 122 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI-QA 607 EI + L + E V L+ E SL I GD + L D IE + S D I Sbjct: 123 EIGEALELAKEEVVMALESGAEVESLYKTIYQGDGNAIFLIDKIEQTDDAS--DEMIDHM 180 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LRE V+ SL +E+ ++R+R+ D T E+ KQ +++ ++ ++E K +R + Sbjct: 181 ALRE----VMDSLDEKEKDIIRLRY----FKDKTQTEIAKQLGISQVQVSRLERKILRTM 232 Query: 668 K 668 + Sbjct: 233 R 233 >gi|319407753|emb|CBI81400.1| RNA polymerase sigma-32 factor [Bartonella sp. 1-1C] Length = 303 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/244 (30%), Positives = 123/244 (50%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A ++ + DL+QEG +GL++AA +FD G +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFDPDRGVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM-------SNKIKREPTPEEIAKKL 556 ++ +I I +R K + RR+ N + ++ I++KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAQDDNTLTKQEIFRAISEKL 173 Query: 557 AMPVEGVRKV---LKITKEPISL------ETPIGDEDTSHLGDFIEDKNAV-SPLDSAIQ 606 + V V K+ T +SL ETPI D+ I+D S ++ AI Sbjct: 174 GVSVNDVEKMDFRFSGTDNSLSLSISENGETPIAKMDS-----LIDDHPLPDSVIEQAID 228 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAI 664 R + L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A+ Sbjct: 229 GQRRAQWLHEALQILNERELEIIRFR---RLNEEGTTLEVLGEKLGISKERVRQIEARAL 285 Query: 665 RKLK 668 +KL+ Sbjct: 286 QKLR 289 >gi|297518949|ref|ZP_06937335.1| RNA polymerase sigma factor RpoD [Escherichia coli OP50] Length = 183 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 56/139 (40%), Positives = 88/139 (63%), Gaps = 3/139 (2%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGS 89 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V++ D +D + Sbjct: 9 LKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLA 68 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 E++ D ++ + + V L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 69 ENTADEDAAEAAAQV-LSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 126 Query: 150 RAMMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 127 INQVQCSVAEYPEAITYLL 145 >gi|310815299|ref|YP_003963263.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] gi|308754034|gb|ADO41963.1| alternative sigma factor RpoH [Ketogulonicigenium vulgare Y25] Length = 298 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAM 558 ++ +I I +++ + K+ +R A+ ++ R + IA L + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPEHVQRIAHDLGV 168 Query: 559 PVEGVRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 P E V + +++ SL +G D+ ++ D++ED+++ D + L R Sbjct: 169 PEEEVVNMNRRLSGGDASLNAMVGGDDDSSTQWQDWLEDEDSDQAADFEARDELDARRVL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE VL MR + TLEE+ +++ V+RERIRQIE +A KL+ Sbjct: 229 LEAAMEDLNDRERDVLMMRR--LQDPPVTLEELSEKYSVSRERIRQIEVRAFEKLQ 282 >gi|224002653|ref|XP_002290998.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220972774|gb|EED91105.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 345 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 128/250 (51%), Gaps = 26/250 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGL----QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 AK ++V +NLR+V V Y GL DL+Q+G + L++AAEK++ G++FSTY Sbjct: 85 AKNQLVASNLRMVQRVVNLYIRNGLGSEYNAGDLMQDGTMALIRAAEKYEPERGFRFSTY 144 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM+W++ A+ RS QS + +P + + +V +T R+ ++ R+PT E++ + Sbjct: 145 AMYWIRSAVKRSQTMQSRIVNVPQRIHETYKRVTKTEARLRKELGRDPTKVELSAACDIT 204 Query: 560 VEGVRKVLKITKE-PISLETPIGDEDTSHLGDFIEDKNAVSPL-DSAIQANLRETTTRVL 617 V + + + ++ SL+ + ++T + K+ + L S + E T R+L Sbjct: 205 VVQLDRCRRAMQQAAFSLDAEV--QNTYKPNNSNSRKDTMYDLVASKVDETEYEKTQRLL 262 Query: 618 AS----------LTPREERVLRMRFGI--------GMNTDHTLEEVGKQFCVTRERIRQI 659 L+P E +L +R+G+ GM+ T+ EV K + +++R+I Sbjct: 263 MKEHLISTLRRYLSPHEVDLLLLRYGLMDERALPKGMSGPLTIAEVSKLVGLKPDKVRRI 322 Query: 660 EAKAIRKLKH 669 + ++L+H Sbjct: 323 IINSQKQLRH 332 >gi|126738732|ref|ZP_01754428.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] gi|126719913|gb|EBA16620.1| RNA polymerase sigma factor [Roseobacter sp. SK209-2-6] Length = 298 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 126/246 (51%), Gaps = 13/246 (5%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E + A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ + Sbjct: 43 EKEDTGAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPE---EI 552 TYAMWW++ +I I +++ + K+ +R A+ R+ + + PE +I Sbjct: 103 TYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAQI 162 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL 609 A L + E V + +++ SL +G E T D++ED++A D + L Sbjct: 163 AHDLGVTEEEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDEL 222 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 RE + + L RE+ +L R T TLE++ ++ V+RERIRQIE +A K Sbjct: 223 EARRELLVQAMEVLNDREKDILTQRRLSDQAT--TLEDLSGEYGVSRERIRQIEVRAFEK 280 Query: 667 LKHPSR 672 L+ R Sbjct: 281 LQKKMR 286 >gi|58038976|ref|YP_190940.1| RNA polymerase factor sigma-32 [Gluconobacter oxydans 621H] gi|58001390|gb|AAW60284.1| Heat shock sigma factor RpoH [Gluconobacter oxydans 621H] Length = 297 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 116/240 (48%), Gaps = 15/240 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + A +V ++LRLV +A Y GL +LI EGNIG+M+A +FD G++ +TY Sbjct: 44 EDTSAAHRLVTSHLRLVAKIAMGYRGYGLPVNELISEGNIGMMQAVRRFDPERGFRLATY 103 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE---I 552 AMWW++ A+ I +++ K K+ RR+ +++ + PE+ I Sbjct: 104 AMWWIRAAMQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIDDGDLKPEQVNSI 161 Query: 553 AKKLAMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 A L +P + V + + P SL P+ + D++ D + A Sbjct: 162 ATTLGVPEQDVVSMNQRLAAPDHSLNAPLRIDGEGEWQDWLVDDHENQEQTYAASEEFTG 221 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L +L RE +L R TLEE+ + V+RERIRQIEA+A+ KL+ Sbjct: 222 RKALLDQALMTLNERERHILSERR--LKEEPSTLEELSHHYNVSRERIRQIEARAMEKLQ 279 >gi|239929001|ref|ZP_04685954.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291437340|ref|ZP_06576730.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291340235|gb|EFE67191.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 374 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 114/224 (50%), Gaps = 10/224 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G Sbjct: 140 LQDGSPEYAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRG 199 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA V I R D+ +R+P +++ + +S R PT E+A Sbjct: 200 VEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELA 259 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 +KLA+ E V + L+ +SL+ P D+++ + D + + D A++ R Sbjct: 260 EKLAISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYR 313 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 E+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 314 ESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 357 >gi|239944189|ref|ZP_04696126.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 284 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 53 GSPEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 112 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 113 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAERL 172 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 173 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 227 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 267 >gi|159045518|ref|YP_001534312.1| RNA polymerase factor sigma-32 [Dinoroseobacter shibae DFL 12] gi|157913278|gb|ABV94711.1| RNA polymerase sigma 32 factor [Dinoroseobacter shibae DFL 12] Length = 293 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 75/254 (29%), Positives = 123/254 (48%), Gaps = 20/254 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 42 ALHRLITAYMRLAISMAAKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 101 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A + R + IA Sbjct: 102 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAASAGEPLDRHQLRQMIAT 161 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP----LDSAIQAN 608 ++ +P+ V + ++ SL ED D +ED A + D I+ Sbjct: 162 EVGVPLHDVEMMEGRLAGSDYSLNATQSTEDEGREWIDTLEDTGAQAAELVEQDHDIE-T 220 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR + +L RE ++R R + TLE +G++ +++ER+RQ+EA A K++ Sbjct: 221 LRGWLITAMDALNERERFIVRER--KLRDQPRTLESLGQELGLSKERVRQLEAAAFGKMR 278 Query: 669 HP--SRSKKLRSFL 680 ++S ++R F Sbjct: 279 KNLMNQSSEVRQFF 292 >gi|197103427|ref|YP_002128805.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] gi|196480703|gb|ACG80230.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] Length = 316 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 116/235 (49%), Gaps = 12/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRL +A Y GL ++I EGN+GLM A +KFD G++ +TYA+WW Sbjct: 47 AAHRLVTSHLRLSAKIALSYRGYGLPLGEVISEGNLGLMHAVKKFDPDKGFRLATYAIWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEE---IAKKLAM 558 ++ AI I +++ K + R R+S + P++ IA +L + Sbjct: 107 IRAAIQEYILRSWSLVKLGTSAVQKKLFFNLRRAKARISALSDGDLKPDQVKAIASRLGV 166 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 E V + ++ SL +P+ + D +ED+ AV P + +A R +L Sbjct: 167 NEEEVVNMDRRLASRDASLNSPLAADAEQEWLDVLEDEAAVDPEAAVAEAEERALRMDLL 226 Query: 618 A----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A +L RE R+ R + LE++ K F V+RER+RQIE +A K++ Sbjct: 227 AQAMQTLNARERRIFTARR--LQDPPALLEDLAKDFGVSRERVRQIEVRAFEKVQ 279 >gi|284033085|ref|YP_003383016.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Kribbella flavida DSM 17836] gi|283812378|gb|ADB34217.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Kribbella flavida DSM 17836] Length = 264 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 114/223 (51%), Gaps = 13/223 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + S+A+ +V ++ LV +A+++ NRG + DL+Q IGL+KA ++FD G +F Sbjct: 33 GDPQHSLARDGLVSLHMPLVEHLARRFRNRGEPYDDLVQVATIGLIKAIDRFDSDRGVEF 92 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA + I R D+ IR+P +++ + ++ ++ R PT E++ +L Sbjct: 93 STYATPTILGEIKRYFRDKGWAIRVPRRLQELRLSLTAATAELTQELGRAPTVAELSTRL 152 Query: 557 AMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRE 611 + +EG+ +SL+ P +E D + + D A+++ RE Sbjct: 153 GLSQDLVIEGLESANAYNT--LSLDAPDQNE-----ADATTVLDGLGGEDEALESVEFRE 205 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 + +LA L RE+R+L +RF GM EE+G Q V+R Sbjct: 206 SLKPLLAQLETREKRILTLRFFRGMTQSQIAEEIGISQMHVSR 248 >gi|319403703|emb|CBI77288.1| RNA polymerase sigma-32 factor [Bartonella rochalimae ATCC BAA-1498] Length = 305 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 128/247 (51%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + ++I K ++ R++ NK++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKIGTTANQK--RLFFNLRKLKNKLQMLDNGDLNAQQVKEIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + + V + + SL P+ ++ D++ D ++ + + I+ N E Sbjct: 167 KVTEDEVVSMNRRLNGDASLNAPLLTNKGESYEWQDWLVD-DSNNQEQTLIEQNELENRY 225 Query: 615 RVLA----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L +L RE+R+ + R + D TLEE+ +F ++RER+RQIEA+A K+++ Sbjct: 226 SILIHAMDNLNEREKRIFKAR---RLRDDPLTLEELSNEFNISRERVRQIEARAFEKIQN 282 Query: 670 PSRSKKL 676 ++ L Sbjct: 283 FIKTSAL 289 >gi|241661869|ref|YP_002980229.1| RNA polymerase factor sigma-32 [Ralstonia pickettii 12D] gi|240863896|gb|ACS61557.1| RNA polymerase, sigma 32 subunit, RpoH [Ralstonia pickettii 12D] Length = 309 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 126/236 (53%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 69 AARRLVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 128 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ + + +A +L + Sbjct: 129 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAQATFTSDEIDAVAAELNVKGTE 188 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR---ETTTRV 616 VR++ +++ I+LE + G+E + + + N + + A ++N R E Sbjct: 189 VREMETRLSGGDIALEGQMDDGEESYAPIAYLADTHNEPTRVIEA-RSNDRMQSEGIEAA 247 Query: 617 LASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 248 LAKLDDRSRRIIEARW-LNVNDDGSGGSTLHELADEFGVSAERIRQIESAAMKKMK 302 >gi|304393314|ref|ZP_07375242.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] gi|303294321|gb|EFL88693.1| alternative sigma factor RpoH [Ahrensia sp. R2A130] Length = 300 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/247 (28%), Positives = 122/247 (49%), Gaps = 18/247 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + + A +MV ++LRLV +A Y GL ++I EGN+GLM+A +KFD G+ Sbjct: 39 RYSEHDDTEAAHKMVTSHLRLVAKIAMGYRGYGLPVSEVISEGNVGLMQAVKKFDPEKGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K +I + +++ K ++ R++ K+K ++ Sbjct: 99 RLATYAMWWIKASIQEYVLRSWSLVKMGTTANQK--RLFFNLRKLKGKLKALEEGELKQE 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 E+IA L + + VR + + SL PI + ++ D++ D + Sbjct: 157 NVEKIASTLGVSHDEVRSMNQRLSGDASLNAPIKAAEGESGQWQDWLVDDSESQEQMLIK 216 Query: 606 QANL---RETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEA 661 Q L R+ + L RE+R+ R + D TLE + +F ++RER+RQIE Sbjct: 217 QDELDVRRDMLAEAMDVLNDREKRIFMAR---RLEEDPLTLEVLSGEFDISRERVRQIEV 273 Query: 662 KAIRKLK 668 +A K++ Sbjct: 274 RAFEKVQ 280 >gi|28899727|ref|NP_799332.1| RNA polymerase factor sigma-32 [Vibrio parahaemolyticus RIMD 2210633] gi|260879104|ref|ZP_05891459.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AN-5034] gi|28807979|dbj|BAC61216.1| RNA polymerase sigma-32 factor [Vibrio parahaemolyticus RIMD 2210633] gi|308089656|gb|EFO39351.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AN-5034] gi|328472446|gb|EGF43312.1| RNA polymerase factor sigma-32 [Vibrio parahaemolyticus 10329] Length = 286 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 78/270 (28%), Positives = 142/270 (52%), Gaps = 23/270 (8%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ ++ E R + + KGE EA+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNSYPMLTADEERELAERLHYKGEIEAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + P D+D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMPTDDDDSATS 194 Query: 589 GD-----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRMRFGIGMNT 638 ++EDK+ S + I+A E T LASL R +R++R R+ + Sbjct: 195 SYTAPMLYLEDKS--SDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLD--DE 250 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 251 KATLQDLADEFGVSAERIRQLEKNAMKKLK 280 >gi|224827256|ref|ZP_03700350.1| RNA polymerase, sigma 32 subunit, RpoH [Lutiella nitroferrum 2002] gi|224600545|gb|EEG06734.1| RNA polymerase, sigma 32 subunit, RpoH [Lutiella nitroferrum 2002] Length = 287 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 117/242 (48%), Gaps = 31/242 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++F+ G + ++A+ W Sbjct: 49 AAKKLVLSHLRVVVSIARGYAGYGLPQADLIQEGNIGLMKAVKRFEPNRGVRLFSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE--IAKKLAMPVE 561 +K I I +R+ + K+ R M E IA L + E Sbjct: 109 IKAEIHEFILRNWRLVRVATTKPQR--KLFFNLRSMKKSFAALTDSEARVIADDLGVKPE 166 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT------- 614 VR+ +ET + +D + L D D +P+D ++ T Sbjct: 167 EVRE----------METRMSGQDVALLAD-DNDDEGFAPIDWLADSDHEPTRQLEKKAFD 215 Query: 615 --------RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + L+SL R R++ R+ + ++ TL E+ +F V+ ERIRQIEAKA+ K Sbjct: 216 HLQTAGLEQALSSLDARSRRIIEARW-LADDSGATLHELAAEFGVSAERIRQIEAKALTK 274 Query: 667 LK 668 +K Sbjct: 275 MK 276 >gi|169351116|ref|ZP_02868054.1| hypothetical protein CLOSPI_01895 [Clostridium spiroforme DSM 1552] gi|169292178|gb|EDS74311.1| hypothetical protein CLOSPI_01895 [Clostridium spiroforme DSM 1552] Length = 239 Score = 93.2 bits (230), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 124/241 (51%), Gaps = 16/241 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + ++ K C IAK+ +V NL LV S+ ++ N DL Q G IGLMKA FD Sbjct: 7 IELIEKARCGDEIAKELVVNQNLGLVWSIVHRFKNNYYDKEDLFQIGCIGLMKAINNFDT 66 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA+ + I R D TI++ +++ K+ + + N+ ++PT E Sbjct: 67 NYGVQFSTYAVPIIMGEIKRYFRDDG-TIKVSRSLKELNLKINKVKELLINQTGQDPTVE 125 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG--DFIEDK-NAVSPLDSAIQA 607 IAK L + V+ V + + + P SL PI ++D S + + +EDK N + A++ Sbjct: 126 AIAKYLNIDVQDVVEAIDSSYYPTSLSEPIYEKDGSSISMEERVEDKHNKMWFEKIALKM 185 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + L +E+ +L +R+ + N E+V K+ +++ ++ ++E K I KL Sbjct: 186 EIDK--------LDEKEKLILYLRYQLDFNQ----EKVAKRLNISQVQVSRLEKKIIAKL 233 Query: 668 K 668 + Sbjct: 234 R 234 >gi|302520387|ref|ZP_07272729.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] gi|302429282|gb|EFL01098.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] Length = 338 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 115/226 (50%), Gaps = 12/226 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 109 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 168 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+AK L + Sbjct: 169 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELAKALGVS 228 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA-NLRETTT 614 + V L + SL++P ++D L D + + D+A++ RE+ Sbjct: 229 EDDVVDGLAVGNAYTASSLDSPAPEDDGGEGSLADRLGYE------DTALEGVEYRESLK 282 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 +LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 283 PLLAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 328 >gi|145594674|ref|YP_001158971.1| sigma-70 region 2 domain-containing protein [Salinispora tropica CNB-440] gi|145304011|gb|ABP54593.1| sigma-70 region 2 domain protein [Salinispora tropica CNB-440] Length = 284 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 115/229 (50%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 42 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E+A++L P E + Sbjct: 101 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATAALTSELSRAPTVAELARRLETPEEEI 160 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + E NA+ +D R T + +L L Sbjct: 161 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDNALESVDD------RVTVSGLLHRL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 215 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 259 >gi|83944334|ref|ZP_00956789.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83844878|gb|EAP82760.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 295 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/253 (27%), Positives = 124/253 (49%), Gaps = 18/253 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 44 ALHRLITAYMRLAISMAGKFKRYGASMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 103 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ + + + I+ Sbjct: 104 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAQAAGETLDKHQLRQMIST 163 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPL--DSAIQANL 609 ++ +P+ V + +++ SL ED + ++D + +S L Sbjct: 164 EIGVPMHDVEMMEGRLSGSDFSLNATQSAEDEGREWIDALVDDSAQAAERVEESHDTLTL 223 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R + +L RE+ ++R R + TLE +G + +++ER+RQ+EA A K++ Sbjct: 224 RSWLLSAMQALNEREQFIVRER--KLRDQPRTLESLGAELSLSKERVRQLEAAAFGKMRK 281 Query: 670 P--SRSKKLRSFL 680 ++S ++R FL Sbjct: 282 TLETQSSEVRHFL 294 >gi|72160963|ref|YP_288620.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71914695|gb|AAZ54597.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 267 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 110/214 (51%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+VE +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA + Sbjct: 43 RDELVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLSRGVEFSTYATPTI 102 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + + +S + R PT E+A+ L M E V Sbjct: 103 VGEIKRHFRDKGWAVRVPRRLQELKLSLTKAVSELSQRHGRAPTVAELAEYLKMSEEEVL 162 Query: 565 KVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASL 620 + L+ +SL+ P GDED + D ++ +D +++ RE+ +L L Sbjct: 163 EGLESANAYSTVSLDAPDNGDEDAPAVAD------SLGIMDESLEGVEYRESLKPLLERL 216 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+++L +RF M E+G Q V+R Sbjct: 217 PPREKKILLLRFFGNMTQSQIAAELGISQMHVSR 250 >gi|312884403|ref|ZP_07744108.1| RNA polymerase factor sigma-32 [Vibrio caribbenthicus ATCC BAA-2122] gi|309367925|gb|EFP95472.1| RNA polymerase factor sigma-32 [Vibrio caribbenthicus ATCC BAA-2122] Length = 285 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 129/242 (53%), Gaps = 17/242 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE +A+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 45 GEIDAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I R + ++ +R+ + E E +A+ Sbjct: 102 VSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNQGE--VETVAR 159 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRE 611 +L + VR++ ++ + + E P D+D TS++ + ++ S + I+A E Sbjct: 160 ELGVEPSEVREMESRLAAQDATFEVPSDDDDAHTSYVAPMVYLEDKASDIADNIEAANWE 219 Query: 612 TTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 T L SL R + ++R R+ + TL+E+ + + V+ ERIRQ+E A++K Sbjct: 220 AHTNNRLSLALKSLDERSQHIVRSRWLD--DNKSTLQELAETYQVSAERIRQLEKNAMKK 277 Query: 667 LK 668 LK Sbjct: 278 LK 279 >gi|239990645|ref|ZP_04711309.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] Length = 309 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 78 GSPEKAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 137 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 138 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAERL 197 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 198 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 251 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 252 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 292 >gi|77462968|ref|YP_352472.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides 2.4.1] gi|126461842|ref|YP_001042956.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17029] gi|221638824|ref|YP_002525086.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides KD131] gi|332557843|ref|ZP_08412165.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] gi|1769585|gb|AAC46050.1| RpoH [Rhodobacter sphaeroides] gi|77387386|gb|ABA78571.1| sigma factor RpoH1 (Sigma-32 group, heat shock) [Rhodobacter sphaeroides 2.4.1] gi|126103506|gb|ABN76184.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17029] gi|221159605|gb|ACM00585.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131] gi|332275555|gb|EGJ20870.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides WS8N] Length = 298 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 124/242 (51%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAM 558 ++ +I I +++ + K+ +R A+ ++ R +IAK L + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLGV 168 Query: 559 P-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL IG E ++ D++ED+++ D A + L RE Sbjct: 169 SETEVIDMNRRLSGSDASLNATIGSDGEGSTQWQDWLEDEDSDQAADYAERDELEIRREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + ++ L RE+ +L R TD TLEE+ + + V+RERIRQIE +A KL+ Sbjct: 229 LAQSMSVLNDREKDILVQR----RLTDDPVTLEELSEGYGVSRERIRQIEVRAFEKLQAK 284 Query: 671 SR 672 R Sbjct: 285 MR 286 >gi|296270865|ref|YP_003653497.1| Sig B/F/G subfamily RNA polymerase sigma-28 [Thermobispora bispora DSM 43833] gi|296093652|gb|ADG89604.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Thermobispora bispora DSM 43833] Length = 259 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 110/214 (51%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+VE ++ LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA + Sbjct: 35 RDELVELHMPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLSRGVEFSTYATPTI 94 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + + +S + R PT E+A+ L M E V Sbjct: 95 VGEIKRHFRDKGWAVRVPRRLQELKLSLTKAISELSQRESRAPTVAELAEHLQMSEEEVL 154 Query: 565 KVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASL 620 + L+ +SL+ P GDED + D ++ +D +++ RE+ +L L Sbjct: 155 EGLESANAYSTVSLDAPDSGDEDAPAVSD------SLGIVDESLEGVEYRESLKPLLERL 208 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M E+G Q V+R Sbjct: 209 PPREKRILLLRFFGNMTQSQIANELGISQMHVSR 242 >gi|320009626|gb|ADW04476.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 288 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+AK L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELAKALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DAALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|227823777|ref|YP_002827750.1| RNA polymerase factor sigma-32 [Sinorhizobium fredii NGR234] gi|227342779|gb|ACP26997.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium fredii NGR234] Length = 288 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 127/242 (52%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ +++RLVI++A K+ + GL DL+QEG+IGL++AA +F+ +FSTYA WW Sbjct: 40 ARNKIAMSHMRLVIAMAAKFRSFGLPMGDLVQEGHIGLLEAAARFEPSREVRFSTYATWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK---REPTP----EEIAKKL 556 ++ ++ + +R K + RR+ ++ R+ T +EIA L Sbjct: 100 IRASMQDFVLRNWSIVRGGTSSAQK--ALFFNLRRLRARLAQGDRQLTSLAMHQEIAAAL 157 Query: 557 AMPVEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---- 609 + + V+ + +++ SL+ P+ GD D DF+ +PL +++ Sbjct: 158 GVSLADVQTMDARLSGNDASLQAPVGHGDSDGGARLDFLPSD---APLPDEQVSDMIDGE 214 Query: 610 --RETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L LT RE +++R R ++ D TLEE+G +++ER+RQIE +A+ K Sbjct: 215 RARRWLQVALTQLTEREMKIIRAR---RLSEDGATLEELGLALGISKERVRQIETRALEK 271 Query: 667 LK 668 L+ Sbjct: 272 LR 273 >gi|161869654|ref|YP_001598821.1| RNA polymerase factor sigma-32 [Neisseria meningitidis 053442] gi|161595207|gb|ABX72867.1| RNA polymerase sigma-32 factor [Neisseria meningitidis 053442] gi|316983693|gb|EFV62674.1| alternative sigma factor RpoH [Neisseria meningitidis H44/76] gi|325140133|gb|EGC62662.1| alternative sigma factor RpoH [Neisseria meningitidis CU385] gi|325200603|gb|ADY96058.1| alternative sigma factor RpoH [Neisseria meningitidis H44/76] Length = 287 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/274 (27%), Positives = 137/274 (50%), Gaps = 37/274 (13%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N I ++ E ++E +H KG+ A+ K+++ ++LR+V+S+A+ Y GL Sbjct: 25 NRIPMLTQEEETRLAERQH------KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQ 75 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKI 529 DLIQEGNIGLMKA ++++ G + ++A+ W+K I I +R+ + K+ Sbjct: 76 ADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKL 135 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +R+ R+ N + + ++IA L + + E + +E + D + + Sbjct: 136 FFNLRSMRKNLNALSPKEA-QDIADDLGVKL----------SEVLEMEQRMTGHDIAIMA 184 Query: 590 DFIEDKNAVSPLD---------------SAIQANLRETTTRVLASLTPREERVLRMRFGI 634 D +D+++ +P+D A A E LA L R R++ R+ + Sbjct: 185 DNSDDEDSFAPIDWLADHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-L 243 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL ++ ++ V+ ERIRQIEAKA++KL+ Sbjct: 244 QDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLR 277 >gi|302536824|ref|ZP_07289166.1| RNA polymerase sigma-F factor [Streptomyces sp. C] gi|302445719|gb|EFL17535.1| RNA polymerase sigma-F factor [Streptomyces sp. C] Length = 332 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 112/222 (50%), Gaps = 10/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 100 EGSPERAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVE 159 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 160 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAER 219 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 220 LGISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRES 273 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 274 LKPLLEGLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 315 >gi|56420843|ref|YP_148161.1| sporulation sigma factor SigF [Geobacillus kaustophilus HTA426] gi|56380685|dbj|BAD76593.1| DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-F) (stage II sporulation protein AC) [Geobacillus kaustophilus HTA426] Length = 250 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/252 (27%), Positives = 124/252 (49%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ++ I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 9 QSPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGC 65 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 66 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDE 124 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 125 LSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIADAD 184 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 S D + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 185 EASWFDKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVASRLGISQVQV 233 Query: 657 RQIEAKAIRKLK 668 ++E K ++ +K Sbjct: 234 SRLEKKILQHIK 245 >gi|291446269|ref|ZP_06585659.1| sigma L [Streptomyces roseosporus NRRL 15998] gi|291349216|gb|EFE76120.1| sigma L [Streptomyces roseosporus NRRL 15998] Length = 307 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 78 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 137 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+A+ L + Sbjct: 138 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELARALGVS 197 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 198 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 253 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 254 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 297 >gi|261250002|ref|ZP_05942579.1| RNA polymerase sigma factor RpoH [Vibrio orientalis CIP 102891] gi|260939506|gb|EEX95491.1| RNA polymerase sigma factor RpoH [Vibrio orientalis CIP 102891] Length = 285 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/276 (27%), Positives = 141/276 (51%), Gaps = 22/276 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E ++E H GE EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRSANSYPMLTPEEERDLAERLHY-----DGEIEAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + E P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAQDATFEMP 185 Query: 580 IGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETTTR-----VLASLTPREERVLRMRF 632 D++ TS+ + ++ S + ++A+ E T L SL R + ++R R+ Sbjct: 186 TDDDETGTSYTAPMVYLEDKASDVADHVEASNWEAHTNNRLSLALKSLDDRSQHIVRSRW 245 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL+E+ + + V+ ERIRQ+E A++KLK Sbjct: 246 LD--DNKSTLQELAETYSVSAERIRQLEKNAMKKLK 279 >gi|262364691|gb|ACY61248.1| RNA polymerase sigma factor RpoD [Yersinia pestis D182038] Length = 248 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 7/158 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 K ++ +++GY+T E+N LP D V S+Q+ED + M+++MGI V+ D DDL E Sbjct: 10 KLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAE 69 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 + D+ D A+ A+ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 70 NTTDTDDDAAEAAAQ--VLSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIE 126 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 G + S+ E P L+ D + G + L ++I Sbjct: 127 DGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLI 164 >gi|83953376|ref|ZP_00962098.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83842344|gb|EAP81512.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] Length = 295 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/261 (28%), Positives = 125/261 (47%), Gaps = 34/261 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 44 ALHRLITAYMRLAISMAGKFKRYGASMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 103 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ + + + I+ Sbjct: 104 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAQAAGETLDKHQLRQMIST 163 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL--DSAIQA---- 607 ++ +P+ V + +++ SL ED E + + L DSA A Sbjct: 164 EIGVPMHDVEMMEGRLSGSDFSLNATQSAED--------EGREWIDALVDDSAQAAERIE 215 Query: 608 ------NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 LR + +L RE+ ++R R + TLE +G + +++ER+RQ+EA Sbjct: 216 ESHDTLTLRSWLLSAMQALNEREQFIVRER--KLRDQPRTLESLGAELSLSKERVRQLEA 273 Query: 662 KAIRKLKHP--SRSKKLRSFL 680 A K++ ++S ++R FL Sbjct: 274 AAFGKMRKTLETQSSEVRHFL 294 >gi|328884955|emb|CCA58194.1| RNA polymerase sigma factor [Streptomyces venezuelae ATCC 10712] Length = 344 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 113/222 (50%), Gaps = 10/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 112 EGSPEKAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVE 171 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 172 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAER 231 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 232 LGISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRES 285 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 286 LKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 327 >gi|325265256|ref|ZP_08131981.1| RNA polymerase sigma-G factor [Clostridium sp. D5] gi|324029435|gb|EGB90725.1| RNA polymerase sigma-G factor [Clostridium sp. D5] Length = 259 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV K+++N DL Q G +GLMKA + FD KFSTYA+ Sbjct: 38 AREEYIKGNLRLVLSVIKRFSNSNENADDLFQIGCVGLMKAVDHFDPNRLVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + K +EPT +EIA+++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIYAKEGYMKKHLKEPTVQEIAEEIGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + DT ++ D + DK N V L + Sbjct: 157 VFALDAIQMPMSLHEPVYSDGGDTLYVMDQVSDKKNKEENWVEEL----------SLEAA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++ +RF G T EV ++ +++ ++ ++E A++ +K Sbjct: 207 MERLNERERYIITLRFFEG----KTQMEVAEEIKISQAQVSRLEKNALKVMKQ 255 >gi|170731288|ref|YP_001776721.1| RNA polymerase factor sigma-32 [Xylella fastidiosa M12] gi|167966081|gb|ACA13091.1| RNA polymerase sigma-32 factor [Xylella fastidiosa M12] Length = 288 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 126/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 56 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA +SP+ I + N Sbjct: 165 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPLSPVGYLIANDGDPSQAYERGNSE 222 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 223 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 279 Query: 665 RKLK 668 +K+K Sbjct: 280 KKMK 283 >gi|163867808|ref|YP_001609012.1| RNA polymerase factor sigma-32 [Bartonella tribocorum CIP 105476] gi|161017459|emb|CAK01017.1| RNA polymerase sigma-32 factor [Bartonella tribocorum CIP 105476] Length = 294 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 124/246 (50%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV VA Y GL ++I EGNIGLM+A ++F+ G++ +TYA+WW Sbjct: 49 AAHRLVTSHLRLVAKVAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAIWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + +++ K ++ R++ NK++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKMGTTANQK--RLFFNLRKLKNKLQALDSGDLNTEQVKEIATQL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP---LDSAIQANLRE 611 + + V + + SL P+ + + S L D++ D++ ++ + N R Sbjct: 167 NVTEDEVVSMNRRLGGDTSLNAPLRTKEGENSELQDWLVDESNNQEQILIEKSELENRRF 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 + +L RE R+ + R +N TLEE+ +F ++RER+RQIE +A K+++ Sbjct: 227 MLVNAMNNLNDRERRIFKAR---RLNDIPLTLEELSSEFNISRERVRQIEMRAFEKVQNS 283 Query: 671 SRSKKL 676 R L Sbjct: 284 IRDSAL 289 >gi|83746847|ref|ZP_00943894.1| RNA polymerase sigma-32 factor [Ralstonia solanacearum UW551] gi|207727816|ref|YP_002256210.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum MolK2] gi|207742220|ref|YP_002258612.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum IPO1609] gi|83726432|gb|EAP73563.1| RNA polymerase sigma-32 factor [Ralstonia solanacearum UW551] gi|206591057|emb|CAQ56669.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum MolK2] gi|206593608|emb|CAQ60535.1| rna polymerase sigma h (sigma-32) factor protein [Ralstonia solanacearum IPO1609] Length = 306 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 128/237 (54%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YA+ W Sbjct: 66 AARRLVLSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ ++ + +A++L + Sbjct: 126 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAHATFTSDEIDAVAQELNVKGAE 185 Query: 563 VRKV-LKITKEPISLETPIGDEDTS-----HLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 VR++ +++ I+LE I D + S +L D + V L++ L+ E Sbjct: 186 VREMETRLSGGDIALEGQIDDGEESFAPIAYLADTHNEPTRV--LETRGHDRLQSEGIET 243 Query: 616 VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 244 ALAKLDDRSRRIIEARW-LNVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 299 >gi|302552550|ref|ZP_07304892.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] gi|302470168|gb|EFL33261.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] Length = 301 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 72 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 131 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 132 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVTELASVLGVS 191 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 192 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 247 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 248 LAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 291 >gi|163738663|ref|ZP_02146077.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] gi|163742952|ref|ZP_02150335.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161383635|gb|EDQ08021.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161387991|gb|EDQ12346.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] Length = 298 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/242 (29%), Positives = 119/242 (49%), Gaps = 13/242 (5%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S + +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAM Sbjct: 47 SASAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAM 106 Query: 502 WWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 WW++ +I I +++ + K+ +R A+ ++ + KK+A + Sbjct: 107 WWIRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLHPDSVKKIATDL 166 Query: 561 -----EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 E + +++ SL +G E T D++ED++A D + L R Sbjct: 167 GVTETEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E L L RE+ +L R + TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 ELLASALEVLNDREKDILTQRRLA--DQAKTLEDLSTQYGVSRERIRQIEVRAFEKLQKK 284 Query: 671 SR 672 R Sbjct: 285 MR 286 >gi|15676610|ref|NP_273754.1| RNA polymerase factor sigma-32 [Neisseria meningitidis MC58] gi|7225940|gb|AAF41127.1| RNA polymerase sigma-32 factor [Neisseria meningitidis MC58] Length = 290 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/274 (27%), Positives = 137/274 (50%), Gaps = 37/274 (13%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N I ++ E ++E +H KG+ A+ K+++ ++LR+V+S+A+ Y GL Sbjct: 28 NRIPMLTQEEETRLAERQH------KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQ 78 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKI 529 DLIQEGNIGLMKA ++++ G + ++A+ W+K I I +R+ + K+ Sbjct: 79 ADLIQEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKL 138 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 +R+ R+ N + + ++IA L + + E + +E + D + + Sbjct: 139 FFNLRSMRKNLNALSPKEA-QDIADDLGVKL----------SEVLEMEQRMTGHDIAIMA 187 Query: 590 DFIEDKNAVSPLD---------------SAIQANLRETTTRVLASLTPREERVLRMRFGI 634 D +D+++ +P+D A A E LA L R R++ R+ + Sbjct: 188 DNSDDEDSFAPIDWLADHDSEPSRQLSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-L 246 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL ++ ++ V+ ERIRQIEAKA++KL+ Sbjct: 247 QDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLR 280 >gi|110679109|ref|YP_682116.1| RNA polymerase factor sigma-32 [Roseobacter denitrificans OCh 114] gi|109455225|gb|ABG31430.1| RNA polymerase sigma-32 factor [Roseobacter denitrificans OCh 114] Length = 298 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 ++ +I I +++ K K+ R+ NKI + + P+ IAK L Sbjct: 109 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNKIGALEEGDLHPDNVARIAKDL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + E + +++ SL +G E T D++ED++A D + L R Sbjct: 167 GVTETEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEARDELEARR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E ++ L RE +L+ R TLE++ ++ V+RERIRQIE +A KL+ Sbjct: 227 ELLADAMSVLNDRERDILQQRRLSEQTV--TLEDLSAEYNVSRERIRQIEVRAFEKLQKK 284 Query: 671 SR 672 R Sbjct: 285 MR 286 >gi|260438829|ref|ZP_05792645.1| RNA polymerase sigma-G factor [Butyrivibrio crossotus DSM 2876] gi|292808819|gb|EFF68024.1| RNA polymerase sigma-G factor [Butyrivibrio crossotus DSM 2876] Length = 260 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/253 (28%), Positives = 128/253 (50%), Gaps = 15/253 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E ++ V+ G+ A++ ++ NLRLV+SV K+++ G DL Q G IGL Sbjct: 19 LSTKEKEELIIKVKNGD---KAARERYIKCNLRLVLSVVKRFSGNGENMDDLFQIGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA + FD L KFSTYA+ + I R + D S IR+ ++D + + R+ Sbjct: 76 IKAIDNFDMSLNVKFSTYAVPMIIGEIRRFLRDNS-QIRVSRSLKDVAFRAIYAKERIMK 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVS 599 K EPT E+A ++ + E + L + P+SL PI + D ++ D I DK Sbjct: 135 TGKDEPTVNELATEIGVSKEELVMALDAIQTPVSLYEPIYTDGGDMLYVMDQIGDKKNTE 194 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + + L++ R L RE+ ++++R+ G T EV K +++ ++ ++ Sbjct: 195 E-NWVNEMALKDAIKR----LPDREKEIIKLRYFDG----KTQMEVSKMVRISQAQVSRL 245 Query: 660 EAKAIRKLKHPSR 672 E AI+ +++ R Sbjct: 246 EKSAIKNMENYLR 258 >gi|253576354|ref|ZP_04853684.1| RNA polymerase sigma-F factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251844247|gb|EES72265.1| RNA polymerase sigma-F factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 251 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/259 (28%), Positives = 134/259 (51%), Gaps = 18/259 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K IS E + +E + ++++ + G+ + A+ +V N+RLV SV +++ NRG + Sbjct: 4 EVKQISREF-LDDTEVKRLIALSQSGD---NAARDRLVNCNIRLVWSVVQRFMNRGYEPE 59 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K Sbjct: 60 DLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKEMANK 118 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 V + +S ++ R PT +E+A +L + E V + K P S+ + D D L Sbjct: 119 VRKKKDELSKQLGRLPTVKEVADELGVTPEDVVFAQEANKPPASIHETVFENDGDPITLM 178 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D I D+ D + L E + LT RE ++ +R+ D T EV + Sbjct: 179 DQIADETQERWFD---KLALHEA----IDGLTDRERLIVYLRY----YRDQTQSEVATRL 227 Query: 650 CVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K ++ ++ Sbjct: 228 GISQVQVSRLEKKILQSIR 246 >gi|187927337|ref|YP_001897824.1| RNA polymerase factor sigma-32 [Ralstonia pickettii 12J] gi|309779962|ref|ZP_07674716.1| alternative sigma factor RpoH [Ralstonia sp. 5_7_47FAA] gi|187724227|gb|ACD25392.1| RNA polymerase, sigma 32 subunit, RpoH [Ralstonia pickettii 12J] gi|308921321|gb|EFP66964.1| alternative sigma factor RpoH [Ralstonia sp. 5_7_47FAA] Length = 309 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 126/236 (53%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 69 AARRLVLSHLRLVVSIARGYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 128 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ + + +A +L + Sbjct: 129 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAQATFTSDEIDAVAAELNVKGTE 188 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR---ETTTRV 616 VR++ +++ I+LE + G+E + + + N + + A ++N R E Sbjct: 189 VREMETRLSGGDIALEGQMDDGEESFAPIAYLADTHNEPTRVIEA-RSNDRMQSEGIEAA 247 Query: 617 LASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 248 LAKLDDRSRRIIEARW-LNVNDDGSGGSTLHELADEFGVSAERIRQIESAAMKKMK 302 >gi|114327512|ref|YP_744669.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] gi|114315686|gb|ABI61746.1| RNA polymerase sigma-32 factor [Granulibacter bethesdensis CGDNIH1] Length = 375 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 118/239 (49%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGN+G+M+A +FD G++ +TYAMWW Sbjct: 117 AAHRLVTSHLRLVAKIAMGYRGYGLPVGELISEGNVGMMQAVRRFDPDRGFRLATYAMWW 176 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAK---KL 556 ++ AI I +++ K K+ RR+ +++ + PE+++K L Sbjct: 177 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIDDGDLKPEQVSKIATSL 234 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 +P + V ++ + P SL P+ E D++ D + + A+ E R Sbjct: 235 NVPEQDVVQMNRRMSAPDHSLNAPLRQEGEGEWQDWLVDD---AETQETVLADTEELGGR 291 Query: 616 ------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L RE +L R T TLE++ + + ++RER+RQIE +A KL+ Sbjct: 292 KTLLANALKTLNDRERHILTERRLKDEPT--TLEDLSQHYNISRERVRQIEVRAFEKLQ 348 >gi|302544114|ref|ZP_07296456.1| RNA polymerase sigma-F factor [Streptomyces hygroscopicus ATCC 53653] gi|302461732|gb|EFL24825.1| RNA polymerase sigma-F factor [Streptomyces himastatinicus ATCC 53653] Length = 293 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 120/242 (49%), Gaps = 9/242 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S S F + ++ R E EA + ++E NL LV A ++ +R D++Q G IGL Sbjct: 47 LSRSLFLRLAALDRDSE-EAGYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGL 105 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA ++FD G +F T+AM V I R D S ++R+P +++ + + + ++ Sbjct: 106 IKAIDRFDCERGVEFPTFAMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQ 165 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVS 599 + R PT E+A L + E V L + SL++P ED G + D+ Sbjct: 166 TLDRSPTVTELATALGVSEEDVVDGLAVGNAYTASSLDSP-SPEDEGGEGS-LADRLGYE 223 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIR 657 DSA++ RE+ +LA L PRE +++ +RF M EEVG Q V+R R Sbjct: 224 --DSALEGVEYRESLKPLLAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTR 281 Query: 658 QI 659 + Sbjct: 282 TL 283 >gi|290959142|ref|YP_003490324.1| SigH-like stress response sigma factor [Streptomyces scabiei 87.22] gi|260648668|emb|CBG71781.1| SigH-like stress response sigma factor [Streptomyces scabiei 87.22] Length = 306 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 113/226 (50%), Gaps = 12/226 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 77 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 136 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 137 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVTELAAVLGVS 196 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA-NLRETTT 614 E V L + SL++P ++D L D + + D+A++ RE+ Sbjct: 197 EEDVVDGLAVGNAYTASSLDSPAPEDDGGEGSLADRLGYE------DTALEGVEYRESLK 250 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 +LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 251 PLLAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 296 >gi|188090702|gb|ACD49585.1| RNA polymerase sigma factor [Stenotrophomonas maltophilia] Length = 284 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 55/142 (38%), Positives = 87/142 (61%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDMVDPEQIEDIIGMINGMGIDVHEVAPDVETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L + P++ Sbjct: 63 AAALSALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGQFPVS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 ++L+ + +G L E+I Sbjct: 123 VESLLNDYEAHKEGKKRLAEVI 144 >gi|253699229|ref|YP_003020418.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M21] gi|251774079|gb|ACT16660.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter sp. M21] Length = 285 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 119/241 (49%), Gaps = 14/241 (5%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+G+ EA+ ++ +NLR V+ +A +Y + G++ LDLIQEGNIGLM A KFD G Sbjct: 39 REGDLEAA---HRLITSNLRFVVKIAGEYRSYGMKMLDLIQEGNIGLMMAVRKFDPDKGV 95 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 + +YA+WW++ I I ++I + K+ + A++ + E A Sbjct: 96 RLISYAVWWIRAYIQNHIISAWSLLKIGTTQAQRKLFFKLNQAKQAIVNMTGEGDLHAAA 155 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + +++ + + +SL+ + + + G F+E + + A +ETT Sbjct: 156 ISLDVKDHEAQEMEQRLRGELSLDVEMFEGEGG--GTFLESLPDLRQNQEEMLAERQETT 213 Query: 614 ------TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L L +E V+ R + TL+E+ F ++RER+RQIE A++K+ Sbjct: 214 ILERNVASALEDLNEKERFVIEQR--VAAENPMTLQEIADHFSISRERVRQIEEGALKKM 271 Query: 668 K 668 K Sbjct: 272 K 272 >gi|297250602|ref|ZP_06934149.1| alternative sigma factor RpoH [Neisseria polysaccharea ATCC 43768] gi|296838520|gb|EFH22458.1| alternative sigma factor RpoH [Neisseria polysaccharea ATCC 43768] Length = 290 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + +EIA Sbjct: 104 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QEIAD 162 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 163 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 212 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 213 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 271 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 272 EAKAMQKLR 280 >gi|21222437|ref|NP_628216.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|256786489|ref|ZP_05524920.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289770380|ref|ZP_06529758.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|13122198|emb|CAC32374.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289700579|gb|EFD68008.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 318 Score = 92.8 bits (229), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 89 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 148 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 149 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVGELAAVLGVS 208 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 209 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 264 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 265 LAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 308 >gi|300692652|ref|YP_003753647.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum PSI07] gi|299079712|emb|CBJ52389.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum PSI07] Length = 306 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 128/237 (54%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YA+ W Sbjct: 66 AARRLVLSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ ++ + +A++L + Sbjct: 126 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAHATFTSDEIDAVAQELNVKGTE 185 Query: 563 VRKV-LKITKEPISLETPIGDEDTS-----HLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 VR++ +++ I+LE I D + S +L D + V L++ L+ E Sbjct: 186 VREMETRLSGGDIALEGQIDDGEESFAPIAYLADAHNEPTRV--LEARGHDRLQSEGIET 243 Query: 616 VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 244 ALAKLDDRSRRIIEARW-LNVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 299 >gi|300705271|ref|YP_003746874.1| RNA polymerase sigma h (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CFBP2957] gi|299072935|emb|CBJ44291.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CFBP2957] Length = 306 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/237 (30%), Positives = 128/237 (54%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YA+ W Sbjct: 66 AARRLVLSHLRLVVSIARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDQGVRLVSYAIHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ ++ + +A++L + Sbjct: 126 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAHATFTSDEIDAVAQELNVKGAE 185 Query: 563 VRKV-LKITKEPISLETPIGDEDTS-----HLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 VR++ +++ I+LE I D + S +L D + V L++ L+ E Sbjct: 186 VREMETRLSGGDIALEGHIDDGEESFAPIAYLADTHNEPTRV--LETRGHDRLQSEGIET 243 Query: 616 VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 244 ALAKLDDRSRRIIEARW-LNVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 299 >gi|261417856|ref|YP_003251538.1| sporulation sigma factor SigF [Geobacillus sp. Y412MC61] gi|297529524|ref|YP_003670799.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|319767332|ref|YP_004132833.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC52] gi|261374313|gb|ACX77056.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC61] gi|297252776|gb|ADI26222.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|317112198|gb|ADU94690.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y412MC52] Length = 252 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/252 (27%), Positives = 124/252 (49%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ++ I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 11 QSPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGC 67 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 68 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDE 126 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 127 LSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIADAD 186 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 S D + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 187 EASWFDKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVASRLGISQVQV 235 Query: 657 RQIEAKAIRKLK 668 ++E K ++ +K Sbjct: 236 SRLEKKILQHIK 247 >gi|163736875|ref|ZP_02144293.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] gi|161389479|gb|EDQ13830.1| RNA polymerase, sigma 32 subunit, RpoH [Phaeobacter gallaeciensis BS107] Length = 292 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/258 (28%), Positives = 129/258 (50%), Gaps = 28/258 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ ++ + ++IA Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLERQAQSDGARLDKHQLHQQIAT 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSH-LGDFIEDKNAVSP---LDSAIQANL 609 ++ +P+ V+ + ++ SL ED + +ED +A + +S L Sbjct: 161 EIGVPLRDVQMMDGRLAGSDFSLNAVQSSEDEGREWIEALEDDSAQAAELVEESHDTRQL 220 Query: 610 RETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 R+ + +L RE ER LR TLE +G + +++ER+RQ+EA A Sbjct: 221 RDWLVEAMQALNERERFIITERKLR-------EKPRTLESLGNELDLSKERVRQLEAGAF 273 Query: 665 RKLKHP--SRSKKLRSFL 680 +K++ + S+++++FL Sbjct: 274 QKMRKSLETCSREVQNFL 291 >gi|166031695|ref|ZP_02234524.1| hypothetical protein DORFOR_01395 [Dorea formicigenerans ATCC 27755] gi|166028672|gb|EDR47429.1| hypothetical protein DORFOR_01395 [Dorea formicigenerans ATCC 27755] Length = 244 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 125/244 (51%), Gaps = 12/244 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++++ A+ +VE N LV + K++ NRG++ DL Q GNIGL+KA +KF Sbjct: 3 HTIALIQRSHEGDEEARARLVEENAGLVWCIVKRFHNRGVETEDLFQIGNIGLIKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K + N+ REPT Sbjct: 63 DLSYDVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELAYKAYLLKEDLQNQWGREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQ 606 E++++L + E + L + SL PI +D L D +E+K+ + Q Sbjct: 122 VGELSERLGVEQEELVMALDAGGDVESLHKPIYQKDGQEIRLMDKLEEKS-----EEHEQ 176 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 T +L L E+R++ +R+ + T +VG++ +++ ++ ++E K + + Sbjct: 177 VLNHIVLTELLGVLNQDEKRLIYLRY----FAEQTQSQVGRELGISQVQVSRMEKKILGQ 232 Query: 667 LKHP 670 LK+ Sbjct: 233 LKNA 236 >gi|94497521|ref|ZP_01304090.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] gi|94422938|gb|EAT07970.1| sigma 32 (RpoH) [Sphingomonas sp. SKA58] Length = 310 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 74/242 (30%), Positives = 121/242 (50%), Gaps = 26/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G++ +TYAMWW Sbjct: 58 AAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEADRGFRLATYAMWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAMP 559 ++ +I I +++ K K+ RRM N I+ + PE++ K+A Sbjct: 118 IRASIQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKNNIEAFEDGDLRPEDVT-KIATD 174 Query: 560 VEGVRK--VLKITKE-----PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + GV + V+ + + SL P+ ++ D++ D + PL A+ +E Sbjct: 175 L-GVSEDDVISMNRRMAMGGDTSLNVPMREDGEGQWQDWLADTD---PLQDERVADEQEK 230 Query: 613 TTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R + L RE+ +L R TLEE+ + + V+RER+RQIE +A K Sbjct: 231 VQRHDMLVEAMDDLNDREKHILAERRLA--EEPKTLEELSQVYGVSRERVRQIEVRAFEK 288 Query: 667 LK 668 L+ Sbjct: 289 LQ 290 >gi|225375609|ref|ZP_03752830.1| hypothetical protein ROSEINA2194_01234 [Roseburia inulinivorans DSM 16841] gi|225212588|gb|EEG94942.1| hypothetical protein ROSEINA2194_01234 [Roseburia inulinivorans DSM 16841] Length = 259 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 128/248 (51%), Gaps = 27/248 (10%) Query: 430 IVSMVRKGECEASIAKKEM-VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + + +R+G+ EA +EM ++ NLRLV+SV K+++ DL Q G IGL+K+ + F Sbjct: 27 LFARIRQGDQEA----REMYIKGNLRLVLSVIKRFSGSHENLDDLFQIGCIGLIKSIDNF 82 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 + L KFSTYA+ + I R + D + +IR+ +RD +K + +S +EPT Sbjct: 83 NPDLQVKFSTYAVPMIIGEIRRYLRDNN-SIRVSRSLRDTAYKAIHAKEVLSKNSFKEPT 141 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPL 601 +EIA++ + E + L + P+SL P+ + DT ++ D I DK N V L Sbjct: 142 LQEIAEESGVAAEDILYALDAIQSPVSLYDPVYTDGGDTLYVMDQISDKKNKEENWVEKL 201 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + + L+ RE ++ +RF G T EV + +++ ++ ++E Sbjct: 202 ----------SLSDAMNHLSERENFIINLRFFEG----KTQMEVADEIHISQAQVSRLEK 247 Query: 662 KAIRKLKH 669 A++ ++ Sbjct: 248 SALKTIRQ 255 >gi|319638161|ref|ZP_07992924.1| RNA polymerase sigma factor rpoD [Neisseria mucosa C102] gi|317400434|gb|EFV81092.1| RNA polymerase sigma factor rpoD [Neisseria mucosa C102] Length = 650 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/191 (32%), Positives = 108/191 (56%), Gaps = 20/191 (10%) Query: 14 EHEDSDDS--LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 E++D DD+ L + +++I + ++RGY+T E+N LP D +EQ+++ V+M+S Sbjct: 9 EYQDQDDNRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDAEQIDNIVSMIS 68 Query: 72 NMGINVV----DGDD--LEDEEGS---EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +GI V D +D L D + +D+++ A +A +S+ DS T DPVR Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAALTDDDAVEEAEAALSSA-------DSEFGRTTDPVR 121 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + + Sbjct: 122 MYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILALIEQVRNDEIRVD 181 Query: 183 EIIDLEACIGP 193 E++ EA I P Sbjct: 182 EVV--EAIIDP 190 >gi|241760450|ref|ZP_04758543.1| RNA polymerase sigma factor RpoD [Neisseria flavescens SK114] gi|241318954|gb|EER55456.1| RNA polymerase sigma factor RpoD [Neisseria flavescens SK114] Length = 650 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/191 (32%), Positives = 108/191 (56%), Gaps = 20/191 (10%) Query: 14 EHEDSDDS--LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 E++D DD+ L + +++I + ++RGY+T E+N LP D +EQ+++ V+M+S Sbjct: 9 EYQDQDDNRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDAEQIDNIVSMIS 68 Query: 72 NMGINVV----DGDD--LEDEEGS---EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +GI V D +D L D + +D+++ A +A +S+ DS T DPVR Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAAMTDDDAVEEAEAALSSA-------DSEFGRTTDPVR 121 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + + Sbjct: 122 MYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILALIEQVRNDEIRVD 181 Query: 183 EIIDLEACIGP 193 E++ EA I P Sbjct: 182 EVV--EAIIDP 190 >gi|295399044|ref|ZP_06809026.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|312110351|ref|YP_003988667.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y4.1MC1] gi|294978510|gb|EFG54106.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus thermoglucosidasius C56-YS93] gi|311215452|gb|ADP74056.1| RNA polymerase, sigma 28 subunit, SigF [Geobacillus sp. Y4.1MC1] Length = 250 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/238 (28%), Positives = 119/238 (50%), Gaps = 14/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++R+ + A+ E+++ N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 20 LIRRSQEGDQQARNEIIQKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSY 79 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 KFSTYA+ + I R I D T+++ +++ +K+ + +S K R PT EI Sbjct: 80 DVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKETGNKIRKARDELSKKHGRAPTVTEI 138 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 A L + E V + + P S+ + D D L D I D + S D Sbjct: 139 ADYLEISPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQIADADEASWFDKI------ 192 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L RE ++ +R+ D T EV + +++ ++ ++E K ++++K Sbjct: 193 -ALKKAIEELDERERLIVYLRY----YKDQTQSEVASRLGISQVQVSRLEKKILQQIK 245 >gi|291454068|ref|ZP_06593458.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291357017|gb|EFE83919.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 365 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/221 (30%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 134 GGPEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEF 193 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A+KL Sbjct: 194 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTSATAELSQRHGRSPTVHELAEKL 253 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 254 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGSE------DEALEGVEYRESL 307 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 308 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 348 >gi|291549326|emb|CBL25588.1| RNA polymerase sigma-F factor [Ruminococcus torques L2-14] Length = 239 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 134/242 (55%), Gaps = 16/242 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++RK A++E+VE N+ L+ V K++ RG + DL Q G+IGL+KA +KFD+ Sbjct: 5 IALIRKSHDGDKKAREELVEKNIGLIWCVVKRFYGRGAEPEDLFQIGSIGLLKAIDKFDF 64 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 +FSTYA+ + I R + D I++ +R+ +K ++ +M+ + REPT + Sbjct: 65 SYEVQFSTYAVPMISGEIRRFLRDDG-MIKVSRSLRELSYKSLQAREKMTRILGREPTLK 123 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIE--DKNAVSPLDSAIQ 606 E++++L + E + + ++ + E S+ PI ++ S L D +E D+ LD + Sbjct: 124 ELSEELQIDCEEIVQAMESSVEVESIYKPIHQKEGSEILLMDKLEEKDRQEEKVLDRIV- 182 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L+E VL +L +E ++ +R+ G T E+GK+ +++ ++ + E K + + Sbjct: 183 --LKE----VLETLEAKERTIIYLRYFAG----KTQAEIGKKMGMSQVQVSRTEKKVLER 232 Query: 667 LK 668 ++ Sbjct: 233 MR 234 >gi|163733965|ref|ZP_02141406.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] gi|161392501|gb|EDQ16829.1| RNA polymerase sigma factor [Roseobacter litoralis Och 149] Length = 298 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 75/242 (30%), Positives = 122/242 (50%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEE---IAKKL 556 ++ +I I +++ K K+ R+ NKI + + P+ IAK L Sbjct: 109 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNKIGALEEGDLHPDNVARIAKDL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + E + +++ SL +G E T D++ED+ A D + L R Sbjct: 167 GVTETEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEGADQAGDYEARDELEARR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E ++ L RE+ +L+ R + T TLE++ ++ V+RERIRQIE +A KL+ Sbjct: 227 ELLADAMSVLNDREKDILQQRR-LSEKT-VTLEDLSAEYNVSRERIRQIEVRAFEKLQKK 284 Query: 671 SR 672 R Sbjct: 285 MR 286 >gi|94499830|ref|ZP_01306366.1| RNA polymerase sigma-32 factor RpoH [Oceanobacter sp. RED65] gi|94428031|gb|EAT13005.1| RNA polymerase sigma-32 factor RpoH [Oceanobacter sp. RED65] Length = 288 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 129/233 (55%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V+ +AK Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 52 AARRLVLSHLRFVVHIAKSYNGYGLNQSDLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+A++ N E +IA+ L + + Sbjct: 112 IKAEIHEFILKNWRIVKVATTKAQRKLFFNLRSAKK-RNGWLNEAEAHKIAEDLGVSAKE 170 Query: 563 VRKV-LKITKEPISLETPIG-DEDTSHL--GDFIEDKNAVSPLDSAIQANLRETTTRV-- 616 V ++ +++ + ++P+ DED+++ +++ED + L + +++T R+ Sbjct: 171 VYEMEGRLSSHDSTFDSPVADDEDSAYQAPANYLEDHSFDPALAVENENYEQDSTARLQD 230 Query: 617 -LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + +L MR +G + TL E+ ++ V+ ERIRQ+E A++K+K Sbjct: 231 ALVQLDDRSKDIL-MRRWLGEHKA-TLHELADEYGVSAERIRQLEKNAMKKIK 281 >gi|82703854|ref|YP_413420.1| RNA polymerase factor sigma-32 [Nitrosospira multiformis ATCC 25196] gi|82411919|gb|ABB76028.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosospira multiformis ATCC 25196] Length = 281 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 82/259 (31%), Positives = 140/259 (54%), Gaps = 16/259 (6%) Query: 423 SISEFRHI-----VSMVRKGECEASI-AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S+++FR + + + R E SI A +++V ++LRLV+++A+ Y GL DLIQE Sbjct: 19 SVNQFRILTQEEELQLARSLRDEGSIDAARQLVLSHLRLVVAIARGYKGYGLPQADLIQE 78 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRT 535 GNIGLMKA ++FD G + ++A+ W+K I I ++I + K+ +R+ Sbjct: 79 GNIGLMKAVKRFDPERGVRLVSFAVHWIKAEIHEFILRNWRLVKIATTKAQRKLFFNLRS 138 Query: 536 ARRMSNKIKREPTPEEIAKKLAM-PVEGVRKVLKITKEPISLETPIG---DEDTSHLGDF 591 ++ + + ++ E+A++L + P E V + + ISLE P+ DE+T + Sbjct: 139 LKQALDTMSQKEVA-EVAEQLGVKPEEVVEMETRFSGRDISLE-PLSEDDDEETFSPIAY 196 Query: 592 IEDKNAVSP-LDSAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 + D + S L+ LR E + L SL R ++ R+ +T TL E+ + Sbjct: 197 LTDGSEPSHVLEDEQTMRLRGEGLEQALESLDARSRHIIEARWLREKDTA-TLHELADEL 255 Query: 650 CVTRERIRQIEAKAIRKLK 668 V+ ER+RQIEAKA++KL+ Sbjct: 256 GVSAERVRQIEAKAMQKLR 274 >gi|23099294|ref|NP_692760.1| sporulation sigma factor SigF [Oceanobacillus iheyensis HTE831] gi|22777523|dbj|BAC13795.1| stage II sporulation protein AC (RNA polymerase sigma-F factor) [Oceanobacillus iheyensis HTE831] Length = 250 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 122/240 (50%), Gaps = 11/240 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 + ++R + A+ +VE N+RLV SV +++ NRG DL Q G+IGL+K+ +KF Sbjct: 16 QVKELIRLSQQGDQSARDRLVEKNIRLVWSVVQRFINRGYDPDDLFQIGSIGLIKSIDKF 75 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R I D +I++ +++ +K+ R M+ + R PT Sbjct: 76 DLSYDVKFSTYAVPMIIGEIQRFIRD-DGSIKVSRSLKEIGNKIRRKKDEMTKQYGRSPT 134 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 E+A+ L + E V + K P S+ + + D GD I + ++ DS Sbjct: 135 VNELAEALELQPEEVVHAQEAAKSPQSIYETVFEND----GDPITLLDQIADQDSKWFEK 190 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L + + SLT RE ++ +R+ D T EV ++ +++ ++ ++E K + +K Sbjct: 191 L--SLQEAIRSLTERERLIIYLRY----YKDKTQTEVAERLGISQVQVSRLEKKILEDMK 244 >gi|266624907|ref|ZP_06117842.1| RNA polymerase sigma-G factor [Clostridium hathewayi DSM 13479] gi|288863210|gb|EFC95508.1| RNA polymerase sigma-G factor [Clostridium hathewayi DSM 13479] Length = 258 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 65/229 (28%), Positives = 116/229 (50%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV ++++ DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AREEYIKGNLRLVLSVIQRFSGSNENVDDLFQIGCIGLIKAIDNFDITQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + + K +EPT EIA ++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKAIYAKENLMKKNLKEPTIMEIADEIGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE--TTTRVLAS 619 L + P+SL P+ + D + D I DK ++ N E + + Sbjct: 157 TYALDAIQNPVSLYEPVYSDGGDPLFVMDQISDK-------KNLEENWVEDISLNEAMKR 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++ MRF G T EV ++ +++ ++ ++E A++ +K Sbjct: 210 LPERERHIIDMRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKSMK 254 >gi|284043274|ref|YP_003393614.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] gi|283947495|gb|ADB50239.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Conexibacter woesei DSM 14684] Length = 258 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/220 (31%), Positives = 115/220 (52%), Gaps = 10/220 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++E + LV S+A++Y NRG DL Q G +GL+KA ++FD +FST+A+ Sbjct: 32 ARRALIERMMPLVRSLARRYANRGEPLDDLEQVGCVGLIKAVDRFDLSRELRFSTFAVPT 91 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ ++R+ +++ +V R A R+S K+ R PT E++A+ E V Sbjct: 92 ILGEIKRHFRDRAWSVRVSRGLQELSARVTREADRLSTKLGRSPTIEDLAEATNSTPEQV 151 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L+ + + LE P+GD+ G+ + A P A R +R L L+ Sbjct: 152 LEALQGAQAYSTVPLEEPLGDD-----GEPVARIGAEDP--EFELAEERIELSRGLHVLS 204 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIE 660 RE R++ +RF G+ E VG Q V+R R +E Sbjct: 205 ERERRIVLLRFFAGLTQREIAERVGISQMHVSRLLRRSLE 244 >gi|260434077|ref|ZP_05788048.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] gi|260417905|gb|EEX11164.1| alternative sigma factor RpoH [Silicibacter lacuscaerulensis ITI-1157] Length = 298 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 119/240 (49%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV-- 560 ++ +I I +++ + K+ +R A+ ++ + K++A + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLHPDNVKQIAHDLGV 168 Query: 561 ---EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL +G E T D++ED++A D + L RE Sbjct: 169 TEDEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDESADQAGDYETREELEVRREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L L RE+ +L R M+ TLEE+ Q+ V+RERIRQIE +A KL+ R Sbjct: 229 LAEALEVLNDREKDILTQRR--LMDQPVTLEELSSQYNVSRERIRQIEVRAFEKLQKKMR 286 >gi|238028681|ref|YP_002912912.1| RNA polymerase factor sigma-32 [Burkholderia glumae BGR1] gi|237877875|gb|ACR30208.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia glumae BGR1] Length = 311 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 124/234 (52%), Gaps = 14/234 (5%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YA+ W+K Sbjct: 74 RRLVLSHLRLVVSIARNYLGYGLPHGDLIQEGNIGLMKAVKRFDPDQNVRLVSYAIHWIK 133 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEG 562 I I +++ K + + R K + TPEEI A++L + E Sbjct: 134 AEIHEYILRNWRMVKVAT---TKAQRKLFFNLRSHKKGMQAMTPEEIDGLAQELNVKRED 190 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVL 617 V ++ +++ I+LE + G+E + + + N + + ++ Q + +T + L Sbjct: 191 VAEMETRLSGGDIALEGQVEDGEESFAPIAYLADSHNEPTAVLASRQRDRLQTEGISEAL 250 Query: 618 ASLTPREERVLRMRF---GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 SL R R++ R+ G + TL ++ +F V+ ERIRQIEA A++K++ Sbjct: 251 DSLDTRSRRIIEARWLNVGDDGSGGSTLHDLAAEFGVSAERIRQIEASAMKKMR 304 >gi|118594538|ref|ZP_01551885.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] gi|118440316|gb|EAV46943.1| RNA polymerase sigma factor [Methylophilales bacterium HTCC2181] Length = 286 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 123/236 (52%), Gaps = 17/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++L+LV+ +A+ Y+ L DL+QEGNIGLMKA +KFD G + +YA++W Sbjct: 48 AAKKLILSHLKLVMKIARSYSGYNLPHADLVQEGNIGLMKAVKKFDPDRGVRLVSYAIYW 107 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMP 559 +K I + ++ + K+ +R+ R+ +K PEE IA +L + Sbjct: 108 IKAEIQEYVVKNWRLVKTATTKAQRKLFFNLRSLRKTLQPLK----PEEIKSIANELNVK 163 Query: 560 VEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDS----AIQANLRET 612 VR++ ++ + +++ + + H ++ED+ SPL+ ++N+ Sbjct: 164 ESEVREMEFRLNGKETTIDYSDDESEEDHFRPISYLEDETP-SPLEKIEMDQAESNVSAE 222 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L R V+ R+ + N TL E+ +F V+ ERIRQIE A +K++ Sbjct: 223 LQHALSELDSRSRSVVEARW-LNDNKSETLNELASKFKVSAERIRQIEKNAFKKIR 277 >gi|210617641|ref|ZP_03291672.1| hypothetical protein CLONEX_03896 [Clostridium nexile DSM 1787] gi|210149188|gb|EEA80197.1| hypothetical protein CLONEX_03896 [Clostridium nexile DSM 1787] Length = 237 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 127/245 (51%), Gaps = 16/245 (6%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++R+ A++++VE N+ L+ + K++ RG + DL Q G+IGL+KA +KF Sbjct: 3 HTIALIRQSHDGDEKAREQLVEENIGLIWCIVKRFYGRGAEPEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K ++ K+ R+PT Sbjct: 63 DMTYDVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELSYKAYFAKEKLQEKLGRDPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSP--LDSA 604 EE+A+ + + E + ++ + E SL PI +D + L D +E+ A L+ Sbjct: 122 LEELAETMEVEKEELVMAMESSGEVESLHKPIYQKDGNEIQLMDKLEETGAQEEKVLNQM 181 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + A L L L E +++ +R+ + T +VGK +++ ++ ++E K + Sbjct: 182 LLAQL-------LEGLEKEERQLIYLRY----FANQTQSQVGKTLGISQVQVSRLEKKIL 230 Query: 665 RKLKH 669 + L+ Sbjct: 231 KNLRQ 235 >gi|318041750|ref|ZP_07973706.1| Type II alternative RNA polymerase sigma factor, sigma-70 family protein [Synechococcus sp. CB0101] Length = 279 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 45/91 (49%), Positives = 57/91 (62%), Gaps = 8/91 (8%) Query: 448 MVEANLRLVISVAKKYTNR-----GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 M++ NLRLV+ +AK Y R L+F DL+Q G IGL++A EKFD LGY FSTYA W Sbjct: 55 MIKENLRLVVCIAKPYHARIQRSSALEFSDLLQAGTIGLIRAVEKFDPALGYSFSTYASW 114 Query: 503 WVKQAITRSIADQSCTIRIPV---HMRDKIH 530 W++QAI R I +IR+ MR K H Sbjct: 115 WIRQAIRREIEASESSIRLSARQQQMRLKAH 145 >gi|225076460|ref|ZP_03719659.1| hypothetical protein NEIFLAOT_01506 [Neisseria flavescens NRL30031/H210] gi|224952139|gb|EEG33348.1| hypothetical protein NEIFLAOT_01506 [Neisseria flavescens NRL30031/H210] Length = 650 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 62/191 (32%), Positives = 108/191 (56%), Gaps = 20/191 (10%) Query: 14 EHEDSDDS--LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 E++D DD+ L + +++I + ++RGY+T E+N LP D +EQ+++ V+M+S Sbjct: 9 EYQDQDDNRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDAEQIDNIVSMIS 68 Query: 72 NMGINVV----DGDD--LEDEEGS---EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +GI V D +D L D + +D+++ A +A +S+ DS T DPVR Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAAMTDDDAVEEAEAALSSA-------DSEFGRTTDPVR 121 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + + Sbjct: 122 MYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILALIEQVRNDEIRVD 181 Query: 183 EIIDLEACIGP 193 E++ EA I P Sbjct: 182 EVV--EAIIDP 190 >gi|148552989|ref|YP_001260571.1| RNA polymerase factor sigma-32 [Sphingomonas wittichii RW1] gi|148498179|gb|ABQ66433.1| RNA polymerase sigma factor RpoH [Sphingomonas wittichii RW1] Length = 301 Score = 92.4 bits (228), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 122/242 (50%), Gaps = 26/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G++ +TYAMWW Sbjct: 53 AATRLVTSHLRLVAKIAMGYRGYGLPASELISEGNIGLMQGVKKFEPDRGFRLATYAMWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAM- 558 +K +I I +++ K K+ RRM ++++ + PE++ KK+A Sbjct: 113 IKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKSQLEAFEDGDLKPEDL-KKIATD 169 Query: 559 ------PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 V + + + + + SL + ++ D + D+ PL A + E Sbjct: 170 LGVSEEEVTSMNRRMSMGGDA-SLNVSMNEDGEGEWQDMLVDQG---PLQDERLAEVEEK 225 Query: 613 TTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + R LA+L RE+ +L R + + TLEE+ + + V+RER+RQIE +A K Sbjct: 226 SVRHNMLNEALAALNDREKHILVERRLV--DEPKTLEELSQVYGVSRERVRQIEVRAFDK 283 Query: 667 LK 668 L+ Sbjct: 284 LQ 285 >gi|310822395|ref|YP_003954753.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] gi|309395467|gb|ADO72926.1| RNA polymerase sigma factor [Stigmatella aurantiaca DW4/3-1] Length = 245 Score = 92.4 bits (228), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/238 (29%), Positives = 107/238 (44%), Gaps = 54/238 (22%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + RKG+ A++ + +NL V++VAKK+ NRG + DLIQEGN+GLMKA E FD Sbjct: 33 LARAARKGD---ESARQTLATSNLAFVVAVAKKFANRGARLDDLIQEGNVGLMKAIEHFD 89 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+TYA+WW++ ITR + D +R R + Sbjct: 90 PKKNVRFATYAVWWIRAYITRYLKDNRSQVRGGESERGSM-------------------- 129 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 SL+ I +E + D +ED SP D + Sbjct: 130 ----------------------VDFSLDATIDEEGETTFMDRLED-GGPSPSDVYLS--- 163 Query: 610 RETTTRVLASLTPREERVLRMRFGI-----GMNTDHTLEEVGKQFCVTRERIRQIEAK 662 RE V +L +R+ + + I + TLEE+G+++ V+RER+RQ+E K Sbjct: 164 REQDQEVHEALVKVRKRIGDLGWDILQERLTQDKPLTLEELGQRWGVSRERVRQVELK 221 >gi|301059188|ref|ZP_07200126.1| putative alternative sigma factor RpoH [delta proteobacterium NaphS2] gi|300446678|gb|EFK10505.1| putative alternative sigma factor RpoH [delta proteobacterium NaphS2] Length = 329 Score = 92.4 bits (228), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 120/239 (50%), Gaps = 32/239 (13%) Query: 448 MVEANLRLVISVA---KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +V +NLRLV+ +A +Y + L LDLIQEGN+GL++A KFD G KFS YA +W+ Sbjct: 86 LVTSNLRLVVKIAMDFHRYWTKNL--LDLIQEGNLGLLQAVRKFDPYRGIKFSYYASFWI 143 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE----------PTPEEIAK 554 K I + I D ++I ++ R++ + +E P P +A+ Sbjct: 144 KAYILKFIMDNWKMVKI---------GTTQSQRKLFFNLAKERDKLIAQGFTPEPRLLAE 194 Query: 555 KLAMP-VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 KL + E V ++ ISL P+G++ G F+ D A++ D + Sbjct: 195 KLDVKESEVVEMTQRLGGWEISLSAPVGEDSRESYGSFLPDP-AMAADDLLSNDESKNVL 253 Query: 614 TRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T+ L +L+ +E + R I TL+++G ++ ++RERIRQI+ K I+ ++ Sbjct: 254 TKSLQEFRKTLSGKEADIFDNR--ILAEKPLTLQDLGDKYKISRERIRQIQEKIIKNIR 310 >gi|298529795|ref|ZP_07017198.1| putative RNA polymerase, sigma 70 family subunit [Desulfonatronospira thiodismutans ASO3-1] gi|298511231|gb|EFI35134.1| putative RNA polymerase, sigma 70 family subunit [Desulfonatronospira thiodismutans ASO3-1] Length = 336 Score = 92.4 bits (228), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 127/232 (54%), Gaps = 18/232 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++ +NLRLV+ +A ++ + ++ LDLIQEGN+GLMKA +KFD G KFS YA +W++ Sbjct: 94 LITSNLRLVVKIAMEFQRKWMKNVLDLIQEGNVGLMKALKKFDPDKGIKFSYYASFWIRA 153 Query: 507 AITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP-VEGV 563 I + I D +++ R + + + +R+ + + + I++ L + + V Sbjct: 154 YILKFIMDNWRMVKVGTTQAQRKLFYNLSKEKQRLES-MGITADADAISQSLDVSETDVV 212 Query: 564 RKVLKITKEPISLETPIG-DEDTS------HLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 ++ + +SL+ P D D + LGD E+ +Q N++E + Sbjct: 213 EMGQRLGQHDLSLDMPYNEDSDVTPMNVIPALGDGAEEILLQGETAQLLQQNIKE----L 268 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L+ +E+ ++ MR + + TL E+G+++ +TRER+RQIE++ + K+K Sbjct: 269 MPKLSDKEKDIIEMR--LLAESPVTLREIGEKYGITRERVRQIESRLLGKIK 318 >gi|251796351|ref|YP_003011082.1| sporulation sigma factor SigF [Paenibacillus sp. JDR-2] gi|247543977|gb|ACT00996.1| RNA polymerase, sigma 28 subunit, SigF [Paenibacillus sp. JDR-2] Length = 251 Score = 92.4 bits (228), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 66/247 (26%), Positives = 125/247 (50%), Gaps = 17/247 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + ++++ + G+ +IA+ +V+ N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 16 AEVKRLIALSQSGD---TIARDTLVQCNIRLVWSVVQRFINRGYEPEDLFQIGCIGLLKS 72 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD KFSTYA+ + I R + D T+++ +++ +KV + +S + Sbjct: 73 VDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKETANKVRKMKDELSKTLG 131 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 R PT E+A +L + E V + K P S+ + D D L D I D + D Sbjct: 132 RLPTVSEVADRLGITPEDVVFAQEANKPPTSIHETVFENDGDPITLMDQIADDSQERWFD 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + + L+ RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 -------KLALIEAIEGLSERERLIVYLRY----YRDKTQSEVASRLGISQVQVSRLEKK 240 Query: 663 AIRKLKH 669 ++ ++ Sbjct: 241 ILQSIRE 247 >gi|159037890|ref|YP_001537143.1| anti-sigma-factor antagonist [Salinispora arenicola CNS-205] gi|157916725|gb|ABV98152.1| anti-sigma-factor antagonist [Salinispora arenicola CNS-205] Length = 374 Score = 92.4 bits (228), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 115/229 (50%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 42 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E+A++L P E + Sbjct: 101 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATAALTSELSRAPTVAELARRLETPEEEI 160 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + E NA+ +D R T + +L L Sbjct: 161 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDNALESVDD------RVTVSGLLHRL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 215 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 259 >gi|188090472|gb|ACD49470.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. axonopodis] gi|188090630|gb|ACD49549.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. axonopodis] Length = 291 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 87/142 (61%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L++ + +G L EI+ Sbjct: 123 TEMLLVDYEAHKEGKKRLAEIV 144 >gi|154252145|ref|YP_001412969.1| RNA polymerase sigma-32 subunit RpoH [Parvibaculum lavamentivorans DS-1] gi|154156095|gb|ABS63312.1| RNA polymerase, sigma 32 subunit, RpoH [Parvibaculum lavamentivorans DS-1] Length = 298 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 124/240 (51%), Gaps = 19/240 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A E+ A +RLVIS+A ++ N GL + DLIQEGN+GLM+AA +F+ G +FSTYA WW Sbjct: 46 ALHELTCAYMRLVISLATRFRNYGLPYGDLIQEGNVGLMQAAARFEPERGVRFSTYASWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEE---IAKKLAM 558 ++ AI I +R K + R ++N ++ T ++ IAK+L + Sbjct: 106 IRAAIQDYILRNWSIVRTGTTAAHKSLFFNLRRLRALIANGTRQNLTEDDRIFIAKRLGV 165 Query: 559 PVEGVRKV-LKITKEPISLETPIGD----EDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 V + ++ SL + D E+ + D + + + P + ++ + + Sbjct: 166 GASDVATIDARLMTGDRSLNATVSDSTSSENLTEWQDLLPCERPL-PEEEVMENHDSKQR 224 Query: 614 TR----VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +R L SL RE ++R R + D TLE +G + +++ER+RQIE A++KL+ Sbjct: 225 SRWIEGALESLNERELTIIRER---RLRDDVATLETLGVRLGISKERVRQIEHMALKKLR 281 >gi|261380693|ref|ZP_05985266.1| RNA polymerase sigma factor RpoD [Neisseria subflava NJ9703] gi|284796404|gb|EFC51751.1| RNA polymerase sigma factor RpoD [Neisseria subflava NJ9703] Length = 650 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 62/191 (32%), Positives = 108/191 (56%), Gaps = 20/191 (10%) Query: 14 EHEDSDDS--LVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 E++D DD+ L + +++I + ++RGY+T E+N LP D +EQ+++ V+M+S Sbjct: 9 EYQDQDDNRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDAEQIDNIVSMIS 68 Query: 72 NMGINVV----DGDD--LEDEEGS---EDSLDLASSASNSSVFLQKRKDSADRSTDDPVR 122 +GI V D +D L D + +D+++ A +A +S+ DS T DPVR Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAAMTDDDAVEEAEAALSSA-------DSEFGRTTDPVR 121 Query: 123 MYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLR 182 MY+REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + + Sbjct: 122 MYMREMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILALIEQVRNDEIRVD 181 Query: 183 EIIDLEACIGP 193 E++ EA I P Sbjct: 182 EVV--EAIIDP 190 >gi|188090584|gb|ACD49526.1| RNA polymerase sigma factor [Xanthomonas translucens pv. secalis] gi|188090586|gb|ACD49527.1| RNA polymerase sigma factor [Xanthomonas translucens] gi|188090588|gb|ACD49528.1| RNA polymerase sigma factor [Xanthomonas translucens pv. undulosa] Length = 285 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|149925644|ref|ZP_01913908.1| RNA polymerase sigma factor [Limnobacter sp. MED105] gi|149825761|gb|EDM84969.1| RNA polymerase sigma factor [Limnobacter sp. MED105] Length = 308 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 79/278 (28%), Positives = 143/278 (51%), Gaps = 26/278 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +D+ + ++I +S E + + E + R + EA+ + +V ++LRLV++VA++ Sbjct: 34 LDAYISATHQIPMLSPEEEVELGE-----RLQRDNDLEAA---RRLVLSHLRLVVAVARQ 85 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD G + ++A+ W+K I I +++ Sbjct: 86 YLGYGLPHADLIQEGNIGLMKAVKRFDPTRGVRLVSFALHWIKAEIHEYIIRNWRMVKM- 144 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPE---EIAKKLAMPVEGVRKV-LKITKEPISLET 578 + K H+ + K + +P+ E+A +L + E V + ++ SL+ Sbjct: 145 --ITTKAHRKLFFNLNSFKKYGQTLSPDQINEVASELNVRPEDVYDMERRMAGHEFSLD- 201 Query: 579 PIGD----EDTSHLGDFIEDKNAVSPLDSAIQANLR----ETTTRVLASLTPREERVLRM 630 P+ D E++ + ++ + A P + AN+ E LASL R +R++ Sbjct: 202 PVVDVDSEENSYNPVRYLAAEGA-EPTEVLEGANMERLHSEGLDMALASLDERSQRIISS 260 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ G N TL ++ + V+ ER+RQIE +A++K+K Sbjct: 261 RWLAGENAK-TLHDLAAELGVSAERVRQIETQAMKKMK 297 >gi|319406710|emb|CBI80343.1| RNA polymerase sigma-32 factor [Bartonella sp. 1-1C] Length = 305 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 74/257 (28%), Positives = 129/257 (50%), Gaps = 22/257 (8%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G+ Sbjct: 40 RYHEYNDPKAAHKLVTSHLRLVAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K +I + ++I K ++ R++ NK++ Sbjct: 100 RLATYAMWWIKASIQEYVLRSWSLVKIGTTANQK--RLFFNLRKLKNKLQMLDNGDLNAQ 157 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDF-IEDKNAVSPLDSA 604 +EIA +L + + V + + SL P+ ++ D+ I+D N + Sbjct: 158 QVKEIATRLKVTEDEVVSMNRRLNGDASLNAPLLTNKGESYEWQDWLIDDSNNQE--QTL 215 Query: 605 IQANLRETTTRVLA----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 I+ + E +L +L RE+R+ + R + D TLEE+ +F ++RER+RQI Sbjct: 216 IEQDELENRYSILIHAMDNLNEREKRIFKAR---RLRDDPLTLEELSNEFNISRERVRQI 272 Query: 660 EAKAIRKLKHPSRSKKL 676 EA+A K+K+ ++ L Sbjct: 273 EARAFEKIKNFIKTSPL 289 >gi|182437345|ref|YP_001825064.1| RNA polymerase sigma factor, sigma L [Streptomyces griseus subsp. griseus NBRC 13350] gi|326777955|ref|ZP_08237220.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178465861|dbj|BAG20381.1| RNA polymerase sigma factor, sigma L [Streptomyces griseus subsp. griseus NBRC 13350] gi|326658288|gb|EGE43134.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 288 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+A+ L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELARALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DAALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|239942800|ref|ZP_04694737.1| RNA polymerase sigma factor, sigma L [Streptomyces roseosporus NRRL 15998] Length = 288 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+A+ L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELARALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|89092456|ref|ZP_01165410.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] gi|89083544|gb|EAR62762.1| RNA polymerase sigma factor [Oceanospirillum sp. MED92] Length = 284 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 77/275 (28%), Positives = 143/275 (52%), Gaps = 21/275 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +D+ ++ I +SVE S++E H G+ EA+ +++V ++LR V+ VAK Sbjct: 17 LDAYVQNVTAIPVLSVEEERSLAERLHF-----DGDVEAA---RQLVMSHLRFVVHVAKT 68 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGN+GLMKA ++FD +G + ++A+ WVK + I +++ Sbjct: 69 YSGYGLPLGDLIQEGNVGLMKAVKRFDPTMGVRLVSFAVHWVKAEMHEFILRNWRIVKVA 128 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R+ ++ + + + IA+ L + + VR++ ++ + + P Sbjct: 129 TTKAQRKLFFNLRSKKKSLSWMTNDEV-NAIAEDLGVEAKVVRQMEGRMASVDTAFDAPE 187 Query: 581 GDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRVLAS----LTPREERVLRMRFG 633 G +D ++EDK+A P +AN + + R L S L R + +L R+ Sbjct: 188 GADDEQAAWAPAHYLEDKSA-DPSMQLEEANWEQDSQRRLMSAMSELDERSKDILARRWL 246 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 247 T--DDKATLHELAAEYGVSAERIRQLEKNAMKKIR 279 >gi|163854463|ref|YP_001628761.1| RNA polymerase factor sigma-32 [Bordetella petrii DSM 12804] gi|163258191|emb|CAP40490.1| RNA polymerase sigma-32 factor [Bordetella petrii] Length = 295 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 70/228 (30%), Positives = 124/228 (54%), Gaps = 8/228 (3%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+V ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W+K Sbjct: 64 ELVLSHLRLVVSVARQYLGYGLPHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHWIKA 123 Query: 507 AITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 I I +++ + K+ +R+ R + E + IA++L + E V + Sbjct: 124 EIHEFIIRNWRMVKVATTKAQRKLFFNLRSMRPDGQTLDPEQV-DRIAQELNVRREDVSE 182 Query: 566 V-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRET-TTRVLASL 620 + ++++ +SLE DE+ ++ D+ P LD L+ L +L Sbjct: 183 MEVRLSGRDLSLEKQDDDEEAFAPISYLSDEGRQEPTRVLDRRDHDELQGAGLAHALQAL 242 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R R++ R+ + + TL+E+ ++F V+ ERIRQIE+ A++K++ Sbjct: 243 DARSRRIIEARW-LQDDGGVTLQELAQEFGVSAERIRQIESAALKKMR 289 >gi|188090534|gb|ACD49501.1| RNA polymerase sigma factor [Xanthomonas translucens pv. cerealis] Length = 285 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|289642895|ref|ZP_06475030.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia symbiont of Datisca glomerata] gi|289507278|gb|EFD28242.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Frankia symbiont of Datisca glomerata] Length = 332 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 114/231 (49%), Gaps = 10/231 (4%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F +V++ + A I + ++V +L LV +A+++ NRG DL Q IGL+K+ + Sbjct: 91 FTQLVALPEGDQQRAEI-RDQLVRMHLPLVEYLARRFRNRGEPLDDLTQVATIGLIKSVD 149 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G +FSTYA + I R D+ IR+P +++ + + +S + R Sbjct: 150 RFDPERGVEFSTYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQTLGRS 209 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDS 603 PT EIA L M E V + L+ +SL+ P GD++ + D + ++ +S Sbjct: 210 PTVSEIAAHLQMSEEEVLEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQD-----ES 264 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +L L PRE+R+L +RF M E+G Q V+R Sbjct: 265 LEGVEYRESLKPLLEKLPPREKRILLLRFFGNMTQSQIATELGISQMHVSR 315 >gi|188090700|gb|ACD49584.1| RNA polymerase sigma factor [Xanthomonas sacchari] Length = 286 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 84/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLGQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|298292657|ref|YP_003694596.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] gi|296929168|gb|ADH89977.1| RNA polymerase, sigma 32 subunit, RpoH [Starkeya novella DSM 506] Length = 303 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 117/238 (49%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 48 AAHKLVTSHLRLVAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPDKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K K+ R+ ++I R ++IA KL Sbjct: 108 IKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQISALEDGDLRPDQVQQIATKL 165 Query: 557 AMPVEGVRKVLKITKEPISLETPI-GD-EDTSHLGDFI---EDKNAVSPLDSAIQANLRE 611 + + V + + SL P+ GD E D++ D + D N R Sbjct: 166 GVTEQEVVDMNRRLSGDASLNAPLRGDVEGGGEWQDWLADDRDDQETTLADLEETDNRRS 225 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ L RE R+ R ++ D TLE++ +F V+RER+RQIE +A K++ Sbjct: 226 ALAGALSVLNERERRIFEAR---RLSDDPMTLEDLASEFGVSRERVRQIEVRAFEKVQ 280 >gi|29830729|ref|NP_825363.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607842|dbj|BAC71898.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 307 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/226 (30%), Positives = 113/226 (50%), Gaps = 12/226 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 78 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 137 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 138 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVAELAAVLGVS 197 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA-NLRETTT 614 E V L + SL++P ++D L D + + D+A++ RE+ Sbjct: 198 EEDVVDGLAVGNAYTASSLDSPAPEDDGGEGSLADRLGYE------DTALEGVEYRESLK 251 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 +LA L PRE R++ +RF M EEVG Q V+R R + Sbjct: 252 PLLAKLPPRERRIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 297 >gi|293401521|ref|ZP_06645664.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305159|gb|EFE46405.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 259 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 124/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+++++ NL+LV+S+ ++++NR DL Q G IGL+K+ + FD +FSTYA+ Sbjct: 38 AKEDLIQGNLKLVLSIVQRFSNRCENMDDLFQVGCIGLVKSIDNFDLKHEVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D IR+ H++D +KV R ++ ++EPT +A++L + + V Sbjct: 98 IMGEIKRYLRDNQ-VIRVSRHLKDLAYKVFRLKEEYIHEHQKEPTIHWLAEQLQVKEKDV 156 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L T+ +S+ P+ D D +L D I +DK+ + L + + T + + +L Sbjct: 157 VDALDSTQSVVSIFEPVYNTDGDELYLLDQIKDDKDEIERLSNYM------TLKKSMRNL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+ +++ R+ D T E+ + +++ ++ ++E AI LK Sbjct: 211 KGKEKDIIQKRY----YQDKTQTEIANELGISQAQVSRLEKNAIALLK 254 >gi|169629597|ref|YP_001703246.1| RNA polymerase sigma factor SigF [Mycobacterium abscessus ATCC 19977] gi|169241564|emb|CAM62592.1| Alternative sigma factor SigF [Mycobacterium abscessus] Length = 272 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 116/228 (50%), Gaps = 15/228 (6%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +E+V L L +VA+ + RG DLIQ +GL+ A +FD G F +A+ + Sbjct: 51 EEIVTRCLPLADNVARHFDRRGEDLEDLIQVARVGLLNAVNRFDPEKGASFLGFAVPTMM 110 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 + R D ++ +P +RD+ ++ R ++ +++R PT E+A +L + E V + Sbjct: 111 GEVRRHFRDHGWSLHVPRAIRDRHAQISRATAELTQELQRAPTAGELAAELGIDREEVVE 170 Query: 566 VLKI--TKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 L +P S+E P+ GD+++ HL D + ++ D A++ RE +LA+L Sbjct: 171 SLIAADAYQPQSIEAPLSHGDQESKHLSDLLGNE------DPALEHVTNREAVRPLLANL 224 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE VL +RF GM T ++ Q V++ + +I + +R L+ Sbjct: 225 PLRERTVLELRFFKGM----TQSQIAAQIGVSQMHVSRILSDTLRYLR 268 >gi|269127892|ref|YP_003301262.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Thermomonospora curvata DSM 43183] gi|268312850|gb|ACY99224.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Thermomonospora curvata DSM 43183] Length = 276 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 68/223 (30%), Positives = 114/223 (51%), Gaps = 11/223 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ E + E+VE +L LV +A+++ NRG DLIQ IGL+K+ ++FD G + Sbjct: 43 EGDPERQRVRDELVELHLPLVEYLARRFRNRGEWLDDLIQVATIGLIKSIDRFDLDRGVE 102 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA + I R D+ +R+P +++ + + ++ + R PT E+A+ Sbjct: 103 FSTYATPTIVGEIKRHFRDKGWAVRVPRRLQELKLSLTKAISDLAQREGRAPTVSELAEH 162 Query: 556 LAMPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRE 611 L M E V + L+ +SL+ P GDED + D ++ +D +++ RE Sbjct: 163 LQMSEEEVLEGLESANAYSTVSLDAPDSGDEDAPAVAD------SLGMVDDSLEGVEYRE 216 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 + +L L RE+R+L +RF M E+G Q V+R Sbjct: 217 SLKPLLEKLPAREKRILLLRFFGNMTQSQIANELGISQMHVSR 259 >gi|188090608|gb|ACD49538.1| RNA polymerase sigma factor [Xanthomonas theicola] gi|188090610|gb|ACD49539.1| RNA polymerase sigma factor [Xanthomonas theicola] gi|188090612|gb|ACD49540.1| RNA polymerase sigma factor [Xanthomonas theicola] Length = 286 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLGQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 ++L+ ++ +G L EI+ Sbjct: 123 VESLLEDYEQHKEGKKRLAEIV 144 >gi|126733180|ref|ZP_01748927.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] gi|126716046|gb|EBA12910.1| RNA polymerase sigma-32 factor [Roseobacter sp. CCS2] Length = 298 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 118/238 (49%), Gaps = 17/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHQMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ N+I R E IA L Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKNRIGALEDGDLRPENVERIANDL 166 Query: 557 AMPVEGVRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + + V + +++ SL + E + D++ED++A + D L R Sbjct: 167 GVTEQEVISMNRRLSGGDASLNATVSADGEGAAQWQDWLEDESANTAADYEASDELTARR 226 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + L RE+ +L M+ + T TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 ELLAEAMEVLNDREKDIL-MQRRLSEET-VTLEDLSGQYDVSRERIRQIEVRAFEKLQ 282 >gi|188090576|gb|ACD49522.1| RNA polymerase sigma factor [Xanthomonas translucens pv. graminis] Length = 285 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|302558487|ref|ZP_07310829.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302476105|gb|EFL39198.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 281 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 113/224 (50%), Gaps = 10/224 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G Sbjct: 47 LQDGTPEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRG 106 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA V I R D+ +R+P +++ + +S R PT E+A Sbjct: 107 VEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELA 166 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 +KLA+ E V + L+ +SL+ P D+++ + D + + D A++ R Sbjct: 167 EKLAISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYR 220 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 E+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 221 ESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 264 >gi|188090696|gb|ACD49582.1| RNA polymerase sigma factor [Xanthomonas sacchari] Length = 286 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 84/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLGQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|162454145|ref|YP_001616512.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] gi|161164727|emb|CAN96032.1| RNA polymerase sigma factor [Sorangium cellulosum 'So ce 56'] Length = 283 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 118/224 (52%), Gaps = 7/224 (3%) Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 NLR V+S+A Y G+ DLI EGN G++ A K+D G +F TYA +W++ I Sbjct: 52 NLRHVVSIAISYRRYGIPLADLIAEGNFGIVHAIRKYDPDRGNRFVTYAAYWIRAYILNH 111 Query: 512 IADQSCTIRIPVH-MRDKIHKVVRTAR-RMSNKI-KREPTPEEIAKKLAMPVEGVRKVL- 567 + + + +R K+ +R R R++ + + E +A+K P E V ++ Sbjct: 112 VIHSWSLVGVGSGPLRSKMFFRLRRERARIAGLVGEGEEGDRLLAEKFGAPAEKVLEMAH 171 Query: 568 KITKEPISLETPIGDEDTSHLGDFI--EDKNAVSPLDSAIQ-ANLRETTTRVLASLTPRE 624 ++ +SL+T + ++ L D + +D++ A + A LRE T+ + +L PRE Sbjct: 172 RLEARDVSLDTKVFEDGARSLVDTLPADDQDQEERFSRAEEGALLRERLTQAVENLDPRE 231 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ R + +L E+G++ V+RER RQ+EA+A +KL+ Sbjct: 232 RYIVETRMMADPEEELSLAEIGRRLGVSRERARQLEARAKKKLR 275 >gi|238064463|ref|ZP_04609172.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] gi|237886274|gb|EEP75102.1| sigma-70 region 2 domain-containing protein [Micromonospora sp. ATCC 39149] Length = 305 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 63/229 (27%), Positives = 115/229 (50%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 65 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 123 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E+A++L P E + Sbjct: 124 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATATLTSELSRAPTVAELAERLETPQEEI 183 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + E NA+ +D R T + +L L Sbjct: 184 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDNALESVDD------RVTISGLLHRL 237 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 238 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 282 >gi|91775055|ref|YP_544811.1| sigma 32 (RpoH) [Methylobacillus flagellatus KT] gi|91709042|gb|ABE48970.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacillus flagellatus KT] Length = 285 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 122/232 (52%), Gaps = 8/232 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LRLV S+A+ Y GL DLIQEGNIGLMKA +FD G + ++AM W Sbjct: 49 AAKTLVVSHLRLVASIARNYAGYGLPQADLIQEGNIGLMKAVRRFDPDRGVRLVSFAMHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVE 561 +K I I +++ + K+ +R+ ++ IA++L + P E Sbjct: 109 IKAEIHEYIVRNWRLVKVATTKAQRKLFFNLRSMKKGQTASLHSDEVAHIARELNVKPEE 168 Query: 562 GVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNA-VSPLDSAIQANLRETT--TRV 616 + +++ ISLE D ED +++ +A S + A +A+ TT + Sbjct: 169 VLEMEARMSGHEISLEGNADDDNEDMFSPISYLQASHAEPSEILEAQEADQLHTTGLSTA 228 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + + TL ++ ++F V+ ERIRQIE KA+++++ Sbjct: 229 LAKLDDRSRRIVEARW-LQEGHNATLHDLAEEFGVSAERIRQIEQKAMKQMR 279 >gi|239989259|ref|ZP_04709923.1| RNA polymerase sigma factor, sigma L [Streptomyces roseosporus NRRL 11379] Length = 288 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 114/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+A+ L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELARALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVIDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|330812146|ref|YP_004356608.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327380254|gb|AEA71604.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 615 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/137 (40%), Positives = 85/137 (62%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++GY+T E+N LP D EQ+ED + M+++MGINV + +D D Sbjct: 12 KELILLGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFEVAPDKDALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|160915290|ref|ZP_02077503.1| hypothetical protein EUBDOL_01299 [Eubacterium dolichum DSM 3991] gi|158433089|gb|EDP11378.1| hypothetical protein EUBDOL_01299 [Eubacterium dolichum DSM 3991] Length = 240 Score = 92.0 bits (227), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 71/241 (29%), Positives = 126/241 (52%), Gaps = 17/241 (7%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ +R G+ EA ++ VEAN LV ++ K++ NR + DL Q G IGLMKA FD Sbjct: 9 LLAAIRYGDEEAL---EQFVEANQPLVYAIVKRFHNRRISQEDLFQIGCIGLMKAIHNFD 65 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R D +IRI +++ ++++ +++ + +EPT Sbjct: 66 AAYEVKFSTYAVPIIMGEIKRFFRDDG-SIRISRSLKEGYLQMLKIKEQLTQTLGKEPTY 124 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA 607 +IA+ + + V V + + SL+ PI + D S L D +ED D ++ Sbjct: 125 AQIAQAMNIEVGEVILAFEANQFMYSLDEPIYENDGSAIVLEDRVEDPKQT---DIVMKL 181 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 +LR+ R L RE+ +L R+ + M E++ K+ +++ ++ ++E K + KL Sbjct: 182 SLRKEFAR----LEQREQLILHYRYDLNMKQ----EDIAKRLHISQVQVSRLEKKILWKL 233 Query: 668 K 668 K Sbjct: 234 K 234 >gi|188090698|gb|ACD49583.1| RNA polymerase sigma factor [Xanthomonas sacchari] Length = 285 Score = 91.7 bits (226), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 84/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 2 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 61 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + A+L PL Sbjct: 62 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLGQVQAALGAFPLA 121 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 122 VETLLEDYEQHKEGKKRLAEIV 143 >gi|294631337|ref|ZP_06709897.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292834670|gb|EFF93019.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 379 Score = 91.7 bits (226), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 115/224 (51%), Gaps = 10/224 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +++G + + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G Sbjct: 145 LKEGSPQYAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRG 204 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA V I R D+ +R+P +++ + +S R PT E+A Sbjct: 205 VEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELA 264 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 +KLA+ E V + L+ +SL+ P D+++ + D + + D A++ R Sbjct: 265 EKLAISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYR 318 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 E+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 319 ESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 362 >gi|188090494|gb|ACD49481.1| RNA polymerase sigma factor [Xanthomonas albilineans] gi|188090628|gb|ACD49548.1| RNA polymerase sigma factor [Xanthomonas albilineans] Length = 286 Score = 91.7 bits (226), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|197302592|ref|ZP_03167647.1| hypothetical protein RUMLAC_01321 [Ruminococcus lactaris ATCC 29176] gi|197298490|gb|EDY33035.1| hypothetical protein RUMLAC_01321 [Ruminococcus lactaris ATCC 29176] Length = 259 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 68/233 (29%), Positives = 119/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++E ++ NLRLV+SV K++ + DL Q G +GLMKA + FD +FSTYA+ Sbjct: 37 AREEYIKGNLRLVLSVIKRFDSSSESADDLFQIGCVGLMKAVDNFDPERLVRFSTYAVPM 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S +IR+ +RD +K + + +EPT +EIA ++ + E V Sbjct: 97 IVGEIRRYLRDNS-SIRVSRSLRDTAYKAIYAKEGYVRRYMKEPTVQEIADEIGIAKEDV 155 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ ++ D ++ D + DK N V L +++A Sbjct: 156 VFALDAVQTPMSLHEPVYNDGGDALYVMDQVSDKKNREENWVEEL--SLEA--------A 205 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++ +RF G T EV Q +++ ++ ++E A++ ++ Sbjct: 206 MERLNERERYIISLRFFEG----KTQTEVAGQIGISQAQVSRLEKNALKTMRQ 254 >gi|302542626|ref|ZP_07294968.1| putative RNA polymerase sigma factor [Streptomyces hygroscopicus ATCC 53653] gi|302460244|gb|EFL23337.1| putative RNA polymerase sigma factor [Streptomyces himastatinicus ATCC 53653] Length = 351 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 120 GSAERAELRNNLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 179 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A+ L Sbjct: 180 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQRHGRAPTVHELAEHL 239 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 A+ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 240 AISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 293 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+++L +RF M +EVG Q V+R Sbjct: 294 KPLLEDLPPREKKILLLRFFGNMTQSQIAQEVGISQMHVSR 334 >gi|297192165|ref|ZP_06909563.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197720190|gb|EDY64098.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 349 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 65/221 (29%), Positives = 112/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G + + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 118 GSPQRAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEF 177 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S + R PT E+A++L Sbjct: 178 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQQHGRSPTVHELAERL 237 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 238 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 291 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 292 KPLLEGLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 332 >gi|307578942|gb|ADN62911.1| RNA polymerase factor sigma-32 [Xylella fastidiosa subsp. fastidiosa GB514] Length = 282 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 50 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 110 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 158 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 159 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 216 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 217 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 273 Query: 665 RKLK 668 +K+K Sbjct: 274 KKMK 277 >gi|166031183|ref|ZP_02234012.1| hypothetical protein DORFOR_00869 [Dorea formicigenerans ATCC 27755] gi|166029030|gb|EDR47787.1| hypothetical protein DORFOR_00869 [Dorea formicigenerans ATCC 27755] Length = 278 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 120/233 (51%), Gaps = 22/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E ++ NLRLV+SV K++ + DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 56 AKEEYIKGNLRLVLSVIKRFHSSNENPDDLFQIGCIGLIKAINNFNTELDVKFSTYAVPM 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S +IR+ +RD +K + + REPT +EIA+++ + E + Sbjct: 116 IIGEIRRYMRDNS-SIRVSRSLRDTAYKAIYAKENYVKQNMREPTVQEIAQEIGIAKEDI 174 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNA----VSPLDSAIQANLRETTTRV 616 L + P+SL+ P+ + D ++ D I D KN V L ++QA Sbjct: 175 VYALDAIQAPMSLQEPVYSDGGDALYVMDQISDHKNKEEKWVESL--SLQA--------A 224 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++ +RF G T EV + +++ ++ ++E A+R ++ Sbjct: 225 MEHLNERERYIISLRFFDG----RTQMEVARDVGISQAQVSRLEKNALRIMRQ 273 >gi|188090538|gb|ACD49503.1| RNA polymerase sigma factor [Xanthomonas albilineans] Length = 285 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED + M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIIGMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGAFPLA 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ ++ +G L EI+ Sbjct: 123 VETLLEDYEQHKEGKKRLAEIV 144 >gi|28199909|ref|NP_780223.1| RNA polymerase factor sigma-32 [Xylella fastidiosa Temecula1] gi|28058040|gb|AAO29872.1| RNA polymerase sigma-32 factor [Xylella fastidiosa Temecula1] Length = 293 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 61 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 121 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 169 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 170 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 227 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 228 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 284 Query: 665 RKLK 668 +K+K Sbjct: 285 KKMK 288 >gi|188090526|gb|ACD49497.1| RNA polymerase sigma factor [Xanthomonas fragariae] gi|188090568|gb|ACD49518.1| RNA polymerase sigma factor [Xanthomonas fragariae] Length = 291 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNAGNSGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLAHYEAHKEGKKRLAEIV 144 >gi|299068068|emb|CBJ39282.1| RNA polymerase sigma H (sigma 32) factor; transcription of heat shock and stress proteins [Ralstonia solanacearum CMR15] Length = 306 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 74/239 (30%), Positives = 129/239 (53%), Gaps = 19/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD G + +YA+ W Sbjct: 66 AARRLVLSHLRLVVSIARQYLGYGLPHADLIQEGNVGLMKAVKRFDPDQGVRLVSYAIHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ ++ + +A++L + Sbjct: 126 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQNAHATFTSDEIDAVAQELDVKGAE 185 Query: 563 VRKV-LKITKEPISLETPIGDEDTS-----HLGDFIEDKNAV---SPLDSAIQANLRETT 613 VR++ +++ I+LE I D + S +L D + V LD +Q+ ET Sbjct: 186 VREMETRLSGGDIALEGQIDDGEESFAPIAYLADTHNEPTRVLEGRGLDR-LQSEGIETA 244 Query: 614 TRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 245 ---LAKLDDRSRRIIEARW-LHVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 299 >gi|159163074|pdb|1TTY|A Chain A, Solution Structure Of Sigma A Region 4 From Thermotoga Maritima Length = 87 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 46/78 (58%), Positives = 58/78 (74%) Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 A++ +RE +VL +L+PRE VLRMR+G+ TLEEVG+ F VTRERIRQIE KA Sbjct: 3 AMRMLMREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKA 62 Query: 664 IRKLKHPSRSKKLRSFLD 681 +RKL+HPSRSK L+S L Sbjct: 63 LRKLRHPSRSKYLKSLLS 80 >gi|329939708|ref|ZP_08289009.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329301278|gb|EGG45173.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 387 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 156 GSPEYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 215 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S R PT E+A+KL Sbjct: 216 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKL 275 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 A+ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 276 AISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 329 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 330 KPLLEDLPPREKRILLLRFFANMTQSQIAQEVGISQMHVSR 370 >gi|254804595|ref|YP_003082816.1| RNA polymerase sigma subunit [Neisseria meningitidis alpha14] gi|254668137|emb|CBA04749.1| RNA polymerase sigma subunit [Neisseria meningitidis alpha14] gi|254669711|emb|CBA03845.1| RNA polymerase sigma-32 factor [Neisseria meningitidis alpha153] gi|308388900|gb|ADO31220.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis alpha710] gi|319410084|emb|CBY90418.1| RNA polymerase sigma factor RpoH (Sigma-32) [Neisseria meningitidis WUE 2594] gi|325127782|gb|EGC50690.1| alternative sigma factor RpoH [Neisseria meningitidis N1568] gi|325129864|gb|EGC52669.1| alternative sigma factor RpoH [Neisseria meningitidis OX99.30304] gi|325131835|gb|EGC54535.1| alternative sigma factor RpoH [Neisseria meningitidis M6190] gi|325133774|gb|EGC56430.1| alternative sigma factor RpoH [Neisseria meningitidis M13399] gi|325136066|gb|EGC58676.1| alternative sigma factor RpoH [Neisseria meningitidis M0579] gi|325137885|gb|EGC60460.1| alternative sigma factor RpoH [Neisseria meningitidis ES14902] gi|325141969|gb|EGC64407.1| alternative sigma factor RpoH [Neisseria meningitidis 961-5945] gi|325144085|gb|EGC66393.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240013] gi|325197931|gb|ADY93387.1| alternative sigma factor RpoH [Neisseria meningitidis G2136] gi|325203799|gb|ADY99252.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240355] gi|325206445|gb|ADZ01898.1| alternative sigma factor RpoH [Neisseria meningitidis M04-240196] Length = 287 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 44 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 101 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QDIAD 159 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 160 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 209 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 210 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 268 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 269 EAKAMQKLR 277 >gi|121602451|ref|YP_988610.1| RNA polymerase factor sigma-32 [Bartonella bacilliformis KC583] gi|120614628|gb|ABM45229.1| RNA polymerase sigma-32 factor [Bartonella bacilliformis KC583] Length = 303 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 124/248 (50%), Gaps = 22/248 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAIGYRGYGLPMGEVISEGNIGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE-------EIAKKL 556 +K +I + ++I K ++ R++ +K++ E EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKIGTTTNQK--RLFFNLRKLKSKLQALDNGELNTEQVKEIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQA----NLR 610 + + V + SL P+ +++ S D + D+ A S I+ N R Sbjct: 167 NVTEDEVVSMNHRLSGDTSLNAPLRTNEDEHSEWQDCLVDE-ASSQEQVLIEKDELENRR 225 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A+L RE+R+ R +D TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 SLLIHAMANLNEREKRIFEAR----RLSDEVLTLEELSSEFNISRERVRQIEMRAFEKVQ 281 Query: 669 HPSRSKKL 676 R+ L Sbjct: 282 DFVRASAL 289 >gi|118591280|ref|ZP_01548678.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] gi|118435952|gb|EAV42595.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614] Length = 287 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 75/236 (31%), Positives = 127/236 (53%), Gaps = 27/236 (11%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 +++RLVI+VA ++ N GL DLIQEG++GL++AA +F+ +FSTYA WW++ +I Sbjct: 46 SHMRLVIAVASRFRNFGLSLGDLIQEGHVGLLEAAARFEPEREVRFSTYATWWIRASIQD 105 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPVEGVRKV- 566 I +R K + RR+ K+ TP E+ +K+A + GV++ Sbjct: 106 YILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLSGNQTPLTDSELHQKIADAI-GVKQSD 162 Query: 567 -----LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPL-DSAIQANL-RETTTRVL 617 +++ SL P+ D + S DF+ +PL D + ++ E R L Sbjct: 163 VALMNARLSGPDTSLNAPVTDSEGSSADRQDFLVSD---APLPDEIVTVSIDTERRQRWL 219 Query: 618 AS----LTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +S L+ RE +++R R ++ D TLE +G + +++ER+RQIE++A+ KLK Sbjct: 220 SSALEVLSERELKIVRER---RLSEDGATLESLGVKLGISKERVRQIESRAMEKLK 272 >gi|188090592|gb|ACD49530.1| RNA polymerase sigma factor [Xanthomonas fragariae] gi|188090606|gb|ACD49537.1| RNA polymerase sigma factor [Xanthomonas fragariae] Length = 291 Score = 91.7 bits (226), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNAGNSGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLAHYEAHKEGKKRLAEIV 144 >gi|258622821|ref|ZP_05717838.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM573] gi|258584882|gb|EEW09614.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM573] Length = 286 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ +S E R + + KG+ +A+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNGYPMLSADEERELAERLHYKGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + E D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAQDAAFEMSAEDDENGMA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRE--TTTRV---LASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S L ++A E TT R+ LASL R + ++R R+ + + Sbjct: 195 YTAPVLYLEDKH--SDLADNLEAENWEAHTTQRLSMALASLDERSQHIVRARW-LDDDNK 251 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ + + V+ ERIRQ+E A+RKLK Sbjct: 252 TTLQDLAEMYGVSAERIRQLEKNAMRKLK 280 >gi|71901711|ref|ZP_00683785.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] gi|71728528|gb|EAO30685.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] Length = 288 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 56 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 165 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 222 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 223 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 279 Query: 665 RKLK 668 +K+K Sbjct: 280 KKMK 283 >gi|15839280|ref|NP_299968.1| RNA polymerase factor sigma-32 [Xylella fastidiosa 9a5c] gi|9107932|gb|AAF85488.1|AE004075_3 RNA polymerase sigma-32 factor [Xylella fastidiosa 9a5c] Length = 293 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 61 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 121 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 169 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 170 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 227 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 228 ETKLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 284 Query: 665 RKLK 668 +K+K Sbjct: 285 KKMK 288 >gi|291561536|emb|CBL40335.1| RNA polymerase, sigma subunit, RpsG/SigG [butyrate-producing bacterium SS3/4] Length = 258 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 117/232 (50%), Gaps = 22/232 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV ++++ DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 ARETYIKGNLRLVLSVIQRFSGSSENLDDLFQIGCIGLIKAIDNFDLSQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + ++ + REPT EIA ++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKALSARELLTKRNLREPTIMEIADEVGISKEEI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 + + P+SL P+ + D + D I DK N V Q +L E R Sbjct: 157 TYAMDAIQSPVSLYEPVYTDGGDPLCVMDQISDKKNREENWVE------QLSLSEAMKR- 209 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE R++ MRF G T EV + +++ ++ ++E A++ +K Sbjct: 210 ---LPARERRIIDMRFFEG----KTQTEVAGEVGISQAQVSRLEKNALKAMK 254 >gi|226325489|ref|ZP_03801007.1| hypothetical protein COPCOM_03294 [Coprococcus comes ATCC 27758] gi|225206232|gb|EEG88586.1| hypothetical protein COPCOM_03294 [Coprococcus comes ATCC 27758] Length = 239 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 62/244 (25%), Positives = 126/244 (51%), Gaps = 8/244 (3%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++R+ A+ ++VE N L+ V K++ RG + DL Q G+IGL+KA +KF Sbjct: 3 HTIALIRRAHEGDENARAQLVEENTGLIWCVVKRFYGRGTEAEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D +++ +++ +K + ++ K+ REP Sbjct: 63 DLGYDVKFSTYAVPMITGEIKRFLRDDGM-LKVSRSLKEIAYKAYQAKEALTEKLGREPL 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EEIA++ + E + ++ E SL P+G +D + + +E + I + Sbjct: 122 LEEIAEETGVEKEELVMAMEAAGEVESLHRPVGMKDGNEVM-LLEKIADTGGAEEKILDH 180 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L T ++ L E ++L +R+ D T E+G++ +++ ++ ++E K ++ ++ Sbjct: 181 L--LLTELIKELKKDERKLLYLRY----FADKTQTEIGEELGISQVQVSRMEKKILKTMR 234 Query: 669 HPSR 672 ++ Sbjct: 235 EHAK 238 >gi|139436946|ref|ZP_01771106.1| Hypothetical protein COLAER_00079 [Collinsella aerofaciens ATCC 25986] gi|133776593|gb|EBA40413.1| Hypothetical protein COLAER_00079 [Collinsella aerofaciens ATCC 25986] Length = 263 Score = 91.3 bits (225), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 124/230 (53%), Gaps = 15/230 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V +++ LV +A K+ NRG DL+Q G +GL+KA ++FD G +F+T+A Sbjct: 32 AREQLVMSHMNLVRFLANKFKNRGEPLDDLMQVGYLGLLKAIDRFDPERGLEFTTFATPT 91 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + +++N+++R P EEIA+ L + V+ V Sbjct: 92 ILGEIKRHFRDKGWSVRVPRRLQELSAKVNQATDKLTNELQRSPKVEEIAEYLDVTVDEV 151 Query: 564 RKVLKITK--EPISLETPIG---DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + ++ + + +E P D+ S L + +D N + D R + Sbjct: 152 LEAMESSSAYTSVPIEAPGASDSDDAPSILDRYADDDNELDFTDD------RLVIEEAIR 205 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +PRE V+ +RF GM T E+ K+ +++ ++ ++ + ++K++ Sbjct: 206 DFSPREREVIELRFVKGM----TQIEIAKKLGISQVQVSRLLRRTLKKIQ 251 >gi|229525043|ref|ZP_04414448.1| RNA polymerase sigma factor RpoH [Vibrio cholerae bv. albensis VL426] gi|229338624|gb|EEO03641.1| RNA polymerase sigma factor RpoH [Vibrio cholerae bv. albensis VL426] Length = 286 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 74/267 (27%), Positives = 141/267 (52%), Gaps = 17/267 (6%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ +S E R + + KG+ +A+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNGYPMLSADEERELAERLHYKGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + E D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGIGMNTDHT 641 ++EDK++ + A + TT R+ LASL R + ++R R+ + + T Sbjct: 195 YTAPVLYLEDKHSDLADNLAAENWEAHTTQRLSMALASLDERSQHIVRARW-LDDDNKTT 253 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ + + V+ ERIRQ+E A+RKLK Sbjct: 254 LQDLAEMYGVSAERIRQLEKNAMRKLK 280 >gi|330447179|ref|ZP_08310829.1| alternative sigma factor RpoH [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328491370|dbj|GAA05326.1| alternative sigma factor RpoH [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 286 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 126/235 (53%), Gaps = 14/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKALVMSHLRFVVHIARGYSGYGLPIADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R +++ E +A++L + E Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKSKKRLGWFNNEEV-NMVAEQLGVEPEE 167 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGD--FIEDKN---AVSPLDSAIQANLRETTT 614 VR++ L ++ D D + + F+EDK+ A++ ++ + + + Sbjct: 168 VREMESRLAAQDPTFEMQNDDDDRDAAPMAPAYFLEDKSSDVALTYEENNWENHANNRLS 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + LASL R + ++R R+ ++ D TL+++ + V+ ERIRQ+E A++KLK Sbjct: 228 QALASLDERSQHIVRSRW---LDDDKSTLQDLADSYGVSAERIRQLEKNAMKKLK 279 >gi|302386721|ref|YP_003822543.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302197349|gb|ADL04920.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 258 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 118/228 (51%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AREDYIKGNLRLVLSVIQRFSGSNENVDDLFQIGCIGLIKAIDNFDITQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + + K +EPT EIA+++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKAIYAKENLMKKNLKEPTLMEIAEEIGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ + D + D I DK + + +L E R L Sbjct: 157 TYALDAIQSPVSLYEPVYSDGGDPLFVMDQISDKKNLEE-NWVEDISLNEAMRR----LP 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++ MRF G T EV ++ +++ ++ ++E A++ +K+ Sbjct: 212 ERERHIIDMRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKTMKN 255 >gi|71275285|ref|ZP_00651572.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Dixon] gi|71902025|ref|ZP_00684069.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] gi|71164094|gb|EAO13809.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Dixon] gi|71728204|gb|EAO30391.1| Sigma-70 region 2:Sigma-70 region 4 [Xylella fastidiosa Ann-1] Length = 288 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 56 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 165 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 222 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 223 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 279 Query: 665 RKLK 668 +K+K Sbjct: 280 KKMK 283 >gi|163759996|ref|ZP_02167080.1| RNA polymerase sigma-32 factor [Hoeflea phototrophica DFL-43] gi|162282954|gb|EDQ33241.1| RNA polymerase sigma-32 factor [Hoeflea phototrophica DFL-43] Length = 278 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/239 (30%), Positives = 121/239 (50%), Gaps = 18/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A K+ N GL DL+QEG++GL++AA +FD +FSTYA WW Sbjct: 31 ALHKITMAHMRLVISMAAKFRNFGLPMGDLVQEGHVGLLEAAARFDPEREVRFSTYATWW 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EPTPE------EIAKKL 556 ++ +I I +R K + RR+ ++ + +PT +IA L Sbjct: 91 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLAQDDPTLTDSAIHIQIADSL 148 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL-----DSAIQANLR 610 + V+ V + +++ SL P+ D ++ D ++ + PL + I R Sbjct: 149 GVHVKDVAVMDARLSGPDSSLNAPMSDGESGASSDRMDFLKSDEPLPDEQVSTIIDEERR 208 Query: 611 ET-TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L +L PRE ++R R TLE +G +++ER+RQIE +A+ KL+ Sbjct: 209 NTWLGDALNTLNPRELLIIRKRR--LAEEGATLEALGATLGISKERVRQIENRALEKLR 265 >gi|13377878|gb|AAK20883.1|AF334761_4 RNA polymerase sigma-32 [Aeromonas hydrophila] Length = 284 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 124/240 (51%), Gaps = 14/240 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ VAK Y GL DL+QEGNIGLMKA ++FD +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ + K+ +R +++ + A+ Sbjct: 103 VSFAVHWIKADIHEYVLRNWRMVKVATTKAQRKLFFNLRKSKKRLGWFSHDEVQAVAAEL 162 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQA-NLRET 612 P + +++ + + DED ++EDK+ S L + I+ N + Sbjct: 163 GVSPTDVTEMEARMSNYDQAFDLVGDDEDEGGFAPVHYLEDKS--SDLAATIENDNWDDH 220 Query: 613 TTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TR LA+L R + ++R R+ + ++ TL+E+ + V+ ER+RQ+E A++KLK Sbjct: 221 ATRRLSSALATLDERSQHIIRARW-LDDDSKTTLQELADTYGVSAERVRQLEKNALKKLK 279 >gi|83312286|ref|YP_422550.1| RNA polymerase factor sigma-32 [Magnetospirillum magneticum AMB-1] gi|82947127|dbj|BAE51991.1| DNA-directed RNA polymerase, sigma subunit [Magnetospirillum magneticum AMB-1] Length = 296 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 121/242 (50%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGN+G+M+A +FD G++ +TYAMWW Sbjct: 49 AANRLVTSHLRLVAKIAMGYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAK---KL 556 ++ AI I +++ K K+ R++ +++ + + E +AK KL Sbjct: 109 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRKLKGQMQAIEEGDMSAENVAKIATKL 166 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 + + V + + P SL P+ E D++ D + + + L R+ Sbjct: 167 EVTEDEVVTMNRRLSSPDHSLNAPVRAEGEGEWQDWLVDDHEDQETELGEREELGQRRQM 226 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 T L +L RE +L R + D TLE++ +++ ++RER+RQIE +A KL+ Sbjct: 227 LTSALEALNDRERAILIQR---RLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQKSV 283 Query: 672 RS 673 +S Sbjct: 284 KS 285 >gi|17545093|ref|NP_518495.1| RNA polymerase factor sigma-32 [Ralstonia solanacearum GMI1000] gi|17427383|emb|CAD13902.1| probable rna polymerase sigma h (sigma-32) factor transcription regulator protein [Ralstonia solanacearum GMI1000] Length = 306 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 128/237 (54%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD G + +YA+ W Sbjct: 66 AARRLVLSHLRLVVSIARQYLGYGLPHADLIQEGNVGLMKAVKRFDPDQGVRLVSYAIHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ ++ + +A++L + Sbjct: 126 IKAEMHEYILKNWRMVKVATTKAQRKLFFNLRSHKQDAHATFTSDEVDAVAQELNVKGAE 185 Query: 563 VRKV-LKITKEPISLETPIGDEDTS-----HLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 VR++ +++ I+LE I D + S +L D + V L+ + L+ E Sbjct: 186 VREMETRLSGGDIALEGQIDDGEESFAPIAYLADTHNEPTRV--LEGRGRDRLQSEGIET 243 Query: 616 VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R R++ R+ + +N D TL E+ +F V+ ERIRQIE+ A++K+K Sbjct: 244 ALAKLDDRSRRIIEARW-LHVNDDGSGGATLHELADEFGVSAERIRQIESAAMKKMK 299 >gi|307330885|ref|ZP_07610018.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306883426|gb|EFN14479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 263 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 65/222 (29%), Positives = 113/222 (50%), Gaps = 10/222 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 31 EGSTERAEMRNHLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVE 90 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 91 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQRHGRAPTVHELAEQ 150 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L++ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 151 LSISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRES 204 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+++L +RF M +EVG Q V+R Sbjct: 205 LKPLLEDLPPREKKILLLRFFGNMTQSQIAQEVGISQMHVSR 246 >gi|317499023|ref|ZP_07957304.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 5_1_63FAA] gi|291560723|emb|CBL39523.1| RNA polymerase, sigma subunit, RpoX/SigF [butyrate-producing bacterium SSC/2] gi|316893673|gb|EFV15874.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 5_1_63FAA] Length = 241 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 126/234 (53%), Gaps = 26/234 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++ N+ L+ SV +++TNRG + DL Q G+IGLMKA +KFD KFSTYA+ Sbjct: 18 AREQIILNNVGLIWSVVRRFTNRGYESEDLFQIGSIGLMKAVDKFDLSYDVKFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ ++K+++ + + +RE T EEI+ Sbjct: 78 ITGEIRRFLRDDGM-IKVSRSLKENVYKIMKAREKFCQQYQREATIEEIS---------- 126 Query: 564 RKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTT------ 614 ++ KIT+E I SLE + ++ H + +D + +S LD + N E Sbjct: 127 -EITKITREEIVTSLEAS-NEVESIHQSAYQKDGSEISLLDKLSKGENESEKVVDHVLLK 184 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L +E++++ R+ G T +E+ K F +++ ++ +IE + ++KL+ Sbjct: 185 EAMKHLEQKEQQMIYYRYFEG----KTQQEIAKIFHISQVQVSRIEKRILKKLR 234 >gi|320007063|gb|ADW01913.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 297 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 68/248 (27%), Positives = 129/248 (52%), Gaps = 22/248 (8%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 55 LQVLEEGTHEYQYARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFD 114 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+T+A+ ++ I R D + ++ +P +++ ++ + ++S K+ R+PT Sbjct: 115 LSREVEFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVELAKAKEQLSTKLDRDPTV 174 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSH----LGDFI-EDKNAVSP 600 E+A L +P +EG+ V SL+TP D D+ D + ED + Sbjct: 175 AELAAHLDLPEEEIIEGL--VAANGYSAGSLDTPNADSDSGSEQRAYADLLGEDDPGMES 232 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ NL T +L L RE +++RMRFG M T ++G + V++ + ++ Sbjct: 233 VE-----NL-HTLAPLLRQLDDRERKIVRMRFGQEM----TQAQIGAELGVSQMHVSRLL 282 Query: 661 AKAIRKLK 668 ++ +++L+ Sbjct: 283 SRIVQRLR 290 >gi|182682661|ref|YP_001830821.1| RNA polymerase factor sigma-32 [Xylella fastidiosa M23] gi|182632771|gb|ACB93547.1| RNA polymerase, sigma 32 subunit, RpoH [Xylella fastidiosa M23] Length = 288 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 125/244 (51%), Gaps = 35/244 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++AM W Sbjct: 56 AARELVHSHLRFVVRVARGYSGYGLSLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAMHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSRT--RLGWMNAEEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNA-VSPLDSAI-----------QANLR 610 + L ++ +E + +E+ + D D E+ NA SP+ I + N Sbjct: 165 ARDLNVSEREVLEMESRLSGRDIGF--DAPEEDNAPPSPVGYLIANDGDPSQAYERGNSE 222 Query: 611 ETTTRV----LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAI 664 ET R+ L+ L R +++ R+ + TD TL+E+ +++ V+ ERIRQIEA A+ Sbjct: 223 ETQLRLLQEGLSVLDTRSRDIIQRRW---LETDKKITLQELAEEYGVSAERIRQIEANAL 279 Query: 665 RKLK 668 +K+K Sbjct: 280 KKMK 283 >gi|154245929|ref|YP_001416887.1| RNA polymerase factor sigma-32 [Xanthobacter autotrophicus Py2] gi|154160014|gb|ABS67230.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthobacter autotrophicus Py2] Length = 300 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 72/241 (29%), Positives = 120/241 (49%), Gaps = 25/241 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPISEVISEGNVGLMQAVKRFEPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 ++ +I I +++ K K+ R+ ++I + PE +IA KL Sbjct: 109 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKAKSQISALEDGDLKPEHVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQA-------N 608 + + V + + SL +PI D + D++ D+ LD Q N Sbjct: 167 GVTEQDVVDMNRRLSGDASLNSPIREDSEGGEWQDWLVDER----LDQEEQLAESEELDN 222 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 R + L+ L RE R+ R ++ D TLE++ +F V+RER+RQIE +A K+ Sbjct: 223 RRAALSGALSVLNDRERRIFEAR---RLSEDPMTLEDLASEFGVSRERVRQIEVRAFEKV 279 Query: 668 K 668 + Sbjct: 280 Q 280 >gi|302554065|ref|ZP_07306407.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] gi|302471683|gb|EFL34776.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] Length = 381 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 67/221 (30%), Positives = 112/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 150 GSPEYAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEF 209 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S R PT E+A+KL Sbjct: 210 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKL 269 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 ++ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 270 SISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 323 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 324 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 364 >gi|121634509|ref|YP_974754.1| RNA polymerase factor sigma-32 [Neisseria meningitidis FAM18] gi|218767834|ref|YP_002342346.1| RNA polymerase factor sigma-32 [Neisseria meningitidis Z2491] gi|120866215|emb|CAM09955.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis FAM18] gi|121051842|emb|CAM08148.1| putative RNA polymerase sigma-32 factor [Neisseria meningitidis Z2491] gi|261392916|emb|CAX50501.1| RNA polymerase sigma factor RpoH (Sigma-32) [Neisseria meningitidis 8013] Length = 290 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 104 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QDIAD 162 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 163 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 212 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 213 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 271 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 272 EAKAMQKLR 280 >gi|167584375|ref|ZP_02376763.1| sigma 70 (RpoD) [Burkholderia ubonensis Bu] Length = 611 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 57/164 (34%), Positives = 87/164 (53%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG---------DD 82 + +I L R+RGY+T ++N LP + + ME V+ S+MG+ V + +D Sbjct: 2 RALIALGRERGYLTHADINDHLPDNFAQTAAMETIVSTFSDMGVAVYEQAPDAETLLLND 61 Query: 83 LEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + A+ S+V DS T DPVRMY+REMG+ ELL+R GEI I Sbjct: 62 ATAAVASDDQADEEAEAALSTV------DSEFGRTTDPVRMYMREMGASELLTRAGEIEI 115 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE+G M+ ++ P ++ D + G + E++D Sbjct: 116 AKRIESGLQDMIQAIAACPTVVSTILADADRIAAGELRIDELVD 159 >gi|2529275|gb|AAB81194.1| sigma factor [Geobacillus stearothermophilus] Length = 250 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/255 (27%), Positives = 125/255 (49%), Gaps = 14/255 (5%) Query: 416 ISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQ 475 + V+ G S + + + ++R+ + A+ E++E N+RLV SV +++ NRG + DL Q Sbjct: 3 VDVKQGQSPIKDQEMKELIRRSQEGDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQ 62 Query: 476 EGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRT 535 G IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 63 IGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKA 121 Query: 536 ARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIE 593 +S R PT EIA L + E V + + P S+ + D D L D I Sbjct: 122 KDELSKTRGRSPTITEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQIA 181 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 D + S D + + L RE ++ +R+ D T EV + +++ Sbjct: 182 DADEASWFDKI-------ALKKAIEELDERERLIVYLRY----YRDRTQSEVASRLGISQ 230 Query: 654 ERIRQIEAKAIRKLK 668 ++ ++E K ++ +K Sbjct: 231 VQVSRLEKKILQHIK 245 >gi|57239125|ref|YP_180261.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] gi|57161204|emb|CAH58118.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] Length = 296 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 126/240 (52%), Gaps = 13/240 (5%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+ VA + N GL ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K Sbjct: 50 KLVTSHLRLVVKVALSFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKA 109 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEG 562 +I I I+I + K+ +R ++ K T E+ IA + + + Sbjct: 110 SIKDYILKSWSCIKIGTTQAQRKLFFSLRKIKKKLLKYHNNITKEDIKMIANECSTSEQE 169 Query: 563 VRKVLK-ITKEPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRET-TTR 615 V ++ K T SL + G ++ L D I ED N + +++++ T+ Sbjct: 170 VEQMNKYFTYRDKSLNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQ 229 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 LA+L R + R I TLE + K++ +++ERIRQIE A K+K+ SK+ Sbjct: 230 ALATLNERHRDIFIRRKLI--EEPDTLEILSKKYNISKERIRQIETHAFLKVKNFVISKR 287 >gi|312134334|ref|YP_004001672.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311774385|gb|ADQ03872.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 256 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 57/190 (30%), Positives = 99/190 (52%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V +L + +AKK+ NRG+ + DL Q + L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNRHLYIAEIIAKKFVNRGIDYDDLYQVACVALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRIYETSAKIKLATEVLSTKLKRPPKVEEIAQHLNMSTEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + +S +Q E + + L+P Sbjct: 151 EVMEASNSYLPQSLDQTMYEDEEMTLGDVLGKSD-----ESILQVENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E L+ RF Sbjct: 206 FEREFLQKRF 215 >gi|295836570|ref|ZP_06823503.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295826098|gb|EDY44232.2| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 338 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 118/236 (50%), Gaps = 13/236 (5%) Query: 425 SEFRHIVSMVRKGECEASIA---KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 SE R + +R E E++ + +V +L LV +A+++ NRG DL Q IGL Sbjct: 92 SEARALFVRLRTLEPESAAYAELRNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGL 151 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +K+ ++FD G +FSTYA V I R D+ +R+P +++ + +S Sbjct: 152 IKSVDRFDPERGVEFSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTSATAELSQ 211 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVS 599 R PT E+A++L++ E V + L+ +SL+ P D+++ + D + + Sbjct: 212 LHGRSPTVHELAQRLSISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE---- 267 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 D A++ RE+ +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 268 --DEALEGVEYRESLKPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 321 >gi|15640181|ref|NP_229808.1| RNA polymerase factor sigma-32 [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121591866|ref|ZP_01679036.1| RNA polymerase sigma-32 factor [Vibrio cholerae 2740-80] gi|147674371|ref|YP_001218271.1| RNA polymerase factor sigma-32 [Vibrio cholerae O395] gi|153214854|ref|ZP_01949662.1| RNA polymerase sigma-32 factor [Vibrio cholerae 1587] gi|153803613|ref|ZP_01958199.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-3] gi|153818953|ref|ZP_01971620.1| RNA polymerase sigma-32 factor [Vibrio cholerae NCTC 8457] gi|153824136|ref|ZP_01976803.1| RNA polymerase sigma-32 factor [Vibrio cholerae B33] gi|153826296|ref|ZP_01978963.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-2] gi|153830006|ref|ZP_01982673.1| RNA polymerase sigma-32 factor [Vibrio cholerae 623-39] gi|227080385|ref|YP_002808936.1| RNA polymerase sigma-32 factor [Vibrio cholerae M66-2] gi|229508425|ref|ZP_04397929.1| RNA polymerase sigma factor RpoH [Vibrio cholerae BX 330286] gi|229508894|ref|ZP_04398384.1| RNA polymerase sigma factor RpoH [Vibrio cholerae B33] gi|229515820|ref|ZP_04405278.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TMA 21] gi|229517008|ref|ZP_04406454.1| RNA polymerase sigma factor RpoH [Vibrio cholerae RC9] gi|229520061|ref|ZP_04409489.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TM 11079-80] gi|229527110|ref|ZP_04416504.1| RNA polymerase sigma factor RpoH [Vibrio cholerae 12129(1)] gi|229606698|ref|YP_002877346.1| RNA polymerase factor sigma-32 [Vibrio cholerae MJ-1236] gi|254291956|ref|ZP_04962737.1| RNA polymerase sigma-32 factor [Vibrio cholerae AM-19226] gi|254851536|ref|ZP_05240886.1| RNA polymerase sigma-32 factor [Vibrio cholerae MO10] gi|255743901|ref|ZP_05417856.1| RNA polymerase sigma factor RpoH [Vibrio cholera CIRS 101] gi|262163699|ref|ZP_06031440.1| RNA polymerase sigma factor RpoH [Vibrio mimicus VM223] gi|262172906|ref|ZP_06040584.1| RNA polymerase sigma factor RpoH [Vibrio mimicus MB-451] gi|262190731|ref|ZP_06048960.1| RNA polymerase sigma factor RpoH [Vibrio cholerae CT 5369-93] gi|262404885|ref|ZP_06081439.1| RNA polymerase sigma factor RpoH [Vibrio sp. RC586] gi|297581813|ref|ZP_06943734.1| RNA polymerase sigma-32 factor [Vibrio cholerae RC385] gi|298501088|ref|ZP_07010888.1| alternative sigma factor RpoH [Vibrio cholerae MAK 757] gi|12644296|sp|P50511|RP32_VIBCH RecName: Full=RNA polymerase sigma-32 factor gi|9654552|gb|AAF93327.1| RNA polymerase sigma-32 factor [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121546267|gb|EAX56564.1| RNA polymerase sigma-32 factor [Vibrio cholerae 2740-80] gi|124115097|gb|EAY33917.1| RNA polymerase sigma-32 factor [Vibrio cholerae 1587] gi|124120852|gb|EAY39595.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-3] gi|126510515|gb|EAZ73109.1| RNA polymerase sigma-32 factor [Vibrio cholerae NCTC 8457] gi|126518343|gb|EAZ75566.1| RNA polymerase sigma-32 factor [Vibrio cholerae B33] gi|146316254|gb|ABQ20793.1| RNA polymerase sigma-32 factor [Vibrio cholerae O395] gi|148874491|gb|EDL72626.1| RNA polymerase sigma-32 factor [Vibrio cholerae 623-39] gi|149739964|gb|EDM54143.1| RNA polymerase sigma-32 factor [Vibrio cholerae MZO-2] gi|150422166|gb|EDN14132.1| RNA polymerase sigma-32 factor [Vibrio cholerae AM-19226] gi|227008273|gb|ACP04485.1| RNA polymerase sigma-32 factor [Vibrio cholerae M66-2] gi|227011849|gb|ACP08059.1| RNA polymerase sigma-32 factor [Vibrio cholerae O395] gi|229335341|gb|EEO00824.1| RNA polymerase sigma factor RpoH [Vibrio cholerae 12129(1)] gi|229342849|gb|EEO07839.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TM 11079-80] gi|229346071|gb|EEO11043.1| RNA polymerase sigma factor RpoH [Vibrio cholerae RC9] gi|229347083|gb|EEO12044.1| RNA polymerase sigma factor RpoH [Vibrio cholerae TMA 21] gi|229354011|gb|EEO18944.1| RNA polymerase sigma factor RpoH [Vibrio cholerae B33] gi|229354698|gb|EEO19620.1| RNA polymerase sigma factor RpoH [Vibrio cholerae BX 330286] gi|229369353|gb|ACQ59776.1| RNA polymerase sigma factor RpoH [Vibrio cholerae MJ-1236] gi|254847241|gb|EET25655.1| RNA polymerase sigma-32 factor [Vibrio cholerae MO10] gi|255738384|gb|EET93774.1| RNA polymerase sigma factor RpoH [Vibrio cholera CIRS 101] gi|261893982|gb|EEY39968.1| RNA polymerase sigma factor RpoH [Vibrio mimicus MB-451] gi|262027915|gb|EEY46579.1| RNA polymerase sigma factor RpoH [Vibrio mimicus VM223] gi|262033375|gb|EEY51884.1| RNA polymerase sigma factor RpoH [Vibrio cholerae CT 5369-93] gi|262348969|gb|EEY98108.1| RNA polymerase sigma factor RpoH [Vibrio sp. RC586] gi|297533907|gb|EFH72747.1| RNA polymerase sigma-32 factor [Vibrio cholerae RC385] gi|297540122|gb|EFH76183.1| alternative sigma factor RpoH [Vibrio cholerae MAK 757] gi|327483048|gb|AEA77455.1| RNA polymerase sigma factor RpoH [Vibrio cholerae LMA3894-4] Length = 286 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 77/269 (28%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ +S E R + + KG+ +A+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNGYPMLSADEERELAERLHYKGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + E D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRE--TTTRV---LASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S L ++A E TT R+ LASL R + ++R R+ + + Sbjct: 195 YTAPVLYLEDKH--SDLADNLEAENWEAHTTQRLSMALASLDERSQHIVRARW-LDDDNK 251 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ + + V+ ERIRQ+E A+RKLK Sbjct: 252 TTLQDLAEMYGVSAERIRQLEKNAMRKLK 280 >gi|182434526|ref|YP_001822245.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|178463042|dbj|BAG17562.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] Length = 300 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 127/245 (51%), Gaps = 16/245 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 58 LQLLEEGTHEHQYARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFD 117 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+T+A+ ++ I R D + ++ +P +++ + + ++S ++ R+PT Sbjct: 118 LSREVEFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVDLAKAKEQLSGELDRDPTV 177 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 +E+A L +P +EG+ V SL+TP D D+ D + D + Sbjct: 178 KELAAHLDLPEEEIIEGL--VAANGYSAGSLDTPSADSDSGQEQRAYAD--VLGEADPGM 233 Query: 606 QA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + NL T +L L RE R+++MRFG M T ++G + V++ + ++ ++ Sbjct: 234 ETVENL-HTLAPLLDQLDERERRIVQMRFGAEM----TQSQIGAELGVSQMHVSRLLSRI 288 Query: 664 IRKLK 668 +++L+ Sbjct: 289 VQQLR 293 >gi|227823295|ref|YP_002827267.1| RNA polymerase factor sigma-32 [Sinorhizobium fredii NGR234] gi|227342296|gb|ACP26514.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium fredii NGR234] Length = 301 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 124/246 (50%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVMSEGNVGLMQAVKKFEPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ RR+ +I+ + PE EIA L Sbjct: 109 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALDEGDLKPEQVKEIATTL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + + V + + SL PI + D+ D++ D++ + + I+ + ++ Sbjct: 167 KVSEDEVVSMNRRLSGDASLNAPIKASEGDSGQWQDWLVDEHD-NQEEILIEQDELDSRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LAS L RE R+ R TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 ALLASAMKVLNDRERRIFEARRLT--EEPVTLEELSTEFDISRERVRQIEVRAFEKVQEA 283 Query: 671 SRSKKL 676 R L Sbjct: 284 VRKAAL 289 >gi|304387988|ref|ZP_07370160.1| DNA-directed RNA polymerase sigma subunit RpoH [Neisseria meningitidis ATCC 13091] gi|304337987|gb|EFM04125.1| DNA-directed RNA polymerase sigma subunit RpoH [Neisseria meningitidis ATCC 13091] Length = 290 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 104 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QDIAD 162 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 163 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 212 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 213 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 271 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 272 EAKAMQKLR 280 >gi|269958772|ref|YP_003328559.1| RNA polymerase sigma-32 factor [Anaplasma centrale str. Israel] gi|269848601|gb|ACZ49245.1| RNA polymerase sigma-32 factor [Anaplasma centrale str. Israel] Length = 307 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 69/236 (29%), Positives = 126/236 (53%), Gaps = 22/236 (9%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+ VA + N GL ++LI EGNIGLM+A ++F+ LG + +TYA+WW+K Sbjct: 68 KLVTSHLRLVVKVAMGFKNYGLPLMELIMEGNIGLMQAVKRFNPDLGSRLATYAVWWIKA 127 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP------EEIAKKLAMPV 560 +I I IR+ K K+ + R++ ++ T + IA++ A Sbjct: 128 SIKDYILRSWSCIRVGTTQAQK--KLFFSLRKIKKRLLGCGTSMTQKEVKTIAEECATSE 185 Query: 561 EGVRKVLK-ITKEPISLETPIGDEDTSHLGDFI------EDKNAVSPLDSAIQANLRETT 613 E V ++ + +SL P+ E + L D + ++ ++ +SAI+ ++ + Sbjct: 186 EEVERMDRFFASRDVSLNEPVHGESSVELQDLVPSSLPSQEAMYLADEESAIKKSMFDAA 245 Query: 614 TRVLASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++L R + R R TLE++ +++ V++ER+RQIE +A+ K+K Sbjct: 246 ---LSTLDHRHRDIFTRRRL---QERPDTLEKLSEKYGVSKERVRQIELQALCKIK 295 >gi|167636574|ref|ZP_02394868.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Bacillus anthracis str. A0442] gi|167527997|gb|EDR90803.1| RNA polymerase sigma-G factor (Stage III sporulation protein G) [Bacillus anthracis str. A0442] Length = 211 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 59/175 (33%), Positives = 96/175 (54%), Gaps = 8/175 (4%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNDEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR+ + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRVSRSL 118 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 RD +K ++ ++ + +EPT +IAK L + E + L ++P+SL PI Sbjct: 119 RDIAYKALQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPI 173 >gi|33151352|ref|NP_872705.1| RNA polymerase factor sigma-32 [Haemophilus ducreyi 35000HP] gi|33147572|gb|AAP95094.1| RNA polymerase sigma-32 factor [Haemophilus ducreyi 35000HP] Length = 319 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 70/275 (25%), Positives = 145/275 (52%), Gaps = 22/275 (8%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS +++ N+ ++ E +++E R E A K+++ +++R VI +A+ Sbjct: 51 LDSYIRMANQYPILTAEQEKTLAE--------RYYYDEDVDAAKQLILSHMRFVIHIARG 102 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA ++FD +G + ++A+ WVK I + +++ Sbjct: 103 YMGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHWVKAEIHEYVLKNWRIVKVA 162 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ +++ E +++A+ L + E VR++ ++T + + + Sbjct: 163 TTKAQR--KLFFNLRKNKHRLAWFNEDEIQQVAQDLGVSTEEVREMESRMTGQDVGFDIS 220 Query: 580 IGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFG 633 +ED S + ++ED ++ + + + E T ++ LA+L R + +++ R+ Sbjct: 221 -ANEDESEVYVPSMYLEDNSSNFADELEEEQHTGEATAKLAYALATLDERSQDIIKTRW- 278 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + N TL E+ ++ ++ ER+RQ+E A++K+K Sbjct: 279 LDENKA-TLHELAAKYSISAERVRQLENAALKKIK 312 >gi|54307376|ref|YP_128396.1| RNA polymerase factor sigma-32 [Photobacterium profundum SS9] gi|46911796|emb|CAG18594.1| putative RNA polymerase sigma-32 factor [Photobacterium profundum SS9] Length = 282 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 75/279 (26%), Positives = 142/279 (50%), Gaps = 22/279 (7%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A +DS ++ N +S E ++E H G+ EA+ K +V +++R V+ V Sbjct: 9 AGSLDSYIQTVNRHPMLSAEQEKELAERLHY-----DGDIEAA---KGLVMSHMRFVVHV 60 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + + Sbjct: 61 ARGYSGYGLPIADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIV 120 Query: 520 RIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISL 576 ++ R + ++ +R+ E E +A++L + VR++ ++ + + Sbjct: 121 KVATTKAQRKLFFNLRKSKKRLGWFNNAE--VEMVAEQLGVNPSEVREMESRLAAQDPAF 178 Query: 577 ETPIGDED----TSHLGDFIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 E P D+D + F+EDK+ A+S ++ + + + LA L R + ++R Sbjct: 179 ELPNEDDDRDAGYTAPVYFLEDKSSDVALSYEENNWENHTNNRLSNALAGLDERSQHIVR 238 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ T TL+++ + ++ ER+RQ+E A++KLK Sbjct: 239 SRWLDDEKT--TLQDLANHYGISAERVRQLEKNAMKKLK 275 >gi|319781136|ref|YP_004140612.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167024|gb|ADV10562.1| RNA polymerase sigma factor RpoH [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 303 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 121/247 (48%), Gaps = 18/247 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E + A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G+ Sbjct: 39 RYAEHEDTSAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K +I I +++ K ++ R++ KI+ + Sbjct: 99 RLATYAMWWIKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKVKGKIQALDDGDLKPD 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 EIA +L + V + + SL PI + ++ D++ D + S + I Sbjct: 157 QIAEIATRLNVSEAEVVSMNRRLSGDASLNAPIRASEGESGEWQDWLVDDHE-SQEEMLI 215 Query: 606 QA----NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + N R + LA L RE R+ R TLEE+ +F ++RER+RQIE Sbjct: 216 EQDELENRRGMLSGALAVLNERERRIFEARR--LAEEPLTLEELSSEFDISRERVRQIEV 273 Query: 662 KAIRKLK 668 +A K++ Sbjct: 274 RAFEKVQ 280 >gi|302036735|ref|YP_003797057.1| RNA polymerase, sigma 32 (sigma H) factor [Candidatus Nitrospira defluvii] gi|300604799|emb|CBK41131.1| RNA polymerase, sigma 32 (sigma H) factor [Candidatus Nitrospira defluvii] Length = 340 Score = 91.3 bits (225), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 73/232 (31%), Positives = 128/232 (55%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++ ANLR+ +S+A +Y + G +DLIQEGN+GL++A +KFD +F YA WW Sbjct: 98 AAMKLILANLRVSVSIASEYLHTGADHMDLIQEGNVGLLQAIKKFDPTKNVRFYAYAAWW 157 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE---PTPEEIAKKLAMPV 560 + I R + + I++ + K+ ++ K++RE P + +A +L + Sbjct: 158 ARAYILRYLLNTYRLIKVGTTQDQR--KLFYNLKKEKAKLEREGFAPDSKLLADRLNVRE 215 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHLGDFI--EDKNAVSPL-DSAIQANLRETTTRV 616 V ++ ++ +SL+ PIG E+ L D + ++ A L D+ ++A R Sbjct: 216 RDVIEMDQRLGSWELSLDQPIGQENDGTLMDILPAHEQPADERLADTQLKALFRRKLAEF 275 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L REE +LR R I T TLE++G ++ +T+ER RQ+EA+ I++L+ Sbjct: 276 TKTLDEREEDILRNR--ILSETPLTLEDMGAKYGITKERTRQLEARIIKRLR 325 >gi|89068061|ref|ZP_01155478.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89046300|gb|EAR52357.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 281 Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 117/244 (47%), Gaps = 34/244 (13%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL IS+A K+ G DLIQE ++GLMKAA+KFD G +FSTYA+WW+K + Sbjct: 35 LITAYMRLAISMAAKFRRYGAPMNDLIQEASLGLMKAADKFDPDRGVRFSTYAVWWIKAS 94 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + ++R ++ R A I R+ E IA ++ + Sbjct: 95 IQDYVMRNWSMVRTGSTSSQKSLFFNLRRVQARLEREAAASGAPIDRQKMREMIAAEVGV 154 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL-DSAIQA--------- 607 P+ V + +++ SL ED E + + L D +QA Sbjct: 155 PLHDVEMMEGRLSGSDYSLNATQSAED--------EGREWIEALEDDGMQAAEKVENSHD 206 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAI 664 LR L+ L RE +++ R + D TLE +G + +++ER+RQ+EA A Sbjct: 207 IDTLRHWLLNALSQLNERERFIVKER---KLRDDPRTLESLGDELGLSKERVRQLEAAAF 263 Query: 665 RKLK 668 K++ Sbjct: 264 GKMR 267 >gi|282863440|ref|ZP_06272499.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561775|gb|EFB67318.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 288 Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 113/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ K+ R PT E+AK L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQKLDRSPTVPELAKALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DAALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|114707401|ref|ZP_01440298.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] gi|114537282|gb|EAU40409.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] Length = 304 Score = 91.3 bits (225), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 125/247 (50%), Gaps = 18/247 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G+ Sbjct: 40 RYAEHDDRNAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE 550 + +TYAMWW+K +I I +++ K ++ R+M ++I+ + P+ Sbjct: 100 RLATYAMWWIKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSRIQALEDGDLNPD 157 Query: 551 ---EIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 +IA +L + + V + + SL +P+ + ++ D++ D+N A Sbjct: 158 QVKQIATQLGVSDDEVISMNRRLSGDASLNSPLRATEGESGEWQDWLVDENESQEDVLAQ 217 Query: 606 QANL---RETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEA 661 Q L R R + L RE R+ R ++ D TLE + +F ++RER+RQIE Sbjct: 218 QDELDQRRGMLKRAMGILNDRERRIFEAR---RLSEDPITLEALSGEFDISRERVRQIEV 274 Query: 662 KAIRKLK 668 +A K++ Sbjct: 275 RAFEKVQ 281 >gi|260774824|ref|ZP_05883726.1| RNA polymerase sigma factor [Vibrio coralliilyticus ATCC BAA-450] gi|260609249|gb|EEX35404.1| RNA polymerase sigma factor [Vibrio coralliilyticus ATCC BAA-450] Length = 285 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 78/277 (28%), Positives = 141/277 (50%), Gaps = 24/277 (8%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E ++E H GE EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRTVNGYPMLTAEEERGLAERLHY-----NGEIEAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + E Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAQDAAFEMQ 185 Query: 580 IGDEDT--SHLGD--FIEDKNAVSPLDSAIQANLRETTTR----VLASLTPREERVLRMR 631 D+D+ S+ ++EDK A D+ AN T L+SL R + ++R R Sbjct: 186 NDDDDSGVSYTAPMLYLEDK-ASDVADNVEAANWEAHTNNRLSLALSSLDERSQHIVRSR 244 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + TL+E+ + + V+ ERIRQ+E A++KLK Sbjct: 245 W--LEDNKSTLQELAETYSVSAERIRQLEKNAMKKLK 279 >gi|310642622|ref|YP_003947380.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309247572|gb|ADO57139.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 251 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 128/246 (52%), Gaps = 17/246 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + ++++ + G+ +A ++ +V +N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 16 TEVKRLIALSQSGDNDA---RETLVNSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKS 72 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD KFSTYA+ + I R + D T+++ +++ +KV + +S ++ Sbjct: 73 VDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKETANKVRKMKDELSKRLN 131 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 R PT +E+A +L + E V + K P S+ + D D L D I D++ D Sbjct: 132 RLPTVKEVADELGVTPEDVVFAQEANKPPTSIHETVFENDGDPITLMDQIADESQERWFD 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + + L+ RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 -------KLALNEAIDGLSERERLIVYLRY----YRDQTQSEVASRLGISQVQVSRLEKK 240 Query: 663 AIRKLK 668 ++ ++ Sbjct: 241 ILQLIR 246 >gi|239993653|ref|ZP_04714177.1| RNA polymerase sigma factor [Alteromonas macleodii ATCC 27126] Length = 231 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 55/137 (40%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I +++GY+T E+N LP D V S+Q+ED + M+++MGI V + DE ++ Sbjct: 10 KLLIAKGKEQGYLTFAEVNDHLPQDIVDSDQIEDIIRMINDMGIQVSESAPDADELLMQE 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 ANADEDAAEAAAQALATVESEIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEDGIN 128 Query: 152 MMMASLCESPLTFQALI 168 + S+ E P L+ Sbjct: 129 QVQCSVAEYPEAITYLL 145 >gi|163740703|ref|ZP_02148097.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] gi|161386561|gb|EDQ10936.1| RNA polymerase sigma factor [Phaeobacter gallaeciensis 2.10] Length = 292 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 73/258 (28%), Positives = 129/258 (50%), Gaps = 28/258 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLINAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ ++ + ++IA Sbjct: 101 IKASIQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLERQAQSEGTRLDQHQLHQQIAT 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANL 609 ++ +P+ V+ + ++ SL +E+ + +ED +A + +S L Sbjct: 161 EIGVPLRDVQMMDGRLAGADFSLNAVQSAEEEGREWIEALEDDSAQAAELVEESHDTRQL 220 Query: 610 RETTTRVLASLTPRE-----ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 R + +L RE ER LR TLE +G + +++ER+RQ+EA A Sbjct: 221 RTWLVEAMQALNDRERFIITERKLR-------EKPRTLESLGTELGLSKERVRQLEAGAF 273 Query: 665 RKLKHP--SRSKKLRSFL 680 +K++ + S+++++FL Sbjct: 274 QKMRKSLETCSREVQNFL 291 >gi|319639187|ref|ZP_07993938.1| RNA polymerase sigma-32 factor [Neisseria mucosa C102] gi|317399371|gb|EFV80041.1| RNA polymerase sigma-32 factor [Neisseria mucosa C102] Length = 287 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 129/240 (53%), Gaps = 11/240 (4%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G Sbjct: 43 QKGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPSRGA 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIA 553 + ++A+ W+K I I +R+ + K+ +R+ R+ + + + +EIA Sbjct: 100 RLFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLSALSPKEA-QEIA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 L + + V ++ ++T I + DED D++ D +A + QA+ Sbjct: 159 DDLGVKLSEVLEMEQRMTGHDIGIMAENNDDEDNFAPIDWLADHDAEPSRQLSKQAHYAL 218 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIEAKA++KL+ Sbjct: 219 QTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHELAAEYGVSAERIRQIEAKAMQKLR 277 >gi|145300817|ref|YP_001143658.1| RNA polymerase sigma-32 factor [Aeromonas salmonicida subsp. salmonicida A449] gi|142853589|gb|ABO91910.1| RNA polymerase sigma-32 factor [Aeromonas salmonicida subsp. salmonicida A449] Length = 284 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 124/240 (51%), Gaps = 14/240 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ VAK Y GL DL+QEGNIGLMKA ++FD +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ + K+ +R +++ + A+ Sbjct: 103 VSFAVHWIKAEIHEYVLRNWRMVKVATTKAQRKLFFNLRKSKKRLGWFSHDEVQAVAAEL 162 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQA-NLRET 612 P + +++ + + DED ++EDK+ S L + I+ N + Sbjct: 163 GVSPTDVTEMEARMSNYDQAFDLVGDDEDEGGFAPVHYLEDKS--SDLAATIENDNWDDH 220 Query: 613 TTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TR LA+L R + ++R R+ + ++ TL+E+ + V+ ER+RQ+E A++KLK Sbjct: 221 ATRRLSSALATLDERSQHIIRARW-LDDDSKTTLQELADTYGVSAERVRQLEKNALKKLK 279 >gi|302559791|ref|ZP_07312133.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] gi|302477409|gb|EFL40502.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] Length = 301 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 71 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 130 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 131 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVPELAAVLGVS 190 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 191 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 246 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 247 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 290 >gi|190576084|ref|YP_001973929.1| RNA polymerase factor sigma-32 [Stenotrophomonas maltophilia K279a] gi|190014006|emb|CAQ47646.1| putative RNA polymerase sigma-32 factor [Stenotrophomonas maltophilia K279a] Length = 291 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 116/243 (47%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLALGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWMNAAEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----------------- 605 K L ++ +E + +E+ + D ED P +A Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDAPTDEDNEHAPPSPAAFLVADDEDPSMAYEREDS 224 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + N + LA L R ++R R+ + ++ TL+E+ ++ V+ ERIRQ+EA A++ Sbjct: 225 EDNQMQLLREGLAELDARSRDIIRRRW-LDADSKVTLQELADEYGVSAERIRQVEANALK 283 Query: 666 KLK 668 K+K Sbjct: 284 KMK 286 >gi|209519886|ref|ZP_03268669.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] gi|209499704|gb|EDZ99776.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. H160] Length = 665 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 56/164 (34%), Positives = 90/164 (54%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ S+MG+ V D + L Sbjct: 54 RALIQLGKEQGYLTHAQINDHLPDNFTQTAAIDSIVSAFSDMGVQVYEQAPDAETLLLNS 113 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 114 NAPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 167 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ PL A++ ++ DG + E++D Sbjct: 168 AKRIEDGLHEMVQAIAACPLAISAILASAQQIADGELRIDELVD 211 >gi|2529267|gb|AAB81186.1| sigma factor [Paenibacillus polymyxa] Length = 251 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 128/246 (52%), Gaps = 17/246 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + ++++ + G+ +A ++ ++ +N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 16 TEVKRLIALSQSGDNDA---RETLINSNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKS 72 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD KFSTYA+ + I R + D T+++ +++ +KV + +S + Sbjct: 73 VDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKETANKVRKMKDELSKPLN 131 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 R PT +E+A +L + E V + K P S+ + D D L D I D++ D Sbjct: 132 RLPTVKEVADELGVTPEDVVFAQEANKPPTSIHETVFENDGDPITLMDQIADESQERWFD 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + + L+ RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 -------KLALNEAIDGLSERERLIVYLRY----YRDQTQSEVASRLGISQVQVSRLEKK 240 Query: 663 AIRKLK 668 +++++ Sbjct: 241 ILQQIR 246 >gi|83955694|ref|ZP_00964274.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] gi|83839988|gb|EAP79164.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1] Length = 279 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 119/243 (48%), Gaps = 19/243 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 30 AAHRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 89 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIAKKLAMP 559 ++ +I I +++ K K+ R+ N+I + + P+ + K++A Sbjct: 90 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNRIGALEEGDLHPDNV-KRIATD 146 Query: 560 V-----EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL--- 609 + E + +++ SL +G E T D++ED++A D + L Sbjct: 147 LGVTETEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQATDYEERDELETR 206 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE L L RE+ +L R TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 207 REMLAEALDVLNDREKDILTQRRLSDQTV--TLEDLSSQYDVSRERIRQIEVRAFEKLQK 264 Query: 670 PSR 672 R Sbjct: 265 RMR 267 >gi|220929692|ref|YP_002506601.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulolyticum H10] gi|220000020|gb|ACL76621.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulolyticum H10] Length = 249 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 73/242 (30%), Positives = 127/242 (52%), Gaps = 12/242 (4%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + +++ K + A+ +VE N+ LV S+ K++ NRG + DL Q G+IGL+KA KFD Sbjct: 9 VFTLIIKAKAGDKQAQSVLVEKNVGLVWSIVKRFQNRGYEVDDLFQIGSIGLIKAINKFD 68 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R I D I++ +++ K T MS ++ REPT Sbjct: 69 TSYDVKFSTYAVPMIIGEIKRFIRDDGI-IKVSRSLKEVSSKARITKEIMSKELGREPTI 127 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVS-PLDSAIQ 606 EIA+ + + E + ++ P SL + IGD + S L D I+ N S +D + Sbjct: 128 NEIAQHMNISPEELVMAIEAGCTPESLYSTIGDGENSPILLIDRIDAANNNSCEVDLIDK 187 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 +R+ +L +L RE +++ +R+ + T ++ K +++ ++ +IE K +R Sbjct: 188 IAIRQ----ILDTLDTRERQIIILRYF----KEKTQVQIAKLLGISQVQVSRIEKKILRD 239 Query: 667 LK 668 +K Sbjct: 240 IK 241 >gi|32423705|gb|AAP81248.1| sigma-32 subunit of RNA polymerase [Candidatus Portiera aleyrodidarum] Length = 280 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 76/246 (30%), Positives = 132/246 (53%), Gaps = 23/246 (9%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ +A+ + +V +NLR VI +A+ Y+ GLQ D+IQEGN+GLMKA ++FD G + Sbjct: 38 KGDLDAA---RCLVISNLRFVIHIARSYSGYGLQNSDIIQEGNVGLMKAVKRFDPAHGVR 94 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I + K+ +R A+ N + RE + IAK Sbjct: 95 LVSFAIHWIKAEIHEYVLRNWRIVKIATTKSQRKLFFSLRCAKTSLNWLNREEI-KSIAK 153 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQA-NL- 609 L + VR++ +++ + +E ++ +++ED S D A+Q N Sbjct: 154 DLNVKPTVVREMECRLSSTDYGFDNKQKEEKNNYKNPSNYLED----SRFDPALQFENFD 209 Query: 610 --RETTTRVLASLTPREERV---LRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKA 663 R + R+ +L +ERV L+ R+ +N TL E+ + V+ ERIRQ+E +A Sbjct: 210 FERYSYRRLYVALNKLDERVRDILKQRW---LNEPKATLHELADIYGVSAERIRQLEQRA 266 Query: 664 IRKLKH 669 I+K+K+ Sbjct: 267 IKKIKN 272 >gi|84515395|ref|ZP_01002757.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] gi|84510678|gb|EAQ07133.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53] Length = 303 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 118/238 (49%), Gaps = 17/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 54 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 113 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ N+I R ++IA L Sbjct: 114 IRASIQEYILRSWSLVKMGTTSAQK--KLFFNLRKAKNRIGALEEGDLRPENVKQIANDL 171 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---R 610 + + V + +++ SL IG E + D++ED +A + D L R Sbjct: 172 GVTEDEVISMNRRLSGGDASLNAQIGSDGEGSMQWQDWLEDDSANTAADYEEHDELDARR 231 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L PRE+ +L R + T TLE++ ++ V+RERIRQIE +A KL+ Sbjct: 232 ALLVEAMTLLNPREKDILVQR-RLAEET-VTLEDLSARYEVSRERIRQIEVRAFEKLQ 287 >gi|332286014|ref|YP_004417925.1| RNA polymerase sigma-32 factor [Pusillimonas sp. T7-7] gi|330429967|gb|AEC21301.1| RNA polymerase sigma-32 factor [Pusillimonas sp. T7-7] Length = 293 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 71/232 (30%), Positives = 120/232 (51%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 61 AARQLITSHLRLVVSIARQYLGYGLAHADLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 120 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I I +++ + K+ RRM + T + EIA++L + E Sbjct: 121 IKAEIHEYIVRNWRLVKVATTKAQR--KLFFNLRRMRPDGQTLDTEQVNEIARELNVRPE 178 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL----DSAIQANLRETTTRV 616 V ++ ++++ +LE+ DED ++ D+ P A A Sbjct: 179 DVSEMEVRMSGREFALESN-DDEDGYAPIAYLSDEGQQEPSRVLERRAYDALQGSGLADA 237 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R R+++ R+ + TL E+ +F V+ ERIRQIEA A +KL+ Sbjct: 238 LDVLDERSRRIVQARW-LQDEGGATLHELAAEFGVSAERIRQIEAAAFKKLR 288 >gi|10952458|gb|AAG24943.1|AF128845_2 RpoH [Sinorhizobium meliloti] Length = 301 Score = 90.9 bits (224), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 122/246 (49%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ RR+ +I+ + PE EIA L Sbjct: 109 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALDEGDLKPEQVKEIATTL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + + I+ + E+ Sbjct: 167 KVSEEEVVSMNRRLSGDASLNAPIKASEGDSGQWQDWLVDDHD-NQEQILIEQDELESRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 ALLANAMKVLNDRERRIFEARRLT--EEPITLEDLSTEFDISRERVRQIEVRAFEKVQEA 283 Query: 671 SRSKKL 676 R L Sbjct: 284 VRKAAL 289 >gi|311898315|dbj|BAJ30723.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 360 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 10/227 (4%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S + +G E + ++V ++ LV +A+++ NRG DL Q IGL+K+ ++FD Sbjct: 123 LSELPEGSAERVEIRNQLVRMHIPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDH 182 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +FSTYA + I R D+ +R+P +++ + +S + R PT Sbjct: 183 ERGVEFSTYATPTIVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATSELSQRHGRSPTVH 242 Query: 551 EIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA- 607 E+A+ L + E V + L+ +SL+ P D+++ + D + D A++ Sbjct: 243 ELAEHLGISEEDVLEGLESANAYSTLSLDVPDSDDESPAVAD------TLGATDEALEGV 296 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+ +LA L PRE+++L +RF M EVG Q V+R Sbjct: 297 EYRESLKPLLAQLPPREQKILVLRFFRNMTQSQIAAEVGISQMHVSR 343 >gi|284990614|ref|YP_003409168.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Geodermatophilus obscurus DSM 43160] gi|284063859|gb|ADB74797.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Geodermatophilus obscurus DSM 43160] Length = 360 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 62/211 (29%), Positives = 111/211 (52%), Gaps = 11/211 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE +L LV A++++NRG F DL+Q G +GL+ A ++FD G +F ++A+ + Sbjct: 140 LVEEHLPLVRHFARRFSNRGEPFDDLLQVGTLGLIAAIDRFDPTRGVEFLSFAVPTITGE 199 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R DQ ++R+P +++ + ++ K R PTP E+A+ L +P V + L Sbjct: 200 IKRHFRDQGWSVRVPRRLQELHLSLNAAVGELAQKNGRAPTPSELAEHLGIPRAEVLEGL 259 Query: 568 KITK--EPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPR 623 + SL+ + G++D+ L + ++ DSA++ RE+ +LA++ R Sbjct: 260 AVANAYRSSSLDERLSGEDDSPTLAATLGEE------DSALEGVEYRESLQPLLATIPAR 313 Query: 624 EERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 E R+L +RF M ++G Q V+R Sbjct: 314 ERRILILRFFGNMTQSQIAADIGISQMHVSR 344 >gi|88705470|ref|ZP_01103181.1| RNA polymerase sigma-32 factor [Congregibacter litoralis KT71] gi|88700560|gb|EAQ97668.1| RNA polymerase sigma-32 factor [Congregibacter litoralis KT71] Length = 338 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 122/234 (52%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V +A+ Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 104 AARELVMSHLRFVAHIARSYRGYGLAEADLIQEGNVGLMKAVKRFDPTKGVRLVSFAVHW 163 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+A++ + + + +A L + V+ Sbjct: 164 IKAEIHEYILRNWRIVKIATTKAQRKLFFNLRSAKKSLAWLSADEA-KAVADDLGVDVQE 222 Query: 563 VRKV-LKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPL----DSAIQANLRETTTR 615 V ++ +++ ++ + P+G DE+ + + +V P +S QA+ + Sbjct: 223 VHRMEGRLSSHDVAFDAPVGADDEEGWQAPQYYLEDQSVDPATNVENSEWQADSQAQLHA 282 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A L R +L R+ + D TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 283 AIAELDERSRNILAQRW---LTDDKATLHELAAEYDVSAERIRQLEQAAMKKIR 333 >gi|10129883|dbj|BAB13517.1| sigma factor [Sinorhizobium meliloti] Length = 301 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 122/246 (49%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ RR+ +I+ + PE EIA L Sbjct: 109 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALDEGDLKPEQVKEIATTL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + + I+ + E+ Sbjct: 167 KVSEEKVVSMNRRLSGDASLNAPIKASEGDSGQWQDWLVDDHD-NQEQILIEQDELESRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 GLLANAMKVLNDRERRIFEARRLT--EEPITLEDLSTEFDISRERVRQIEVRAFEKVQEA 283 Query: 671 SRSKKL 676 R L Sbjct: 284 VRKAAL 289 >gi|298500980|ref|ZP_07010781.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MAK 757] gi|297540228|gb|EFH76288.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MAK 757] Length = 408 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 27 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 86 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 87 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 145 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 146 INQVQSAIAEYPGTIPYIL 164 >gi|187922577|ref|YP_001894219.1| RNA polymerase factor sigma-32 [Burkholderia phytofirmans PsJN] gi|187713771|gb|ACD14995.1| RNA polymerase, sigma 32 subunit, RpoH [Burkholderia phytofirmans PsJN] Length = 311 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 123/250 (49%), Gaps = 42/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + + +V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA ++FD + +YAM W Sbjct: 72 SARRLVLSHLRLVVSIARNYLGYGLPHADLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHW 131 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ TP++I + Sbjct: 132 IKAEIHEYILRNWRMVKVATTKAQRKLFFNLRSHKQGLGAF----TPDQI--------DD 179 Query: 563 VRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-- 619 + K L + +E +S +ET + D + G + + A +P+ A A+ T VLAS Sbjct: 180 LAKELNVKREEVSEMETRLSGGDIALEGQVEDGEEAYAPI--AYLADSHSEPTAVLASRQ 237 Query: 620 ---------------LTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ R+ G G +T H E+ +F V+ ERIRQ Sbjct: 238 RDKLHSDGIASALDALDARSRRIIEARWLKVEDDGSGGSTLH---ELADEFGVSAERIRQ 294 Query: 659 IEAKAIRKLK 668 IEA A++K++ Sbjct: 295 IEASAMKKMR 304 >gi|317163755|gb|ADV07296.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae TCDC-NG08107] Length = 287 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 44 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 101 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNVLSPKEA-QDIAD 159 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 160 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 209 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 210 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 268 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 269 EAKAMQKLR 277 >gi|225389920|ref|ZP_03759644.1| hypothetical protein CLOSTASPAR_03670 [Clostridium asparagiforme DSM 15981] gi|225044021|gb|EEG54267.1| hypothetical protein CLOSTASPAR_03670 [Clostridium asparagiforme DSM 15981] Length = 258 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 120/232 (51%), Gaps = 22/232 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGL+KA + FD KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSGNQENIDDLFQIGCIGLIKAIDNFDITQNVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + +++ +EPT EIA+++ + E + Sbjct: 98 ILGEVRRYLRDNN-SIRVSRSLRDTAYKAIYAREQLTRLNSKEPTLAEIAQEIGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ + D ++ D I DK N V L +L E R Sbjct: 157 TYALDAIQTPVSLYEPVYTDGGDPLYVMDQISDKKNLEENWVEDL------SLGEAMKR- 209 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE ++ +RF G T EV ++ +++ ++ ++E A++ +K Sbjct: 210 ---LPERERHIIDLRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKTMK 254 >gi|254473077|ref|ZP_05086475.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] gi|211957798|gb|EEA93000.1| alternative sigma factor RpoH [Pseudovibrio sp. JE062] Length = 297 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 71/240 (29%), Positives = 119/240 (49%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 48 AAEKLVNSHLRLVAKIAMGYRGYGLPLGEVISEGNVGLMQAVKRFEPDKGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K ++ RR+ KI+ R ++IA L Sbjct: 108 IKASIQEYILRTWSLVKMGTTANQK--RLFFNLRRVKGKIQAFEDGDLRPEQVQQIATTL 165 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + V + + SL P+ + ++S D++ D S A+ A E Sbjct: 166 GVTENEVVSMNRRLGGDSSLNAPLRSSEGESSEWQDWLVDD---SESQEAVLAEQEEYDV 222 Query: 615 R------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R ++ L RE R+ R + N TLEE+ +F V+RER+RQIE +A K++ Sbjct: 223 RRDMLKNAMSVLNERETRIFEAR-RLSENPI-TLEELSTEFGVSRERVRQIEVRAFEKVQ 280 >gi|153827661|ref|ZP_01980328.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] gi|149737861|gb|EDM52766.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2] Length = 305 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 53/140 (37%), Positives = 87/140 (62%), Gaps = 3/140 (2%) Query: 31 WKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEG 88 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 9 LKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALS 68 Query: 89 SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 69 DDTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIED 127 Query: 149 GRAMMMASLCESPLTFQALI 168 G + +++ E P T ++ Sbjct: 128 GINQVQSAIAEYPGTIPYIL 147 >gi|114763110|ref|ZP_01442536.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601] gi|114544163|gb|EAU47172.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601] Length = 298 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 116/234 (49%), Gaps = 17/234 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW++ + Sbjct: 53 LVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRAS 112 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKLAMPV 560 I I +++ K K+ R+ ++I R E IA L + Sbjct: 113 IQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKSRIGALEDGDLRPEHVERIATDLGVTH 170 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL---RETTT 614 + V + +++ SL +G +D S + D++ED++A D A + L RE T Sbjct: 171 DEVISMNRRLSGGDASLNATVGSDDESSMQWQDWLEDESADQAGDYAERNELEARRELLT 230 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE +L R TLEE+ + V+RERIRQIE +A KL+ Sbjct: 231 EAMDVLNERERDILTQRRLAEQPV--TLEELSGVYDVSRERIRQIEVRAFEKLQ 282 >gi|163744692|ref|ZP_02152052.1| RNA polymerase sigma-32 factor [Oceanibulbus indolifex HEL-45] gi|161381510|gb|EDQ05919.1| RNA polymerase sigma-32 factor [Oceanibulbus indolifex HEL-45] Length = 292 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 73/255 (28%), Positives = 128/255 (50%), Gaps = 22/255 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 41 ALHRLITAYMRLAISMAGKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 100 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A + + + + I+ Sbjct: 101 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREASAVGETLDKHQLRQMIST 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSAIQ---A 607 ++ +P+ V + +++ SL ED ++IE D++A + Q A Sbjct: 161 EIGVPLHDVEMMEGRLSGSDYSLNATQSAEDEGR--EWIEALADESAQAAERVEEQHDTA 218 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LR + L+ RE+ ++R R + TLE +G + +++ER+RQ+EA A K+ Sbjct: 219 QLRNWLLTAMQGLSDREQFIVRER--KLRDPSRTLESLGDELSLSKERVRQLEAAAFGKM 276 Query: 668 KHP--SRSKKLRSFL 680 + +S+++ +FL Sbjct: 277 RKSLEMQSREVFAFL 291 >gi|84393530|ref|ZP_00992284.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] gi|84375809|gb|EAP92702.1| RNA polymerase sigma factor [Vibrio splendidus 12B01] Length = 291 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/278 (26%), Positives = 141/278 (50%), Gaps = 26/278 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E ++E H KGE +A+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRSANSYPMLTPEEERGLAERLHY-----KGEIDAA---KGLILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 68 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + E P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAQDATFEAP 185 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTR-----VLASLTPREERVLRM 630 + D+D ++EDK S + ++A E+ T L SL R + ++R Sbjct: 186 MDDDDGGSAYTAPVYYLEDK--ASDVAETVEAANWESHTNNRLGLALKSLDERSQHIVRS 243 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + TL+++ + ++ ER+RQ+E A++KLK Sbjct: 244 RWLD--DNKSTLQDLADTYSISAERVRQLEKNAMKKLK 279 >gi|240013602|ref|ZP_04720515.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae DGI18] gi|240112396|ref|ZP_04726886.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] gi|240120672|ref|ZP_04733634.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID24-1] gi|268598456|ref|ZP_06132623.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] gi|268582587|gb|EEZ47263.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae MS11] Length = 290 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 131/239 (54%), Gaps = 11/239 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 104 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNVLSPKEA-QDIAD 162 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANL--- 609 L + + V ++ ++T I++ T DED+ D++ D ++ + QA+ Sbjct: 163 DLGVKLSEVLEMEQRMTGHDIAIMTDNSDDEDSFAPIDWLADHDSEPSRQLSKQAHYALQ 222 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E LA L R R++ R+ + + TL ++ ++ V+ ERIRQIEAKA++KL+ Sbjct: 223 TEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQIEAKAMQKLR 280 >gi|254476880|ref|ZP_05090266.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. R11] gi|214031123|gb|EEB71958.1| RNA polymerase, sigma 32 subunit, RpoH [Ruegeria sp. R11] Length = 292 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 76/255 (29%), Positives = 129/255 (50%), Gaps = 30/255 (11%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW+K + Sbjct: 45 LINAYMRLAISMASKFRRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWWIKAS 104 Query: 508 ITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 I + +R + +MR ++ R A ++ + ++IA ++ + Sbjct: 105 IQDYVMRNWSMVRTGSTSSQKSLFFNMRRVQAQLEREAAASGEQLDQHQLHQKIATEIGV 164 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL--DSAIQANLRETT-- 613 P+ V+ + +++ SL ED E + + L DSA A L E + Sbjct: 165 PLRDVQMMDGRLSGADFSLNAVQSAED--------EGREWIEALEDDSAQAAELVEESHD 216 Query: 614 TRVLASLTPREERVL--RMRFGIG----MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 TR L + + L R RF I + TLE +G + +++ER+RQ+EA A +K+ Sbjct: 217 TRQLRTWLVEAMQALNDRERFIITERKLRDKPRTLESLGDELGLSKERVRQLEAAAFQKM 276 Query: 668 KHP--SRSKKLRSFL 680 + + S+++++FL Sbjct: 277 RKSLETCSREVQNFL 291 >gi|90415296|ref|ZP_01223230.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] gi|90332619|gb|EAS47789.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2207] Length = 278 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 129/236 (54%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA +F+ G + ++A+ W Sbjct: 43 AARRMVMAHLRFVVHIARSYNGYGLPLADLIQEGNVGLMKAVRRFNPEKGVRLVSFAVHW 102 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+A++ + + + +A L + V+ Sbjct: 103 IKAEIHEFILRNWRIVKIATTKAQRKLFFNLRSAKKQLQWLSADEA-KAVADDLGVQVKD 161 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLR-ETTTRV 616 V ++ +++T + + P G++D S F+EDK ++ P A + + TR+ Sbjct: 162 VMEMEMRLTSRDPAFDAPAGEDDESSSFQAPVYFLEDK-SMDPAQLAENDDWEVDNNTRL 220 Query: 617 LASLTPREER---VLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A+++ ++R +L+ R+ +N TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 221 IAAVSDLDDRSRDILQRRW---LNDAKATLHELAAEYGVSAERIRQLEKNAMKKVR 273 >gi|15966479|ref|NP_386832.1| RNA polymerase factor sigma-32 [Sinorhizobium meliloti 1021] gi|307300484|ref|ZP_07580264.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] gi|307318349|ref|ZP_07597784.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|15075750|emb|CAC47305.1| RNA polymerase sigma factor (Sigma-32) [Sinorhizobium meliloti 1021] gi|306896031|gb|EFN26782.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti AK83] gi|306904650|gb|EFN35234.1| RNA polymerase, sigma 32 subunit, RpoH [Sinorhizobium meliloti BL225C] Length = 301 Score = 90.9 bits (224), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 74/246 (30%), Positives = 122/246 (49%), Gaps = 18/246 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPDRGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ RR+ +I+ + PE EIA L Sbjct: 109 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQALDEGDLKPEQVKEIATTL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + D+ D++ D + + I+ + E+ Sbjct: 167 KVSEEEVVSMNRRLSGDASLNAPIKASEGDSGQWQDWLVDDHD-NQEQILIEQDELESRR 225 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 +LA+ L RE R+ R TLE++ +F ++RER+RQIE +A K++ Sbjct: 226 ALLANAMKVLNDRERRIFEARRLT--EEPITLEDLSTEFDISRERVRQIEVRAFEKVQEA 283 Query: 671 SRSKKL 676 R L Sbjct: 284 VRKAAL 289 >gi|188090598|gb|ACD49533.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. phaseoli] gi|188090644|gb|ACD49556.1| RNA polymerase sigma factor [Xanthomonas codiaei] gi|188090646|gb|ACD49557.1| RNA polymerase sigma factor [Xanthomonas codiaei] Length = 291 Score = 90.5 bits (223), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090580|gb|ACD49524.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. manihotis] gi|188090650|gb|ACD49559.1| RNA polymerase sigma factor [Xanthomonas populi] Length = 291 Score = 90.5 bits (223), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090476|gb|ACD49472.1| RNA polymerase sigma factor [Xanthomonas vesicatoria ATCC 35937] gi|188090480|gb|ACD49474.1| RNA polymerase sigma factor [Xanthomonas vesicatoria] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|59800736|ref|YP_207448.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA 1090] gi|194098013|ref|YP_002001061.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae NCCP11945] gi|239998477|ref|ZP_04718401.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|240016041|ref|ZP_04722581.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA6140] gi|240080183|ref|ZP_04724726.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|240115137|ref|ZP_04729199.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|240117420|ref|ZP_04731482.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|240122976|ref|ZP_04735932.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|240125228|ref|ZP_04738114.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|240127682|ref|ZP_04740343.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|254493195|ref|ZP_05106366.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 1291] gi|260441046|ref|ZP_05794862.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae DGI2] gi|268594335|ref|ZP_06128502.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|268596331|ref|ZP_06130498.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|268600810|ref|ZP_06134977.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|268603115|ref|ZP_06137282.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|268681596|ref|ZP_06148458.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|268683824|ref|ZP_06150686.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|268686066|ref|ZP_06152928.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|291044379|ref|ZP_06570088.1| RNA polymerase sigma factor [Neisseria gonorrhoeae DGI2] gi|293399564|ref|ZP_06643717.1| alternative sigma factor RpoH [Neisseria gonorrhoeae F62] gi|59717631|gb|AAW89036.1| putative RNA polymerase sigma-32 [Neisseria gonorrhoeae FA 1090] gi|193933303|gb|ACF29127.1| RNA polymerase sigma factor [Neisseria gonorrhoeae NCCP11945] gi|226512235|gb|EEH61580.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 1291] gi|268547724|gb|EEZ43142.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae 35/02] gi|268550119|gb|EEZ45138.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae FA19] gi|268584941|gb|EEZ49617.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID18] gi|268587246|gb|EEZ51922.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID1] gi|268621880|gb|EEZ54280.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae PID332] gi|268624108|gb|EEZ56508.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-92-679] gi|268626350|gb|EEZ58750.1| RNA polymerase factor sigma-32 [Neisseria gonorrhoeae SK-93-1035] gi|291011273|gb|EFE03269.1| RNA polymerase sigma factor [Neisseria gonorrhoeae DGI2] gi|291610133|gb|EFF39255.1| alternative sigma factor RpoH [Neisseria gonorrhoeae F62] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 127/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 104 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNVLSPKEA-QDIAD 162 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 163 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 212 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 213 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 271 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 272 EAKAMQKLR 280 >gi|290796542|gb|ADD64841.1| RNA polymerase sigma factor [Xanthomonas arboricola] Length = 289 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|258625092|ref|ZP_05720011.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM603] gi|258582643|gb|EEW07473.1| RNA polymerase sigma -32 factor [Vibrio mimicus VM603] Length = 286 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 76/269 (28%), Positives = 143/269 (53%), Gaps = 21/269 (7%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ +S E R + + KG+ +A+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNGYPMLSADEERELAERLHYKGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + E D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRE--TTTRV---LASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S L ++A E TT R+ LASL R + ++R R+ + + Sbjct: 195 YTAPVLYLEDKH--SDLADNLEAENWEAHTTQRLSMALASLDERSQHIVRARW-LDDDNK 251 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ + + V+ ERIRQ+E A+RKLK Sbjct: 252 TTLQDLAEMYGVSAERIRQLEKNAMRKLK 280 >gi|254477747|ref|ZP_05091133.1| alternative sigma factor RpoH [Ruegeria sp. R11] gi|214031990|gb|EEB72825.1| alternative sigma factor RpoH [Ruegeria sp. R11] Length = 298 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 73/246 (29%), Positives = 122/246 (49%), Gaps = 14/246 (5%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E +A+ A K MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ + Sbjct: 44 EQDANSAHK-MVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 TYAMWW++ +I I +++ + K+ +R A+ ++ + KK+ Sbjct: 103 TYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLHPDSVKKI 162 Query: 557 AMPV-----EGVRKVLKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL 609 A + E + +++ SL +G E + D++ED++A D + L Sbjct: 163 ATDLGVTEDEVISMNRRMSGGDASLNATVGTEGEGAMQWQDWLEDEDADQAGDYEARDEL 222 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 RE L L RE+ +L R + TLE++ Q+ V+RERIRQIE +A K Sbjct: 223 EARRELLASALEVLNDREKDILTQRRLA--DQAKTLEDLSTQYGVSRERIRQIEVRAFEK 280 Query: 667 LKHPSR 672 L+ R Sbjct: 281 LQKKMR 286 >gi|188090632|gb|ACD49550.1| RNA polymerase sigma factor [Xanthomonas melonis] gi|188090634|gb|ACD49551.1| RNA polymerase sigma factor [Xanthomonas melonis] gi|188090636|gb|ACD49552.1| RNA polymerase sigma factor [Xanthomonas melonis] gi|188090638|gb|ACD49553.1| RNA polymerase sigma factor [Xanthomonas melonis] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEIAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|323486723|ref|ZP_08092043.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323692138|ref|ZP_08106382.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323399942|gb|EGA92320.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323503825|gb|EGB19643.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 258 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 118/228 (51%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++N DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSNSSENVDDLFQIGCIGLIKAIDNFDITQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + + + +EPT EIA ++ + E + Sbjct: 98 ILGEVKRYLRDNN-SIRVSRSLRDTAYKAIYAREGLMKRNLKEPTICEIADEIGVSKESI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ + D ++ D + DK S +L E R L Sbjct: 157 TYALDAIQSPVSLYEPVYTDGGDPLYVMDQLSDKKC-SEEHWIEDISLNEAMKR----LP 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++ MRF G T EV ++ +++ ++ ++E A++ +++ Sbjct: 212 ERERHIIDMRFFEG----KTQTEVAEEIHISQAQVSRLEKSALKNMRN 255 >gi|297200783|ref|ZP_06918180.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] gi|197712353|gb|EDY56387.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] Length = 297 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 68 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 127 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 128 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVAELASVLGVS 187 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 188 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 243 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 244 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 287 >gi|188090528|gb|ACD49498.1| RNA polymerase sigma factor [Xanthomonas vesicatoria] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|212638845|ref|YP_002315365.1| sporulation sigma factor SigF [Anoxybacillus flavithermus WK1] gi|212560325|gb|ACJ33380.1| Stage II sporulation protein AC, DNA-directed RNA polymerase sporulation-specific sigma factor (sigma-F) [Anoxybacillus flavithermus WK1] Length = 247 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 123/241 (51%), Gaps = 15/241 (6%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 I ++R+ + A+ E++E N+RLV SV +++ NRG + DL Q G IGLMK+ +KFD Sbjct: 15 IKELIRRSQQGDQQARDEIIEKNMRLVWSVVQRFLNRGYEPEDLFQIGCIGLMKSVDKFD 74 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R I D ++++ +++ +K+ + +S + R PT Sbjct: 75 LSYDVKFSTYAVPMILGEIQRFIRDDG-SVKVSRSLKEIGNKIRKAKDELSKQNGRVPTV 133 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EIA+ L + E V + + P S+ + D D L D I D+ V A++ Sbjct: 134 NEIAQFLQISPEDVVLAQEAVRSPTSIHETVYENDGDPITLLDQIADEQDVWFDKIALKK 193 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + E L RE ++ +R+ D T EV + +++ ++ ++E K ++++ Sbjct: 194 AMEE--------LDERERLIVYLRY----YKDQTQSEVAARLGISQVQVSRLEKKILQQM 241 Query: 668 K 668 K Sbjct: 242 K 242 >gi|110635485|ref|YP_675693.1| RNA polymerase factor sigma-32 [Mesorhizobium sp. BNC1] gi|110286469|gb|ABG64528.1| RNA polymerase, sigma 32 subunit, RpoH [Chelativorans sp. BNC1] Length = 308 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 18/247 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G++ +TYAMWW Sbjct: 48 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K AI I +++ K ++ R++ KI+ + PE EIA +L Sbjct: 108 IKAAIQEYILRSWSLVKMGTTANQK--RLFFNLRKVKGKIQALDEGDLNPEQVSEIATRL 165 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V + + SL PI + ++ D++ D++ + + ++ + E+ Sbjct: 166 NVSEEEVISMNRRLSGDASLNAPIRATEGESGEWQDWLVDEHE-NQEEMLVEQDELESRR 224 Query: 615 RVLAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L L RE R+ R + TLEE+ +F ++RER+RQIE +A K++ Sbjct: 225 RMLEDAMDVLNDRERRIFEARR--LSDEPMTLEELSGEFDISRERVRQIEVRAFEKVQEA 282 Query: 671 SRSKKLR 677 ++ R Sbjct: 283 VKASAKR 289 >gi|239945848|ref|ZP_04697785.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|239992317|ref|ZP_04712981.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] gi|291449304|ref|ZP_06588694.1| sigma factor [Streptomyces roseosporus NRRL 15998] gi|291352251|gb|EFE79155.1| sigma factor [Streptomyces roseosporus NRRL 15998] Length = 298 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 128/245 (52%), Gaps = 16/245 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 56 LQVLEEGTHEHQYARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFD 115 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+T+A+ ++ I R D + ++ +P +++ + + ++S ++ R+PT Sbjct: 116 LSREVEFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVDLAKAKEQLSAELDRDPTV 175 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 +E+A L +P +EG+ V SL+TP D D+ D + D + Sbjct: 176 KELATHLDLPEEEIIEGL--VAANGYSAGSLDTPSADSDSGQEQRAYAD--VLGEADPGM 231 Query: 606 QA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + NL T +L L RE R+++MRFG M T ++G++ V++ + ++ ++ Sbjct: 232 ETVENL-HTLAPLLEQLDDRERRIVQMRFGAEM----TQSQIGEELGVSQMHVSRLLSRI 286 Query: 664 IRKLK 668 +++L+ Sbjct: 287 VQQLR 291 >gi|188090582|gb|ACD49525.1| RNA polymerase sigma factor [Xanthomonas oryzae pv. oryzicola] gi|188090670|gb|ACD49569.1| RNA polymerase sigma factor [Xanthomonas oryzae pv. oryzicola] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090516|gb|ACD49492.1| RNA polymerase sigma factor [Xanthomonas vasicola] gi|188090552|gb|ACD49510.1| RNA polymerase sigma factor [Xanthomonas vasicola] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090496|gb|ACD49482.1| RNA polymerase sigma factor [Xanthomonas cucurbitae] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|223041647|ref|ZP_03611844.1| RNA polymerase sigma-32 factor [Actinobacillus minor 202] gi|223017511|gb|EEF15925.1| RNA polymerase sigma-32 factor [Actinobacillus minor 202] Length = 321 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 129/234 (55%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ +++R VI +A+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 86 AAKQLILSHMRFVIHIARGYLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 VK I + +++ + K+ R+ N++ E + +A L + E Sbjct: 146 VKAEIHEYVLRNWRIVKVATTKAQR--KLFFNLRKNKNRLAWFNEEEIKRVAHDLGVSEE 203 Query: 562 GVRKV-LKITKEPISLETPIG-DEDTSHLGD-FIEDKNAVSPLDSAIQANLRETTTRVLA 618 VR++ ++T + + + P G DED ++ ++ED ++ + + + E T ++ Sbjct: 204 EVREMESRMTGQDLGFDLPSGDDEDEAYTPSMYLEDNSSNFADELEDEEHTGEATAQLAY 263 Query: 619 SLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L+ +ER +++ R+ + N TL ++ ++ ++ ER+RQ+E A++K+K+ Sbjct: 264 ALSTLDERSQDIIKTRW-LDENK-LTLHDLAAKYQISAERVRQLENAALKKIKN 315 >gi|325202493|gb|ADY97947.1| alternative sigma factor RpoH [Neisseria meningitidis M01-240149] gi|325207756|gb|ADZ03208.1| alternative sigma factor RpoH [Neisseria meningitidis NZ-05/33] Length = 287 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 70/249 (28%), Positives = 126/249 (50%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA +++ G + Sbjct: 44 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYKPGRGAR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + + ++IA Sbjct: 101 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKNLNALSPKEA-QDIAD 159 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 L + + E + +E + D + + D +D+++ +P+D Sbjct: 160 DLGVKL----------SEVLEMEQRMTGHDIAIMADNSDDEDSFAPIDWLADHDSEPSRQ 209 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 210 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 268 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 269 EAKAMQKLR 277 >gi|254525091|ref|ZP_05137146.1| alternative sigma factor RpoH [Stenotrophomonas sp. SKA14] gi|219722682|gb|EED41207.1| alternative sigma factor RpoH [Stenotrophomonas sp. SKA14] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 116/243 (47%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLALGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWMNAAEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----------------- 605 K L ++ +E + +E+ + D ED P +A Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDAPTDEDNEHAPPSPAAFLVANDEDPSMAYERADS 224 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + N + LA L R ++R R+ + ++ TL+E+ ++ V+ ERIRQ+EA A++ Sbjct: 225 EDNQMQLLREGLAELDARSRDIIRRRW-LDADSKVTLQELADEYGVSAERIRQVEANALK 283 Query: 666 KLK 668 K+K Sbjct: 284 KMK 286 >gi|188090520|gb|ACD49494.1| RNA polymerase sigma factor [Xanthomonas pisi] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090498|gb|ACD49483.1| RNA polymerase sigma factor [Xanthomonas cassavae] gi|188090624|gb|ACD49546.1| RNA polymerase sigma factor [Xanthomonas cassavae] gi|188090626|gb|ACD49547.1| RNA polymerase sigma factor [Xanthomonas cassavae] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090564|gb|ACD49516.1| RNA polymerase sigma factor [Xanthomonas cucurbitae] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TELLLADYEAHKEGKKRLAEIV 144 >gi|188090518|gb|ACD49493.1| RNA polymerase sigma factor [Xanthomonas hortorum] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|297193425|ref|ZP_06910823.1| sigma L [Streptomyces pristinaespiralis ATCC 25486] gi|197723192|gb|EDY67100.1| sigma L [Streptomyces pristinaespiralis ATCC 25486] Length = 304 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 75 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 134 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ K+ R PT E+A L + Sbjct: 135 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQKLDRSPTVPELAAVLGVS 194 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ DSA++ RE+ + Sbjct: 195 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DSALEGVEYRESLKPL 250 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 251 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 294 >gi|23015588|ref|ZP_00055360.1| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 296 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 69/237 (29%), Positives = 119/237 (50%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGN+G+M+A +FD G++ +TYAMWW Sbjct: 49 AANRLVTSHLRLVAKIAMGYRGYGLPLGELISEGNVGMMQAVRRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAK---KL 556 ++ AI I +++ K K+ R++ +++ + + E +AK KL Sbjct: 109 IRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRKLKGQMQAIEEGDMSAENVAKIATKL 166 Query: 557 AMPVEGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 + + V + + P SL P+ E D++ D + + + + R Sbjct: 167 EVTEDEVITMNRRLSSPDHSLNAPVRTEGEGEWQDWLVDDHEDQETELGEREEMGQRRGM 226 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T LA+L RE +L R + D TLE++ +++ ++RER+RQIE +A KL+ Sbjct: 227 LTSALAALNDRERAILIQR---RLTEDPATLEDLSQRYGISRERVRQIEVRAFEKLQ 280 >gi|188090562|gb|ACD49515.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. alfalfae] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090478|gb|ACD49473.1| RNA polymerase sigma factor [Xanthomonas perforans] gi|188090482|gb|ACD49475.1| RNA polymerase sigma factor [Xanthomonas perforans] gi|188090492|gb|ACD49480.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. begoniae] gi|188090506|gb|ACD49487.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. vasculorum] gi|188090510|gb|ACD49489.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. vasculorum] gi|188090530|gb|ACD49499.1| RNA polymerase sigma factor [Xanthomonas axonopodis] gi|188090540|gb|ACD49504.1| RNA polymerase sigma factor [Xanthomonas perforans] gi|188090550|gb|ACD49509.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. ricini] gi|188090566|gb|ACD49517.1| RNA polymerase sigma factor [Xanthomonas perforans] gi|188090570|gb|ACD49519.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. alfalfae] gi|188090590|gb|ACD49529.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. vasculorum] gi|188090614|gb|ACD49541.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. ricini] gi|188090620|gb|ACD49544.1| RNA polymerase sigma factor [Xanthomonas perforans] gi|188090654|gb|ACD49561.1| RNA polymerase sigma factor [Xanthomonas alfalfae subsp. citrumelonis] gi|188090656|gb|ACD49562.1| RNA polymerase sigma factor [Xanthomonas alfalfae subsp. citrumelonis] gi|188090658|gb|ACD49563.1| RNA polymerase sigma factor [Xanthomonas alfalfae subsp. citrumelonis] gi|188090666|gb|ACD49567.1| RNA polymerase sigma factor [Xanthomonas albilineans] gi|188090688|gb|ACD49578.1| RNA polymerase sigma factor [Xanthomonas perforans] Length = 291 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090464|gb|ACD49466.1| RNA polymerase sigma factor [Xanthomonas campestris pv. campestris] gi|188090522|gb|ACD49495.1| RNA polymerase sigma factor [Xanthomonas campestris pv. incanae] gi|188090532|gb|ACD49500.1| RNA polymerase sigma factor [Xanthomonas campestris pv. raphani] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGTFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TELLLSDYEAHKEGKKRLAEIV 144 >gi|262167116|ref|ZP_06034830.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27] gi|262024416|gb|EEY43103.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27] Length = 621 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAIAEYPGTIPYIL 147 >gi|188090674|gb|ACD49571.1| RNA polymerase sigma factor [Xanthomonas bromi] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090470|gb|ACD49469.1| RNA polymerase sigma factor [Xanthomonas arboricola pv. juglandis] gi|188090536|gb|ACD49502.1| RNA polymerase sigma factor [Xanthomonas arboricola pv. celebensis] gi|188090548|gb|ACD49508.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090572|gb|ACD49520.1| RNA polymerase sigma factor [Xanthomonas arboricola pv. corylina] gi|188090602|gb|ACD49535.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090648|gb|ACD49558.1| RNA polymerase sigma factor [Xanthomonas arboricola] gi|188090652|gb|ACD49560.1| RNA polymerase sigma factor [Xanthomonas arboricola] gi|188090676|gb|ACD49572.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090678|gb|ACD49573.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090680|gb|ACD49574.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090682|gb|ACD49575.1| RNA polymerase sigma factor [Xanthomonas dyei pv. dysoxyli] gi|188090684|gb|ACD49576.1| RNA polymerase sigma factor [Xanthomonas arboricola] gi|290796520|gb|ADD64830.1| RNA polymerase sigma factor [Xanthomonas dyei pv. laureliae] gi|290796522|gb|ADD64831.1| RNA polymerase sigma factor [Xanthomonas dyei pv. laureliae] gi|290796524|gb|ADD64832.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796526|gb|ADD64833.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796528|gb|ADD64834.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796530|gb|ADD64835.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796532|gb|ADD64836.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796536|gb|ADD64838.1| RNA polymerase sigma factor [Xanthomonas dyei] gi|290796540|gb|ADD64840.1| RNA polymerase sigma factor [Xanthomonas arboricola] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090554|gb|ACD49511.1| RNA polymerase sigma factor [Xanthomonas oryzae] Length = 290 Score = 90.5 bits (223), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090662|gb|ACD49565.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. aurantifolii] gi|188090664|gb|ACD49566.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. aurantifolii] Length = 287 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090512|gb|ACD49490.1| RNA polymerase sigma factor [Xanthomonas oryzae] Length = 289 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 2 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 61 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 62 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 121 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 122 TEMLLADYEAHKEGKKRLAEIV 143 >gi|188090502|gb|ACD49485.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. phaseoli] gi|188090508|gb|ACD49488.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. vignicola] gi|188090594|gb|ACD49531.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. phaseoli] gi|188090622|gb|ACD49545.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. aurantifolii] gi|188090672|gb|ACD49570.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. phaseoli] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090466|gb|ACD49467.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri] gi|188090468|gb|ACD49468.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri] gi|188090500|gb|ACD49484.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. malvacearum] gi|188090504|gb|ACD49486.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. glycines] gi|188090514|gb|ACD49491.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. cajani] gi|188090574|gb|ACD49521.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. glycines] gi|188090578|gb|ACD49523.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. malvacearum] gi|188090616|gb|ACD49542.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri] gi|188090660|gb|ACD49564.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. citri] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|27364575|ref|NP_760103.1| RNA polymerase factor sigma-32 [Vibrio vulnificus CMCP6] gi|37678299|ref|NP_932908.1| RNA polymerase factor sigma-32 [Vibrio vulnificus YJ016] gi|320154977|ref|YP_004187356.1| RNA polymerase sigma factor RpoH [Vibrio vulnificus MO6-24/O] gi|29611852|sp|Q8DD54|RP32_VIBVU RecName: Full=RNA polymerase sigma-32 factor gi|27360694|gb|AAO09630.1| alternative sigma factor RpoH [Vibrio vulnificus CMCP6] gi|37197038|dbj|BAC92879.1| RNA polymerase sigma-32 factor [Vibrio vulnificus YJ016] gi|319930289|gb|ADV85153.1| RNA polymerase sigma factor RpoH [Vibrio vulnificus MO6-24/O] Length = 285 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 133/246 (54%), Gaps = 23/246 (9%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KGE EA+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 44 KGEIEAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + ++I R + ++ +R+ E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQAN 608 ++L + VR++ ++ + + P ++D+S + ++EDK+ S + ++A Sbjct: 159 RELGVEPAEVREMESRLAAVDSTFDLPNEEDDSSSVSTAPVLYLEDKS--SDVADNLEAQ 216 Query: 609 LRETTTR-----VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAK 662 E T LASL R + ++R R+ ++ D TL+++ + + V+ ERIRQ+E Sbjct: 217 NWEAHTNNRLAMALASLDERSQHIVRSRW---LDDDKATLQDLAEMYGVSAERIRQLEKN 273 Query: 663 AIRKLK 668 A++KLK Sbjct: 274 AMKKLK 279 >gi|147674012|ref|YP_001216017.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] gi|146315895|gb|ABQ20434.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] gi|227012343|gb|ACP08553.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395] Length = 621 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 53/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K+++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSD 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 + ++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTTITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +++ E P T ++ Sbjct: 129 INQVQSAIAEYPGTIPYIL 147 >gi|188090694|gb|ACD49581.1| RNA polymerase sigma factor [Xanthomonas cynarae] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|302335912|ref|YP_003801119.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Olsenella uli DSM 7084] gi|301319752|gb|ADK68239.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Olsenella uli DSM 7084] Length = 276 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 61/232 (26%), Positives = 124/232 (53%), Gaps = 19/232 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V ++L LV +A K+ NRG DL+Q G IGL+KA ++FD G +F+T+A Sbjct: 47 AREQLVMSHLNLVRFLASKFKNRGEPLDDLVQVGTIGLIKAIDRFDPERGLEFTTFATPT 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + ++ ++R P+ EEIA L V+ V Sbjct: 107 IMGEIKRHFRDKGWSVRVPRRLQELSAKVNQVTDELTKDLQRSPSVEEIAAALDTTVDEV 166 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDF---IEDKNAVSPLDSAIQANLRETTTRV 616 + ++ + P+ P D+D + D +++ A S I+ +R+ Sbjct: 167 LEAMESSSAYSSVPLEGTGPGADDDAPSVIDHYATVDEDLAASDDRMVIEETVRD----- 221 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +PRE+ ++RMRF G+ T E+ ++ +++ ++ ++ + ++K++ Sbjct: 222 ---FSPREQEIIRMRFIEGL----TQVEIARRLGISQVQVSRLLRRTLQKVQ 266 >gi|188090556|gb|ACD49512.1| RNA polymerase sigma factor [Xanthomonas vasicola] gi|188090668|gb|ACD49568.1| RNA polymerase sigma factor [Xanthomonas vasicola] Length = 289 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 2 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 61 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 62 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 121 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 122 TEMLLADYEAHKEGKKRLAEIV 143 >gi|308273000|emb|CBX29604.1| hypothetical protein N47_J05850 [uncultured Desulfobacterium sp.] Length = 326 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 72/261 (27%), Positives = 132/261 (50%), Gaps = 24/261 (9%) Query: 424 ISEFRHIVSMVRKGECEASIAKKE---------MVEANLRLVISVAKKYTNR-GLQFLDL 473 IS++R + R+ E E +I K+ ++ +NLRLV+ +A + + DL Sbjct: 53 ISQYRL---LSREEEIELAINVKDKDDKESASKLITSNLRLVVKIAFNFQHYLANNVPDL 109 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD-KIHKV 532 IQEGNIGL+ A +K+D G KFS YA +W++ I + I + ++I + K+ Sbjct: 110 IQEGNIGLIHAVKKYDPYKGVKFSYYAAFWIRAYIFKFIMNNWDMLKIGTTQKQRKLFFN 169 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-KITKEPISLETPIGDEDTSHLGDF 591 + RR P P+ +A++L + + +++ ++ P+SL P+ ++ L + Sbjct: 170 LNKERRQITAEGLNPEPKLLAERLGVQENDIVQMIPRLDYSPLSLNQPLSEDSKECLEER 229 Query: 592 IEDKNA-----VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 ++DKNA +S L+S + NL + L + + MR I +L+ +G Sbjct: 230 VQDKNASTIDQLSVLES--KTNLERELKKFRKLLKGIKADIFDMR--IMAENPVSLQSIG 285 Query: 647 KQFCVTRERIRQIEAKAIRKL 667 ++ ++RER+RQI+ I K+ Sbjct: 286 DRYQISRERVRQIQEMIINKI 306 >gi|16079402|ref|NP_390226.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. 168] gi|221310263|ref|ZP_03592110.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. 168] gi|221314586|ref|ZP_03596391.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221319509|ref|ZP_03600803.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. JH642] gi|221323785|ref|ZP_03605079.1| sporulation sigma factor SigF [Bacillus subtilis subsp. subtilis str. SMY] gi|321311821|ref|YP_004204108.1| sporulation sigma factor SigF [Bacillus subtilis BSn5] gi|133474|sp|P07860|RPSF_BACSU RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|143611|gb|AAA22788.1| sporulation-specific sigma factor [Bacillus subtilis] gi|1304000|dbj|BAA12655.1| SpoIIAC [Bacillus subtilis] gi|2634780|emb|CAB14277.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus subtilis subsp. subtilis str. 168] gi|291484775|dbj|BAI85850.1| sporulation sigma factor SigF [Bacillus subtilis subsp. natto BEST195] gi|320018095|gb|ADV93081.1| sporulation sigma factor SigF [Bacillus subtilis BSn5] Length = 255 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 127/245 (51%), Gaps = 17/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ + G+ +A + ++E N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 18 EVKELIKQSQNGDQQA---RDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSV 74 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD +FSTYA+ + I R I D T+++ +++ +K+ R +S + R Sbjct: 75 DKFDLTYDVRFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNKIRRAKDELSKTLGR 133 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 PT +EIA L + E V + + P S+ + D D L D I D + D Sbjct: 134 VPTVQEIADHLEIEAEDVVLAQEAVRAPSSIHETVYENDGDPITLLDQIADNSEEKWFD- 192 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L+E ++ L RE+ ++ +R+ D T EV ++ +++ ++ ++E K Sbjct: 193 --KIALKEA----ISDLEEREKLIVYLRY----YKDQTQSEVAERLGISQVQVSRLEKKI 242 Query: 664 IRKLK 668 ++++K Sbjct: 243 LKQIK 247 >gi|326775053|ref|ZP_08234318.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|326655386|gb|EGE40232.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 300 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 127/245 (51%), Gaps = 16/245 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 58 LQVLEEGTHEHQYARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFD 117 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+T+A+ ++ I R D + ++ +P +++ + + ++S ++ R+PT Sbjct: 118 LSREVEFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVDLAKAKEQLSGELDRDPTV 177 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 +E+A L +P +EG+ V SL+TP D D+ D + D + Sbjct: 178 KELAAHLDLPEEEIIEGL--VAANGYSAGSLDTPSADSDSGQEQRAYAD--VLGEADPGM 233 Query: 606 QA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + NL T +L L RE R+++MRFG M T ++G + V++ + ++ ++ Sbjct: 234 ETVENL-HTLAPLLDQLDERERRIVQMRFGAEM----TQSQIGAELGVSQMHVSRLLSRI 288 Query: 664 IRKLK 668 +++L+ Sbjct: 289 VQQLR 293 >gi|240948113|ref|ZP_04752523.1| RNA polymerase factor sigma-32 [Actinobacillus minor NM305] gi|240297593|gb|EER48085.1| RNA polymerase factor sigma-32 [Actinobacillus minor NM305] Length = 321 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 129/234 (55%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ +++R VI +A+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 86 AAKQLILSHMRFVIHIARGYLGYGLPLADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 145 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 VK I + +++ + K+ R+ N++ E + +A L + E Sbjct: 146 VKAEIHEYVLRNWRIVKVATTKAQR--KLFFNLRKNKNRLAWFNEEEIKRVAHDLGVSEE 203 Query: 562 GVRKV-LKITKEPISLETPIG-DEDTSHLGD-FIEDKNAVSPLDSAIQANLRETTTRVLA 618 VR++ ++T + + + P G DED ++ ++ED ++ + + + E T ++ Sbjct: 204 EVREMESRMTGQDLGFDLPSGDDEDEAYTPSMYLEDNSSNFADELEDEEHTGEATAQLAY 263 Query: 619 SLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L+ +ER +++ R+ + N TL ++ ++ ++ ER+RQ+E A++K+K+ Sbjct: 264 ALSTLDERSQDIIKTRW-LDENK-LTLHDLAAKYQISAERVRQLENAALKKIKN 315 >gi|188090474|gb|ACD49471.1| RNA polymerase sigma factor [Xanthomonas arboricola pv. pruni] Length = 290 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|284431341|gb|ADB84485.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. vitians] Length = 294 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|269960187|ref|ZP_06174562.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3] gi|269834994|gb|EEZ89078.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3] Length = 639 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 29 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 88 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 89 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 147 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 148 INQVQSSVAEYPGTIPYIL 166 >gi|329114085|ref|ZP_08242849.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] gi|326696624|gb|EGE48301.1| RNA polymerase sigma-32 factor [Acetobacter pomorum DM001] Length = 319 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 82/316 (25%), Positives = 157/316 (49%), Gaps = 37/316 (11%) Query: 374 HQGRELDPHWVSYAKDFP-EGEWKNFVACEVD-----SILKIRNEIKS---ISVETGISI 424 H GR +P ++++FP +G ++ V+ ++ ++ + EI+ ++ E +S+ Sbjct: 2 HCGRYGNP---KHSREFPVQGSSQHMVSSVINVGPENNLSRYLQEIRKYPLLTPEEELSL 58 Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 S KG+ +A+ ++V ++LRLV +A Y GL +LI EGNIG+M+A Sbjct: 59 SRL-----WRDKGDVKAA---HQLVTSHLRLVAKIAMGYRGYGLPINELISEGNIGMMQA 110 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 ++FD G++ +TYAMWW++ AI I +++ K K+ RR+ +++ Sbjct: 111 VKRFDPEKGFRLATYAMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQ 168 Query: 545 R----EPTPEE---IAKKLAMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLGDFIEDK 595 + PE+ IA L + + V + + P SL P+ D+D+ ++D Sbjct: 169 AIDDGDLKPEQVNKIATTLGVSEQDVVDMNRRMAAPDHSLNAPMRADQDSEWQDRLVDDH 228 Query: 596 NAVSPLDSAIQ--ANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVT 652 + + + + + + + +L RE R+ R + D TLEE+ ++ ++ Sbjct: 229 TNQEDVYAENEELSGRKALLSSAMENLNERERRIFTER---RLKDDPSTLEELAHEYGIS 285 Query: 653 RERIRQIEAKAIRKLK 668 RER+RQIE +A K++ Sbjct: 286 RERVRQIEVRAFEKVQ 301 >gi|188090604|gb|ACD49536.1| RNA polymerase sigma factor [Xanthomonas campestris pv. campestris] Length = 290 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TELLLADYEAHKEGKKRLAEIV 144 >gi|188090542|gb|ACD49505.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. hederae] gi|188090558|gb|ACD49513.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. pelargonii] gi|188090560|gb|ACD49514.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. pelargonii] gi|290796546|gb|ADD64843.1| RNA polymerase sigma factor [Xanthomonas hortorum] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090642|gb|ACD49555.1| RNA polymerase sigma factor [Xanthomonas axonopodis pv. malvacearum] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|188090524|gb|ACD49496.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. taraxaci] gi|188090686|gb|ACD49577.1| RNA polymerase sigma factor [Xanthomonas gardneri ATCC 19865] gi|188090690|gb|ACD49579.1| RNA polymerase sigma factor [Xanthomonas cynarae] gi|188090692|gb|ACD49580.1| RNA polymerase sigma factor [Xanthomonas cynarae] Length = 291 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|156973168|ref|YP_001444075.1| RNA polymerase sigma factor RpoD [Vibrio harveyi ATCC BAA-1116] gi|156524762|gb|ABU69848.1| hypothetical protein VIBHAR_00848 [Vibrio harveyi ATCC BAA-1116] Length = 620 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 84/139 (60%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D+ D Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 92 SLDLASSASNSSVF--LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++ + + L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DTNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEEG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 129 INQVQSSVAEYPGTIPYIL 147 >gi|89055891|ref|YP_511342.1| RNA polymerase factor sigma-32 [Jannaschia sp. CCS1] gi|88865440|gb|ABD56317.1| RNA polymerase, sigma 32 subunit, RpoH [Jannaschia sp. CCS1] Length = 298 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 73/248 (29%), Positives = 121/248 (48%), Gaps = 15/248 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 E E + A +MV ++LRL +A Y GL ++I E N+GLM+A +KFD G++ Sbjct: 42 AEKEDTEAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKKFDPEKGFRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIK----REPTPEE 551 +TYAMWW++ AI + +++ + K+ +R A+ ++ R E Sbjct: 102 ATYAMWWIRAAIQEYVLRSWSMVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVER 161 Query: 552 IAKKLAMP-VEGVRKVLKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSA---- 604 IA L + E V +++ SL +G ED ++ D++ED++A D A Sbjct: 162 IANDLGVTEAEVVSMNRRMSGGDASLNATVGSEDEGSAQWQDWLEDEDADQATDYAERDE 221 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 Q+ + + L RE+ +L R TLE++ + V+RER+RQIE +A Sbjct: 222 FQSRM-ALMAEAMEVLNDREKDILTQRR--LQEKAVTLEDLSGVYNVSRERVRQIEVRAF 278 Query: 665 RKLKHPSR 672 KL+ R Sbjct: 279 EKLQKRMR 286 >gi|30024623|dbj|BAC75680.1| sigma L [Streptomyces griseus] Length = 288 Score = 90.5 bits (223), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 66/224 (29%), Positives = 113/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 59 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 118 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + +T+ ++ K+ R PT E+ + L + Sbjct: 119 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKTSDELAQKLDRSPTVPELVRALGVS 178 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 179 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DAALEGVEYRESLKPL 234 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 235 LAKLAPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 278 >gi|332185869|ref|ZP_08387616.1| alternative sigma factor RpoH [Sphingomonas sp. S17] gi|332014227|gb|EGI56285.1| alternative sigma factor RpoH [Sphingomonas sp. S17] Length = 301 Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 123/244 (50%), Gaps = 30/244 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G++ +TYAMWW Sbjct: 53 AAAQLVTSHLRLVAKIAMGYRGYGLPTSELISEGNIGLMQGVKKFEPDRGFRLATYAMWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEEIAKKLAMP 559 ++ +I I +++ K K+ RRM +K+ + PE++ K+A Sbjct: 113 IRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRMKSKLDAFEDGDLRPEDVT-KIATD 169 Query: 560 VEGVR--KVLKITKE-----PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + GV +V+ + + SL + ++ D++ D +PL ++ A +E Sbjct: 170 L-GVNEDEVISMNRRMAMGGDTSLNVSMREDGEGQWQDWLADD---APLQDSVVAEQQEA 225 Query: 613 TTR------VLASLTPREERVLRMRFGIGMNTD--HTLEEVGKQFCVTRERIRQIEAKAI 664 R + L RE+ +L R TD TLEE+ + + V+RER+RQIE +A Sbjct: 226 DVRHDMLVSAMDDLNDREKHILTER----RLTDDPKTLEELSQVYGVSRERVRQIEVRAF 281 Query: 665 RKLK 668 KL+ Sbjct: 282 EKLQ 285 >gi|146277611|ref|YP_001167770.1| RNA polymerase factor sigma-32 [Rhodobacter sphaeroides ATCC 17025] gi|145555852|gb|ABP70465.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sphaeroides ATCC 17025] Length = 298 Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 121/237 (51%), Gaps = 15/237 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAM 558 ++ +I I +++ + K+ +R A+ ++ R +IAK L++ Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKAKLGALEEGDLRPENVAQIAKDLSV 168 Query: 559 P-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL IG + + D++ED+++ D A + L RE Sbjct: 169 TEAEVIDMNRRLSASDASLNATIGSDGDGATQWQDWLEDEDSDQASDYAERDELEIRREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ L RE+ +L R + D TLEE+ + V+RERIRQIE +A KL+ Sbjct: 229 LAQAMSVLNDREKDILVQR---RLTDDPVTLEELSDGYGVSRERIRQIEVRAFEKLQ 282 >gi|284431339|gb|ADB84484.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. vitians] gi|284431343|gb|ADB84486.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. vitians] gi|284431345|gb|ADB84487.1| RNA polymerase sigma factor [Xanthomonas hortorum pv. vitians] Length = 294 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|261325797|ref|ZP_05964994.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261301777|gb|EEY05274.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] Length = 293 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 96 VRFSTYAFWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + + + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDIEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|223986354|ref|ZP_03636363.1| hypothetical protein HOLDEFILI_03674 [Holdemania filiformis DSM 12042] gi|223961703|gb|EEF66206.1| hypothetical protein HOLDEFILI_03674 [Holdemania filiformis DSM 12042] Length = 257 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 125/228 (54%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++ NL+LV+S+ +++ +R DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AKEKLINGNLKLVLSIVQRFAHRTENMDDLFQIGCIGLIKAIDNFDLSHEVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D IR+ H++D +KV++ + +REP+ E+A+ + + + + Sbjct: 98 IIGEIKRYLRDNQ-MIRVSRHLKDLAYKVLKEKEAFIHANQREPSLAELAEIMGVKEKDI 156 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 + L+ + +S+ PI D DT +L D I +D + + L S I L+E+ + L Sbjct: 157 AESLESLQSVVSIFEPIYNDDGDTLYLLDQIKDDHDEIGKLSSLIA--LKES----MKHL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +E +++ R+ G T E+ + +++ ++ ++E A++ LK Sbjct: 211 SDKEAQIINKRYYQG----QTQTEIASELGISQAQVSRLEKSALQCLK 254 >gi|51892950|ref|YP_075641.1| sporulation sigma factor SigF [Symbiobacterium thermophilum IAM 14863] gi|51856639|dbj|BAD40797.1| RNA polymerase sigma factor similar to B. subtilis sporulation-specific sigma-F [Symbiobacterium thermophilum IAM 14863] Length = 255 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 124/253 (49%), Gaps = 14/253 (5%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 E G E R +V++ R G+ EA + +VE NLRLV S+ +++ G DL Q G Sbjct: 9 ERGWPDEEVRRLVALARAGDKEA---RDRLVEGNLRLVRSLVSRFSASGADPEDLFQIGC 65 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+KA ++FD +FSTYA+ + I R + D +R+ ++ + R R Sbjct: 66 IGLLKAIDRFDLNYDVRFSTYAVPLIMGEIRRHLRDDG-PMRVSRSLKQLAQQARRVRER 124 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 ++ +++R+PT E+A +L + E V L + P S+ + GD D +L D + + Sbjct: 125 LAAQMERDPTVAEVAAELGVSPEEVVAALDGVRPPTSIHQTVHEGDGDPIYLLDQLAADD 184 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 + LRE L L RE V+ +RF D T EV ++ ++ Sbjct: 185 GQREGVWLDRVALREG----LNQLDERERTVILLRF----FRDKTQTEVASILGCSQVQV 236 Query: 657 RQIEAKAIRKLKH 669 ++E +A+ ++++ Sbjct: 237 SRLERRALERIRN 249 >gi|13473215|ref|NP_104782.1| RNA polymerase factor sigma-32 [Mesorhizobium loti MAFF303099] gi|14023963|dbj|BAB50568.1| sigma factor [Mesorhizobium loti MAFF303099] Length = 303 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 121/247 (48%), Gaps = 18/247 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E + A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G+ Sbjct: 39 RYAEHEDTSAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K +I I +++ K ++ R++ KI+ + Sbjct: 99 RLATYAMWWIKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKVKGKIQALDDGDLKPD 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 EIA +L + V + + SL PI + ++ D++ D + S + I Sbjct: 157 QIAEIATRLNVTEAEVVSMNRRLSGDASLNAPIRATEGESGEWQDWLVDDHE-SQEEMLI 215 Query: 606 QA----NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + N R + LA L RE R+ R TLEE+ +F ++RER+RQIE Sbjct: 216 EQDELENRRGMLSGALAVLNERERRIFEARR--LAEEPLTLEELSAEFDISRERVRQIEV 273 Query: 662 KAIRKLK 668 +A K++ Sbjct: 274 RAFEKVQ 280 >gi|188090640|gb|ACD49554.1| RNA polymerase sigma factor [Xanthomonas arboricola pv. populi] Length = 289 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TEMLLADYEAHKEGKKRLAEIV 144 >gi|260461535|ref|ZP_05809782.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] gi|259032605|gb|EEW33869.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] Length = 303 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 121/247 (48%), Gaps = 18/247 (7%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E E + A ++V ++LRLV +A Y GL ++I EGN+GLM+A +KF+ G+ Sbjct: 39 RYAEHEDTSAAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKKFEPERGF 98 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REP 547 + +TYAMWW+K +I I +++ K ++ R++ KI+ + Sbjct: 99 RLATYAMWWIKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKVKGKIQALDDGDLKPD 156 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 EIA +L + V + + SL PI + ++ D++ D + S + I Sbjct: 157 QIAEIATRLNVSEAEVVSMNRRLSGDASLNAPIRATEGESGEWQDWLVDDHE-SQEEMLI 215 Query: 606 QA----NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + N R + LA L RE R+ R TLEE+ +F ++RER+RQIE Sbjct: 216 EQDELENRRGMLSGALAVLNDRERRIFEARR--LAEEPLTLEELSAEFDISRERVRQIEV 273 Query: 662 KAIRKLK 668 +A K++ Sbjct: 274 RAFEKVQ 280 >gi|83941135|ref|ZP_00953597.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] gi|83846955|gb|EAP84830.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36] Length = 298 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 119/243 (48%), Gaps = 19/243 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIAKKLAMP 559 ++ +I I +++ K K+ R+ N+I + + P+ + K++A Sbjct: 109 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNRIGALEEGDLHPDNV-KRIATD 165 Query: 560 V-----EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL--- 609 + E + +++ SL +G E T D++ED++A D + L Sbjct: 166 LGVTETEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQATDYEERDELETR 225 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE L L RE+ +L R TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 226 REMLAEALDVLNDREKDILTQRRLSDQTV--TLEDLSSQYDVSRERIRQIEVRAFEKLQK 283 Query: 670 PSR 672 R Sbjct: 284 RMR 286 >gi|254389000|ref|ZP_05004231.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294814936|ref|ZP_06773579.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197702718|gb|EDY48530.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294327535|gb|EFG09178.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 358 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 127 GSRERAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEF 186 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S R PT E+A++L Sbjct: 187 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAERL 246 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 247 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 300 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 301 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 341 >gi|237746700|ref|ZP_04577180.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS] gi|229378051|gb|EEO28142.1| RNA polymerase primary sigma factor [Oxalobacter formigenes HOxBLS] Length = 827 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/158 (34%), Positives = 90/158 (56%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEGSE 90 K +IKL ++R ++T E+N LP + + + +E ++ ++MGI+V + D ED ++ Sbjct: 206 KMLIKLGKERSFLTYAEINDHLPDNVIDPDAIEGIISTFNDMGISVYEHAPDAEDLLLTD 265 Query: 91 DSLDLASSASNSSVFLQKRK--DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + + + S + DS T DPVRMY+REMGS+ELL+REGEI IAKRIE Sbjct: 266 NVVTVTSDEEAEAAAEAALSTVDSDFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEE 325 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T +I +++ + + E++D Sbjct: 326 GLKDMIQAISSCPTTILEIIGQAEKIRNDEIRIDEVVD 363 >gi|188090544|gb|ACD49506.1| RNA polymerase sigma factor [Xanthomonas cucurbitae] gi|188090546|gb|ACD49507.1| RNA polymerase sigma factor [Xanthomonas cucurbitae] Length = 291 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 86/142 (60%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ + +G L EI+ Sbjct: 123 TELLLADYEAHKEGKKRLAEIV 144 >gi|326443307|ref|ZP_08218041.1| sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 351 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 111/221 (50%), Gaps = 10/221 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + ++V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +F Sbjct: 120 GSRERAELRNQLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPERGVEF 179 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 STYA V I R D+ +R+P +++ + +S R PT E+A++L Sbjct: 180 STYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAERL 239 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETT 613 + E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 240 GISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESL 293 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+R+L +RF M +EVG Q V+R Sbjct: 294 KPLLEDLPPREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 334 >gi|225568653|ref|ZP_03777678.1| hypothetical protein CLOHYLEM_04731 [Clostridium hylemonae DSM 15053] gi|225162581|gb|EEG75200.1| hypothetical protein CLOHYLEM_04731 [Clostridium hylemonae DSM 15053] Length = 259 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 121/231 (52%), Gaps = 18/231 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E ++ NLRLV+SV K++ DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 38 AKEEYIKGNLRLVLSVIKRFGGSNENPDDLFQIGCIGLIKAINNFNTELDVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT +EIA+++ + E + Sbjct: 98 IIGEIRRYMRDNN-SIRVSRSLRDTAYKAIYAKENYVKRNLKEPTVQEIAEEIGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPL--DSAIQANLRETTTRVLA 618 L + P+SL+ P+ ++ D ++ D I D KN D +++A + Sbjct: 157 VFALDAIQVPMSLQEPVYNDGGDALYVMDQISDTKNKEEKWVEDLSLEA--------AME 208 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE ++++RF G T EV ++ +++ ++ ++E A+R +K Sbjct: 209 HLGERERYIIKLRFFEG----KTQMEVAEEINISQAQVSRLEKNALRVMKQ 255 >gi|330831381|ref|YP_004394333.1| RNA polymerase sigma factor [Aeromonas veronii B565] gi|328806517|gb|AEB51716.1| RNA polymerase sigma factor [Aeromonas veronii B565] Length = 284 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 128/241 (53%), Gaps = 16/241 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ VAK Y GL DL+QEGNIGLMKA ++FD +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPTVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ + K+ +R +++ + E + +A Sbjct: 103 VSFAVHWIKAEIHEYVLRNWRMVKVATTKAQRKLFFNLRKSKKRLGWLNHEEV-QAVAAD 161 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQA-NLRE 611 L + V ++ ++ + + DE+ ++EDK+ S L + I+ N + Sbjct: 162 LGVSAADVTEMEARMANYDQAFDLVGDDEEEGGFAPVHYLEDKS--SDLAATIENDNWDD 219 Query: 612 TTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 TR LA+L R + ++R R+ + ++ TL+E+ + V+ ER+RQ+E A++KL Sbjct: 220 HATRRLSSALATLDERSQHIIRARW-LDDDSKTTLQELADTYGVSAERVRQLEKNALKKL 278 Query: 668 K 668 K Sbjct: 279 K 279 >gi|296332278|ref|ZP_06874740.1| sporulation sigma factor SigF [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674979|ref|YP_003866651.1| sporulation sigma factor SigmaF [Bacillus subtilis subsp. spizizenii str. W23] gi|296150592|gb|EFG91479.1| sporulation sigma factor SigF [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305413223|gb|ADM38342.1| sporulation sigma factor SigmaF [Bacillus subtilis subsp. spizizenii str. W23] Length = 255 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 127/245 (51%), Gaps = 17/245 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ + G+ +A + ++E N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 18 EVKELIKQSQNGDQQA---RDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSV 74 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD +FSTYA+ + I R I D T+++ +++ +K+ R +S + R Sbjct: 75 DKFDLTYDVRFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNKIRRAKDELSKTLGR 133 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 PT +EIA L + E V + + P S+ + D D L D I D + D Sbjct: 134 VPTVQEIADHLEIEAEDVVLAQEAVRAPSSIHETVYENDGDPITLLDQIADNSEEKWFD- 192 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L+E ++ L RE+ ++ +R+ D T EV ++ +++ ++ ++E K Sbjct: 193 --KIALKEA----ISDLEEREKLIVYLRY----YKDQTQSEVAERLGISQVQVSRLEKKI 242 Query: 664 IRKLK 668 ++++K Sbjct: 243 LKQIK 247 >gi|319778863|ref|YP_004129776.1| RNA polymerase sigma factor RpoH [Taylorella equigenitalis MCE9] gi|317108887|gb|ADU91633.1| RNA polymerase sigma factor RpoH [Taylorella equigenitalis MCE9] Length = 292 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 71/231 (30%), Positives = 116/231 (50%), Gaps = 9/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ +LRLV+SVA++Y GL DLIQEGNIGLMKA ++FD G + T+AM W Sbjct: 58 AAQALILPHLRLVVSVARQYLGYGLPHADLIQEGNIGLMKAVKRFDVSRGVRLVTFAMHW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + ++I + + R K IAKKL + E V Sbjct: 118 IKAEIHEYVIRNWRLVKIATTKAQRKLFFNLNSLRPEGKSLDNDDIVGIAKKLNVRPEDV 177 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS--- 619 ++ K ++ I+L+T + ++D ++ D A P + + + + L S Sbjct: 178 VEMEKRMSGHDIALDTLMDEDDDYAPIQYLADDEAYEPENVMLAQEHDKLENQGLKSALD 237 Query: 620 -LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R ++ R+ ++ D TL ++ Q+ V+ ERIRQIE AI+K++ Sbjct: 238 QLDDRSRHIIESRW---LSEDKPTLHDLAAQYNVSAERIRQIENAAIKKMR 285 >gi|225628325|ref|ZP_03786359.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella ceti str. Cudo] gi|225616171|gb|EEH13219.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella ceti str. Cudo] Length = 278 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 21 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 80 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 81 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 138 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 139 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLVDDHPLQDEIA 198 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 199 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 255 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 256 ESRAMEKLK 264 >gi|312282731|dbj|BAJ34231.1| unnamed protein product [Thellungiella halophila] Length = 269 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 40/85 (47%), Positives = 58/85 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C A++++ RLV+S+A Y +GL DLIQEG+IGL++ AE+FD GYK ST Sbjct: 176 CRRREAREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPERGYKLST 235 Query: 499 YAMWWVKQAITRSIADQSCTIRIPV 523 Y WW+KQAI R+IA +S +++P+ Sbjct: 236 YVYWWIKQAILRAIAHKSRLVKLPL 260 >gi|89099055|ref|ZP_01171934.1| sporulation sigma factor SigF [Bacillus sp. NRRL B-14911] gi|89086185|gb|EAR65307.1| sporulation sigma factor SigF [Bacillus sp. NRRL B-14911] Length = 252 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/260 (26%), Positives = 131/260 (50%), Gaps = 19/260 (7%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K+ +T + E + +++K + A+ +V+ N+RLV SV +++ NRG + Sbjct: 4 EVKTDKTQTYLKDHEVKE---LIQKSQAGDQGARDTIVQKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKEMGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + + ++ R PT E++ L +P E + + + P S+ + D D L Sbjct: 120 IRKAKDELTKTFGRIPTVTELSAYLEIPPEDIILAQEAGRTPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D I+D N D A++ +RE L RE ++ +R+ D T EV + Sbjct: 180 DQIDDGNDGKWFDQIALKEAIRE--------LDERERLIVYLRY----YKDQTQSEVAAR 227 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K ++++K Sbjct: 228 LGISQVQVSRLEKKILQQMK 247 >gi|299115565|emb|CBN75768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ectocarpus siliculosus] Length = 244 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 39/65 (60%), Positives = 53/65 (81%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AKK MVEAN+R+VIS+A+KY + G+ DLIQEG++GL++A EKFD G+K STY+ WW Sbjct: 82 AKKTMVEANMRMVISIARKYQHLGVPLTDLIQEGSLGLVRAVEKFDPERGFKLSTYSAWW 141 Query: 504 VKQAI 508 ++QAI Sbjct: 142 IQQAI 146 >gi|121730259|ref|ZP_01682638.1| RNA polymerase sigma-32 factor [Vibrio cholerae V52] gi|121627991|gb|EAX60548.1| RNA polymerase sigma-32 factor [Vibrio cholerae V52] Length = 259 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 132/245 (53%), Gaps = 20/245 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ +A+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 17 KGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEMGVR 73 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + ++I R + ++ +R+ E E +A Sbjct: 74 LVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVA 131 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQAN 608 ++L + VR++ ++ + + E D++ ++EDK+ S L ++A Sbjct: 132 RELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMAYTAPVLYLEDKH--SDLADNLEAE 189 Query: 609 LRE--TTTRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 E TT R+ LASL R + ++R R+ + + TL+++ + + V+ ERIRQ+E A Sbjct: 190 NWEAHTTQRLSMALASLDERSQHIVRARW-LDDDNKTTLQDLAEMYGVSAERIRQLEKNA 248 Query: 664 IRKLK 668 +RKLK Sbjct: 249 MRKLK 253 >gi|20151162|pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti- Sigma Factor Spoiiab With The Sporulation Sigma Factor Sigmaf Length = 243 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/252 (27%), Positives = 124/252 (49%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ++ I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 7 QSPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGC 63 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 64 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDE 122 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 123 LSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQIADAD 182 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 S D + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 183 EASWFDKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVASRLGISQVQM 231 Query: 657 RQIEAKAIRKLK 668 ++E K ++ +K Sbjct: 232 SRLEKKILQHIK 243 >gi|299472120|emb|CBN77105.1| RNA polymerase sigma factor [Ectocarpus siliculosus] Length = 555 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 45/128 (35%), Positives = 81/128 (63%), Gaps = 4/128 (3%) Query: 444 AKKEMVEANLRLVISVAKKY----TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A++ +V AN+ L++ +A+++ RG D+IQEG++ +++AAE FD LGY+FSTY Sbjct: 240 AQERIVGANVGLIVVMARRHHPATMARGTITSDVIQEGSLAVLRAAETFDPRLGYRFSTY 299 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A WWV+ +TR + Q+ IR+P ++ + T + ++ R PT +EIA+++ + Sbjct: 300 AGWWVRDRVTRCVTQQARIIRLPQYVHNFRRTASMTEAALLKELGRRPTYDEIAERMRVD 359 Query: 560 VEGVRKVL 567 VE V +++ Sbjct: 360 VERVTRLM 367 >gi|317128506|ref|YP_004094788.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus cellulosilyticus DSM 2522] gi|315473454|gb|ADU30057.1| RNA polymerase, sigma 28 subunit, SigF [Bacillus cellulosilyticus DSM 2522] Length = 252 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 127/244 (52%), Gaps = 14/244 (5%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + + ++++ + A A+ ++V AN RLV SV +++ NRG + DL Q G IGL+K+ +K Sbjct: 18 KEVKRLIKEAQDGAQEARDQIVNANTRLVWSVVQRFLNRGYEADDLFQIGCIGLIKSVDK 77 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD KFSTYA+ + I R + D T+++ +++ +K+ + +S + R P Sbjct: 78 FDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSIKESANKIRKMKEELSKTLGRTP 136 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAI 605 T EIA+KL + E V + +++ S+ + D D L D I D + D Sbjct: 137 TVNEIAEKLDLTPEEVVFAQEASRQLTSIHETVYENDGDPITLLDQISDDGDMKWFD--- 193 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + LR+ + L RE+ ++ +R+ D T +V ++ +++ ++ ++E K ++ Sbjct: 194 KIALRDEIDK----LDEREKLIVYLRY----YKDQTQSQVAERLGISQVQVSRLEKKILK 245 Query: 666 KLKH 669 LK Sbjct: 246 VLKE 249 >gi|90412724|ref|ZP_01220725.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] gi|90326299|gb|EAS42718.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK] Length = 286 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 74/276 (26%), Positives = 141/276 (51%), Gaps = 22/276 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++VE ++E H G+ EA+ K +V +++R V+ VA+ Sbjct: 16 LDSYIQTVNRHPMLTVEQEKELAERLHY-----DGDIEAA---KGLVMSHMRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPMADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + E P Sbjct: 128 TTKAQRKLFFNLRKSKKRLGWFNNAE--VEMVAEQLGVNPSEVREMESRLAAQDPAFELP 185 Query: 580 IGDED----TSHLGDFIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 D+D + F+EDK A+S ++ + + + LA L R + ++R R+ Sbjct: 186 NEDDDRDAGYTAPVYFLEDKASDVALSYEENNWENHTNNRLSNALAGLDERSQHIVRSRW 245 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T TL+++ + ++ ER+RQ+E A++KLK Sbjct: 246 LDDEKT--TLQDLANHYGISAERVRQLEKNAMKKLK 279 >gi|261219345|ref|ZP_05933626.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261222881|ref|ZP_05937162.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|261315875|ref|ZP_05955072.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261316262|ref|ZP_05955459.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261322406|ref|ZP_05961603.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|265987326|ref|ZP_06099883.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|265998840|ref|ZP_06111397.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|260921465|gb|EEX88118.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260924434|gb|EEX91002.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261295096|gb|EEX98592.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261295485|gb|EEX98981.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261304901|gb|EEY08398.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|262553529|gb|EEZ09298.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|264659523|gb|EEZ29784.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] Length = 293 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|254487022|ref|ZP_05100227.1| RNA polymerase sigma-32 factor [Roseobacter sp. GAI101] gi|214043891|gb|EEB84529.1| RNA polymerase sigma-32 factor [Roseobacter sp. GAI101] Length = 277 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/261 (26%), Positives = 125/261 (47%), Gaps = 34/261 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A +RL IS+A K+ G DLIQE +GLMKAA+KFD G +FSTYA+WW Sbjct: 26 ALHRLITAYMRLAISMAGKFKRYGAPMNDLIQEAGLGLMKAADKFDPDRGVRFSTYAVWW 85 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +K +I + +R + +MR ++ R A+ + + + I+ Sbjct: 86 IKASIQDHVMRNWSMVRTGSTSSQKSLFFNMRRVQARLEREAQAAGETLDKHQLRQMIST 145 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDE------------DTSHLGDFIEDKNAVSPL 601 ++ +P+ V + +++ SL E DT+ + +E+ + + Sbjct: 146 EIGVPMHDVEMMEGRLSGSDYSLNATQSSEDEGREWIDALVDDTAQAAERVEESHDI--- 202 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 LR + +L RE+ ++R R + TLE +G++ +++ER+RQ+EA Sbjct: 203 -----VTLRNWLLGAMQALNDREQFIVRER--KLRDQPRTLESLGQELNLSKERVRQLEA 255 Query: 662 KAIRKLKHP--SRSKKLRSFL 680 A K++ ++S ++ FL Sbjct: 256 AAFAKMRKTLETQSAEVHHFL 276 >gi|85704966|ref|ZP_01036066.1| RNA polymerase sigma factor [Roseovarius sp. 217] gi|85670288|gb|EAQ25149.1| RNA polymerase sigma factor [Roseovarius sp. 217] Length = 279 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/241 (28%), Positives = 119/241 (49%), Gaps = 13/241 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 30 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWW 89 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV-- 560 ++ +I I +++ + K+ +R A+ ++ E+ KK+A + Sbjct: 90 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKAKIGALEDGDMRPEVVKKIATDLGV 149 Query: 561 ---EGVRKVLKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL---RET 612 E + ++ SL +G E + D++ED++A D + + RE Sbjct: 150 TEAEVISMNQRMAGADASLNATVGSEGEGSMQWQDWLEDEDADQAGDYERRDEMDARREL 209 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 T + L RE +L R + TLE++ ++ V+RERIRQIE +A KL+ R Sbjct: 210 LTMAMDVLNERERDILTQRR--LSDETVTLEDLSAEYDVSRERIRQIEVRAFEKLQKRMR 267 Query: 673 S 673 + Sbjct: 268 A 268 >gi|261754167|ref|ZP_05997876.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261743920|gb|EEY31846.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] Length = 293 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------RE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNCWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|163941815|ref|YP_001646699.1| sporulation sigma factor SigF [Bacillus weihenstephanensis KBAB4] gi|229013283|ref|ZP_04170424.1| RNA polymerase sigma-F factor [Bacillus mycoides DSM 2048] gi|229061746|ref|ZP_04199079.1| RNA polymerase sigma-F factor [Bacillus cereus AH603] gi|229134882|ref|ZP_04263689.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST196] gi|229168817|ref|ZP_04296536.1| RNA polymerase sigma-F factor [Bacillus cereus AH621] gi|163864012|gb|ABY45071.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|228614665|gb|EEK71771.1| RNA polymerase sigma-F factor [Bacillus cereus AH621] gi|228648557|gb|EEL04585.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST196] gi|228717492|gb|EEL69156.1| RNA polymerase sigma-F factor [Bacillus cereus AH603] gi|228748050|gb|EEL97914.1| RNA polymerase sigma-F factor [Bacillus mycoides DSM 2048] Length = 252 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +KV + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKVRKMRDELSKEFGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D++ D A++ Sbjct: 140 VAQALELTPEEVVLAQEASRAPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|225574676|ref|ZP_03783286.1| hypothetical protein RUMHYD_02753 [Blautia hydrogenotrophica DSM 10507] gi|225038103|gb|EEG48349.1| hypothetical protein RUMHYD_02753 [Blautia hydrogenotrophica DSM 10507] Length = 239 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 127/242 (52%), Gaps = 12/242 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++ + A+ + E N+ L+ S+ K++ NRG++ DL Q G+IGL+KA +KF Sbjct: 5 HTLALIARAHQGDKEARDTIFEENIGLIWSIVKRFQNRGVELEDLFQIGSIGLLKAVDKF 64 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K ++ ++ R+P Sbjct: 65 DLSYDVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKEVCYKAYLAREKLEKELGRDPQ 123 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A ++ +P E + L E SL+ I G+ + L D +E+K + + ++ Sbjct: 124 IAEMAGEIGIPQEELMMALDSNVEIESLQKTIYQGEGNDIRLIDKLEEKK--NRQEESLN 181 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L E +L LT E R++ MR+ + T E+ ++ V++ ++ ++E K +++ Sbjct: 182 RILLEE---ILGQLTVSERRLIYMRY----FQERTQTEIARELGVSQVQVSRMEKKILKR 234 Query: 667 LK 668 L+ Sbjct: 235 LR 236 >gi|290796538|gb|ADD64839.1| RNA polymerase sigma factor [Xanthomonas arboricola] Length = 286 Score = 90.1 bits (222), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/140 (40%), Positives = 84/140 (60%), Gaps = 4/140 (2%) Query: 50 NAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSSVF 105 N LP D V EQMED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 1 NDHLPDDLVDPEQMEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEAAA 60 Query: 106 LQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQ 165 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + Sbjct: 61 ALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTE 120 Query: 166 ALIIWRDELNDGTTLLREII 185 L+ + +G L EI+ Sbjct: 121 MLLADYEAHKEGKKRLAEIV 140 >gi|319404792|emb|CBI78393.1| RNA polymerase sigma-32 factor [Bartonella rochalimae ATCC BAA-1498] Length = 247 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 121/241 (50%), Gaps = 29/241 (12%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++ A++RLVIS+A ++ + DL+QEG +GL++AA +FD G +FSTYA WW++ Sbjct: 3 QIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFDPDRGVRFSTYATWWIRA 62 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRM-------SNKIKREPTPEEIAKKLAMP 559 +I I +R K + RR+ N + ++ I++KL + Sbjct: 63 SIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAQDDNTLTKQEIFRAISEKLGVS 120 Query: 560 VEGVRKV---LKITKEPISL------ETPIGDEDTSHLGDFIEDKNAV-SPLDSAIQANL 609 V V K+ T +SL ETPI D+ I+D S ++ AI Sbjct: 121 VNDVEKMDFRFSGTDNSLSLSISENGETPIAKMDS-----LIDDHPLPDSVIEQAIDGQR 175 Query: 610 R-ETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 R + L L RE ++R R +N + TLE +G++ +++ER+RQIE +A++KL Sbjct: 176 RAQWLHEALQILNERELEIIRFR---RLNEEGTTLEVLGEKLGISKERVRQIEVRALQKL 232 Query: 668 K 668 + Sbjct: 233 R 233 >gi|218710915|ref|YP_002418536.1| RNA polymerase factor sigma-32 [Vibrio splendidus LGP32] gi|218323934|emb|CAV20295.1| RNA polymerase sigma-32 factor [Vibrio splendidus LGP32] Length = 303 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 73/279 (26%), Positives = 141/279 (50%), Gaps = 26/279 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ + ++E H KGE +A+ K ++ ++LR V+ VA+ Sbjct: 34 LDSYIRSANSYPMLTPDEERGLAERLHY-----KGEIDAA---KGLILSHLRFVVHVARG 85 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I Sbjct: 86 YSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIA 145 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + ++ +R+ E E +A++L + VR++ ++ + + E P Sbjct: 146 TTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAQDATFEAP 203 Query: 580 IGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTR-----VLASLTPREERVLRM 630 + D+D ++EDK S + ++A E+ T L SL R + ++R Sbjct: 204 MDDDDGGSAYTAPVYYLEDK--ASDVAETVEAANWESHTNNRLGLALKSLDERSQHIVRS 261 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R+ + TL+++ + ++ ER+RQ+E A++KLK Sbjct: 262 RWLD--DNKATLQDLADTYSISAERVRQLEKNAMKKLKQ 298 >gi|311068942|ref|YP_003973865.1| sporulation sigma factor SigF [Bacillus atrophaeus 1942] gi|310869459|gb|ADP32934.1| sporulation sigma factor SigF [Bacillus atrophaeus 1942] Length = 255 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 119/227 (52%), Gaps = 14/227 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD +FSTYA+ Sbjct: 33 ARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVRFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D T+++ +++ +K+ R +S R PT +EIA+ L + E V Sbjct: 93 IIGEIQRFIRDDG-TVKVSRSLKELGNKIRRAKDELSKTYGRVPTVQEIAEHLEIDAEDV 151 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + P S+ + D D L D I D + D + L+E ++ L Sbjct: 152 VLAQEAVRAPSSIHETVYENDGDPITLLDQIADHSEEKWFD---KIALKEA----ISDLE 204 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 205 EREKLIVYLRY----YKDQTQSEVAERLGISQVQVSRLEKKILKQIK 247 >gi|260755457|ref|ZP_05867805.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260758679|ref|ZP_05871027.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260884475|ref|ZP_05896089.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|261214728|ref|ZP_05929009.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|261750913|ref|ZP_05994622.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|265984775|ref|ZP_06097510.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|294851008|ref|ZP_06791684.1| RNA polymerase sigma-32 factor [Brucella sp. NVSL 07-0026] gi|260668997|gb|EEX55937.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260675565|gb|EEX62386.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260874003|gb|EEX81072.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|260916335|gb|EEX83196.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|261740666|gb|EEY28592.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|264663367|gb|EEZ33628.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|294821651|gb|EFG38647.1| RNA polymerase sigma-32 factor [Brucella sp. NVSL 07-0026] Length = 293 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------RE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|258543198|ref|YP_003188631.1| RNA polymerase factor sigma-32 [Acetobacter pasteurianus IFO 3283-01] gi|256634276|dbj|BAI00252.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01] gi|256637336|dbj|BAI03305.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-03] gi|256640388|dbj|BAI06350.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-07] gi|256643445|dbj|BAI09400.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-22] gi|256646500|dbj|BAI12448.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-26] gi|256649553|dbj|BAI15494.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-32] gi|256652539|dbj|BAI18473.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-01-42C] gi|256655597|dbj|BAI21524.1| DNA-directed RNA polymerase Heat shock sigma factor RpoH [Acetobacter pasteurianus IFO 3283-12] Length = 319 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 125/245 (51%), Gaps = 20/245 (8%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ +A+ ++V ++LRLV +A Y GL +LI EGNIG+M+A ++FD G++ Sbjct: 65 KGDVKAA---HQLVTSHLRLVAKIAMGYRGYGLPINELISEGNIGMMQAVKRFDPEKGFR 121 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE 551 +TYAMWW++ AI I +++ K K+ RR+ +++ + PE+ Sbjct: 122 LATYAMWWIRAAIQEYILHSWSLVKMGTTAAQK--KLFFNLRRLKGQMQAIDDGDLKPEQ 179 Query: 552 ---IAKKLAMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 IA L + + V + + P SL P+ D+D+ ++D + + + Sbjct: 180 VNKIATTLGVSEQDVVDMNRRMAAPDHSLNAPMRADQDSEWQDRLVDDHTNQEDVYAENE 239 Query: 607 --ANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 + + + + +L RE R+ R + D TLEE+ ++ ++RER+RQIE +A Sbjct: 240 ELSGRKALLSSAMENLNERERRIFTER---RLKDDPSTLEELAHEYGISRERVRQIEVRA 296 Query: 664 IRKLK 668 K++ Sbjct: 297 FEKVQ 301 >gi|126729201|ref|ZP_01745015.1| RNA polymerase sigma factor [Sagittula stellata E-37] gi|126710191|gb|EBA09243.1| RNA polymerase sigma factor [Sagittula stellata E-37] Length = 298 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 75/250 (30%), Positives = 123/250 (49%), Gaps = 21/250 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E + A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ + Sbjct: 43 EDEDTQAAHQLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLA 102 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPE 550 TYAMWW++ +I I +++ K K+ R+ ++I R E Sbjct: 103 TYAMWWIRASIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKSRIGALEDGDLRPEHVE 160 Query: 551 EIAKKLAMPVEGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQA 607 +IA L + + V + +++ SL +G E T D++ED++A + A + Sbjct: 161 KIATDLGVTQDEVISMNRRLSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGEYAERN 220 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAK 662 L R + + L RE +L R +D TLEE+ Q+ V+RERIRQIE + Sbjct: 221 ELEARRALLEQAMDVLNDRERDILSQR----RLSDQAVTLEELSGQYDVSRERIRQIEVR 276 Query: 663 AIRKLKHPSR 672 A KL+ R Sbjct: 277 AFEKLQKRMR 286 >gi|87201057|ref|YP_498314.1| RNA polymerase factor sigma-32 [Novosphingobium aromaticivorans DSM 12444] gi|87136738|gb|ABD27480.1| RNA polymerase, sigma 32 subunit, RpoH [Novosphingobium aromaticivorans DSM 12444] Length = 299 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 72/240 (30%), Positives = 117/240 (48%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +LI EGNIGLM+ +KF+ G++ +TYAMWW Sbjct: 52 AAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK----REPTPEE---IAKKL 556 +K ++ I +++ K K+ RRM ++ + P++ IA L Sbjct: 112 IKASMQEFILRSWSLVKMGTTAAQK--KLFFNLRRMKKNLEAFEDSDLHPDDVRKIATDL 169 Query: 557 AMPVEGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 +P + V + + + SL + ++ D++ D PL A+ E Sbjct: 170 GVPEQEVVNMNRRMMMGGDASLNVSMREDGEGSWQDWLTDDR---PLQDETVADAEEAQY 226 Query: 615 R------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + SL RE +L R I + TLEE+ + + V+RER+RQIE +A KL+ Sbjct: 227 RHELLVEAMESLNERERHILTDRRLI--DDPKTLEELSQVYNVSRERVRQIEVRAFEKLQ 284 >gi|4972297|dbj|BAA78111.1| RNA polymerase sigma subunit SigD* [Arabidopsis thaliana] gi|16649075|gb|AAL24389.1| sigma-like factor [Arabidopsis thaliana] gi|21387209|gb|AAM48008.1| sigma-like factor [Arabidopsis thaliana] Length = 267 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 40/85 (47%), Positives = 58/85 (68%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 C A++++ RLV+S+A Y +GL DLIQEG+IGL++ AE+FD GYK ST Sbjct: 174 CRRKEAREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLST 233 Query: 499 YAMWWVKQAITRSIADQSCTIRIPV 523 Y WW+KQAI R+IA +S +++P+ Sbjct: 234 YVYWWIKQAILRAIAHKSRLVKLPL 258 >gi|271969498|ref|YP_003343694.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] gi|270512673|gb|ACZ90951.1| putative RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] Length = 266 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 109/214 (50%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+VE +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA + Sbjct: 42 RDELVELHLPLVEYLARRFRNRGEWLDDLTQVATIGLIKSIDRFDLGRGVEFSTYATPTI 101 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + + +S + R PT E+A L M E V Sbjct: 102 VGEIKRHFRDKGWAVRVPRRLQELKLSLTKAISELSQREGRAPTVGELAAFLKMSEEEVL 161 Query: 565 KVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASL 620 + L+ +SL+ P GD+D + D ++ +D +++ RE+ +L L Sbjct: 162 EGLESANAYSTVSLDAPDSGDDDAPAVAD------SLGIVDDSLEGVEYRESLKPLLERL 215 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M E+G Q V+R Sbjct: 216 PPREKRILLLRFFGNMTQSQIATELGISQMHVSR 249 >gi|153854687|ref|ZP_01995937.1| hypothetical protein DORLON_01935 [Dorea longicatena DSM 13814] gi|149752791|gb|EDM62722.1| hypothetical protein DORLON_01935 [Dorea longicatena DSM 13814] Length = 258 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 66/234 (28%), Positives = 119/234 (50%), Gaps = 24/234 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E ++ NLRLV+SV +++ G DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 38 AKEEYIKGNLRLVLSVIRRFGASGENPDDLFQIGCIGLIKAINNFNTELEVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + K ++EPT +EIA+++ + E + Sbjct: 98 IIGEIRRYMRDNN-SIRVSRSLRDTAYKAIYAKENYMKKNQKEPTVQEIAEEIGISKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRE------TTTR 615 L + P+SL+ P+ ++ D ++ D + D Q N E + Sbjct: 157 VFALDAIQVPMSLQEPVYNDGGDALYVMDQLSD-----------QTNKEEKWIEDLSLEE 205 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE ++++RF G T EV + +++ ++ ++E A++ ++ Sbjct: 206 AMKHLGERERYIIKLRFFQG----KTQMEVADEIQISQAQVSRLEKNALKTMRQ 255 >gi|194367438|ref|YP_002030048.1| RNA polymerase factor sigma-32 [Stenotrophomonas maltophilia R551-3] gi|194350242|gb|ACF53365.1| RNA polymerase, sigma 32 subunit, RpoH [Stenotrophomonas maltophilia R551-3] Length = 291 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 116/243 (47%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLALGDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWMNAAEVSAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI----------------- 605 K L ++ +E + +E+ + D ED P +A Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDAPTDEDNEHAPPSPAAYLVANDEDPSMAYERADS 224 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + N + LA L R ++R R+ + ++ TL+E+ ++ V+ ERIRQ+EA A++ Sbjct: 225 EDNQMQLLREGLAELDARSRDIIRRRW-LDADSKVTLQELADEYGVSAERIRQVEANALK 283 Query: 666 KLK 668 K+K Sbjct: 284 KMK 286 >gi|117618742|ref|YP_854903.1| alternative sigma factor RpoH [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117560149|gb|ABK37097.1| alternative sigma factor RpoH [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 284 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 128/241 (53%), Gaps = 16/241 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ VAK Y GL DL+QEGNIGLMKA ++FD +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHVAKSYAGYGLPQADLVQEGNIGLMKAVKRFDPSVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ + K+ +R +++ + E + +A Sbjct: 103 VSFAVHWIKAEIHEYVLRNWRMVKVATTKAQRKLFFNLRKSKKRLGWLNHEEV-QAVAAD 161 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQA-NLRE 611 L + V ++ +++ + + DE+ ++EDK+ S L + I+ N + Sbjct: 162 LGVSAADVTEMEARMSNYDQAFDLVGDDEEEGGFAPVHYLEDKS--SDLAATIENDNWDD 219 Query: 612 TTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 TR LA+L R + ++R R+ + + TL+E+ + V+ ER+RQ+E A++KL Sbjct: 220 HATRRLSSALATLDERSQHIIRARW-LDDESKTTLQELADTYGVSAERVRQLEKNALKKL 278 Query: 668 K 668 K Sbjct: 279 K 279 >gi|261210147|ref|ZP_05924444.1| RNA polymerase sigma-32 factor [Vibrio sp. RC341] gi|260840687|gb|EEX67236.1| RNA polymerase sigma-32 factor [Vibrio sp. RC341] Length = 286 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 127/237 (53%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + ++I R + ++ +R+ E E +A++L + Sbjct: 109 IKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVARELGVEPS 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRE--TTT 614 VR++ ++ + + E D++ ++EDK+ S L ++A E TT Sbjct: 167 EVREMESRLAAQDAAFEMSAEDDENGMAYTAPVLYLEDKH--SDLADNLEAENWEAHTTQ 224 Query: 615 RV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ LASL R + ++R R+ + + TL+++ + + V+ ERIRQ+E A+RKLK Sbjct: 225 RLSMALASLDERSQHIVRARW-LDDDNKTTLQDLAEMYGVSAERIRQLEKNAMRKLK 280 >gi|182677344|ref|YP_001831490.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] gi|182633227|gb|ACB94001.1| RNA polymerase, sigma 32 subunit, RpoH [Beijerinckia indica subsp. indica ATCC 9039] Length = 299 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 113/236 (47%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 47 AAQRLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFEPDKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ ++I R IA +L Sbjct: 107 IRASIQEYILRSWSLVKMGTTASQK--KLFFNLRKAKSQISALDEGDLRPDQVALIATRL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP---LDSAIQANLRETT 613 + + V + + SL P+ +E D++ D A D AN Sbjct: 165 GVTGQEVIDMNRRMSGDASLNAPLREEGEGEWQDWLVDDQANQEHVLADQEESANRLGAL 224 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L PRE R+ R + D TLE + +F ++RER+RQIE +A K++ Sbjct: 225 RQALDVLNPRERRIFEAR---RLADDPVTLEALSDEFDISRERVRQIEVRAFEKVQ 277 >gi|86742435|ref|YP_482835.1| sigma 28 subunit [Frankia sp. CcI3] gi|86569297|gb|ABD13106.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Frankia sp. CcI3] Length = 338 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/220 (29%), Positives = 110/220 (50%), Gaps = 9/220 (4%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E S + ++V +L LV +A+++ NRG DL+Q IGL+K+ ++FD G +FS Sbjct: 107 DPERSAVRDQLVRMHLPLVEYLARRFRNRGEPLDDLVQVATIGLIKSVDRFDPERGVEFS 166 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA + I R D+ IR+P +++ + + +S + R PT EIA+ L Sbjct: 167 TYATPTIVGEIKRHFRDKGWAIRVPRRLQELKLSLTKATSELSQTLGRSPTVSEIARHLQ 226 Query: 558 MPVEGVRKVLKITK--EPISLETP-IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 M + V + L+ +SL+ P GD++ + D + ++ +S RE+ Sbjct: 227 MSEDDVLEGLESANAYSAVSLDAPDSGDDEAPAVADTLGVQD-----ESLEGVEYRESLK 281 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L RE+R+L +RF M E+G Q V+R Sbjct: 282 PLLEKLPAREKRILLLRFFGNMTQSQIATELGISQMHVSR 321 >gi|119715629|ref|YP_922594.1| sigma-70 region 4 domain-containing protein [Nocardioides sp. JS614] gi|119536290|gb|ABL80907.1| sigma-70 region 4 domain protein [Nocardioides sp. JS614] Length = 260 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 111/227 (48%), Gaps = 14/227 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V N+ + A++Y RG+ DL Q +GL+KA F+ G+ F ++A+ + Sbjct: 27 RDEIVRLNMGVASDCARRYRQRGIATEDLDQVAYLGLVKAVRGFEPGRGHDFLSFAVPTI 86 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + + R D +R P +++ ++ +S ++ R P P ++A+ L + +E V Sbjct: 87 RGEVRRHFRDLGWALRPPRSIQELQSRIHAAEGDLSQELGRSPRPSDLARHLGVDLEQVL 146 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI-QANLRETTTRVLASLT 621 L T P SL+ D D S LGD + D A QA R T VL LT Sbjct: 147 DALGATGCFAPASLDVVGADGDDS-LGDRL------GTADPAFDQAEARITLAAVLRGLT 199 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PRE R+L +RF +HT E+G VT+ ++ ++ + + +L+ Sbjct: 200 PRERRILELRF----FGNHTQAEIGADIGVTQMQVSRLLNRILARLR 242 >gi|26987129|ref|NP_742554.1| RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440] gi|148545673|ref|YP_001265775.1| RNA polymerase sigma factor RpoD [Pseudomonas putida F1] gi|24981760|gb|AAN66018.1|AE016231_1 RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440] gi|2654492|gb|AAB87749.1| DNA-directed RNA polymerase sigma subunit [Pseudomonas putida] gi|2731762|gb|AAC38073.1| sigma-70 [Pseudomonas putida] gi|148509731|gb|ABQ76591.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida F1] gi|313496752|gb|ADR58118.1| RpoD [Pseudomonas putida BIRD-1] Length = 616 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDYIL 147 >gi|300788069|ref|YP_003768360.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299797583|gb|ADJ47958.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 273 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 57/228 (25%), Positives = 122/228 (53%), Gaps = 14/228 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ ++ +L L +A++++ RG F DL+Q GL++A +++ G F ++A+ + Sbjct: 50 RERLITEHLPLAEHIARRFSGRGEPFEDLLQVARTGLIRAVDRYAADRGSDFVSFAVPTI 109 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D ++R+P ++D K+ + + +++++ R PTP E+A+ L + +E VR Sbjct: 110 MGEVRRHFRDVGWSMRVPRALKDLKQKLAKASDVLAHELGRAPTPSELARHLDLDIETVR 169 Query: 565 KVLKITK--EPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + L + SL+TP G++D + G ED + ++ I LR +A+L Sbjct: 170 EGLLAAQAYRATSLDTPAREGEDDFAAAGRLAEDDSGFERFENHIA--LRA----AMATL 223 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PRE +++MRF + T ++ ++ V++ + ++ AK + +L+ Sbjct: 224 EPRERAIVKMRFADEL----TQSQIAQRIGVSQMHVSRLLAKTLEQLR 267 >gi|113461681|ref|YP_719750.1| RNA polymerase factor sigma-32 [Haemophilus somnus 129PT] gi|112823724|gb|ABI25813.1| RNA polymerase, sigma 32 subunit, RpoH [Haemophilus somnus 129PT] Length = 280 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 123/231 (53%), Gaps = 10/231 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKTLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ +E + +A +L + E Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFSDKE--VDMVANELGVSKE 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDK--NAVSPLDS-AIQANLRETTTRVL 617 V ++ ++T + + P+ D+++ ++EDK N + L++ + + L Sbjct: 167 DVLEMESRMTGSDVGFDLPVDDDESYAPALYLEDKSSNFAAELENENFETQAADQVANAL 226 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A L R + +++ R+ + TL ++ ++ ++ ER+RQ+E A++KLK Sbjct: 227 AELDERSQDIIKSRWLD--DEKATLHDLAAKYNISAERVRQLETNALKKLK 275 >gi|289769170|ref|ZP_06528548.1| SigH protein [Streptomyces lividans TK24] gi|289699369|gb|EFD66798.1| SigH protein [Streptomyces lividans TK24] Length = 361 Score = 89.7 bits (221), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 10/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA V Sbjct: 138 RNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTV 197 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + +S R PT E+A+KL++ E V Sbjct: 198 VGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKLSISEEEVL 257 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLT 621 + L+ +SL+ P D+++ + D + + D A++ RE+ +L L Sbjct: 258 EGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESLKPLLEDLP 311 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M +EVG Q V+R Sbjct: 312 PREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 344 >gi|189024846|ref|YP_001935614.1| RNA polymerase factor sigma-32 [Brucella abortus S19] gi|189020418|gb|ACD73140.1| Sigma-70 factor family [Brucella abortus S19] Length = 306 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/252 (30%), Positives = 128/252 (50%), Gaps = 25/252 (9%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 49 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 108 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 109 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 166 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSPL-- 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + PL Sbjct: 167 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDH---PLQD 223 Query: 602 ---DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERI 656 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+ Sbjct: 224 EIAESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERV 280 Query: 657 RQIEAKAIRKLK 668 RQIE++A+ KLK Sbjct: 281 RQIESRAMEKLK 292 >gi|154686587|ref|YP_001421748.1| sporulation sigma factor SigF [Bacillus amyloliquefaciens FZB42] gi|308174131|ref|YP_003920836.1| RNA polymerase sporulation-specific sigma factor sigma-F [Bacillus amyloliquefaciens DSM 7] gi|63146682|emb|CAG28933.1| Sigma F [Bacillus amyloliquefaciens FZB42] gi|154352438|gb|ABS74517.1| SigF [Bacillus amyloliquefaciens FZB42] gi|307606995|emb|CBI43366.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus amyloliquefaciens DSM 7] gi|328552736|gb|AEB23228.1| sporulation sigma factor SigF [Bacillus amyloliquefaciens TA208] gi|328912466|gb|AEB64062.1| RNA polymerase sigma factor [Bacillus amyloliquefaciens LL3] Length = 255 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/259 (27%), Positives = 132/259 (50%), Gaps = 17/259 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K S + E + ++ ++G+ +A + ++E N+RLV SV +++ NRG + Sbjct: 4 EVKKNSKNAQLKDHEVKELIKKSQEGDQQA---RDLLIEKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD +FSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVRFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + R +S R PT +EIA L + E V + + P S+ + D D L Sbjct: 120 IRRAKDELSKTYGRVPTVQEIADHLEIDAEDVVLAQEAVRAPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D I D + D + L+E ++ L RE+ ++ +R+ D T EV ++ Sbjct: 180 DQIADHSEEKWFD---KIALKEA----ISDLEEREKLIVYLRY----YKDQTQSEVAERL 228 Query: 650 CVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K ++++K Sbjct: 229 GISQVQVSRLEKKILKQIK 247 >gi|83590339|ref|YP_430348.1| sigma 28 (flagella/sporulation) [Moorella thermoacetica ATCC 39073] gi|83573253|gb|ABC19805.1| RNA polymerase, sigma subunit, RpoX/SigF [Moorella thermoacetica ATCC 39073] Length = 270 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 125/241 (51%), Gaps = 16/241 (6%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++R+ + A++ ++ NL+LV ++ +++ R + DL Q G IGL+KA +KFD Sbjct: 22 LLRRAKAGDKEARERLINCNLKLVFNLVQRFEKRNYELEDLFQIGTIGLIKAIDKFDLSY 81 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D S +++ +++ KV RT ++ K REP EI Sbjct: 82 KVRFSTYAVPMILGEIRRFLRDDSA-VKVSRSLKETAFKVNRTREELAKKFGREPAIGEI 140 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP--LDSAIQAN 608 A+ L + E + L+ + P S+ + D D ++ D + ++ P LD + Sbjct: 141 AEALDLSREEIIAALEAVQMPSSIHDTVYQDDGDPIYVLDQLASEDGEEPEWLD---KIA 197 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E VL L + RVL +RF D T EV + +++ +I +IE +A+++++ Sbjct: 198 LKE----VLRQLPEKHRRVLVLRF----FQDKTQAEVAARMGLSQVQISRIERQALQRIR 249 Query: 669 H 669 Sbjct: 250 E 250 >gi|70732951|ref|YP_262722.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf-5] gi|1710687|sp|P52326|RPOD_PSEFL RecName: Full=RNA polymerase sigma factor rpoD; AltName: Full=Sigma-70 gi|929808|emb|CAA59134.1| sigma 70 [Pseudomonas fluorescens] gi|68347250|gb|AAY94856.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Pf-5] Length = 615 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I R++GY+T E+N LP D EQ+ED + M+++MGINV + D + Sbjct: 12 KELISRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLLAE 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|168187412|ref|ZP_02622047.1| RNA polymerase sigma-F factor [Clostridium botulinum C str. Eklund] gi|169294714|gb|EDS76847.1| RNA polymerase sigma-F factor [Clostridium botulinum C str. Eklund] Length = 251 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/241 (28%), Positives = 124/241 (51%), Gaps = 14/241 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + +++K + A E+VE NL LV +++KK+ NRG ++ D+ Q G++GL+KA FD Sbjct: 17 LELIKKAKLGDKKALDELVEKNLPLVSAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDS 76 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 +FSTYA+ + I R I D I++ ++ K+ +++ K+ REPT E Sbjct: 77 SYNVQFSTYAVPMIMGEIRRFIRDDGL-IKVSRSVKYTARKLHFDKEKLTKKLHREPTLE 135 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV---SPLDSAIQA 607 E++K + E + ++ EP L I +D S + ++ DK V S +D + Sbjct: 136 ELSKFSGIEKEQIIFAMEAINEPKYLYDTIHQDDGSPI--YLIDKVVVKDESEVDELDKI 193 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E L L R +++ +R+ D T +V K +++ ++ +IE K ++ + Sbjct: 194 ALKEA----LNKLDQRSRQIIILRYF----KDITQVKVAKMLGISQVQVSRIEKKVLKTM 245 Query: 668 K 668 K Sbjct: 246 K 246 >gi|256785278|ref|ZP_05523709.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 354 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 10/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA V Sbjct: 131 RNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTV 190 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + +S R PT E+A+KL++ E V Sbjct: 191 VGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKLSISEEEVL 250 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLT 621 + L+ +SL+ P D+++ + D + + D A++ RE+ +L L Sbjct: 251 EGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESLKPLLEDLP 304 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M +EVG Q V+R Sbjct: 305 PREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 337 >gi|73667010|ref|YP_303026.1| sigma-70 region 2:sigma-70 region 4 [Ehrlichia canis str. Jake] gi|72394151|gb|AAZ68428.1| RNA polymerase, sigma 32 subunit, RpoH [Ehrlichia canis str. Jake] Length = 300 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/256 (28%), Positives = 125/256 (48%), Gaps = 48/256 (18%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A + N GL ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K + Sbjct: 57 LVTSHLRLVVKIALSFKNYGLPLIELIMEGNIGLMQAVKKFNPTLGFRLSTYAIWWIKAS 116 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-KREPTPEEIAKKLA-------MP 559 I I I+I + K+ + R++ K+ K ++ K +A Sbjct: 117 IKDYILKSWSCIKIGTTQAQR--KLFFSLRKIKQKLFKYNNITQDDIKLIANECSTSEQE 174 Query: 560 VEGVRKVLKI-------------------TKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 VE + + +E I +TP EDT L + Sbjct: 175 VEQMNRYFTYRDRSLNEVVFSNDNQKGIELQEIIKCDTP-NQEDTYLLNE---------- 223 Query: 601 LDSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 +A+L+ET T+ L++L R + +R + N D TL+ + +++ +++ER+RQI Sbjct: 224 -----EASLKETLITQALSTLNERYRDIF-IRRRLIENPD-TLDTLSQEYKISKERVRQI 276 Query: 660 EAKAIRKLKHPSRSKK 675 E A K+K+ KK Sbjct: 277 EMHAFTKVKNFIMLKK 292 >gi|58617131|ref|YP_196330.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Gardel] gi|58416743|emb|CAI27856.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Gardel] Length = 319 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 126/240 (52%), Gaps = 13/240 (5%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+ VA + N GL ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K Sbjct: 74 KLVTSHLRLVVKVALSFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKA 133 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEG 562 +I I I+I + K+ +R ++ K T E+ IA + + + Sbjct: 134 SIKDYILKSWSCIKIGTTQAQRKLFFSLRKIKKKLLKYHNNITKEDIKMIANECSTSEQE 193 Query: 563 VRKVLK-ITKEPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRET-TTR 615 V ++ K T SL + G ++ L D I ED N + +++++ T+ Sbjct: 194 VEQMNKYFTYRDKSLNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQ 253 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 LA+L R + R I TLE + K++ +++ERIRQIE A K+K+ SK+ Sbjct: 254 ALATLNERHRDIFIRRKLI--EEPDTLEILSKKYNISKERIRQIETHAFLKVKNFVISKR 311 >gi|30248598|ref|NP_840668.1| RNA polymerase factor sigma-32 [Nitrosomonas europaea ATCC 19718] gi|30180193|emb|CAD84495.1| Sigma-70 factor family [Nitrosomonas europaea ATCC 19718] Length = 280 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 81/282 (28%), Positives = 135/282 (47%), Gaps = 32/282 (11%) Query: 411 NEIKSISVETGISISEFRHIVSM--VRKGECEASIAKK-----------EMVEANLRLVI 457 NEI ++ V G + + S V E EAS+AK+ ++V ++LR+V+ Sbjct: 2 NEIMALPVMAGGDLDSYIRATSSFPVLSREEEASLAKRMREEGDVNAAHQLVLSHLRVVV 61 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 ++A+ Y GL DLIQEGNIGLMKA +FD G + ++A+ W++ I I Sbjct: 62 TIARGYLGYGLPHADLIQEGNIGLMKAVRRFDPERGVRLISFAIHWIRAEIHEFIMRNWR 121 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKV-LKITKEPI 574 ++I + + K+ R M + E +A++L + E V ++ + + I Sbjct: 122 LVKIATTKQQR--KLFFNLRSMKKGLDTMSQAEVASMAEQLGVKAEEVVEMETRFSGRDI 179 Query: 575 SLETPIGDEDTSHLGDFIEDKNAVSP--------LDSAIQANLRETTTRVLASLTPREER 626 SLE P+ D D + P L+ A L+ + L SL R R Sbjct: 180 SLE-PVTDSDEDDFSPIAWLTDGSDPSRELEKEQLERLTHARLKNS----LDSLDERSRR 234 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ R+ + + TL E+ + V+ ER+RQIEAKA++K++ Sbjct: 235 IIEARW-LREDKAATLHELADELGVSAERVRQIEAKAMKKMR 275 >gi|21223610|ref|NP_629389.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|5912531|emb|CAB56114.2| SigH protein [Streptomyces coelicolor A3(2)] gi|9968693|emb|CAC05976.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 361 Score = 89.7 bits (221), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 10/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA V Sbjct: 138 RNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTV 197 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + +S R PT E+A+KL++ E V Sbjct: 198 VGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKLSISEEEVL 257 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLT 621 + L+ +SL+ P D+++ + D + + D A++ RE+ +L L Sbjct: 258 EGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESLKPLLEDLP 311 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M +EVG Q V+R Sbjct: 312 PREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 344 >gi|219115846|ref|XP_002178718.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217409485|gb|EEC49416.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 217 Score = 89.4 bits (220), Expect = 2e-15, Method: Composition-based stats. Identities = 58/212 (27%), Positives = 109/212 (51%), Gaps = 17/212 (8%) Query: 440 EASIAKKEMVEANLRLVISVAKKYT-NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 + ++A+ ++ +N+RLV+S+AKK+ N + +QEG +GL KAA+++D G +F+T Sbjct: 6 DGALARDTLIASNVRLVVSIAKKWAKNAHKAARETVQEGILGLAKAADRYDPERGLRFAT 65 Query: 499 YAMWWVKQAITRSIADQSC-TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 YA +WV ++ S +R+PV D K R + ++ P +++A+++ Sbjct: 66 YATYWVTNSVRFCFQTASTGCLRVPVGFHDTKTKFKRLVKEYYDEFGDAPGIDDLAEQMG 125 Query: 558 MPVEGVRKVLKITKEPISLETPI----------GDEDTSH----LGDFIEDKNAVSPLDS 603 + + +L+ T+ +S++ P+ D S L D + D+ A+ P D Sbjct: 126 LTRPRLEVILRSTRPLVSIDAPLRTGAVTQAGKAGNDVSQTNLLLADLLTDEQALPPEDL 185 Query: 604 AIQANLRETTTRVLAS-LTPREERVLRMRFGI 634 + LR+ +A+ L P E VLR+R G+ Sbjct: 186 VELSFLRQNLENAMATELAPHERDVLRLRLGL 217 >gi|217978453|ref|YP_002362600.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] gi|217503829|gb|ACK51238.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocella silvestris BL2] Length = 303 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 118/242 (48%), Gaps = 28/242 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 47 AAHKLVTSHLRLVAKIAMGYRGYGLPISEVVSEGNVGLMQAVKRFEPEKGFRLATYAMWW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R++ ++I R ++IA +L Sbjct: 107 IRASIQEYILRSWSLVKMGTTASQK--KLFFNLRKVKSQISALEEGDLRPEHVDKIAHRL 164 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL---RETT 613 + + V + + SL P+ +E D++ D DSA Q L RE T Sbjct: 165 GVSKQDVIDMNRRMSGDASLNAPLREEGEGEWQDWLVD-------DSASQEKLLVDREET 217 Query: 614 TRVLAS-------LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L + L RE R+ R + TLE + +F ++RER+RQIE +A K Sbjct: 218 DNRLGALHTALNVLNDRERRIFEARR--LADDPMTLEALSDEFDISRERVRQIEVRAFEK 275 Query: 667 LK 668 ++ Sbjct: 276 VQ 277 >gi|50123263|ref|YP_052430.1| RNA polymerase factor sigma-32 [Pectobacterium atrosepticum SCRI1043] gi|49613789|emb|CAG77240.1| RNA polymerase sigma-32 factor [Pectobacterium atrosepticum SCRI1043] Length = 285 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/279 (26%), Positives = 146/279 (52%), Gaps = 27/279 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ ++ N ++ E +++E H +G+ EA+ K ++ ++LR VI VA+ Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHY-----QGDLEAA---KHLILSHLRFVIHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R A+ ++ E +A++L + + VR++ ++ + ++ + P Sbjct: 128 TTKAQRKLFFNLRKAKTRLGWFNQDEV-ELVARELGVTTKDVREMESRMAAQDMTFD-PT 185 Query: 581 GDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-----TTRVLASLTPREERVLR 629 +ED SH G +++DK+ S I+ + +T T L L R + ++R Sbjct: 186 PEED-SHDGKAMSPMLYLQDKS--SDFADGIEEDNWDTHAADKLTYALEGLDERSQHIIR 242 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 243 ARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|304407011|ref|ZP_07388665.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304343998|gb|EFM09838.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 251 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 123/246 (50%), Gaps = 17/246 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + ++++ + G+ ++++ +V N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 16 AEVKRLIALSQSGD---NVSRDTLVHCNIRLVWSVVQRFMNRGYEPEDLFQIGCIGLLKS 72 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +KFD KFSTYA+ + I R + D T+++ +++ +KV + +S + Sbjct: 73 VDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKETANKVRKMKDELSKTLG 131 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLD 602 R PT E+A+ L + E V + K P S+ + D D L D I D + D Sbjct: 132 RLPTITEVAEGLGITPEDVVFAQEANKPPTSIHETVFENDGDPITLMDQIADDSQERWFD 191 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A + L RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 KLALAE-------AIEGLAERERLIVYLRY----YRDQTQSEVASRLGISQVQVSRLEKK 240 Query: 663 AIRKLK 668 ++ +K Sbjct: 241 ILQLIK 246 >gi|329120658|ref|ZP_08249321.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Neisseria bacilliformis ATCC BAA-1200] gi|327460882|gb|EGF07216.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Neisseria bacilliformis ATCC BAA-1200] Length = 287 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/248 (29%), Positives = 130/248 (52%), Gaps = 31/248 (12%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ K ++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 46 GDVEAA---KRLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPDRGARL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I I +R+ + K+ +R+ R+ + + +P+E A+ Sbjct: 103 FSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKSLSAL----SPKE-AQA 157 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------- 602 +A + GV+ E + +E + D + L D +D+++ +P+D Sbjct: 158 IADDL-GVK-----LSEVMEMEQRMTGRDIALLADNSDDEDSFAPIDWLADHDNEPTRQI 211 Query: 603 --SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A A E LA L R R++ R+ + + TL E+ ++ V+ ERIRQIE Sbjct: 212 ERKAHHALQTEGLQNALAKLDERSRRIVETRW-LQDDGGLTLHELAAEYGVSAERIRQIE 270 Query: 661 AKAIRKLK 668 AKA++KL+ Sbjct: 271 AKAMQKLR 278 >gi|317497563|ref|ZP_07955881.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] gi|316895122|gb|EFV17286.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] Length = 215 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 53/155 (34%), Positives = 87/155 (56%), Gaps = 3/155 (1%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A++ ++ NLRLV+S+ ++++ DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 50 LAREHYIKGNLRLVLSIIQRFSGSSENADDLFQVGCIGLMKAIDNFDRNLNVKFSTYAVP 109 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + + R + D ++R+ +RD +K + ++ K+ EPT + IAK++ M E Sbjct: 110 MIIGEVKRYLRDNH-SMRVSRSLRDTAYKAINAREVLTKKLNHEPTIDVIAKEIDMKKED 168 Query: 563 VRKVLKITKEPISLETPIGDE--DTSHLGDFIEDK 595 V L P+SL P+ + DT +L D ++DK Sbjct: 169 VLFALDAIATPLSLYEPVYQDGGDTLYLMDQVKDK 203 >gi|296159716|ref|ZP_06842538.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] gi|295889930|gb|EFG69726.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. Ch1-1] Length = 665 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 90/164 (54%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ ++MG+ V D + L Sbjct: 54 RALIQLGKEQGYLTHAQINDHLPDNFAQTAAIDSIVSAFNDMGVQVYEQAPDAETLLLNS 113 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 114 NAPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 167 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ PL A++ ++ DG + E++D Sbjct: 168 AKRIEDGLHEMVQAIAACPLAISAILASAQQVADGELRIDELVD 211 >gi|144899360|emb|CAM76224.1| Sigma-70 region 2:Sigma-70 region 4:Sigma-70 region 1.2 [Magnetospirillum gryphiswaldense MSR-1] Length = 291 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 121/239 (50%), Gaps = 12/239 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ A+LRLV+ A ++ GL DL+ EGN+GL++A E FD +FSTYA WW Sbjct: 44 ARTRLLSAHLRLVVKTAGQFKGYGLSGADLVAEGNLGLVRALESFDPGRNLRFSTYAQWW 103 Query: 504 VKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTAR-RMS----NKIKREPTPEEIAKKLA 557 V+ A+ + S + + R K+ +R + R++ N + T ++A +L Sbjct: 104 VRAAMFEYVLKFSTPVNFGLSAERKKLFFKLRGIKARLTGPSGNALSVAETA-QVADELG 162 Query: 558 MPVEGVRKVLK-ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL--RETTT 614 + + V ++ + +T+ P SL+ P+G+ +D+ +V Q + RE Sbjct: 163 VRDQRVAEMERLLTQSPRSLDAPVGESGIPFGELLADDRPSVEETLGERQELMYRRELLK 222 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 LT RE ++ R LE++ +++ ++RER+RQIE A+ KLK R+ Sbjct: 223 HAWEGLTERERDIVAQR--TLRENPLRLEDLAQRYSISRERVRQIEGSALTKLKALVRA 279 >gi|118443643|ref|YP_877879.1| sporulation sigma factor SigF [Clostridium novyi NT] gi|118134099|gb|ABK61143.1| RNA polymerase sigma-F factor [Clostridium novyi NT] Length = 251 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 124/241 (51%), Gaps = 14/241 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + +++K + A E+VE NL LV +++KK+ NRG ++ D+ Q G++GL+KA FD Sbjct: 17 LELIKKAKLGDKKALDELVEKNLPLVTAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDS 76 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 +FSTYA+ + I R I D I++ ++ K+ +++ K+ REPT E Sbjct: 77 SYNVQFSTYAVPMIMGEIRRFIRDDGL-IKVSRSVKYTARKLHFDKEKLTKKLNREPTVE 135 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV---SPLDSAIQA 607 E++K + E + + EP L I +D S + ++ DK + S +D + Sbjct: 136 ELSKFSGIDKEQIIFATEAINEPKYLYDTIHQDDGSPI--YLIDKVVLKDESEIDELDKI 193 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E L+ L R +++ +R+ D T +V K +++ ++ +IE K ++ + Sbjct: 194 ALKEA----LSKLDQRSRQIIILRYF----KDITQVKVAKMLGISQVQVSRIEKKVLKTM 245 Query: 668 K 668 K Sbjct: 246 K 246 >gi|229075781|ref|ZP_04208758.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-18] gi|229098543|ref|ZP_04229484.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-29] gi|229104680|ref|ZP_04235342.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-28] gi|229117569|ref|ZP_04246941.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-3] gi|228665889|gb|EEL21359.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-3] gi|228678744|gb|EEL32959.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-28] gi|228684865|gb|EEL38802.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-29] gi|228707333|gb|EEL59529.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-18] Length = 252 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQGGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D++ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRPPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|58579073|ref|YP_197285.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] gi|58417699|emb|CAI26903.1| RNA polymerase sigma-32 factor [Ehrlichia ruminantium str. Welgevonden] Length = 320 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 77/240 (32%), Positives = 126/240 (52%), Gaps = 13/240 (5%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+ VA + N GL ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K Sbjct: 74 KLVTSHLRLVVKVALSFKNYGLPLIELIMEGNIGLMQAVKKFNPNLGFRLSTYAIWWIKA 133 Query: 507 AITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEG 562 +I I I+I + K+ +R ++ K T E+ IA + + + Sbjct: 134 SIKDYILKSWSCIKIGTTQAQRKLFFSLRKIKKKLLKYHNNITKEDIKMIANECSTSEQE 193 Query: 563 VRKVLK-ITKEPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRET-TTR 615 V ++ K T SL + G ++ L D I ED N + +++++ T+ Sbjct: 194 VEQMNKYFTYRDKSLNDVVFSNGSQNGVQLQDMIKCEDPNQEDAYLLNEETDIKKSLITQ 253 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 LA+L R + R I TLE + K++ +++ERIRQIE A K+K+ SK+ Sbjct: 254 ALATLNERHRDIFIRRKLI--EEPDTLEILSKKYNISKERIRQIETHAFLKVKNFVISKR 311 >gi|227113845|ref|ZP_03827501.1| RNA polymerase factor sigma-32 [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 285 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/280 (26%), Positives = 145/280 (51%), Gaps = 29/280 (10%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ ++ N ++ E +++E H +G+ EA+ K ++ ++LR VI VA+ Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHY-----QGDLEAA---KHLILSHLRFVIHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ ++ + E +A++L + + VR++ ++ + ++ + P Sbjct: 128 TTKAQR--KLFFNLRKSKTRLGWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFD-P 184 Query: 580 IGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-----TTRVLASLTPREERVL 628 +ED SH G +++DK+ S I+ + ET T L L R + ++ Sbjct: 185 TPEED-SHDGKAMSPMLYLQDKS--SDFADGIEEDNWETHAADKLTYALEGLDERSQHII 241 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 242 RARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|292490206|ref|YP_003525645.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4] gi|291578801|gb|ADE13258.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4] Length = 602 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 56/154 (36%), Positives = 82/154 (53%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K +I + RGY++ E+N LP D + EQ+ED + M ++MGI+V + D D Sbjct: 10 KLLIARGKDRGYLSYSEVNDHLPDDVIDPEQIEDIITMFNDMGISVHEDMAEADALAIMD 69 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + A+ + D T DPVRMY+REMGS+ELL+REGEI IAKRIE G Sbjct: 70 TAVADDEAAEEAAAALVSVDGEFARTSDPVRMYMREMGSVELLTREGEIRIAKRIEEGMR 129 Query: 152 MMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + +L P + L+ + + G L ++I Sbjct: 130 QVHTALSLFPGSVAELLRQYERVEAGDARLADMI 163 >gi|256061796|ref|ZP_05451931.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] Length = 311 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------RE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYAFWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + + + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDIEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|5732893|gb|AAD49326.1|AF162936_2 RNA polymerase alternative sigma factor [Streptomyces coelicolor A3(2)] Length = 354 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 10/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L LV +A+++ NRG DL Q IGL+K+ ++FD G +FSTYA V Sbjct: 131 RNRLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVEFSTYATPTV 190 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + +S R PT E+A+KL++ E V Sbjct: 191 VGEIKRHFRDKGWAVRVPRRLQELRLALTTATAELSQLHGRSPTVHELAEKLSISEEEVL 250 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLT 621 + L+ +SL+ P D+++ + D + + D A++ RE+ +L L Sbjct: 251 EGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRESLKPLLEDLP 304 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE+R+L +RF M +EVG Q V+R Sbjct: 305 PREKRILLLRFFGNMTQSQIAQEVGISQMHVSR 337 >gi|301644085|ref|ZP_07244098.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|301077566|gb|EFK92372.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] Length = 283 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/237 (27%), Positives = 130/237 (54%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI +A++Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 47 AAKQLILSHLRFVIHIARQYSGYGLPQADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHW 106 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 VK I + +++ R + +T +R+ + E + +A++L + V+ Sbjct: 107 VKSEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VDMVARELGVSVK 164 Query: 562 GVRKV-LKITKEPISLETPIGDE-DTSHLGD---FIEDKNAVSPLDSAIQ-----ANLRE 611 VR++ +++ + ++ + DE DT H +++DK+ S I+ A + Sbjct: 165 DVREMESRMSAQDMAYDIYPDDETDTHHPVSPSLYLQDKS--SDFAGMIEEDNWDAQATD 222 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L PR + ++R R+ + + TL E+ +++ ++ ER+RQ+E A++KL+ Sbjct: 223 HLVAAMETLDPRSQDIIRARW-LDDDNKATLHELAERYGISAERVRQLENNAMKKLR 278 >gi|330468593|ref|YP_004406336.1| RNA polymerase sigma-70 factor [Verrucosispora maris AB-18-032] gi|328811564|gb|AEB45736.1| RNA polymerase sigma-70 factor [Verrucosispora maris AB-18-032] Length = 292 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 115/229 (50%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 42 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E++K+L P E + Sbjct: 101 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATAALTSELSRAPTVAELSKRLDTPEEEI 160 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKN-AVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + + + A+ +D R T + +L L Sbjct: 161 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDIALESVDD------RVTVSGLLHRL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 215 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 259 >gi|265995632|ref|ZP_06108189.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|262766916|gb|EEZ12534.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] Length = 293 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------RE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|196248769|ref|ZP_03147469.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|196211645|gb|EDY06404.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 250 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 124/252 (49%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ++ I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 9 QSPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGC 65 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 66 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDE 124 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 125 LSKTRGRAPTITEIADHLGVSPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQIADAD 184 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 S + + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 185 EASWFEKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVAARLGISQVQV 233 Query: 657 RQIEAKAIRKLK 668 ++E K ++ +K Sbjct: 234 SRLEKKILQHIK 245 >gi|187921222|ref|YP_001890254.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] gi|187719660|gb|ACD20883.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia phytofirmans PsJN] Length = 665 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 90/164 (54%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ ++MG+ V D + L Sbjct: 54 RALIQLGKEQGYLTHAQINDHLPDNFAQTAAIDSIVSAFNDMGVQVYEQAPDAETLLLNS 113 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 114 NAPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 167 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ PL A++ ++ DG + E++D Sbjct: 168 AKRIEDGLHEMVQAIAACPLAISAILASAQQVADGELRIDELVD 211 >gi|295092809|emb|CBK78916.1| RNA polymerase, sigma subunit, RpsG/SigG [Clostridium cf. saccharolyticum K10] Length = 258 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 119/228 (52%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGL+KA + FD +FSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIQRFSGSSENVDDLFQIGCIGLIKAIDNFDITQNVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + + K +EPT EIA+++ + E + Sbjct: 98 ILGEVKRYLRDNN-SIRVSRSLRDTAYKAIYARESLMKKNLKEPTLCEIAEEVGVSKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ + D ++ D + DK S + +L E R L Sbjct: 157 TYALDAIQSPVSLYEPVYTDGGDPLYVMDQLSDKKN-SEENWIEDISLSEAMRR----LP 211 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++ MRF G T EV ++ +++ ++ ++E A++ +K+ Sbjct: 212 ERERHIIGMRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKAMKN 255 >gi|319898405|ref|YP_004158498.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] gi|319402369|emb|CBI75908.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] Length = 305 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 121/238 (50%), Gaps = 16/238 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + ++I K ++ R++ NK++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKIGTTANQK--RLFFNLRKLKNKLQMFDSGDLNAEQVKEIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDF-IEDKNAVSP--LDSAIQANLRE 611 + + V + + SL P+ ++ D+ ++D N+ ++ N Sbjct: 167 KVTEDEVVSMNRRLSGDASLNAPLLTNKGESYEWQDWLVDDSNSQEQILIEQDELENRHS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + + +L RE+R+ + R + TLEE+ +F ++RER+RQIE +A K+++ Sbjct: 227 MLIQAMDNLNEREKRIFKARR--LRDEPMTLEELSNEFNISRERVRQIEMRAFEKIQN 282 >gi|331086150|ref|ZP_08335232.1| hypothetical protein HMPREF0987_01535 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330406309|gb|EGG85823.1| hypothetical protein HMPREF0987_01535 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 259 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 119/235 (50%), Gaps = 26/235 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV K++ + DL Q G +GLMKA + F+ L KFSTYA+ Sbjct: 38 ARERYIKGNLRLVLSVIKRFASSNENVDDLFQIGCVGLMKAIDNFNTDLQVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT EEIA+++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIYAKEGYMKRHLKEPTVEEIAEEIGIAKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVS-------PLDSAIQANLRETTT 614 L + P+SL P+ ++ D ++ D I DK L++A++ Sbjct: 157 IFALDAIQAPMSLNEPVYNDSGDALYVMDQISDKKNREEYWVEGLSLEAAME-------- 208 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE ++++RF G T EV Q +++ ++ ++E A++ ++ Sbjct: 209 ----RLNERERFIIQLRFFEG----KTQMEVASQVKISQAQVSRLEKNALKTMRQ 255 >gi|172087778|ref|YP_205833.2| RNA polymerase, sigma-32 (sigma-H) factor [Vibrio fischeri ES114] gi|197336399|ref|YP_002157235.1| alternative sigma factor RpoH [Vibrio fischeri MJ11] gi|171902364|gb|AAW86945.2| RNA polymerase, sigma-32 (sigma-H) factor [Vibrio fischeri ES114] gi|197317889|gb|ACH67336.1| alternative sigma factor RpoH [Vibrio fischeri MJ11] Length = 286 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/276 (27%), Positives = 135/276 (48%), Gaps = 22/276 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS L+ N ++V ++E H K E EA+ KE++ ++LR V+ VA+ Sbjct: 16 IDSYLRSVNSYPMLTVAEERELAERLHY-----KEEIEAA---KELILSHLRFVVHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPLADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + + +R+ E E +AK L + VR++ ++ + + E P Sbjct: 128 TTKAQRKLFFNLRKNKKRLGWFNNGE--VEAVAKDLGVAPSEVREMEARLAAQDSTFEAP 185 Query: 580 IGDEDTSHLGD----FIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 D+D ++EDK A S + + +A+L R + +++ R+ Sbjct: 186 AEDDDRDMAFTAPVYYLEDKQSDVAYSLEEDNWEDYTNNRLANAIATLDERSQHIVQSRW 245 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL+E+ + V+ ERIRQ+E A++KLK Sbjct: 246 --LADEKATLQELADTYQVSAERIRQLEKNAMKKLK 279 >gi|329938753|ref|ZP_08288149.1| SigH-like stress response sigma factor [Streptomyces griseoaurantiacus M045] gi|329302244|gb|EGG46136.1| SigH-like stress response sigma factor [Streptomyces griseoaurantiacus M045] Length = 291 Score = 89.4 bits (220), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 67/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 62 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDPDRGVEFPTF 121 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + +S K+ R PT E+A L + Sbjct: 122 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELSQKLDRSPTVAELAVVLGVS 181 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 182 EEDVVDGLAVGNAYTASSLDSPAPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 237 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 238 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 281 >gi|307726409|ref|YP_003909622.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] gi|307586934|gb|ADN60331.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1003] Length = 664 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 90/164 (54%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ ++MG+ V D + L Sbjct: 53 RALIQLGKEQGYLTHAQINDHLPDNFTQTAAIDSIVSAFNDMGVQVYEQAPDAETLLLNS 112 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 113 NTPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 166 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ PL A++ ++ DG + E++D Sbjct: 167 AKRIEDGLHEMVQAIAGCPLAISAILASAQQVADGELRIDELVD 210 >gi|240850016|ref|YP_002971409.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] gi|240267139|gb|ACS50727.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] Length = 294 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 124/247 (50%), Gaps = 20/247 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYA+WW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAIWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + +++ K ++ R++ +K++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKMGTTANQK--RLFFNLRKLKSKLQALDNGDLNAEQVKEIATQL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFI----EDKNAVSPLDSAIQANLR 610 + + V + + SL P+ + + S L D++ D+ V S ++ N R Sbjct: 167 NVSEDEVISMNRRLGGDTSLNAPLRTKEGENSELQDWLVDESNDQEQVLIEKSELE-NRR 225 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +L RE+R+ + R +N TLEE+ +F ++RER+RQIE +A K++ Sbjct: 226 SMLINAMDNLNEREKRIFKAR---RLNDIPLTLEELSGEFNISRERVRQIEMRAFEKVQD 282 Query: 670 PSRSKKL 676 R L Sbjct: 283 SIRDSAL 289 >gi|169334044|ref|ZP_02861237.1| hypothetical protein ANASTE_00437 [Anaerofustis stercorihominis DSM 17244] gi|169258761|gb|EDS72727.1| hypothetical protein ANASTE_00437 [Anaerofustis stercorihominis DSM 17244] Length = 253 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 29/234 (12%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K E + NLRLV+SV ++++NR DL Q G IGL+KA + FD G KFSTYA+ + Sbjct: 38 KNEFIRCNLRLVLSVVQRFSNRNENMDDLFQVGCIGLIKAIDNFDVKFGVKFSTYAVPMI 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRT--ARRMSNKIKREPTPEEIAKKLAMPVEG 562 + R + D TIR+ ++D +K ++ A + +N PT EIAKKL + + Sbjct: 98 IGEVRRYLRDNG-TIRVSRSLKDMAYKALKYKEAHKDTN-----PTNREIAKKLGVKEKD 151 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE-------TTTR 615 + L EP SL + +++ GD ++S +D RE + Sbjct: 152 LNFALDSIVEPCSLYDQMYNDN----GD------SISLIDQVGDEKNREENWTEKLSLKE 201 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L RE+ ++ R+ +G T EV + +++ ++ ++E +RK+K+ Sbjct: 202 AVEKLKGREKEIILKRYYLG----RTQIEVANEIGISQAQVSRLEKSGLRKIKN 251 >gi|226311983|ref|YP_002771877.1| sporulation sigma factor SigF [Brevibacillus brevis NBRC 100599] gi|226094931|dbj|BAH43373.1| RNA polymerase sigma-F factor [Brevibacillus brevis NBRC 100599] Length = 251 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 124/238 (52%), Gaps = 14/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + + A++ +V +N+RLV SV +++ NRG + DL Q G IGL+KA +KFD Sbjct: 21 LIAKSQAGDTEARELLVNSNIRLVWSVVQRFINRGYEADDLFQIGCIGLLKAVDKFDLSY 80 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D T+++ +++ +KV RT + + R PT E+ Sbjct: 81 DVRFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKVRRTKDELYKQFGRAPTIAEV 139 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 A + + E V + + P S+ + D D L D I D+ + + L+ Sbjct: 140 ADAVGITPEEVVFAQEANRAPSSIHETVFENDGDPITLIDQIADEGVNKWFE---KIALK 196 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +R L+ RE+ ++ +R+ D T EV ++ +++ ++ ++E + ++ +K Sbjct: 197 DAISR----LSEREQLIVYLRY----YKDQTQSEVAERLGISQVQVSRLEKRILQTIK 246 >gi|153006912|ref|YP_001381237.1| RNA polymerase sigma-32 subunit RpoH [Anaeromyxobacter sp. Fw109-5] gi|152030485|gb|ABS28253.1| RNA polymerase, sigma 32 subunit, RpoH [Anaeromyxobacter sp. Fw109-5] Length = 238 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 118/250 (47%), Gaps = 65/250 (26%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + R+G+ A K E+V NL LV+ VA+K + L+ +L+QEG +GL++A EK Sbjct: 27 RALALRARRGDARA---KDELVRHNLALVVMVARKQSRGALRLEELVQEGMLGLLRAIEK 83 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD G +FSTYA+WW++ + + + ++R Sbjct: 84 FDPNAGTRFSTYAVWWIRAYVWKYLKQARSSVR--------------------------- 116 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 P G + +SL+T + +E D +ED+ A SPL+ + Sbjct: 117 -----------PRSGA-----VAAADLSLDTAVDEEGDVSFLDRLEDEGA-SPLERYERV 159 Query: 608 NLRETTTRVLASLTPREERVLRMRFG-IGMNTDH---------TLEEVGKQFCVTRERIR 657 E+ R+ ASL E+V R R G +G + H TLE++G+++ V+RER+R Sbjct: 160 ---ESGERLRASL----EKV-RKRIGDLGWDIVHTRLQQDPPDTLEQIGQRWGVSRERVR 211 Query: 658 QIEAKAIRKL 667 Q+E + R L Sbjct: 212 QVELQTKRFL 221 >gi|145590108|ref|YP_001156705.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|145048514|gb|ABP35141.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 309 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 74/268 (27%), Positives = 128/268 (47%), Gaps = 36/268 (13%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S +E H+ R+ E A K +V ++LRLV+SVA++Y G+ DLIQEGNIGL Sbjct: 49 LSAAEELHLAQEFRR--TENVDAAKTLVLSHLRLVVSVARQYLGYGIPHADLIQEGNIGL 106 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +++D G + +YA+ W+K I I ++ K + + R + Sbjct: 107 MKAVKRYDPNNGARLVSYAIHWIKAEIHEYILKNWRLVKTAT---TKAQRKLFFNLRSNK 163 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKNAVSP 600 TP E V+ + K L + + +E + D + GD +D++A +P Sbjct: 164 PTLSALTPSE--------VDALAKALDVKGSDVKEMEMRLAGGDIALEGDDSDDESAYAP 215 Query: 601 LDSAIQANLRETTTRV----------------LASLTPREERVLRMRFGIGM----NTDH 640 + + N +E T R+ L SL R +++ R+ + M N Sbjct: 216 IQW-LADNTQEPTARIASAEADALQGPRLDQALMSLDERSRNIVQSRW-LAMDAEGNGTK 273 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL ++ ++ ++ ER+RQIE A++K++ Sbjct: 274 TLHDLAAEYGISAERVRQIETAALKKMR 301 >gi|23502620|ref|NP_698747.1| RNA polymerase factor sigma-32 [Brucella suis 1330] gi|161619688|ref|YP_001593575.1| RNA polymerase factor sigma-32 [Brucella canis ATCC 23365] gi|254703536|ref|ZP_05165364.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|260568841|ref|ZP_05839309.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|23348625|gb|AAN30662.1| RNA polymerase sigma-70 factor family protein [Brucella suis 1330] gi|161336499|gb|ABX62804.1| RNA polymerase sigma factor, sigma-70 family [Brucella canis ATCC 23365] gi|260154225|gb|EEW89307.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] Length = 311 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNCWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|167842198|ref|ZP_02468882.1| RNA polymerase sigma factor RpoD [Burkholderia thailandensis MSMB43] Length = 680 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E + ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEALEGIIGTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + + E++D Sbjct: 187 GLRHMVMAISACPTTIADILAMAERVANEESRVDELVD 224 >gi|138895880|ref|YP_001126333.1| sporulation sigma factor SigF [Geobacillus thermodenitrificans NG80-2] gi|134267393|gb|ABO67588.1| RNA polymerase sigma-F factorr [Geobacillus thermodenitrificans NG80-2] Length = 252 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 124/252 (49%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 ++ I E + ++ ++G+ EA + E++E N+RLV SV +++ NRG + DL Q G Sbjct: 11 QSPIKDQEMKELIRRSQEGDQEA---RDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGC 67 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K+ + Sbjct: 68 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDE 126 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S R PT EIA L + E V + + P S+ + D D L D I D + Sbjct: 127 LSKTRGRAPTITEIADHLGVSPEEVVLAQEAVRSPASIHETVYENDGDPITLLDQIADAD 186 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 S + + + L RE ++ +R+ D T EV + +++ ++ Sbjct: 187 EASWFEKI-------ALKKAIEELDERERLIVYLRY----YKDQTQSEVAARLGISQVQV 235 Query: 657 RQIEAKAIRKLK 668 ++E K ++ +K Sbjct: 236 SRLEKKILQHIK 247 >gi|294501135|ref|YP_003564835.1| RNA polymerase sigma-F factor [Bacillus megaterium QM B1551] gi|295706482|ref|YP_003599557.1| RNA polymerase sigma-F factor [Bacillus megaterium DSM 319] gi|464690|sp|P35145|RPSF_BACME RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|39654|emb|CAA45288.1| spoIIAC [Bacillus megaterium] gi|294351072|gb|ADE71401.1| RNA polymerase sigma-F factor [Bacillus megaterium QM B1551] gi|294804141|gb|ADF41207.1| RNA polymerase sigma-F factor [Bacillus megaterium DSM 319] gi|383708|prf||1904152C spoIIAC gene Length = 253 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 122/238 (51%), Gaps = 14/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++++ + IA+ +V+ N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 22 LIKRSQQGDQIARDTIVQKNMRLVWSVVQRFINRGYEPDDLFQIGCIGLLKSVDKFDLSY 81 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 KFSTYA+ + I R I D T+++ +++ +K+ + +S + R PT E+ Sbjct: 82 DVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKEMSNKIRKAKDELSKLLGRVPTVAEV 140 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 A+ L + E V + + P S+ + D D L D I D D + L+ Sbjct: 141 AEHLDLTPEEVVLAQEANRAPSSIHETVYENDGDPITLLDQIADHTEAKWFD---KIALK 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + L RE+ ++ +R+ D T EV + +++ ++ ++E K ++++K Sbjct: 198 EA----IEELDEREKLIVYLRY----YKDQTQSEVAARLGISQVQVSRLEKKILKQMK 247 >gi|302535694|ref|ZP_07288036.1| RNA polymerase sigma-E factor [Streptomyces sp. C] gi|302444589|gb|EFL16405.1| RNA polymerase sigma-E factor [Streptomyces sp. C] Length = 300 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 69/224 (30%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 71 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 130 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ K+ R PT E+A L + Sbjct: 131 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQKLDRSPTVPELAAVLGVT 190 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ED G + D+ DSA++ RE+ + Sbjct: 191 EEEVVDGLAVGNAYTASSLDSP-SPEDEGGEGS-LADRLGYE--DSALEGVEYRESLKPL 246 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 247 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 290 >gi|229180352|ref|ZP_04307695.1| RNA polymerase sigma-F factor [Bacillus cereus 172560W] gi|228603099|gb|EEK60577.1| RNA polymerase sigma-F factor [Bacillus cereus 172560W] Length = 252 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D++ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRAPSSIHETVYENDGDPITILDQIADQSEAKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|30022159|ref|NP_833790.1| sporulation sigma factor SigF [Bacillus cereus ATCC 14579] gi|30264150|ref|NP_846527.1| sporulation sigma factor SigF [Bacillus anthracis str. Ames] gi|42783188|ref|NP_980435.1| sporulation sigma factor SigF [Bacillus cereus ATCC 10987] gi|47529588|ref|YP_020937.1| sporulation sigma factor SigF [Bacillus anthracis str. 'Ames Ancestor'] gi|47568126|ref|ZP_00238830.1| sigma-B, putative [Bacillus cereus G9241] gi|49186981|ref|YP_030233.1| sporulation sigma factor SigF [Bacillus anthracis str. Sterne] gi|49478518|ref|YP_038132.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141420|ref|YP_085409.1| sporulation sigma factor SigF [Bacillus cereus E33L] gi|65321467|ref|ZP_00394426.1| COG1191: DNA-directed RNA polymerase specialized sigma subunit [Bacillus anthracis str. A2012] gi|75762406|ref|ZP_00742276.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|118479276|ref|YP_896427.1| sporulation sigma factor SigF [Bacillus thuringiensis str. Al Hakam] gi|165871124|ref|ZP_02215774.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0488] gi|167633745|ref|ZP_02392069.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0442] gi|167639441|ref|ZP_02397712.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0193] gi|170687128|ref|ZP_02878346.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0465] gi|170705887|ref|ZP_02896350.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0389] gi|177652593|ref|ZP_02935009.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0174] gi|190565830|ref|ZP_03018749.1| RNA polymerase sigma-F factor [Bacillus anthracis Tsiankovskii-I] gi|196035002|ref|ZP_03102409.1| RNA polymerase sigma-F factor [Bacillus cereus W] gi|196045861|ref|ZP_03113090.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB108] gi|206971277|ref|ZP_03232228.1| RNA polymerase sigma-F factor [Bacillus cereus AH1134] gi|206977400|ref|ZP_03238296.1| RNA polymerase sigma-F factor [Bacillus cereus H3081.97] gi|217961566|ref|YP_002340136.1| sporulation sigma factor SigF [Bacillus cereus AH187] gi|218234550|ref|YP_002368877.1| sporulation sigma factor SigF [Bacillus cereus B4264] gi|218899234|ref|YP_002447645.1| RNA polymerase sigma-F factor [Bacillus cereus G9842] gi|218905210|ref|YP_002453044.1| RNA polymerase sigma-F factor [Bacillus cereus AH820] gi|222097523|ref|YP_002531580.1| sporulation sigma factor sigf [Bacillus cereus Q1] gi|225866059|ref|YP_002751437.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB102] gi|227816852|ref|YP_002816861.1| RNA polymerase sigma-F factor [Bacillus anthracis str. CDC 684] gi|228902583|ref|ZP_04066734.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 4222] gi|228909904|ref|ZP_04073725.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 200] gi|228916713|ref|ZP_04080278.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228922825|ref|ZP_04086123.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228929122|ref|ZP_04092149.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935394|ref|ZP_04098212.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228941224|ref|ZP_04103777.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228947793|ref|ZP_04110080.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228954358|ref|ZP_04116384.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960339|ref|ZP_04121992.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228967106|ref|ZP_04128142.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228974156|ref|ZP_04134726.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980748|ref|ZP_04141053.1| RNA polymerase sigma-F factor [Bacillus thuringiensis Bt407] gi|228987264|ref|ZP_04147385.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229019284|ref|ZP_04176110.1| RNA polymerase sigma-F factor [Bacillus cereus AH1273] gi|229025528|ref|ZP_04181938.1| RNA polymerase sigma-F factor [Bacillus cereus AH1272] gi|229047765|ref|ZP_04193345.1| RNA polymerase sigma-F factor [Bacillus cereus AH676] gi|229071577|ref|ZP_04204795.1| RNA polymerase sigma-F factor [Bacillus cereus F65185] gi|229081330|ref|ZP_04213833.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-2] gi|229093131|ref|ZP_04224253.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-42] gi|229111546|ref|ZP_04241097.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-15] gi|229123596|ref|ZP_04252791.1| RNA polymerase sigma-F factor [Bacillus cereus 95/8201] gi|229129353|ref|ZP_04258324.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-Cer4] gi|229140809|ref|ZP_04269354.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST26] gi|229146647|ref|ZP_04275014.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST24] gi|229152275|ref|ZP_04280468.1| RNA polymerase sigma-F factor [Bacillus cereus m1550] gi|229157657|ref|ZP_04285732.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 4342] gi|229186319|ref|ZP_04313484.1| RNA polymerase sigma-F factor [Bacillus cereus BGSC 6E1] gi|229192285|ref|ZP_04319250.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10876] gi|229198196|ref|ZP_04324905.1| RNA polymerase sigma-F factor [Bacillus cereus m1293] gi|229603990|ref|YP_002868374.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0248] gi|254683842|ref|ZP_05147702.1| sporulation sigma factor SigF [Bacillus anthracis str. CNEVA-9066] gi|254721677|ref|ZP_05183466.1| sporulation sigma factor SigF [Bacillus anthracis str. A1055] gi|254736189|ref|ZP_05193895.1| sporulation sigma factor SigF [Bacillus anthracis str. Western North America USA6153] gi|254744078|ref|ZP_05201761.1| sporulation sigma factor SigF [Bacillus anthracis str. Kruger B] gi|254754142|ref|ZP_05206177.1| sporulation sigma factor SigF [Bacillus anthracis str. Vollum] gi|254758168|ref|ZP_05210195.1| sporulation sigma factor SigF [Bacillus anthracis str. Australia 94] gi|296504567|ref|YP_003666267.1| sporulation sigma factor SigF [Bacillus thuringiensis BMB171] gi|301055569|ref|YP_003793780.1| sporulation sigma factor SigF [Bacillus anthracis CI] gi|29897716|gb|AAP10991.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 14579] gi|30258795|gb|AAP28013.1| RNA polymerase sigma-F factor [Bacillus anthracis str. Ames] gi|42739116|gb|AAS43043.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10987] gi|47504736|gb|AAT33412.1| RNA polymerase sigma-F factor [Bacillus anthracis str. 'Ames Ancestor'] gi|47555116|gb|EAL13463.1| sigma-B, putative [Bacillus cereus G9241] gi|49180908|gb|AAT56284.1| RNA polymerase sigma-F factor [Bacillus anthracis str. Sterne] gi|49330074|gb|AAT60720.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974889|gb|AAU16439.1| RNA polymerase sigma-F factor [Bacillus cereus E33L] gi|74490099|gb|EAO53445.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|118418501|gb|ABK86920.1| RNA polymerase, sigma subunit, RpoX/SigF [Bacillus thuringiensis str. Al Hakam] gi|164713043|gb|EDR18570.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0488] gi|167512500|gb|EDR87875.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0193] gi|167531151|gb|EDR93838.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0442] gi|170129427|gb|EDS98291.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0389] gi|170668745|gb|EDT19490.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0465] gi|172081928|gb|EDT66996.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0174] gi|190562749|gb|EDV16715.1| RNA polymerase sigma-F factor [Bacillus anthracis Tsiankovskii-I] gi|195992541|gb|EDX56502.1| RNA polymerase sigma-F factor [Bacillus cereus W] gi|196023301|gb|EDX61979.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB108] gi|206734049|gb|EDZ51220.1| RNA polymerase sigma-F factor [Bacillus cereus AH1134] gi|206744391|gb|EDZ55802.1| RNA polymerase sigma-F factor [Bacillus cereus H3081.97] gi|217063378|gb|ACJ77628.1| RNA polymerase sigma-F factor [Bacillus cereus AH187] gi|218162507|gb|ACK62499.1| RNA polymerase sigma-F factor [Bacillus cereus B4264] gi|218540139|gb|ACK92537.1| RNA polymerase sigma-F factor [Bacillus cereus AH820] gi|218540957|gb|ACK93351.1| RNA polymerase sigma-F factor [Bacillus cereus G9842] gi|221241581|gb|ACM14291.1| RNA polymerase sigma-F factor [Bacillus cereus Q1] gi|225790809|gb|ACO31026.1| RNA polymerase sigma-F factor [Bacillus cereus 03BB102] gi|227007915|gb|ACP17658.1| RNA polymerase sigma-F factor [Bacillus anthracis str. CDC 684] gi|228585356|gb|EEK43465.1| RNA polymerase sigma-F factor [Bacillus cereus m1293] gi|228591235|gb|EEK49089.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 10876] gi|228597113|gb|EEK54768.1| RNA polymerase sigma-F factor [Bacillus cereus BGSC 6E1] gi|228625614|gb|EEK82366.1| RNA polymerase sigma-F factor [Bacillus cereus ATCC 4342] gi|228631237|gb|EEK87873.1| RNA polymerase sigma-F factor [Bacillus cereus m1550] gi|228636817|gb|EEK93280.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST24] gi|228642599|gb|EEK98885.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-ST26] gi|228653958|gb|EEL09825.1| RNA polymerase sigma-F factor [Bacillus cereus BDRD-Cer4] gi|228659731|gb|EEL15376.1| RNA polymerase sigma-F factor [Bacillus cereus 95/8201] gi|228671928|gb|EEL27221.1| RNA polymerase sigma-F factor [Bacillus cereus Rock1-15] gi|228690280|gb|EEL44073.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-42] gi|228701952|gb|EEL54435.1| RNA polymerase sigma-F factor [Bacillus cereus Rock4-2] gi|228711513|gb|EEL63470.1| RNA polymerase sigma-F factor [Bacillus cereus F65185] gi|228723557|gb|EEL74922.1| RNA polymerase sigma-F factor [Bacillus cereus AH676] gi|228735810|gb|EEL86395.1| RNA polymerase sigma-F factor [Bacillus cereus AH1272] gi|228741969|gb|EEL92143.1| RNA polymerase sigma-F factor [Bacillus cereus AH1273] gi|228772493|gb|EEM20938.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228778917|gb|EEM27179.1| RNA polymerase sigma-F factor [Bacillus thuringiensis Bt407] gi|228785496|gb|EEM33505.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228792475|gb|EEM40041.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar sotto str. T04001] gi|228799363|gb|EEM46327.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805290|gb|EEM51883.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228811780|gb|EEM58114.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228818383|gb|EEM64455.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228824146|gb|EEM69960.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830412|gb|EEM76022.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228836880|gb|EEM82223.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228842900|gb|EEM87983.1| RNA polymerase sigma-F factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228849739|gb|EEM94572.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 200] gi|228857024|gb|EEN01533.1| RNA polymerase sigma-F factor [Bacillus thuringiensis IBL 4222] gi|229268398|gb|ACQ50035.1| RNA polymerase sigma-F factor [Bacillus anthracis str. A0248] gi|296325619|gb|ADH08547.1| sporulation sigma factor SigF [Bacillus thuringiensis BMB171] gi|300377738|gb|ADK06642.1| sporulation sigma factor SigF [Bacillus cereus biovar anthracis str. CI] gi|324327980|gb|ADY23240.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar finitimus YBT-020] gi|326941847|gb|AEA17743.1| sporulation sigma factor SigF [Bacillus thuringiensis serovar chinensis CT-43] Length = 252 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D++ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRAPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|237816135|ref|ZP_04595131.1| RNA polymerase sigma factor, sigma-70 family [Brucella abortus str. 2308 A] gi|237788798|gb|EEP63010.1| RNA polymerase sigma factor, sigma-70 family [Brucella abortus str. 2308 A] Length = 319 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 62 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 121 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 122 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 179 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 180 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 239 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 240 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 296 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 297 ESRAMEKLK 305 >gi|188090618|gb|ACD49543.1| RNA polymerase sigma factor [Xanthomonas populi] Length = 290 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 2 EVNDHLPDDLVDLEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 61 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 62 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 121 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ +G L EI+ Sbjct: 122 TEMLLADYQAHKEGKKRLAEIV 143 >gi|149191850|ref|ZP_01870086.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1] gi|148834326|gb|EDL51327.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1] Length = 616 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/139 (38%), Positives = 87/139 (62%), Gaps = 3/139 (2%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGS 89 K ++ +++GY+T E+N LP + V SEQ+ED + M+++MGI VV+ D + Sbjct: 10 KLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALND 69 Query: 90 EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAG 149 ++++ +A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 70 DNNITDEDAAEAAAAALSSVESEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDG 128 Query: 150 RAMMMASLCESPLTFQALI 168 + +S+ E P T ++ Sbjct: 129 INQVQSSVAEYPGTIPYIL 147 >gi|257784260|ref|YP_003179477.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Atopobium parvulum DSM 20469] gi|257472767|gb|ACV50886.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Atopobium parvulum DSM 20469] Length = 284 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 59/240 (24%), Positives = 127/240 (52%), Gaps = 20/240 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E + S + +++ ++L LV +A K+ NRG DLIQ G IGL+KA ++F+ G +F+ Sbjct: 48 ETKDSEVRDQLIVSHLNLVRFLASKFKNRGEPLDDLIQVGTIGLIKAIDRFEPDRGLEFT 107 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA + I R D+ ++R+P +++ K+ + ++ +++R P+ EEIA++L Sbjct: 108 TYATPTIMGEIKRHFRDKGWSVRVPRRLQELSSKINQVTDDLTKELQRSPSIEEIAQRLD 167 Query: 558 MPVEGVRKVLKITKEPISLETPI--------GDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 VE + + ++ + S+ P+ GDE S + ++ + ++ D I Sbjct: 168 TNVEEILEAMESSSAYSSV--PLEGGGSGADGDETPSIIDQYVTEDEDLAGSDDRI---- 221 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +PRE+ ++RMRF G+ T E+ ++ +++ ++ ++ + +++++ Sbjct: 222 --VLDEAIRDFSPREQEIIRMRFVEGL----TQVEIAEKLNISQVQVSRLLRRTLKRIQE 275 >gi|188090600|gb|ACD49534.1| RNA polymerase sigma factor [Xanthomonas populi] Length = 291 Score = 89.0 bits (219), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 56/142 (39%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHLPDDLVDLEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ +G L EI+ Sbjct: 123 TEMLLADYQAHKEGKKRLAEIV 144 >gi|196038743|ref|ZP_03106051.1| RNA polymerase sigma-F factor [Bacillus cereus NVH0597-99] gi|196030466|gb|EDX69065.1| RNA polymerase sigma-F factor [Bacillus cereus NVH0597-99] Length = 252 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 127/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D++ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRAPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|254473016|ref|ZP_05086414.1| RNA polymerase sigma factor [Pseudovibrio sp. JE062] gi|211957737|gb|EEA92939.1| RNA polymerase sigma factor [Pseudovibrio sp. JE062] Length = 289 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/229 (31%), Positives = 120/229 (52%), Gaps = 20/229 (8%) Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 RLVI+ A ++ + G+ DLIQEG+IGLM+AA +F +FSTYA WW+K I + Sbjct: 53 RLVIAQALRFKSYGVPLSDLIQEGHIGLMEAANRFKLSKDVRFSTYASWWIKSFIQDYVL 112 Query: 514 DQSCTIRIPVHMRDKI--HKVVRTARRMSNK---IKREPTPEEIAKKLAMPVEGVRKV-L 567 +R R K+ R +++K + + ++I+ + + ++ + Sbjct: 113 RNQSIVRGGTSSRQKMLFFGFKRMRAELASKHPELSEDQLHQQISNQTGANMRDIKMMSS 172 Query: 568 KITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPL-DSAIQANL-RETTTR----VLASL 620 ++ + SL + G E L D + A PL D ++ +L E R + +L Sbjct: 173 RLGRSDTSLNATLKGSETNLQLQDTLA---ADEPLPDEIVEVHLDSERAERRLFDAIKTL 229 Query: 621 TPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PRE+RV+R R + D TLE +GK+ V++ER+RQIE++A++KLK Sbjct: 230 PPREQRVIRDR---KLREDGVTLEALGKKLGVSKERVRQIESRAMQKLK 275 >gi|171464209|ref|YP_001798322.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. necessarius STIR1] gi|171193747|gb|ACB44708.1| RNA polymerase, sigma 32 subunit, RpoH [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 307 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 77/283 (27%), Positives = 141/283 (49%), Gaps = 34/283 (12%) Query: 403 VDSILKIRNEIKSISVETGISIS-EFRHIVSMVRKGECEASI-AKKEMVEANLRLVISVA 460 +DS + N + +S + ++ EFR C ++ A K +V ++LRLV+SVA Sbjct: 36 LDSYIAYVNRVPMLSAAEELHLAQEFR----------CTENVDAAKTLVLSHLRLVVSVA 85 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 ++Y G+ DLIQEGNIGLMKA +++D G + ++YA+ W+K I I ++ Sbjct: 86 RQYLGYGIPHADLIQEGNIGLMKAVKRYDPSNGARLASYAIHWIKAEIHEYILKNWRLVK 145 Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEGVRKV-LKITKEPISL 576 K + + R + TP E+ AK L + V+++ +++ ++L Sbjct: 146 TAT---TKAQRKLFFNLRSNKPTLSALTPNEVDALAKTLDVKGSDVKEMEMRLAGGDVAL 202 Query: 577 ETPIGDEDTSH-----LGDFIEDKNA--VSPLDSAIQANLRETTTRVLASLTPREERVLR 629 E DED+++ L D ++ A S +A+Q + L +L R +++ Sbjct: 203 EGDDSDEDSAYAPIQWLADSSQEPTARIASAEANALQG---PKLDQALMALDERSRNIVQ 259 Query: 630 MRFGIGM----NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ + M N TL ++ ++ ++ ER+RQIE A++K++ Sbjct: 260 SRW-LAMDAEGNGTKTLHDLADEYGISAERVRQIETAALKKMR 301 >gi|323529380|ref|YP_004231532.1| RNA polymerase sigma-70 subunit RpoD [Burkholderia sp. CCGE1001] gi|323386382|gb|ADX58472.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia sp. CCGE1001] Length = 664 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 90/164 (54%), Gaps = 15/164 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L +++GY+T ++N LP + + ++ V+ ++MG+ V D + L Sbjct: 53 RALIQLGKEQGYLTHAQINDHLPDNFAQTAAIDSIVSAFNDMGVQVYEQAPDAETLLLNS 112 Query: 88 G-----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAI 142 S+D D + + S+V DS T DPVRMY+REMG+ ELL+R GEIAI Sbjct: 113 NAPAVVSDDQADEETEVALSTV------DSEFGRTTDPVRMYMREMGATELLTRAGEIAI 166 Query: 143 AKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 AKRIE G M+ ++ PL A++ ++ DG + E++D Sbjct: 167 AKRIEDGLHEMVQAIAGCPLAISAILASAQQVADGELRIDELVD 210 >gi|326539488|gb|ADZ87703.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella melitensis M5-90] Length = 293 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|49475181|ref|YP_033222.1| RNA polymerase factor sigma-32 [Bartonella henselae str. Houston-1] gi|49237986|emb|CAF27191.1| RNA polymerase sigma-32 factor [Bartonella henselae str. Houston-1] Length = 294 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 124/245 (50%), Gaps = 16/245 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLMKA ++F+ G++ +TYA+WW Sbjct: 49 AAHKLVTSHLRLVAKIAVGYRGYGLPIGEVISEGNVGLMKAVKRFEPERGFRLATYAIWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + +++ K ++ R++ ++++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKMGTTANQK--RLFFNLRKLKSRLQALDNGDLNAEQVKEIAIQL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIED---KNAVSPLDSAIQANLRE 611 + + V + + SL P+ + + S D++ D + ++ N R Sbjct: 167 NVTEDEVVSMNRRLGGDTSLNAPLRTKEGENSEWQDWLVDDSNNQEQTLIEQNELENRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 T L +L RE+R+ + R + TLEE+ +F ++RER+RQIE +A K+++ Sbjct: 227 MLTNALDNLNEREKRIFKARR--LSDIPLTLEELSSEFNISRERVRQIEMRAFEKIQNSI 284 Query: 672 RSKKL 676 ++ L Sbjct: 285 KASAL 289 >gi|254995008|ref|ZP_05277198.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Mississippi] Length = 296 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 126/235 (53%), Gaps = 22/235 (9%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A + + GL ++LI EGNIGLM+A ++F+ LG++ +TYA+WW+K + Sbjct: 58 LVTSHLRLVVKIAMGFKSYGLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKAS 117 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEGV 563 I I IR+ + K+ +R ++ T +E IA++ A E V Sbjct: 118 IKDYILRSWSCIRVGTTQAQKKLFFSLRKIKKRLLSCGSSMTKKEIKAIAEECATSEEEV 177 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFI------EDKNAVSPLDSAIQANLRETTTRV 616 ++ + +SL + E + L D + ++ ++ +SAI+ ++ ++ Sbjct: 178 ERMDRFFANRDVSLNEQVHGESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSA--- 234 Query: 617 LASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R + R+R TLE++ +++ V++ER+RQIE +A+ K+K Sbjct: 235 LATLDDRHRDIFTRRRLR-----ERPDTLEKLSEEYGVSKERVRQIELQALCKIK 284 >gi|62290634|ref|YP_222427.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 1 str. 9-941] gi|82700548|ref|YP_415122.1| RNA polymerase factor sigma-32 [Brucella melitensis biovar Abortus 2308] gi|148559493|ref|YP_001259609.1| RNA polymerase factor sigma-32 [Brucella ovis ATCC 25840] gi|254689924|ref|ZP_05153178.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|254700417|ref|ZP_05162245.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|254719758|ref|ZP_05181569.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|254730958|ref|ZP_05189536.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|256258178|ref|ZP_05463714.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|256370169|ref|YP_003107680.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|260547128|ref|ZP_05822866.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|297249027|ref|ZP_06932735.1| RNA polymerase sigma-32 factor [Brucella abortus bv. 5 str. B3196] gi|306839453|ref|ZP_07472261.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. NF 2653] gi|62196766|gb|AAX75066.1| RNA polymerase sigma-70 factor family protein [Brucella abortus bv. 1 str. 9-941] gi|82616649|emb|CAJ11731.1| Sigma-70 factor family:Sigma-70 region 2:Sigma-70 region 4 [Brucella melitensis biovar Abortus 2308] gi|148370750|gb|ABQ60729.1| RNA polymerase sigma-70 factor family protein [Brucella ovis ATCC 25840] gi|256000332|gb|ACU48731.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|260095493|gb|EEW79371.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|297174160|gb|EFH33517.1| RNA polymerase sigma-32 factor [Brucella abortus bv. 5 str. B3196] gi|306405398|gb|EFM61669.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. NF 2653] Length = 311 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|254694416|ref|ZP_05156244.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] Length = 311 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|297605001|ref|NP_001056480.2| Os05g0589200 [Oryza sativa Japonica Group] gi|255676623|dbj|BAF18394.2| Os05g0589200 [Oryza sativa Japonica Group] Length = 464 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 48/127 (37%), Positives = 68/127 (53%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV +AK Y G F DL+Q G +G++ AEKFD G KFSTY +W+++A+ +A+ Sbjct: 330 LVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFSTYVKYWIRKAMLALLAE 389 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI 574 S I++P M I KV R + R P EIA + + V VR K ++ + Sbjct: 390 NSGVIQLPARMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSVANVRLARKCSRRVV 449 Query: 575 SLETPIG 581 SL T IG Sbjct: 450 SLYTEIG 456 >gi|254708375|ref|ZP_05170203.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|254708771|ref|ZP_05170582.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|254714614|ref|ZP_05176425.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|254717512|ref|ZP_05179323.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|256030297|ref|ZP_05443911.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|256160470|ref|ZP_05458159.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|256255677|ref|ZP_05461213.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260167971|ref|ZP_05754782.1| RNA polymerase factor sigma-32 [Brucella sp. F5/99] gi|261757411|ref|ZP_06001120.1| sigma-70 factor family [Brucella sp. F5/99] gi|261737395|gb|EEY25391.1| sigma-70 factor family [Brucella sp. F5/99] Length = 311 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSVPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|114770145|ref|ZP_01447683.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] gi|114548982|gb|EAU51865.1| RNA polymerase sigma factor [alpha proteobacterium HTCC2255] Length = 294 Score = 89.0 bits (219), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/237 (30%), Positives = 120/237 (50%), Gaps = 20/237 (8%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ A +RL IS+A K+ G+ DLIQE +GLMKAA+KFD G +FSTYA WWVK + Sbjct: 45 LINAYMRLAISMASKFRRYGVSQQDLIQEAGMGLMKAADKFDPDKGVRFSTYAQWWVKAS 104 Query: 508 ITRSIADQSCTIRIPVHMRDK-----IHKVVRTARRMSNKIKREPTP----EEIAKKLAM 558 I + +R K I +V R + + + TP E+++ +L + Sbjct: 105 IQDFVMRNYSMVRTGSTTNQKSLFFNIKRVKAQLERDAVQNNQTVTPAQILEQVSTELGV 164 Query: 559 PVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI------QANLRE 611 P+ V + +++ +SL ++D ++IE +P + I + L+ Sbjct: 165 PMRDVMMMNGRMSGGDMSLNAIQSNDDEGR--EWIETLADEAPGGAEIVEQSFDEEKLKI 222 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L RE+ ++ R I ++ TLE +G + +++ERIRQIE A+ KLK Sbjct: 223 WIGQSMEVLNEREKYIVIQRKMI--DSPRTLESIGVELKLSKERIRQIENAALEKLK 277 >gi|149202313|ref|ZP_01879286.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] gi|149144411|gb|EDM32442.1| RNA polymerase sigma factor [Roseovarius sp. TM1035] Length = 298 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 123/250 (49%), Gaps = 13/250 (5%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R E + + A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G+ Sbjct: 40 RWAEEQDTEAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGF 99 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 + +TYAMWW++ +I I +++ + K+ +R A+ ++ ++ Sbjct: 100 RLATYAMWWIRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKAKIGALEEGDMRPDVV 159 Query: 554 KKLAMPV-----EGVRKVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQ 606 KK+A + E + ++ SL +G E + D++ED++A D + Sbjct: 160 KKIATDLGVTEAEVISMNQRMAGADASLNATVGAEGEGSMQWQDWLEDEDADQAGDYERR 219 Query: 607 ANL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 L RE + + L RE +L R + TLE++ ++ V+RERIRQIE +A Sbjct: 220 DELDARRELLVQAMDVLNERERDILTQRR--LSDETVTLEDLSAEYDVSRERIRQIEVRA 277 Query: 664 IRKLKHPSRS 673 KL+ R+ Sbjct: 278 FEKLQKRMRA 287 >gi|1163231|gb|AAC45341.1| DNA polymerase sigma 32 subunit [Vibrio cholerae] Length = 286 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 76/269 (28%), Positives = 142/269 (52%), Gaps = 21/269 (7%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ +S E R + + KG+ +A+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNGYPMLSADEERELAERLHYKGDIDAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + E D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPAEVREMESRLAAQDAAFEMSAEDDENGMA 194 Query: 589 GD----FIEDKNAVSPLDSAIQANLRE--TTTRV---LASLTPREERVLRMRFGIGMNTD 639 ++EDK+ S L ++A E TT R+ LASL + ++R R+ + + Sbjct: 195 YTAPVLYLEDKH--SDLADNLEAENWEAHTTQRLSMALASLDDGSQHIVRARW-LDDDNK 251 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ ++ V+ ERIRQ+E A+RKLK Sbjct: 252 TTLQDLAAKYGVSAERIRQLEKNAMRKLK 280 >gi|117927772|ref|YP_872323.1| RNA polymerase, sigma 28 subunit [Acidothermus cellulolyticus 11B] gi|117648235|gb|ABK52337.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Acidothermus cellulolyticus 11B] Length = 287 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 66/215 (30%), Positives = 108/215 (50%), Gaps = 13/215 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V+ +L LV +A+++ NRG DL+Q IGL+KA ++FD G +FSTYA + Sbjct: 63 RSELVQTHLPLVEYLARRFRNRGEPHDDLVQVATIGLIKAIDRFDVERGVEFSTYATPTI 122 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP----V 560 I R D+ IR+P +++ + + +S + R PT E+A L M + Sbjct: 123 VGEIKRYFRDRGWAIRVPRRLQELKMSLAKATSELSQQYGRAPTVSELADHLGMSEDEIL 182 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS 619 EG+ + ISL+TP + D + + + +D A++ RE+ +L Sbjct: 183 EGLESANAYST--ISLDTP-----ETDDADALAVADTLGNIDEALEGVEYRESLKPLLEK 235 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L PRE+R+L +RF M E+G Q V+R Sbjct: 236 LPPREKRILLLRFFRNMTQSQIAAELGISQMHVSR 270 >gi|315506253|ref|YP_004085140.1| anti-sigma-factor antagonist [Micromonospora sp. L5] gi|315412872|gb|ADU10989.1| anti-sigma-factor antagonist [Micromonospora sp. L5] Length = 377 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 114/229 (49%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 42 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E++ +L P E + Sbjct: 101 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATATLTSELSRAPTVAELSARLETPEEEI 160 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + E +A+ +D R T + +L L Sbjct: 161 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDHALESVDD------RVTVSGLLHRL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 215 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 259 >gi|208779746|ref|ZP_03247090.1| alternative sigma factor RpoH [Francisella novicida FTG] gi|208744201|gb|EDZ90501.1| alternative sigma factor RpoH [Francisella novicida FTG] Length = 292 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 125/240 (52%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K + + +++ + K+ R + +KI + + E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSIKDKIGWLSSEDIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|307824539|ref|ZP_07654764.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] gi|307734523|gb|EFO05375.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacter tundripaludum SV96] Length = 285 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 81/288 (28%), Positives = 138/288 (47%), Gaps = 35/288 (12%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISIS-EFRHIVSMVRKGECEASIAKKEMVEANLRL 455 N D+ L + ++ ++VE ++ +FR G+ EA+ +E+V NLR Sbjct: 10 NLSVGTFDAYLNVVRQMPKLTVEQERELALKFRD------DGDLEAA---RELVMTNLRF 60 Query: 456 VISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 VI VA+ Y+ GL D+IQEGNIGLMKA ++FD +G + ++A+ W+K I + Sbjct: 61 VIHVARGYSGYGLSMPDIIQEGNIGLMKAVKRFDPDVGVRLVSFAVHWIKAEIHEYVIKN 120 Query: 516 SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKVLK-ITKE 572 +++ + K+ R+ + E IAK L + V V ++ K + Sbjct: 121 WGIVKVATTKAQR--KLFFNLRKSKQDLGWLSNDEAVAIAKDLDVDVSTVYEMEKRLGSR 178 Query: 573 PISLETPIGDEDT------------SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +S + P+ DE T H GD AV +S + + ++ +A L Sbjct: 179 DMSFDMPV-DESTEESYVAPASYLHQHGGD-----PAVLLENSDWEGHEQDLLADAMAEL 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R +L R+ M+ TL E+ +++ V+ ERIRQ+E A++KL+ Sbjct: 233 DERSLDILSSRW--LMDKKATLHELAERYNVSAERIRQLEQNAMKKLR 278 >gi|239930843|ref|ZP_04687796.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 308 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 121/240 (50%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 73 LEEGTLEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFEMSRG 132 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A Sbjct: 133 VEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQQLDRAPTVAELA 192 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 193 ERLGITNDEVVEGMAASNAYTASSLDAQ-PEEDDAEGALADRIGYE------DHGLEGIE 245 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L PR+ ++L +RF GM T E+G++ +++ + ++ ++ + KL+ Sbjct: 246 YIESLKPLIAELPPRDRKILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVKLR 301 >gi|84500884|ref|ZP_00999119.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] gi|84390951|gb|EAQ03369.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597] Length = 298 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 121/236 (51%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPE---EIAKKLAM 558 ++ +I I +++ + K+ +R A+ R+ + + P+ +IA L + Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLHPDNVKQIANDLGV 168 Query: 559 P-VEGVRKVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL +G E D++ED+ A D A + + RE Sbjct: 169 TEAEVISMNRRMSGGDASLNATVGMDAESAMEWQDWLEDEEADQAGDYAERDEMDSRREL 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A L RE +L R + T TLE++ +Q+ V+RERIRQIE +A KL+ Sbjct: 229 LAEAMAVLNDRERDILTQR-RLSEET-ITLEDLSEQYGVSRERIRQIEVRAFEKLQ 282 >gi|330721841|gb|EGG99811.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC2047] Length = 614 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 54/134 (40%), Positives = 82/134 (61%), Gaps = 10/134 (7%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I +++GY+T E+N LP D +Q+ED + M+++MGI V D++ ++ D Sbjct: 13 KELIARGKEQGYLTYAEVNDHLPQDISDPDQVEDIIRMINDMGITV---DEVAPDQ---D 66 Query: 92 SLDLASSASNSSVFLQKRKDSADRS----TDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 +L L + + +V +A + T DPVRMY+REMGS+ELL+REGEI IAKRIE Sbjct: 67 TLQLNENTDDDAVEEAAAALAAVETEVGRTTDPVRMYMREMGSVELLTREGEIVIAKRIE 126 Query: 148 AGRAMMMASLCESP 161 G +M +L P Sbjct: 127 EGIREVMCALASFP 140 >gi|261819465|ref|YP_003257571.1| RNA polymerase factor sigma-32 [Pectobacterium wasabiae WPP163] gi|261603478|gb|ACX85964.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium wasabiae WPP163] Length = 285 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/280 (26%), Positives = 145/280 (51%), Gaps = 29/280 (10%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ ++ N ++ E +++E H +G+ EA+ K ++ ++LR VI VA+ Sbjct: 16 LEGYIRAANAYPMLTAEEERALAERLHY-----QGDLEAA---KHLILSHLRFVIHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ ++ + E +A++L + + VR++ ++ + ++ + P Sbjct: 128 TTKAQR--KLFFNLRKTKTRLGWFNQDEVELVARELGVTSKDVREMESRMAAQDMTFD-P 184 Query: 580 IGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-----TTRVLASLTPREERVL 628 +ED SH G +++DK+ S I+ + +T T L L R + ++ Sbjct: 185 TPEED-SHDGKAMSPMLYLQDKS--SDFAGGIEEDNWDTHAADKLTYALEGLDERSQHII 241 Query: 629 RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 242 RARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|170691126|ref|ZP_02882292.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia graminis C4D1M] gi|170144375|gb|EDT12537.1| RNA polymerase, sigma 70 subunit, RpoD [Burkholderia graminis C4D1M] Length = 469 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/158 (32%), Positives = 86/158 (54%), Gaps = 3/158 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 + +IKL ++RG++T E+N LP + +E +E ++ ++MG+ V + + D Sbjct: 67 RALIKLGKERGFLTYAEINDHLPDNFTETEAIEGIISTFNDMGVAVYEQAPDAETLLLND 126 Query: 92 SLDLASSASNSSVFLQKRKDSADRS---TDDPVRMYLREMGSIELLSREGEIAIAKRIEA 148 + ASS + + D T DPVRMY+REMG++ELL+REGEI IAKRIE Sbjct: 127 NAPAASSDDEVEEEAEVALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIED 186 Query: 149 GRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIID 186 G M+ ++ P T ++ + + + + E++D Sbjct: 187 GLKHMVMAISACPTTIADILAMAERVANEEIRIDELVD 224 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 44/135 (32%), Positives = 70/135 (51%), Gaps = 9/135 (6%) Query: 339 VEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGE-WKN 397 V+++ + ++I+H + G+ R F+ R G E D W K EG + Sbjct: 343 VDEVRQVERQILHT------VVDKCGMPRAEFIARFPGSETDLEWAD--KIVSEGHPYSA 394 Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 + + +I + + + + + + + + + GE +A AK+EM EANLRLVI Sbjct: 395 ILTRNIPAIREQQQRLLDLQARVVLPLKDLKETNRQMAAGELKARQAKREMTEANLRLVI 454 Query: 458 SVAKKYTNRGLQFLD 472 S+AKKYTNRGLQFLD Sbjct: 455 SIAKKYTNRGLQFLD 469 >gi|154816043|emb|CAO85715.1| putative RNA polymerase sigma factor rpoD [Clostridium sp.] Length = 75 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 41/74 (55%), Positives = 61/74 (82%), Gaps = 1/74 (1%) Query: 609 LRETTTRVLASLTPREERVLRMRFG-IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L +T + VL++L+PREER++R+R+G +G TLEE+G++F +TRERIRQIEA+AIRKL Sbjct: 2 LGDTLSNVLSTLSPREERIVRLRYGLVGDGESRTLEEIGREFNLTRERIRQIEARAIRKL 61 Query: 668 KHPSRSKKLRSFLD 681 +HP+R KKL+ + + Sbjct: 62 RHPTRIKKLQGYFE 75 >gi|302877609|ref|YP_003846173.1| RNA polymerase, sigma 70 subunit, RpoD [Gallionella capsiferriformans ES-2] gi|302580398|gb|ADL54409.1| RNA polymerase, sigma 70 subunit, RpoD [Gallionella capsiferriformans ES-2] Length = 655 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 62/179 (34%), Positives = 95/179 (53%), Gaps = 17/179 (9%) Query: 30 SWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVD-GDDLEDEEG 88 S K +I L ++RGY+T E+N LP D + EQ+E +M+++MGI V D D E Sbjct: 35 SLKALIVLGKERGYLTYAEINDHLP-DMLEVEQIESVASMINDMGIRVCDVAPDAE---- 89 Query: 89 SEDSLDLASSASNSSVFLQKRK--------DSADRSTDDPVRMYLREMGSIELLSREGEI 140 +L + SA ++ + DS T DPVRMY+REMG+++LL+RE EI Sbjct: 90 ---ALIMTDSAPTAADEDAAEEAEAALSTVDSEFGRTTDPVRMYMREMGTVDLLTREKEI 146 Query: 141 AIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESKGGF 199 IAKRIE G+ M+ ++ P+T ++ ++ + E+ID I E + G Sbjct: 147 EIAKRIEEGQRNMIQAISACPVTIAEILSLAAKIEIDEIRVNELIDGFVDIELEDESGL 205 >gi|83949442|ref|ZP_00958175.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] gi|83837341|gb|EAP76637.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM] Length = 298 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 73/260 (28%), Positives = 128/260 (49%), Gaps = 18/260 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E+ + V K + EA+ MV ++LRL +A Y GL ++I E N+GLM+A Sbjct: 34 EYMLAKAWVEKQDTEAA---HRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAV 90 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIK 544 ++FD G++ +TYAMWW++ +I I +++ + K+ +R A+ ++ Sbjct: 91 KRFDPEKGFRLATYAMWWIRASIQEYILRSWSMVKLGTTSAQKKLFFNLRKAKARIGALE 150 Query: 545 REPTPEEIAKKLAMPV-----EGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNA 597 + K++A + E + +++ SL +G E T D++ED++A Sbjct: 151 EGDMHPDNVKRIATDLGVTEDEVISMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDA 210 Query: 598 VSPLDSAIQANLR---ETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTR 653 D + + E T + L RE+ +L R +N + TLE++ ++ V+R Sbjct: 211 DQAGDYEKRNEMETRLELLTEAMDVLNDREKDILSQR---RLNDETVTLEDLSTEYGVSR 267 Query: 654 ERIRQIEAKAIRKLKHPSRS 673 ERIRQIE +A KL+ RS Sbjct: 268 ERIRQIEVRAFEKLQKRMRS 287 >gi|228992811|ref|ZP_04152736.1| RNA polymerase sigma-F factor [Bacillus pseudomycoides DSM 12442] gi|228998857|ref|ZP_04158442.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock3-17] gi|229006374|ref|ZP_04164053.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock1-4] gi|228754873|gb|EEM04239.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock1-4] gi|228760873|gb|EEM09834.1| RNA polymerase sigma-F factor [Bacillus mycoides Rock3-17] gi|228766860|gb|EEM15498.1| RNA polymerase sigma-F factor [Bacillus pseudomycoides DSM 12442] Length = 252 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 126/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQQARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMKDELSKEYGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D+ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRTPSSIHETVYENDGDPITILDQIADQTETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|170718627|ref|YP_001783826.1| RNA polymerase factor sigma-32 [Haemophilus somnus 2336] gi|168826756|gb|ACA32127.1| RNA polymerase, sigma 32 subunit, RpoH [Haemophilus somnus 2336] Length = 280 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 62/231 (26%), Positives = 122/231 (52%), Gaps = 10/231 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKTLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ +E + +A +L + E Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFSDKE--VDMVANELGVSKE 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDK--NAVSPLDS-AIQANLRETTTRVL 617 V ++ ++T + + P+ D+++ ++EDK N + L++ + + L Sbjct: 167 DVLEMESRMTGSDVGFDLPVDDDESYAPALYLEDKSSNFAAELENENFETQAADQVANAL 226 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A L R +++ R+ + TL ++ ++ ++ ER+RQ+E A++KLK Sbjct: 227 AELDERSRDIIKSRWLD--DEKATLHDLAAKYNISAERVRQLETNALKKLK 275 >gi|291439213|ref|ZP_06578603.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291342108|gb|EFE69064.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 304 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 121/240 (50%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTLEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFEMSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A Sbjct: 129 VEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQQLDRAPTVAELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 ERLGITNDEVVEGMAASNAYTASSLDAQ-PEEDDAEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L PR+ ++L +RF GM T E+G++ +++ + ++ ++ + KL+ Sbjct: 242 YIESLKPLIAELPPRDRKILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVKLR 297 >gi|255003152|ref|ZP_05278116.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Puerto Rico] gi|255004281|ref|ZP_05279082.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Virginia] Length = 296 Score = 88.6 bits (218), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 125/233 (53%), Gaps = 18/233 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A + + GL ++LI EGNIGLM+A ++F+ LG++ +TYA+WW+K + Sbjct: 58 LVTSHLRLVVKIAMGFKSYGLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKAS 117 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEGV 563 I I IR+ + K+ +R ++ T +E IA++ A E V Sbjct: 118 IKDYILRSWSCIRVGTTQAQKKLFFSLRKIKKRLLSCGSSMTKKEIKAIAEECATSEEEV 177 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFI------EDKNAVSPLDSAIQANLRETTTRV 616 ++ + +SL + E + L D + ++ ++ +SAI+ ++ ++ Sbjct: 178 ERMDRFFANRDVSLNEQVHGESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSA--- 234 Query: 617 LASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R + R R TLE++ +++ V++ER+RQIE +A+ K+K Sbjct: 235 LATLDDRHRDIFTRRRL---QERPDTLEKLSEEYGVSKERVRQIELQALCKIK 284 >gi|239832766|ref|ZP_04681095.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] gi|239825033|gb|EEQ96601.1| alternative sigma factor RpoH [Ochrobactrum intermedium LMG 3301] Length = 303 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 120/234 (51%), Gaps = 18/234 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP---LDSAIQANLRE 611 + + V + + SL P+ + ++ D++ D ++ ++ N R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSSSQEQILIEQDELDNRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R ++ D TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMDTLNDRERRIFEAR---RLSDDPMTLEDLSSEFSISRERVRQIEVRAF 277 >gi|319405171|emb|CBI78776.1| RNA polymerase sigma-32 factor [Bartonella sp. AR 15-3] Length = 305 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 117/249 (46%), Gaps = 38/249 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + ++I K ++ R++ NK++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKIGTTANQK--RLFFNLRKLKNKLQMLDSGDLNAQQVKEIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETP--------------IGDEDTSHLGDFIEDKNAVSPLD 602 + + V + + SL P + D+ + IE + Sbjct: 167 KVTEDEVVSMNRRLSGDASLNAPLLTNKGESYEWQDWLVDDSNNQEQILIEQDELENRYS 226 Query: 603 SAIQA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 IQA NL E R+ + R+E + TLEE+ +F ++RER+RQIE Sbjct: 227 LLIQAMDNLNEREKRIFKARRLRDEPL-------------TLEELSNEFNISRERVRQIE 273 Query: 661 AKAIRKLKH 669 A+A K+++ Sbjct: 274 ARAFEKVQN 282 >gi|313901877|ref|ZP_07835297.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter subterraneus DSM 13965] gi|313467870|gb|EFR63364.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter subterraneus DSM 13965] Length = 251 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 122/239 (51%), Gaps = 22/239 (9%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 R+G+ EA ++ +V ++ LV VA+++ + G DLIQ G IGL++A + FD G Sbjct: 9 ARQGDGEA---RERLVALHMPLVRHVARRFASFGHDLDDLIQAGTIGLLQAIDGFDPSRG 65 Query: 494 YKFSTYAMWWVKQAITRSI--ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 Y+FSTYA+ + I R + +D + R MR ++ ++ R A M ++ R P Sbjct: 66 YQFSTYAVPVILGEIRRWLRASDPAGLSR---AMRARVAEIRRVADAMEQELGRRPPAAA 122 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDS-AIQANL 609 +A++LA V V L+ + P+SL+ P+ E D + GD + D+ A++A Sbjct: 123 VAQRLACDVADVTFALEAAQSPVSLDEPLSAEPDAACRGDRLPAPGDPDWSDTVAVRA-- 180 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L PR ++ +RF D T EV +++ ++ ++E A+ +L+ Sbjct: 181 ------ALAQLPPRLRTIIALRF----FRDLTQAEVAAAVGLSQPQVSRLEKMALARLR 229 >gi|285019635|ref|YP_003377346.1| RNA polymerase sigma-32 factor protein [Xanthomonas albilineans GPE PC73] gi|283474853|emb|CBA17352.1| probable rna polymerase sigma-32 factor protein [Xanthomonas albilineans] Length = 292 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 74/269 (27%), Positives = 129/269 (47%), Gaps = 39/269 (14%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + SE H ++ VR + E A +E+V ++LR V+ VA+ Y GL DL+QEGNIGL Sbjct: 36 VLTSEEEHALA-VRYRDQEDLDAARELVHSHLRFVVHVARGYNGYGLPLGDLVQEGNIGL 94 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA ++FD +G + ++A+ W++ + I +++ + R++ Sbjct: 95 MKAVKRFDPDMGVRLVSFAVHWIRAEMHEYILKNWRIVKV---------ATTKAQRKLFF 145 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKIT-KEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 +++ T + A V V K L ++ +E + +E+ + D ED + P Sbjct: 146 NLRKSKT--RLGWMNAAEVTAVAKDLNVSEREVLEMESRLSGRDIGFDAPSDEDDDHAPP 203 Query: 601 LDSA-IQAN--------------------LRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +A + AN LRE LA L R ++ R+ + ++ Sbjct: 204 SPAAYLMANEEDPSQAYERADSDDNQLQLLREG----LAELDARSRDIIERRW-LDADSK 258 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+E+ ++ V+ ERIRQIEA A++K+K Sbjct: 259 ITLQELADEYGVSAERIRQIEANALKKMK 287 >gi|302867341|ref|YP_003835978.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|302570200|gb|ADL46402.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] Length = 377 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 114/229 (49%), Gaps = 14/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V L +A++Y RG DL Q +GL+ A +++D G F+ YA Sbjct: 42 ARDDLVRFALPFAGRLARRYRGRGEPLEDLEQVARLGLVNAVDRYDPERG-SFTAYAAIT 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ + +P +RD I +V + +++++ R PT E++ +L P E + Sbjct: 101 IVGEIKRHFRDRTWGVHVPRRLRDLILEVGQATATLTSELSRAPTVAELSARLETPEEEI 160 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L+ P SL P+G E ++ GD + E +A+ +D R T + +L L Sbjct: 161 LAALESAAGYSPASLNAPVGGESSAEFGDLVGESDHALESVDD------RVTVSGLLHRL 214 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE R+L MRF + T E+ +F +++ + ++ ++A+ L+ Sbjct: 215 PWRERRILAMRF----YGNQTQAEIAARFGISQMHVSRLLSRALTWLRQ 259 >gi|302871075|ref|YP_003839711.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302573934|gb|ADL41725.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 256 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 99/190 (52%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V L + +AKK+ NRG+ + DL Q + L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNKYLYIAEIIAKKFVNRGIDYDDLYQVACVALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S+K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRLYETSAKIKLVTEMLSSKLKRPPKVEEIAQHLNMSTEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + ++ +Q E + + L+P Sbjct: 151 EVMEASNSYLPQSLDQTMYEDEEMTLGDVLGKSD-----ENILQIENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E ++ RF Sbjct: 206 FEREFVQKRF 215 >gi|237809745|ref|YP_002894185.1| RNA polymerase, sigma 32 subunit, RpoH [Tolumonas auensis DSM 9187] gi|237502006|gb|ACQ94599.1| RNA polymerase, sigma 32 subunit, RpoH [Tolumonas auensis DSM 9187] Length = 284 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 67/242 (27%), Positives = 129/242 (53%), Gaps = 18/242 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHIARTYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + +++ R + +T +R+ + E +A+ Sbjct: 103 VSFAVHWIKAEIHEYVLRNWRMVKVATTKAQRKLFFNLRKTKKRLGWFNQDEVRA--VAE 160 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANLRE 611 +L + E V ++ +++ S + D+ S+ ++EDK+ S L + + N + Sbjct: 161 ELGVSPEDVTEMESRMSGLDHSFDGYDDDDSESNFAPAQYLEDKS--SDLATVYENNNWD 218 Query: 612 T-----TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 T L L R ++++R R+ + + TL+E+ ++ V+ ER+RQ+E A++K Sbjct: 219 THAEHRLAYALQGLDERSQQIVRARW-LDEDNKQTLQELADRYGVSAERVRQLEKNALKK 277 Query: 667 LK 668 LK Sbjct: 278 LK 279 >gi|229031716|ref|ZP_04187709.1| RNA polymerase sigma-F factor [Bacillus cereus AH1271] gi|228729600|gb|EEL80587.1| RNA polymerase sigma-F factor [Bacillus cereus AH1271] Length = 252 Score = 88.6 bits (218), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 121/228 (53%), Gaps = 16/228 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD KFSTYA+ Sbjct: 33 ARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSFDVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D ++++ +++ +K+ + +S + R PT E+A+ L + E V Sbjct: 93 IIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINEVAEALELTPEEV 151 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQANLRETTTRVLASL 620 + ++ P S+ + D D + D I D++ D A++ +RE L Sbjct: 152 VLAQEASRAPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEAIRE--------L 203 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 204 DERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|297157365|gb|ADI07077.1| putative sigma factor [Streptomyces bingchenggensis BCW-1] Length = 242 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 67/222 (30%), Positives = 113/222 (50%), Gaps = 14/222 (6%) Query: 440 EASIAKKEM----VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 E S A+ E+ V +L LV +A+++ NRG DL Q IGL+K+ ++FD G + Sbjct: 10 EGSTARAELRNTLVRMHLPLVEHLARRFRNRGEPLDDLTQVATIGLIKSVDRFDPDRGVE 69 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA V I R D+ +R+P +++ + +S + R PT E+A++ Sbjct: 70 FSTYATPTVVGEIKRHFRDKGWAVRVPRRLQELRLSLTTATAELSQRHGRAPTVHELAEQ 129 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRET 612 L++ E V + L+ +SL+ P D+++ + D + + D A++ RE+ Sbjct: 130 LSISEEEVLEGLESANAYSTLSLDVPDTDDESPAVADTLGAE------DEALEGVEYRES 183 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L L PRE+++L +RF M +EVG Q V+R Sbjct: 184 LKPLLEDLPPREKKILLLRFFGNMTQSQIAQEVGISQMHVSR 225 >gi|257063114|ref|YP_003142786.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] gi|256790767|gb|ACV21437.1| RNA polymerase sigma factor, sigma-70 family [Slackia heliotrinireducens DSM 20476] Length = 269 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 36/76 (47%), Positives = 55/76 (72%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + + AK+++V A+LRLV +AK+Y RG+ F+DL+ EGN+GL++AAE+FD G FS Sbjct: 103 QSDGDAAKEQLVGASLRLVARIAKRYIFRGVSFMDLVHEGNMGLIRAAERFDPASGAAFS 162 Query: 498 TYAMWWVKQAITRSIA 513 YA WW++ AI+R+ Sbjct: 163 VYASWWIRAAISRATG 178 Score = 39.7 bits (91), Expect = 1.7, Method: Compositional matrix adjust. Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 9/78 (11%) Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ---FC-----V 651 PLD + E T L+S++ RE +R RFG+ + T E + C + Sbjct: 186 PLDPSETFGEGEIET-ALSSMSERERDYIRFRFGLENGSSRTFGESAPEPGVVCTLPSGI 244 Query: 652 TRERIRQIEAKAIRKLKH 669 TRER RQIEAK + KL++ Sbjct: 245 TRERARQIEAKFLAKLRN 262 >gi|229163011|ref|ZP_04290967.1| RNA polymerase sigma-F factor [Bacillus cereus R309803] gi|229174749|ref|ZP_04302273.1| RNA polymerase sigma-F factor [Bacillus cereus MM3] gi|228608739|gb|EEK66037.1| RNA polymerase sigma-F factor [Bacillus cereus MM3] gi|228620417|gb|EEK77287.1| RNA polymerase sigma-F factor [Bacillus cereus R309803] Length = 252 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 121/228 (53%), Gaps = 16/228 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD KFSTYA+ Sbjct: 33 ARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSFDVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D ++++ +++ +K+ + +S + R PT E+A+ L + E V Sbjct: 93 IIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMRDELSKEFGRAPTINEVAEALELTPEEV 151 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQANLRETTTRVLASL 620 + ++ P S+ + D D + D I D++ D A++ +RE L Sbjct: 152 VLAQEASRAPSSIHETVYENDGDPITILDQIADQSETKWFDKIALKEAIRE--------L 203 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 204 DDRERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|291087795|ref|ZP_06347503.2| RNA polymerase sigma-G factor [Clostridium sp. M62/1] gi|291073935|gb|EFE11299.1| RNA polymerase sigma-G factor [Clostridium sp. M62/1] Length = 291 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 119/228 (52%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV ++++ DL Q G IGL+KA + FD +FSTYA+ Sbjct: 71 AREQYIKGNLRLVLSVIQRFSGSSENVDDLFQIGCIGLIKAIDNFDITQNVRFSTYAVPM 130 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D + +IR+ +RD +K + + K +EPT EIA+++ + E + Sbjct: 131 ILGEVKRYLRDNN-SIRVSRSLRDTAYKAIYARESLMKKNLKEPTLCEIAEEVGVSKEDI 189 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ + D ++ D + DK S + +L E R L Sbjct: 190 TYALDAIQSPVSLYEPVYTDGGDPLYVMDQLSDKKN-SEENWIEDISLSEAMRR----LP 244 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE ++ MRF G T EV ++ +++ ++ ++E A++ +K+ Sbjct: 245 ERERHIIGMRFFEG----KTQTEVAEEIHISQAQVSRLEKNALKAMKN 288 >gi|56416805|ref|YP_153879.1| RNA polymerase sigma-32 factor [Anaplasma marginale str. St. Maries] gi|56388037|gb|AAV86624.1| RNA polymerase sigma-32 factor [Anaplasma marginale str. St. Maries] Length = 290 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 125/233 (53%), Gaps = 18/233 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A + + GL ++LI EGNIGLM+A ++F+ LG++ +TYA+WW+K + Sbjct: 52 LVTSHLRLVVKIAMGFKSYGLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKAS 111 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEGV 563 I I IR+ + K+ +R ++ T +E IA++ A E V Sbjct: 112 IKDYILRSWSCIRVGTTQAQKKLFFSLRKIKKRLLSCGSSMTKKEIKAIAEECATSEEEV 171 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFI------EDKNAVSPLDSAIQANLRETTTRV 616 ++ + +SL + E + L D + ++ ++ +SAI+ ++ ++ Sbjct: 172 ERMDRFFANRDVSLNEQVHGESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSA--- 228 Query: 617 LASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R + R R TLE++ +++ V++ER+RQIE +A+ K+K Sbjct: 229 LATLDDRHRDIFTRRRL---QERPDTLEKLSEEYGVSKERVRQIELQALCKIK 278 >gi|167758779|ref|ZP_02430906.1| hypothetical protein CLOSCI_01121 [Clostridium scindens ATCC 35704] gi|167663519|gb|EDS07649.1| hypothetical protein CLOSCI_01121 [Clostridium scindens ATCC 35704] Length = 258 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 128/245 (52%), Gaps = 21/245 (8%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + + ++ G+ EA K+E ++ NLRLV+SV K++ DL Q G IGL+KA F+ Sbjct: 27 LFARIKAGDAEA---KEEYIKGNLRLVLSVIKRFGGSNENPDDLFQIGCIGLIKAINNFN 83 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 L KFSTYA+ + I R + D + +IR+ +RD +K + + +EPT Sbjct: 84 TELDVKFSTYAVPMIIGEIRRYMRDNN-SIRVSRSLRDTAYKAIYAKENYIKQNLKEPTV 142 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIED-KNAVSPL--DSA 604 +EIA+++ + E + L + P+SL+ P+ ++ D ++ D I D KN D + Sbjct: 143 QEIAEEIGISKEDIVFALDAIQVPMSLQEPVYNDGGDALYVMDQISDTKNKEEKWVEDLS 202 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 ++A ++ L RE ++++RF G T EV + +++ ++ ++E A+ Sbjct: 203 LEAAMQH--------LGERERYIIKLRFFEG----KTQMEVADEIKISQAQVSRLEKNAL 250 Query: 665 RKLKH 669 R ++ Sbjct: 251 RLMRQ 255 >gi|294670676|ref|ZP_06735551.1| hypothetical protein NEIELOOT_02398 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291307564|gb|EFE48807.1| hypothetical protein NEIELOOT_02398 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 287 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 130/249 (52%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 45 RGDVEAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPDRGAR 101 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ + + +P+E A+ Sbjct: 102 LFSFAVHWIKAEIHEFILRNWRLVRVATTKPQRKLFFNLRSMRKSLSAL----SPKE-AQ 156 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 +A + GV+ E + +E + +D + L D +D + +P+D Sbjct: 157 AIADDL-GVK-----LSEVLEMEQRMTGKDVALLADNSDDDDNFAPIDWLADHDNEPTRQ 210 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A E LA L R R++ R+ + + TL E+ ++ V+ ERIRQI Sbjct: 211 IERKAHYTLQTEGLQNALAKLDDRSRRIVETRW-LQDDGGLTLHELAAEYGVSAERIRQI 269 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 270 EAKAMQKLR 278 >gi|256114330|ref|ZP_05455068.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] Length = 311 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|330946033|gb|EGH47317.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. pisi str. 1704B] Length = 166 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 46/149 (30%), Positives = 88/149 (59%) Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 R+P+H+ +++ +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ Sbjct: 3 RLPIHVVKELNVYLRAARELTQKLDHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVS 62 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 +G + L D + D P + +L ++ + L+ LT ++ V+ RFG+ + Sbjct: 63 LGPDSDKTLLDTLTDDRPTDPCELLQDDDLSQSIDQWLSELTEKQREVVIRRFGLRGHES 122 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 123 STLEDVGLEIGLTRERVRQIQVEGLKRLR 151 >gi|222475169|ref|YP_002563585.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Florida] gi|222419306|gb|ACM49329.1| RNA polymerase sigma-32 factor (rpoH) [Anaplasma marginale str. Florida] Length = 307 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 67/233 (28%), Positives = 125/233 (53%), Gaps = 18/233 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ +A + + GL ++LI EGNIGLM+A ++F+ LG++ +TYA+WW+K + Sbjct: 69 LVTSHLRLVVKIAMGFKSYGLPIMELIMEGNIGLMQAVKRFNPDLGFRLATYAVWWIKAS 128 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPVEGV 563 I I IR+ + K+ +R ++ T +E IA++ A E V Sbjct: 129 IKDYILRSWSCIRVGTTQAQKKLFFSLRKIKKRLLSCGSSMTKKEIKAIAEECATSEEEV 188 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHLGDFI------EDKNAVSPLDSAIQANLRETTTRV 616 ++ + +SL + E + L D + ++ ++ +SAI+ ++ ++ Sbjct: 189 ERMDRFFANRDVSLNEQVHGESSVELQDLVPSSLPSQEIMYLADEESAIKKSMFDSA--- 245 Query: 617 LASLTPREERVL-RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R + R R TLE++ +++ V++ER+RQIE +A+ K+K Sbjct: 246 LATLDDRHRDIFTRRRL---QERPDTLEKLSEEYGVSKERVRQIELQALCKIK 295 >gi|90418989|ref|ZP_01226900.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] gi|90337069|gb|EAS50774.1| sigma factor [Aurantimonas manganoxydans SI85-9A1] Length = 303 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 117/249 (46%), Gaps = 32/249 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +++ EGN+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I I +++ K ++ R+M ++I+ R +IA L Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSRIQALDEGDLRPDQVSQIATNL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL----- 609 + E V + + SL P+ + ++ D++ D DS Q +L Sbjct: 167 GVSDEEVVSMNRRLSGDASLNAPLRATEGESGEWQDWLVD-------DSETQEDLLARND 219 Query: 610 -----RETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKA 663 R + + L RE R+ R + D TLE + +F ++RER+RQIE +A Sbjct: 220 ELDQRRGMLQQAMGVLNDRERRIFEAR---RLAEDPLTLETLSGEFEISRERVRQIEVRA 276 Query: 664 IRKLKHPSR 672 K++ R Sbjct: 277 FEKVQKAVR 285 >gi|50084493|ref|YP_046003.1| RNA polymerase factor sigma-32 [Acinetobacter sp. ADP1] gi|49530469|emb|CAG68181.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ADP1] Length = 289 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 124/236 (52%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 171 Query: 563 VRKV-LKITKEPISLETPIGDED--TSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVL 617 V ++ ++T + ET D+D ++H+ ++ED N P A + E ++ L Sbjct: 172 VLEMEGRLTAYDAAFETQGDDDDDSSTHVAPALYLED-NRYDPARLAENDDYEEQSSTAL 230 Query: 618 A----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 HEAMNQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|315635212|ref|ZP_07890490.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Aggregatibacter segnis ATCC 33393] gi|315476174|gb|EFU66928.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Aggregatibacter segnis ATCC 33393] Length = 283 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 124/233 (53%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 50 AAKKLVLSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PV 560 +K I + +++ R + +T +R+ E + +A +L + P Sbjct: 110 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSPQ 167 Query: 561 EGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDK--NAVSPLDS-AIQANLRETTTR 615 + V ++T ++ + P DE+T ++EDK N + L++ +A + Sbjct: 168 DVVEMESRMTGADVAFDLPTDDHDEETYAPALYLEDKGSNFAAELENENYEAQATDQLVV 227 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R + +++ R+ T TL+++ ++ ++ ER+RQ+E A++KLK Sbjct: 228 ALNNLDARSQDIIKARWLD--ETKATLQDLAAKYNISAERVRQLETNALKKLK 278 >gi|134102136|ref|YP_001107797.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291007613|ref|ZP_06565586.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133914759|emb|CAM04872.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 280 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 66/212 (31%), Positives = 102/212 (48%), Gaps = 8/212 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L + +A+++++RG DL Q +GL+ A ++FD G F +YA+ + Sbjct: 41 RDRLVTEHLPVAEHIARRFSHRGESQEDLTQVATLGLINAVDRFDPGRGVDFLSYAVPTI 100 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D +R+P +++ V R+S + R PTP EIA+ L + V Sbjct: 101 MGEVRRHFRDTGWAVRMPRRLQELHLSVSAAIARLSQEFGRAPTPSEIAEHLGISTNDVY 160 Query: 565 KVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L+ SL+ + D D LGD I +A LD + RET +LA L Sbjct: 161 HGLEAGNAYRSASLDELLTDTDEIPLGDAIGSNDA--ELD---EVENRETIRPLLAELEE 215 Query: 623 REERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE R+L MRF GM E+VG Q V+R Sbjct: 216 RERRILVMRFFRGMTQTQIAEQVGISQMHVSR 247 >gi|312794377|ref|YP_004027300.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312876651|ref|ZP_07736632.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311796604|gb|EFR12952.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|312181517|gb|ADQ41687.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 256 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 99/190 (52%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V +L + +AKK+ NRG+ + DL Q I L+ A E+F+ GY+F+++A + Sbjct: 31 RNELVNKHLYIAEIIAKKFVNRGIDYEDLYQVACIALINAVERFEPNKGYRFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRIYETSAKIKLATEILSTKLKRPPKVEEIAQHLNMSTEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + ++ +Q E + + L+P Sbjct: 151 EVMEASSSYLPQSLDQTMYEDEEMTLGDVLGKSD-----ENILQVENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E ++ RF Sbjct: 206 FEREFVQKRF 215 >gi|319651418|ref|ZP_08005547.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] gi|317396949|gb|EFV77658.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2] Length = 252 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/260 (26%), Positives = 135/260 (51%), Gaps = 19/260 (7%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K+ +T + +E + ++ + G+ A + ++V+ N+RLV SV +++ NRG + Sbjct: 4 EVKAEKGQTYLKDNEVKELIKQSQSGDQGA---RDKIVQKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKEMGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + + +S + R PT E+++ L + E + + ++ P S+ + D D L Sbjct: 120 IRKAKDELSKTLGRIPTVTELSEFLEISPEDIILAQEASRIPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D I+D N D A++ +RE L RE ++ +R+ D T EV + Sbjct: 180 DQIDDGNEGKWFDKIALKEAIRE--------LDERERLIVYLRY----YKDQTQSEVAAR 227 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K ++++K Sbjct: 228 LGISQVQVSRLEKKILQQMK 247 >gi|262273588|ref|ZP_06051402.1| RNA polymerase sigma-32 factor [Grimontia hollisae CIP 101886] gi|262222566|gb|EEY73877.1| RNA polymerase sigma-32 factor [Grimontia hollisae CIP 101886] Length = 287 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 127/239 (53%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR V+ +A+ Y+ GL DL+QEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKSLILSHLRFVVHIARGYSGYGLPISDLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R +++ E +A++L + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKSKKRLGWFNAEEV-NMVAEQLGVDAAE 167 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLG----DFIEDKNA--VSPLDSAIQANLRETTTR 615 VR++ ++ + + +GD++ ++EDK++ + L+S N + T R Sbjct: 168 VREMESRLAAQDAGFDAGVGDDEREGGAVAPVFYLEDKSSDIATNLES---QNWEDHTNR 224 Query: 616 VLA----SLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R + ++R R+ ++ D+ TL+E+ + V+ ERIRQ+E A+RKLK Sbjct: 225 RLAQAMSGLDARSQHIIRSRW---LDDDNKVTLQELADHYQVSAERIRQLEKNAMRKLK 280 >gi|302560279|ref|ZP_07312621.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302477897|gb|EFL40990.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 304 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 121/240 (50%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTPEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A Sbjct: 129 VEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQQLDRSPTVAELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 ERLGITNEEVVEGMAASNAYTASSLDAQ-PEEDDAEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L PR+ ++L +RF GM T E+G++ +++ + ++ ++ + KL+ Sbjct: 242 YVESLKPLIAELPPRDRKILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVKLR 297 >gi|197303315|ref|ZP_03168355.1| hypothetical protein RUMLAC_02038 [Ruminococcus lactaris ATCC 29176] gi|197297599|gb|EDY32159.1| hypothetical protein RUMLAC_02038 [Ruminococcus lactaris ATCC 29176] Length = 237 Score = 88.2 bits (217), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 126/242 (52%), Gaps = 12/242 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H +S++RK A++++V+ N+ LV V K++ RG + DL Q G+IGL+KA +KF Sbjct: 3 HTISLIRKSHHGDKEAREQLVKENVGLVWCVVKRFYGRGAEPEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D +FSTYA+ + I R + D I++ ++ +K + ++ ++ REPT Sbjct: 63 DLSYDVQFSTYAVPMISGEIRRFLRDDG-MIKVSRSLKKLSYKCGKKKEELTERMGREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQ 606 EE+A L E + + ++ E S+ PI E S L D +E+K+ P + + Sbjct: 122 MEELATSLGTEKEELVQAMEAATEVESIYRPIHQEGDSQLSILDRLEEKS--RPEEHLLN 179 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R +++L L E +++ +R+ + T VG+ +++ ++ ++E K + + Sbjct: 180 ---RMMLSQILDGLDKEERQLIYLRY----FQEKTQAAVGEILGISQVQVSRMEKKILER 232 Query: 667 LK 668 ++ Sbjct: 233 MR 234 >gi|269103879|ref|ZP_06156576.1| RNA polymerase sigma factor RpoH [Photobacterium damselae subsp. damselae CIP 102761] gi|268163777|gb|EEZ42273.1| RNA polymerase sigma factor RpoH [Photobacterium damselae subsp. damselae CIP 102761] Length = 287 Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 74/279 (26%), Positives = 143/279 (51%), Gaps = 22/279 (7%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 A +DS ++ N ++ E ++E H G+ +A+ K +V ++LR V+ + Sbjct: 13 ADSLDSYIQAVNRYPMLTAEQEKELAERLHF-----DGDIDAA---KALVMSHLRFVVHI 64 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + + Sbjct: 65 ARGYSGYGLPMADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEFVLRNWRIV 124 Query: 520 RIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLE 577 ++ + K+ +R +++ E +A +L + VR++ ++ + + E Sbjct: 125 KVATTKAQRKLFFNLRKSKKRLGWFNNEEI-NMVADQLGVEPSEVREMESRLAAQDATFE 183 Query: 578 TPIGDED----TSHLGDFIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 D+D + ++EDK+ A S +S + + ++ LA L R + ++R Sbjct: 184 MSNDDDDRDFTPTAPAYYLEDKSSDVARSYEESNWETHATNRLSQALAGLDERSQFIVRS 243 Query: 631 RFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++ D TL+++ +F V+ ERIRQ+E A++KLK Sbjct: 244 RW---LDEDKSTLQDLADRFGVSAERIRQLEKNAMKKLK 279 >gi|89067929|ref|ZP_01155373.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] gi|89046527|gb|EAR52583.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516] Length = 297 Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 73/236 (30%), Positives = 120/236 (50%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 48 AAHKLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWW 107 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPE---EIAKKLAM 558 ++ +I I +++ + K+ +R A+ R+ + + PE +IA L + Sbjct: 108 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEEGDLRPENVAQIANDLGV 167 Query: 559 P-VEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANL---RET 612 E + +++ SL IG E S D++ED++A D + L RE Sbjct: 168 TETEVISMNRRLSGGDASLNAMIGTEGDSATQWQDWLEDESADQAGDYEERDELSTRREL 227 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE+ +L R + TLEE+ Q+ V+RERIRQIE +A KL+ Sbjct: 228 LGEAMDVLNDREKDILTQRR--LQDQAVTLEELSGQYGVSRERIRQIEVRAFDKLQ 281 >gi|240140689|ref|YP_002965169.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] gi|240010666|gb|ACS41892.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens AM1] Length = 262 Score = 88.2 bits (217), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 125/250 (50%), Gaps = 41/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 13 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPEREVRFSTYATWW 72 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E EI ++A + Sbjct: 73 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTEEQVGSEIHGRIATAI 130 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETT 613 R+ + +++ +SL P+G+E +S DF+ D NA P ++ Sbjct: 131 GVSREDVALMDARLSGPDMSLNAPVGEESEASSERMDFLVD-NAALPDET---------- 179 Query: 614 TRVLASLTPREERVLRMRFGIGMNT---------------DHTLEEVGKQFCVTRERIRQ 658 +++L E R++ +R + + + TLE +G + +++ER+RQ Sbjct: 180 ---VSALVDGERRLIWLRQALTVLSERELRILRERRLAEDQATLEALGHRLGISKERVRQ 236 Query: 659 IEAKAIRKLK 668 IE +A+ KL+ Sbjct: 237 IENRALEKLR 246 >gi|152976482|ref|YP_001375999.1| sporulation sigma factor SigF [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025234|gb|ABS23004.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 252 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 126/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQGARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FDVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMKDELSKEYGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D+ D A++ Sbjct: 140 VAEALELTPEEVVLAQEASRTPSSIHETVYENDGDPITILDQIADQAETKWFDKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|225853213|ref|YP_002733446.1| RNA polymerase factor sigma-32 [Brucella melitensis ATCC 23457] gi|256263296|ref|ZP_05465828.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|225641578|gb|ACO01492.1| RNA polymerase sigma factor, sigma-70 family protein [Brucella melitensis ATCC 23457] gi|263093265|gb|EEZ17362.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|326409772|gb|ADZ66837.1| RNA polymerase factor sigma-32 [Brucella melitensis M28] Length = 311 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|27380342|ref|NP_771871.1| RNA polymerase factor sigma-32 [Bradyrhizobium japonicum USDA 110] gi|1613784|gb|AAC44755.1| sigma32-like factor RpoH1 [Bradyrhizobium japonicum] gi|27353506|dbj|BAC50496.1| sigma32-like factor [Bradyrhizobium japonicum USDA 110] Length = 308 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A +Y GL +++ EGNIGLM+A +FD G + +TYAMWW Sbjct: 49 AAYHLVTSHLRLVAKIAMRYRGYGLPIAEIVSEGNIGLMQAVRRFDPDRGVRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEE---IAKKLAM 558 ++ +I I ++I K K+ R +S + PE+ IA++L + Sbjct: 109 IRASIQEYILRSWSLVKIAASASQKKLFFKLRRAKSAISALQDGDLRPEQVRLIAERLKV 168 Query: 559 PVEGVRKVLKITKEPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRE---TTT 614 V + + + SL PI DED D++ D + A + ++ Sbjct: 169 AERDVVAMDRRLRGDASLNVPIHDEDEGGQTLDWLVDPAPTCEITLAEEQEAKQRRLALA 228 Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L RE + R+ +N + TLEE+ ++ V+RER+RQIE +A +K+K Sbjct: 229 NALANLNARERNIFTARW---LNEESTTLEELAAEYGVSRERVRQIEERAFQKVK 280 >gi|326442277|ref|ZP_08217011.1| RNA polymerase sigma factor, sigma L [Streptomyces clavuligerus ATCC 27064] Length = 292 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 63 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 122 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ ++ R PT E+A L + Sbjct: 123 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQRLDRSPTVPELAAVLGVS 182 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 183 EEEVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 238 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 239 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 282 >gi|254384107|ref|ZP_04999452.1| sigma factor [Streptomyces sp. Mg1] gi|194342997|gb|EDX23963.1| sigma factor [Streptomyces sp. Mg1] Length = 301 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 68/224 (30%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 72 ERAYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 131 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ K+ R PT E+A L + Sbjct: 132 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQKLDRSPTVPELAAVLGVS 191 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ED G + D+ D+A++ RE+ + Sbjct: 192 EEEVVDGLAVGNAYTASSLDSP-SPEDEGGEGS-LADRLGYE--DTALEGVEYRESLKPL 247 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 248 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 291 >gi|167854819|ref|ZP_02477597.1| RNA polymerase factor sigma-32 [Haemophilus parasuis 29755] gi|219871694|ref|YP_002476069.1| RNA polymerase factor sigma-32 [Haemophilus parasuis SH0165] gi|167854117|gb|EDS25353.1| RNA polymerase factor sigma-32 [Haemophilus parasuis 29755] gi|219691898|gb|ACL33121.1| RNA polymerase factor sigma-32 [Haemophilus parasuis SH0165] Length = 315 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 129/234 (55%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ +A+ Y GL DLIQEGNIGLMKA ++F+ +G + +++A+ W Sbjct: 79 AAKQLIMSHLRFVVYIARGYLGYGLPLADLIQEGNIGLMKAVKRFNPEIGVRLASFAVHW 138 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 VK I + +++ + K+ R+ ++ E ++A++L + + Sbjct: 139 VKAEIHEYVLKNWRIVKVATTKSQR--KLFFNLRKNKQRLAWFNEEEIRKVAEELGVSTD 196 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDK--NAVSPLDSAIQANLRETT--T 614 V+++ ++ + I +T +GD+D + ++ED+ N V L+ + + R T Sbjct: 197 DVKEMESRMVGQDIGFDTSVGDDDDDNYVPSMYLEDESSNFVDELEYE-EYSGRATAQLA 255 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R + +++ R+ + N TL E+ Q+ ++ ER+RQ+E +A++K+K Sbjct: 256 YALAQLDERSQNIIKTRW-LDENK-ATLHELAAQYNISAERVRQLENQALKKIK 307 >gi|167462564|ref|ZP_02327653.1| sporulation sigma factor SigF [Paenibacillus larvae subsp. larvae BRL-230010] Length = 251 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 125/246 (50%), Gaps = 17/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++++ + G+ +IA+ +V N+RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 17 EVKRLIALSQSGD---TIARDTLVNCNIRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSV 73 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KF+ KFSTYA+ + I R + D T+++ +++ +KV +T +S ++R Sbjct: 74 DKFNLSYEVKFSTYAVPMIIGEIQRFLRDDG-TLKVSRSLKELANKVRKTKDELSKNLER 132 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 PT +E+A L + E V + K S+ + D D L D I D + D Sbjct: 133 LPTLKEVANALGITPEEVVFAQEANKPLSSIHETVFENDWDPITLMDQIADDSQEKWFD- 191 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + + L+ RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 192 ------KLALNEAIEGLSERERLIVYLRYF----KDQTQSEVANRLGISQVQVSRLEKKI 241 Query: 664 IRKLKH 669 ++ +++ Sbjct: 242 LQSIRN 247 >gi|56459340|ref|YP_154621.1| RNA polymerase factor sigma-32 [Idiomarina loihiensis L2TR] gi|56178350|gb|AAV81072.1| DNA-directed RNA polymerase sigma 32 subunit [Idiomarina loihiensis L2TR] Length = 286 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 125/245 (51%), Gaps = 33/245 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A KE++ ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AAKELIMSHLRFVVHVARSYSGYGLPQADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + +++ + K+ R+M ++ E VE V Sbjct: 111 IKAEIHEYVLRNWRVVKVATTKAQR--KLFFNLRKMKKRLGWFSQKE---------VETV 159 Query: 564 RKVLKI-TKEPISLETPI----------GDEDTSHLGD------FIEDKNAVSPLDSAIQ 606 L + TKE + +ET + D+D S G ++EDK S L + I+ Sbjct: 160 ANELGVSTKEVLEMETRMSAHDQAFELSSDDDDSKEGSAYSPAMYLEDKR--SDLAAEIE 217 Query: 607 ANLRETTT--RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKA 663 A E T ++L +++ +ER + ++ D TL ++ +++ V+ ER+RQ+E A Sbjct: 218 AKDYENHTQQKLLGAMSHLDERSQDIVQSRWLSEDKTTLHDLAEKYEVSAERVRQLEQNA 277 Query: 664 IRKLK 668 ++KL+ Sbjct: 278 MKKLR 282 >gi|62258694|gb|AAX77814.1| unknown protein [synthetic construct] Length = 327 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 123/240 (51%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 82 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHW 141 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K + + +++ + K+ R +KI +E+A++L + E Sbjct: 142 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSENIKELAEELGVKEE 199 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 200 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 259 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 260 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 317 >gi|46240842|dbj|BAD15074.1| RNA polymerase alternative sigma factor [Saccharopolyspora erythraea] Length = 280 Score = 87.8 bits (216), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 66/212 (31%), Positives = 102/212 (48%), Gaps = 8/212 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L + +A+++++RG DL Q +GL+ A ++FD G F +YA+ + Sbjct: 41 RDRLVTEHLPVAEHIARRFSHRGESQEDLTQVATLGLINAVDRFDPGRGVDFLSYAVPTI 100 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D +R+P +++ V R+S + R PTP EIA+ L + V Sbjct: 101 MGEVRRHFRDTGWAVRMPRRLQELHLSVSAAIARLSQEFGRAPTPSEIAEHLGISTNDVY 160 Query: 565 KVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L+ SL+ + D D LGD I +A LD + RET +LA L Sbjct: 161 HGLEAGNAYRSASLDELLTDTDEIPLGDAIGSNDA--ELD---EVENRETIRPLLAELEE 215 Query: 623 REERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE R+L MRF GM E+VG Q V+R Sbjct: 216 RERRILVMRFFRGMTQTQIAEQVGISQMHVSR 247 >gi|302551910|ref|ZP_07304252.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] gi|302469528|gb|EFL32621.1| RNA polymerase sigma-E factor [Streptomyces viridochromogenes DSM 40736] Length = 304 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 121/240 (50%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTHEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ K+ R PT E+A Sbjct: 129 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQKLDRAPTVTELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 ERLGISNDEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L PR+ ++L +RF G+ T E+G++ +++ + ++ ++ + +L+ Sbjct: 242 YVESLKPLIAELPPRDRKILSLRFVAGL----TQSEIGEELGISQMHVSRLLSRTLVRLR 297 >gi|224009562|ref|XP_002293739.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] gi|220970411|gb|EED88748.1| RNA polymerase [Thalassiosira pseudonana CCMP1335] Length = 316 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 75/272 (27%), Positives = 140/272 (51%), Gaps = 24/272 (8%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN----RGLQFLDLIQEGN 478 S +E R +VS R AK+E+V +N+ LV +V K Y+ RG+ +L+QEG+ Sbjct: 51 SPNELRKVVSEYRS-------AKQELVASNMGLVHAVVKNYSRKAYYRGITIDELVQEGS 103 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL++AAE FD G +FSTYA W+K ++ S D+ + +P R +K+ ++ Sbjct: 104 LGLIRAAELFDPAKGLRFSTYATIWIKGVLSNSRVDE--MVLVPQRERQIWNKIREVSKD 161 Query: 539 MSNKIKREPTPEEIAKKLAM---PVEGVRKVLKITKEPISLE------TPIGDEDTSHLG 589 + ++ R T + IAKKL + VE + + +SL+ T G+ D S Sbjct: 162 VDDEDGRLST-DMIAKKLGLDKSSVEQNIQRMSSVNNMLSLDYQYASTTRSGETDGSKPF 220 Query: 590 DFIEDKNAVSPLDSAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + + + S D A +A + + ++ +L RE +++R+ +G+ ++++++ K Sbjct: 221 EALMADKSGSDADLAERAQFKADLVAGLVRNLNEREIQLIRLMYGMHDGHEYSVKDSAKI 280 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 + RE R + ++KL+ S + L+ +L Sbjct: 281 MGINRETARLLHHACLKKLREASNMESLQEYL 312 >gi|153008567|ref|YP_001369782.1| RNA polymerase factor sigma-32 [Ochrobactrum anthropi ATCC 49188] gi|151560455|gb|ABS13953.1| RNA polymerase, sigma 32 subunit, RpoH [Ochrobactrum anthropi ATCC 49188] Length = 303 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 18/234 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP---LDSAIQANLRE 611 + + V + + SL P+ + ++ D++ D ++ ++ N R Sbjct: 167 KVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSSSQEQVLIEQDELENRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R ++ D TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMDTLNDRERRIFEAR---RLSDDPMTLEDLSSEFGISRERVRQIEVRAF 277 >gi|121602584|ref|YP_988464.1| RNA polymerase factor sigma-32 [Bartonella bacilliformis KC583] gi|120614761|gb|ABM45362.1| RNA polymerase sigma-32 factor [Bartonella bacilliformis KC583] Length = 303 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 68/239 (28%), Positives = 125/239 (52%), Gaps = 19/239 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ ++ +E + IA+KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAQLVQEDSTLTKQDIFRSIAEKL 173 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSP--LDSAIQANLR- 610 ++PV V ++ + + SL I + + S + D + D++ + ++ AI R Sbjct: 174 SVPVSDVERMDFRFSGADNSLSVSISENEESPVTKIDNLVDEHPLPDILIEKAIDGQRRT 233 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L RE ++R R +N + TLE +G++ +++ER+RQIE +A++KL+ Sbjct: 234 QWLYDALQILNEREMEIIRFR---RLNDESATLESLGERLGISKERVRQIEVRALQKLR 289 >gi|188090596|gb|ACD49532.1| RNA polymerase sigma factor [Xanthomonas populi] Length = 291 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 55/142 (38%), Positives = 85/142 (59%), Gaps = 4/142 (2%) Query: 48 ELNAFLPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSS 103 E+N +P D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 EVNDHVPDDLVDLEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEA 62 Query: 104 VFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLT 163 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ Sbjct: 63 AAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLS 122 Query: 164 FQALIIWRDELNDGTTLLREII 185 + L+ +G L EI+ Sbjct: 123 TEMLLADYQAHKEGKKRLAEIV 144 >gi|167766746|ref|ZP_02438799.1| hypothetical protein CLOSS21_01252 [Clostridium sp. SS2/1] gi|167711500|gb|EDS22079.1| hypothetical protein CLOSS21_01252 [Clostridium sp. SS2/1] Length = 232 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 64/231 (27%), Positives = 123/231 (53%), Gaps = 26/231 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++++ N+ L+ SV +++TNRG + DL Q G+IGLMKA +KFD KFSTYA+ Sbjct: 18 AREQIILNNVGLIWSVVRRFTNRGYESEDLFQIGSIGLMKAVDKFDLSYDVKFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ ++K+++ + + +RE T EEI+ Sbjct: 78 ITGEIRRFLRDDGM-IKVSRSLKENVYKIMKAREKFCQQYQREATIEEIS---------- 126 Query: 564 RKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTT------ 614 ++ KIT+E I SLE + ++ H + +D + +S LD + N E Sbjct: 127 -EITKITREEIVTSLEAS-NEVESIHQSAYQKDGSEISLLDKLSKGENESEKVVDHVLLK 184 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + L +E++++ R+ G T +E+ K F +++ ++ +I+ K ++ Sbjct: 185 EAMKHLEQKEQQMIYYRYFEG----KTQQEIAKIFHISQVQVSRIQKKILK 231 >gi|149181668|ref|ZP_01860161.1| sporulation sigma factor SigF [Bacillus sp. SG-1] gi|148850646|gb|EDL64803.1| sporulation sigma factor SigF [Bacillus sp. SG-1] Length = 253 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 114/228 (50%), Gaps = 16/228 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V+ N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD KFSTYA+ Sbjct: 33 ARDTIVQKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D T+++ +++ +++ R +S R PT EIA L + E V Sbjct: 93 IIGEIQRFIRDDG-TVKVSRSLKEMGNRIRRAKDELSKTFGRVPTVNEIAAHLELSPEEV 151 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQANLRETTTRVLASL 620 + ++ P S+ + D D L D I D + D A++ +RE L Sbjct: 152 VMAQEASRSPSSIHETVYENDGDPITLLDQISDTSDQKWFDKIALKEAIRE--------L 203 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ +R+ D T EV + +++ ++ ++E K + +K Sbjct: 204 DERERLIVYLRY----YKDQTQSEVADRLGISQVQVSRLEKKILHNMK 247 >gi|158320823|ref|YP_001513330.1| FliA/WhiG family RNA polymerase sigma factor [Alkaliphilus oremlandii OhILAs] gi|158141022|gb|ABW19334.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alkaliphilus oremlandii OhILAs] Length = 256 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 67/249 (26%), Positives = 124/249 (49%), Gaps = 11/249 (4%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 + I E + ++ + + A++ +V NL LV SV +++ NRG + DL Q G IGL Sbjct: 11 VEILEHDRTIELILQAQSGNMEAQEILVNHNLGLVRSVIRRFANRGYEREDLFQLGCIGL 70 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA +KFD +FSTYA+ + I R + D I++ ++ +V T ++ Sbjct: 71 IKAIKKFDTSFDVRFSTYAVPMIIGEIKRFLRDDGI-IKVSRSLKQTAARVKMTKEKLQK 129 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVS 599 + REPT +EIA + E + L + P L I +D S HL D I + + + Sbjct: 130 ENGREPTLQEIADDMGATKEEIVMALDSSASPEYLYDVIHQDDGSPIHLIDKISENDTLE 189 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 + + L+E ++ L PRE +++ +R+ D T ++ + +++ ++ +I Sbjct: 190 DSEVIDRIVLQEAISK----LEPRERQIIFLRYF----KDQTQTQIAQVLGISQVQVSRI 241 Query: 660 EAKAIRKLK 668 E K ++ +K Sbjct: 242 EKKVLQNMK 250 >gi|74316363|ref|YP_314103.1| sigma-70 factor [Thiobacillus denitrificans ATCC 25259] gi|74055858|gb|AAZ96298.1| sigma-70 factor [Thiobacillus denitrificans ATCC 25259] Length = 281 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 63/231 (27%), Positives = 127/231 (54%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR+V+S+A+ Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 48 AARRLVLSHLRVVVSIARHYLGYGLPHADLIQEGNVGLMKAVKRFDPDRGVRLVSFALHW 107 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I + +++ + K+ +R+ ++ N + + + +A++L + + Sbjct: 108 IRAEIHEYVLKNYRMVKLATTKAQRKLFFNLRSLKQSLNALTVQQA-DAMAQELNVSRKD 166 Query: 563 VRKV-LKITKEPISLETPI--GDEDTSHLGDFIE-DKNAVSPLDSAIQANLRET-TTRVL 617 V ++ +++ +S++ + G++D S + ++N L+ LRE+ T L Sbjct: 167 VLEMETRLSGHDVSIDPMVDDGEDDYSPIAYLASAEENPAQRLEREQTERLRESGLTSAL 226 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +++ R+ + TL E+ Q+ V+ ERIRQIEA+A++K++ Sbjct: 227 EELDERSRHIIQARW-LSEGDVATLHELAAQYGVSAERIRQIEARALQKMR 276 >gi|254390381|ref|ZP_05005598.1| sigma L [Streptomyces clavuligerus ATCC 27064] gi|294813859|ref|ZP_06772502.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197704085|gb|EDY49897.1| sigma L [Streptomyces clavuligerus ATCC 27064] gi|294326458|gb|EFG08101.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 314 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 85 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 144 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ ++ R PT E+A L + Sbjct: 145 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQRLDRSPTVPELAAVLGVS 204 Query: 560 VEGVRKVLKITKEPI--SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 205 EEEVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 260 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 261 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 304 >gi|133473|sp|P26764|RPSF_BACLI RecName: Full=RNA polymerase sigma-F factor; AltName: Full=Sporulation sigma factor; AltName: Full=Stage II sporulation protein AC gi|304173|gb|AAA22797.1| sporulation protein [Bacillus licheniformis] Length = 255 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 71/260 (27%), Positives = 132/260 (50%), Gaps = 17/260 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K + T + E + ++ + G+ +A + ++E N+RLV SV +++ NRG + Sbjct: 4 EVKKENQNTQLKDHEVKELIKNSQNGDQKA---RDLLIEKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD +FSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVRFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + R +S R PT +EIA L + E V + + P S+ + D D L Sbjct: 120 IRRAKEELSKSNGRIPTVQEIADYLEISSEEVVMAQEAVRSPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D I D++ D + L+E + L RE+ ++ +R+ D T EV + Sbjct: 180 DQIADQSEEKWFD---KIALKEA----IKDLDEREKLIVYLRY----YKDKTQSEVADRL 228 Query: 650 CVTRERIRQIEAKAIRKLKH 669 +++ ++ ++E K ++++K+ Sbjct: 229 GISQVQVSRLEKKILKQIKN 248 >gi|329123705|ref|ZP_08252265.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus aegyptius ATCC 11116] gi|327469904|gb|EGF15369.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Haemophilus aegyptius ATCC 11116] Length = 281 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 123/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + +++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLASFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLGA 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|311030733|ref|ZP_07708823.1| sporulation sigma factor SigF [Bacillus sp. m3-13] Length = 251 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 70/252 (27%), Positives = 129/252 (51%), Gaps = 17/252 (6%) Query: 419 ETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 +T + E + ++ + GE EA + +V+ N+RLV SV +++ NRG + DL Q G Sbjct: 10 QTYLKDHEVKELIKRSQSGEQEA---RDTIVQKNMRLVWSVVQRFMNRGYEPDDLFQIGC 66 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 IGL+K+ +KFD KFSTYA+ + I R I D ++++ +++ +K+ + Sbjct: 67 IGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFIRDDG-SVKVSRSLKEVANKIRKAKDE 125 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 +S + R PT EIA+ L + E V + + P S+ + D D L D I D + Sbjct: 126 LSKRYGRVPTINEIAEFLEITAEEVVLAQEAARAPSSIHETVYENDGDPITLLDQIADHS 185 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 D + L+E + L RE+ ++ +R+ D T EV ++ +++ ++ Sbjct: 186 EHRWFD---KIALKEA----IEELDEREKLIVYLRY----YKDQTQTEVAQRLGISQVQV 234 Query: 657 RQIEAKAIRKLK 668 ++E K ++++K Sbjct: 235 SRLEKKILQQMK 246 >gi|157692844|ref|YP_001487306.1| sporulation sigma factor SigF [Bacillus pumilus SAFR-032] gi|194016850|ref|ZP_03055463.1| RNA polymerase sigma-F factor [Bacillus pumilus ATCC 7061] gi|157681602|gb|ABV62746.1| DNA-directed RNA polymerase sigma subunit SigF [Bacillus pumilus SAFR-032] gi|194011456|gb|EDW21025.1| RNA polymerase sigma-F factor [Bacillus pumilus ATCC 7061] Length = 255 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 72/260 (27%), Positives = 134/260 (51%), Gaps = 19/260 (7%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K + + +S E + ++ + G+ +A + +VE N+RLV SV +++ NRG + Sbjct: 4 EVKKQAKKAQLSNDEVKELIKKSQDGDQQA---RDLLVEKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + R +S R PT +EIA+ L + E V + + P S+ + D D L Sbjct: 120 IRRARDELSKSHGRMPTVQEIAEYLDITPEDVVLAQEAVRTPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDS-AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D I D + D A++ ++E L RE+ ++ +R+ D T EV ++ Sbjct: 180 DQIADHSEERWFDKIALKEAIKE--------LEEREKLIVYLRY----YKDQTQSEVAER 227 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K +++++ Sbjct: 228 LGISQVQVSRLEKKILKQIQ 247 >gi|145639818|ref|ZP_01795419.1| RNA polymerase sigma factor [Haemophilus influenzae PittII] gi|145271036|gb|EDK10952.1| RNA polymerase sigma factor [Haemophilus influenzae PittII] gi|309750314|gb|ADO80298.1| RNA polymerase sigma-32 factor [Haemophilus influenzae R2866] Length = 281 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 123/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDSA-IQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E + Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPSLYLEDKSSNFAAELENENFESQATEQLSA 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|49473931|ref|YP_031973.1| RNA polymerase factor sigma-32 [Bartonella quintana str. Toulouse] gi|49239434|emb|CAF25783.1| RNA polymerase sigma-32 factor [Bartonella quintana str. Toulouse] Length = 294 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 124/245 (50%), Gaps = 16/245 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G + +TYA+WW Sbjct: 49 AAHRLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGLRLATYAIWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + ++I K ++ R++ ++++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKIGTTANQK--RLFFNLRKLKSRLQVLDKGDLNAEQVKEIATQL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIED---KNAVSPLDSAIQANLRE 611 + + V + + SL P+ + + S D++ D + ++ + N R Sbjct: 167 NVTEDEVISMNRRLCGDTSLNAPLRTQEGENSEWQDWLVDDSNNQEQTLIEQSELENRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 T +++L RE+R+ + R + TLEE+ +F ++RER+RQIE +A K+++ Sbjct: 227 MLTYAMSNLNEREKRIFKARR--LSDKPLTLEELSSEFNISRERVRQIEMRAFEKVQNSI 284 Query: 672 RSKKL 676 ++ L Sbjct: 285 KASAL 289 >gi|290959865|ref|YP_003491047.1| SigL-like sigma factor [Streptomyces scabiei 87.22] gi|260649391|emb|CBG72506.1| SigL-like sigma factor [Streptomyces scabiei 87.22] Length = 304 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 119/240 (49%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTYEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ K+ R PT E+A Sbjct: 129 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQKLDRAPTVGELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 ERLGLTNDEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L PR+ ++L +RF M T E+G + +++ + ++ ++ + +L+ Sbjct: 242 YVESLKPLIAGLPPRDRQILSLRFVANM----TQSEIGDELGISQMHVSRLLSRTLVRLR 297 >gi|238899138|ref|YP_002924820.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466898|gb|ACQ68672.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 285 Score = 87.8 bits (216), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 127/238 (53%), Gaps = 19/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AARQLILSHLRFVAHIARHYSGYGLPQADLIQEGNIGLMKAVRRFNPNMGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R A++ + + +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKAKQRLGWFSQNEV-DMVAKELGVTSKD 167 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQAN-----LR 610 VR++ +++ + ++ E P+ ED S G ++EDKN S I+ N Sbjct: 168 VREMESRMSAQDMAFELPL--EDESREGQSPAPVMYLEDKN--SDFADNIEKNNWGDHAA 223 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 224 DSLWVALKGLDERSQDIIRARW-LDDDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 280 >gi|260913469|ref|ZP_05919947.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Pasteurella dagmatis ATCC 43325] gi|260632409|gb|EEX50582.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Pasteurella dagmatis ATCC 43325] Length = 281 Score = 87.4 bits (215), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 122/232 (52%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E E +A +L + E Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVEMVANELGVTPE 166 Query: 562 GVRKV-LKITKEPISLETPIGD-EDTSHLGDFIEDK--NAVSPL-DSAIQANLRETTTRV 616 V ++ ++T ++ + P D E+T ++EDK N + L D + E + Sbjct: 167 DVMEMESRMTGSDVAFDLPTDDSEETYSPALYLEDKGSNFAAELEDENYETQATEQLSVA 226 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +++ R+ + TL+++ ++ ++ ER+RQ+E A++KLK Sbjct: 227 LEGLDERSLDIIKSRWLD--DNKATLQDLAAKYNISAERVRQLETNALKKLK 276 >gi|328883832|emb|CCA57071.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 303 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 66/224 (29%), Positives = 112/224 (50%), Gaps = 8/224 (3%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + + ++E NL LV A ++ +R D++Q G IGL+KA ++FD G +F T+ Sbjct: 74 ERTYVRDTLIELNLPLVRYAAARFRSRNEPMEDIVQVGTIGLIKAIDRFDCERGVEFPTF 133 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V I R D S ++R+P +++ + + + ++ K+ R PT E+A L + Sbjct: 134 AMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKASDELAQKLDRSPTVTELAAVLGVS 193 Query: 560 VEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRV 616 E V L + SL++P ++D + D+ D+A++ RE+ + Sbjct: 194 EEDVVDGLAVGNAYTASSLDSPSPEDDGGE--GSLADRLGYE--DTALEGVEYRESLKPL 249 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQI 659 LA L PRE +++ +RF M EEVG Q V+R R + Sbjct: 250 LAKLPPRERQIIMLRFFANMTQSQIGEEVGISQMHVSRLLTRTL 293 >gi|306844750|ref|ZP_07477335.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. BO1] gi|306274922|gb|EFM56692.1| RNA polymerase sigma factor, sigma-70 family [Brucella sp. BO1] Length = 311 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 74/249 (29%), Positives = 127/249 (51%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E++ S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEESGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|115521899|gb|ABJ09417.1| RNA polymerase sigma factor [Brevundimonas diminuta] Length = 275 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 91/305 (29%), Positives = 149/305 (48%), Gaps = 34/305 (11%) Query: 137 EGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 +GEIAIAKRIEAGR M++ LCES LTF+A+++WR+EL + LLRE+IDL+A G + Sbjct: 1 KGEIAIAKRIEAGRDAMISGLCESALTFEAIMVWREELANNRILLREVIDLDATYGILNP 60 Query: 197 GGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDER 256 H + E +E DD +G S + + + R V + D Sbjct: 61 SSLPHNQPAPAQPTGEPDGDGEEDDDEDFDDGGAMSISALEAELRDGVMEVLDAIAVDFG 120 Query: 257 NLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDNAVNGQKDEKSSVKCKV 316 + +D +E +L+ +V+ A D+ + Y L + + + K ++ + + Sbjct: 121 EFRKLQD------KLVEARLKGEVLTAKDQ--KTYEALTASISDRLKTMK--LNNARIEA 170 Query: 317 LKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRD-VFLERHQ 375 L E+L + L + R+ L + Y IS+ E L+ +G + D + ER Sbjct: 171 LVEQLYAINKRLIGQEGRLLRLADG-YGISR------PEFLK--AYFGSEMDPTWAERI- 220 Query: 376 GRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVR 435 +E+ W F E E A ++D+ IR +I +++ E G+ I ++R IV MV+ Sbjct: 221 -KEMGVRWTK----FSENE-----AAQIDT---IRTQIAAVATEAGVPIDDYRRIVQMVQ 267 Query: 436 KGECE 440 KGE E Sbjct: 268 KGERE 272 >gi|163853281|ref|YP_001641324.1| RNA polymerase factor sigma-32 [Methylobacterium extorquens PA1] gi|218532097|ref|YP_002422913.1| RNA polymerase factor sigma-32 [Methylobacterium chloromethanicum CM4] gi|254563204|ref|YP_003070299.1| RNA polymerase sigma-32 [Methylobacterium extorquens DM4] gi|163664886|gb|ABY32253.1| RNA polymerase sigma factor, sigma-70 family [Methylobacterium extorquens PA1] gi|218524400|gb|ACK84985.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium chloromethanicum CM4] gi|254270482|emb|CAX26482.1| RNA polymerase sigma-32 (sigma H) factor [Methylobacterium extorquens DM4] Length = 290 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 125/250 (50%), Gaps = 41/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 41 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPEREVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E EI ++A + Sbjct: 101 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTEEQVGSEIHGRIATAI 158 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETT 613 R+ + +++ +SL P+G+E +S DF+ D NA P ++ Sbjct: 159 GVSREDVALMDARLSGPDMSLNAPVGEESEASSERMDFLVD-NAALPDET---------- 207 Query: 614 TRVLASLTPREERVLRMRFGIGMNT---------------DHTLEEVGKQFCVTRERIRQ 658 +++L E R++ +R + + + TLE +G + +++ER+RQ Sbjct: 208 ---VSALVDGERRLIWLRQALTVLSERELRILRERRLAEDQATLEALGHRLGISKERVRQ 264 Query: 659 IEAKAIRKLK 668 IE +A+ KL+ Sbjct: 265 IENRALEKLR 274 >gi|260575497|ref|ZP_05843496.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] gi|259022417|gb|EEW25714.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodobacter sp. SW2] Length = 298 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 120/244 (49%), Gaps = 17/244 (6%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 + A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAM Sbjct: 47 ATAAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAM 106 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIAKKL- 556 WW++ +I I +++ K K+ R+ K+ + + PE +A+ Sbjct: 107 WWIRASIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKAKVGALEEGDLRPENVARIAH 164 Query: 557 ---AMPVEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANL-- 609 E + +++ SL +G E ++ D++ED+++ D A + L Sbjct: 165 DLNVSETEVIDMNRRLSGGDASLNATVGSDGEGSTQWQDWLEDEDSDQANDYAERNELEM 224 Query: 610 -RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + +A L RE+ +L R + TLE++ + V+RERIRQIE +A KL+ Sbjct: 225 RRALLVQAMAVLNDREKDILMQRRLA--DEPVTLEDLSASYGVSRERIRQIEVRAFEKLQ 282 Query: 669 HPSR 672 R Sbjct: 283 ERMR 286 >gi|284028684|ref|YP_003378615.1| B/F/G subfamily RNA polymerase sigma-28 subunit [Kribbella flavida DSM 17836] gi|283807977|gb|ADB29816.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Kribbella flavida DSM 17836] Length = 275 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 63/223 (28%), Positives = 110/223 (49%), Gaps = 24/223 (10%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 E +E NL + S+A ++ RG++ DL Q +GL+KAA ++ G F YA+ ++ Sbjct: 47 NEAIELNLGIAHSIASRFRGRGVESDDLDQVAYLGLLKAARSYNPSTGTPFLAYAVPTIR 106 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM------- 558 + R D S T+RIP +++ + ++ ++R+PT EE+A +L Sbjct: 107 GEVKRYFRDCSWTVRIPRRLQELQGSIASVRPQLVQDLQRDPTLEELAAELGTDVAEVEA 166 Query: 559 --PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +G VL SL+ P+ + T++L D I D+ S + A L V Sbjct: 167 AIAADGCFSVL-------SLDRPVDGDSTANLADTIADEEDTSFERTEAVAMLEP----V 215 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 L LTPRE ++L +RF G HT ++G + V++ ++ ++ Sbjct: 216 LNDLTPRERKILELRFIEG----HTQADIGAEIGVSQMQVSRL 254 >gi|319406278|emb|CBI79915.1| RNA polymerase sigma-32 factor [Bartonella sp. AR 15-3] Length = 303 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 73/247 (29%), Positives = 119/247 (48%), Gaps = 35/247 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A ++ + DL+QEG +GL++AA +FD +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFDPEREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM-------SNKIKREPTPEEIAKKL 556 ++ +I I +R K + RR+ N + ++ I++KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAQDDNTLTKQEIFSAISEKL 173 Query: 557 AMPVEGVRKV---LKITKEPISL------ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + V V K+ T +SL ETPI D+ I+D PL A+ Sbjct: 174 GVSVNDVEKMDFRFSGTDNSLSLSISESGETPIAKMDS-----LIDDH----PLPDAVIE 224 Query: 608 NLRETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 + + R L L RE ++R R TLE +G++ +++ER+RQIEA Sbjct: 225 QVIDGQRRAQWLYEALQILNERELEIIRFRR--LKEEGATLEVLGEKLGISKERVRQIEA 282 Query: 662 KAIRKLK 668 +A++KL+ Sbjct: 283 RALQKLR 289 >gi|238021049|ref|ZP_04601475.1| hypothetical protein GCWU000324_00946 [Kingella oralis ATCC 51147] gi|237868029|gb|EEP69035.1| hypothetical protein GCWU000324_00946 [Kingella oralis ATCC 51147] Length = 290 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 79/291 (27%), Positives = 152/291 (52%), Gaps = 24/291 (8%) Query: 385 SYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIA 444 ++A P G ++ + N I +++E S+++ R + +G+ EA+ Sbjct: 4 AFALSVPSGH------GSLEQYIHTVNSIPMLTLEEETSLAQ-RQL-----RGDLEAA-- 49 Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+++ ++LR+V+S+A+ Y GL DLIQEGN+GLMKA ++F+ G + ++A+ W+ Sbjct: 50 -KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNVGLMKAVKRFEPTHGARLFSFAVHWI 108 Query: 505 KQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 K I I +RI + K+ +R+ R+ + + + ++IA L + + V Sbjct: 109 KAEIHEFILRNWRLVRIATTKPQRKLFFNLRSMRKSLSALSPKEA-QDIADDLGVKLSDV 167 Query: 564 RKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANL---RETTTRVL 617 ++ ++T ++L D+D ++ D++ D ++ A +A+ E L Sbjct: 168 LEMEQRMTGNDVALLADNSDDDDNNFAPIDWLSDDSSEPSQQLAKKAHYALQTEGLRNAL 227 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R R++ R+ + + TL E+ +F V+ ERIRQIEAKA++KL+ Sbjct: 228 SQLDERSRRIVETRW-LQDDGGLTLHELAAEFGVSAERIRQIEAKAMQKLR 277 >gi|332524130|ref|ZP_08400360.1| RNA polymerase sigma-32 factor [Rubrivivax benzoatilyticus JA2] gi|332107469|gb|EGJ08693.1| RNA polymerase sigma-32 factor [Rubrivivax benzoatilyticus JA2] Length = 306 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 73/254 (28%), Positives = 128/254 (50%), Gaps = 28/254 (11%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +V ++LRLV+SV+++Y GL DLIQEGN+GLMKA ++FD G + Sbjct: 52 GDLEAA---GRLVLSHLRLVVSVSRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRL 108 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 +YA+ W+K I I +++ + K+ R M +K E ++ + Sbjct: 109 VSYALHWIKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGLKGEAAEADLHRST 166 Query: 557 AMP--VEGVRKVLKITK-EPISLETPIGDEDTSHLGDFIEDKNAVSPL----DSA----- 604 P VE V + L + E + +ET + D + + + + +P+ D A Sbjct: 167 LTPAEVETVARELNVKPDEVVEMETRLAGGDVALEPQTDDSEESFAPIAYLADEASEPTR 226 Query: 605 -IQANLRETTT-----RVLASLTPREERVLRMRFGIGMNTDH----TLEEVGKQFCVTRE 654 ++A R+ + + L+ L R R++ R+ + +N D TL E+ ++ V+ E Sbjct: 227 LLEARRRDWLSGDGIAQALSVLDARSRRIVEERW-LKVNDDSSGGMTLHELAAEYGVSAE 285 Query: 655 RIRQIEAKAIRKLK 668 RIRQIE A++K++ Sbjct: 286 RIRQIEVAAMKKMR 299 >gi|182418456|ref|ZP_02949750.1| RNA polymerase sigma-F factor [Clostridium butyricum 5521] gi|237666966|ref|ZP_04526951.1| RNA polymerase sigma-F factor [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377838|gb|EDT75382.1| RNA polymerase sigma-F factor [Clostridium butyricum 5521] gi|237658165|gb|EEP55720.1| RNA polymerase sigma-F factor [Clostridium butyricum E4 str. BoNT E BL5262] Length = 252 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 125/241 (51%), Gaps = 14/241 (5%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++S+ +KG+ +A +++E NL LV S++KK+ NRG + D+ Q G+IGL+KA FD Sbjct: 19 LLSLAKKGDNDAM---NKLIEINLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNFD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ K+ +++NK+KR PT Sbjct: 76 LNYNVKFSTYAVPMIMGEIKRFLRDDGM-IKVSRNVKSLARKIHYYREQLTNKLKRSPTI 134 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQA 607 EE+A+ + E + ++ L I +D + L D + +K ++ + Sbjct: 135 EELAEYAGVEKEEIVFAIESANSLQYLYDTIHQDDGAPVMLIDKLSEKKGEDDVNLIEKI 194 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E L SL + +++ +R+ D T +V K +++ ++ +IE K + ++ Sbjct: 195 ALKEA----LRSLDEKARQIIMLRYF----KDKTQIQVAKMLGISQVQVSRIEKKVLLQM 246 Query: 668 K 668 K Sbjct: 247 K 247 >gi|145631055|ref|ZP_01786830.1| RNA polymerase factor sigma-32 [Haemophilus influenzae R3021] gi|148827424|ref|YP_001292177.1| RNA polymerase factor sigma-32 [Haemophilus influenzae PittGG] gi|144983340|gb|EDJ90822.1| RNA polymerase factor sigma-32 [Haemophilus influenzae R3021] gi|148718666|gb|ABQ99793.1| RNA polymerase sigma factor [Haemophilus influenzae PittGG] gi|301168923|emb|CBW28517.1| RNA polymerase, sigma 32 (sigma H) factor [Haemophilus influenzae 10810] Length = 281 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 123/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E + Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLSA 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|328542017|ref|YP_004302126.1| RNA polymerase sigma factor [polymorphum gilvum SL003B-26A1] gi|326411767|gb|ADZ68830.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1] Length = 289 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 79/236 (33%), Positives = 122/236 (51%), Gaps = 27/236 (11%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 A++RLVI+VA ++ N GL DLIQEG++GL++AA +F+ +FSTYA WW++ +I Sbjct: 48 AHMRLVIAVASRFRNFGLPMNDLIQEGHVGLLEAAARFEPEREVRFSTYATWWIRASIQD 107 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI--KREPTPE-EIAKKLAMPVEGVRKV- 566 I +R K + RR+ K+ R PE E+ +++A + GV+ Sbjct: 108 YILRNWSIVRGGTSSTQK--ALFFNLRRLRAKLSSNRVDLPETELHRQIAEAI-GVKTAD 164 Query: 567 -----LKITKEPISLETPIGDEDTSHL--GDF-IEDKNAVSPL-DSAIQANL-RETTTRV 616 +++ SL PI D D S DF I D +PL D + N+ E R Sbjct: 165 VDLMNARLSGPDTSLNAPIIDSDGSSADRQDFLISD----APLPDETVSENIDSERQRRW 220 Query: 617 LAS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L S LT RE +++ R TLE +G + +++ER+RQIE +A+ KL+ Sbjct: 221 LRSAMNVLTERERKIVSERRLT--EEGATLEALGAKMGISKERVRQIENRALEKLR 274 >gi|253686510|ref|YP_003015700.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251753088|gb|ACT11164.1| RNA polymerase, sigma 32 subunit, RpoH [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 285 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 127/239 (53%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKHLILSHLRFVIHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ + E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQR--KLFFNLRKTKTRLGWFNQDEVELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + P +ED SH G +++DK+ S I+ + +T Sbjct: 167 DVREMESRMAAQDMTFD-PTPEED-SHDGKAMSPMLYLQDKS--SDFADGIEEDNWDTHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|118497682|ref|YP_898732.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. novicida U112] gi|194323654|ref|ZP_03057430.1| alternative sigma factor RpoH [Francisella tularensis subsp. novicida FTE] gi|254373048|ref|ZP_04988537.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. novicida GA99-3549] gi|254374500|ref|ZP_04989981.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3548] gi|118423588|gb|ABK89978.1| RNA polymerase sigma-32 factor [Francisella novicida U112] gi|151570775|gb|EDN36429.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3549] gi|151572219|gb|EDN37873.1| RNA polymerase sigma-32 factor [Francisella novicida GA99-3548] gi|194322018|gb|EDX19500.1| alternative sigma factor RpoH [Francisella tularensis subsp. novicida FTE] gi|332678395|gb|AEE87524.1| RNA polymerase sigma factor RpoH [Francisella cf. novicida Fx1] Length = 292 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 124/240 (51%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K + + +++ + K+ R +KI + + E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSEDIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|119776597|ref|YP_929337.1| RNA polymerase factor sigma-32 [Shewanella amazonensis SB2B] gi|119769097|gb|ABM01668.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella amazonensis SB2B] Length = 285 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 70/245 (28%), Positives = 127/245 (51%), Gaps = 36/245 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + +++ + K+ R+ ++ E +AM E Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKAKQRLGWFSDDE-----VAMVAEN- 163 Query: 564 RKVLKITKEPIS-LETPIGDEDTSHLGDFIEDKN---AVSPL------DSAIQANLR--- 610 L ++K+ ++ +E+ + +D + D + D + +P+ S + AN+ Sbjct: 164 ---LGVSKDDVTEMESRMAAQDQAF--DLVNDHDDDEGFAPVHYLEDHSSDLAANIENDN 218 Query: 611 ---ETTTRVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKA 663 R++A++ +ER +LR R+ ++ D TL+E+ +Q+ V+ ERIRQ+E A Sbjct: 219 WESNAQNRLIAAIKTLDERSQHILRARW---LDDDKVTLQELAEQYQVSAERIRQLEKNA 275 Query: 664 IRKLK 668 + KLK Sbjct: 276 MNKLK 280 >gi|302867457|ref|YP_003836094.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|315506134|ref|YP_004085021.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Micromonospora sp. L5] gi|302570316|gb|ADL46518.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] gi|315412753|gb|ADU10870.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Micromonospora sp. L5] Length = 269 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 120/227 (52%), Gaps = 12/227 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +++EA L L +A +Y+ RG DL Q +GL+KA ++FD G F+ +A+ + Sbjct: 46 RNQVIEAWLPLANHLAARYSGRGEPAGDLAQTAALGLIKAVDRFDASRGVDFAGFAIPTI 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P +++ ++ ++ + R PT +IA L + E V Sbjct: 106 LGEIKRHFRDRTWNIRVPRRLQELRLRISEANSTLTQTLNRAPTVADIAAHLDVTEEEVL 165 Query: 565 KVLKITK--EPISLETPIGDEDT-SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L+ + +SL TPIGD D+ + LGD + ++ L A+LR + LA+L Sbjct: 166 EGLEGARAYNAVSLSTPIGDGDSATELGDTLGTEDNEYEL-----ADLRASLGPALATLD 220 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+++L +RF + T E+ + V++ + ++ A+A+ KL+ Sbjct: 221 EREQKILTLRF----YGNLTQSEIAARVGVSQMHVSRLLARALTKLR 263 >gi|293391201|ref|ZP_06635535.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D7S-1] gi|290951735|gb|EFE01854.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D7S-1] Length = 282 Score = 87.4 bits (215), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 72/274 (26%), Positives = 144/274 (52%), Gaps = 20/274 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ NE ++ E ++E + K + EA+ K++V ++LR VI VA+ Sbjct: 16 IEAYIRAANEYPMLTAEEEKELAE-----RLYYKEDIEAA---KKLVLSHLRFVIHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ E + +A +L + + V ++ ++T ++ + P Sbjct: 128 TTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSPQDVMEMESRMTGADVAFDLP 185 Query: 580 I--GDEDTSHLGDFIEDK--NAVSPLDSA-IQANLRETTTRVLASLTPREERVLRMRFGI 634 DE+T ++EDK N + L++ +A + L +L R + +++ R+ Sbjct: 186 GDEHDEETYAPALYLEDKSSNFAAELENENYEAQATDQLAVALDNLDARSQDIIKARWLD 245 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T TL+++ ++ ++ ER+RQ+EA A++KLK Sbjct: 246 --ETKATLQDLAAKYNISAERVRQLEANALKKLK 277 >gi|319945291|ref|ZP_08019553.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Lautropia mirabilis ATCC 51599] gi|319741861|gb|EFV94286.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Lautropia mirabilis ATCC 51599] Length = 298 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 72/236 (30%), Positives = 121/236 (51%), Gaps = 14/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRLV+SVA++Y GL DLIQEGNIGLMKA ++FD + ++A+ W Sbjct: 59 AARTLVTSHLRLVVSVARQYLGYGLPHADLIQEGNIGLMKAVKRFDPDRSVRLVSFALHW 118 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE---EIAKKLAMPV 560 +K I I +++ + K+ R M + TPE +IA++L + Sbjct: 119 IKAEIHEYILKNWRLVKVATTKAQR--KLFFNLRSMKKDLD-TLTPEAVTDIAEQLNVRE 175 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR-----ETTT 614 + V ++ ++T I+LE DE+ + G S I+ R E + Sbjct: 176 KDVTEMETRMTGHEIALEPQGDDEEGAGFGPAAYLAAPGSEPTEIIEDRQRDWLQTEGLS 235 Query: 615 RVLASLTPREERVLRMRF--GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R +++ R+ TL+++ ++ V+ ERIRQIEA+A++K+K Sbjct: 236 NALATLDERSRNIVQSRWLRDEDEGGSRTLQDLANEYGVSAERIRQIEAQAMKKMK 291 >gi|20807766|ref|NP_622937.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] gi|20516321|gb|AAM24541.1| DNA-directed RNA polymerase specialized sigma subunit [Thermoanaerobacter tengcongensis MB4] Length = 240 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 116/234 (49%), Gaps = 14/234 (5%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 K +AS+ K ++ N L+ S+ KK+ NRG + DL Q G IG +KA +KFD K Sbjct: 14 KNNDKASLEK--LILENSGLIWSIVKKFANRGYELEDLYQIGCIGFVKAVQKFDESYNVK 71 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 FSTYA+ + I R + D I++ +++ K +SN++ REPT EIA++ Sbjct: 72 FSTYAVPIIMGEIKRFLRDDGL-IKVSRSLKELSSKAFYMKEVLSNELNREPTINEIAER 130 Query: 556 LAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 L + E + + SL I +E+ L + + DK L+ + T Sbjct: 131 LNVTPEEIAMAFESAATAESLYDSISHEEEDRQLIEMVGDKEDSVDLEEKL------TLH 184 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L PRE++V+ +R+ D T EV +++ ++ +IE K + K++ Sbjct: 185 MIIDKLKPREKQVIFLRYF----KDMTQTEVANILGISQVQVSRIEKKVLEKIR 234 >gi|225569422|ref|ZP_03778447.1| hypothetical protein CLOHYLEM_05506 [Clostridium hylemonae DSM 15053] gi|225161630|gb|EEG74249.1| hypothetical protein CLOHYLEM_05506 [Clostridium hylemonae DSM 15053] Length = 237 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 63/241 (26%), Positives = 122/241 (50%), Gaps = 10/241 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H +++++K A+ ++VE N LV + K++ NRG + DL Q GNIGL+KA +KF Sbjct: 3 HTIALIKKSHQGDEKARAQLVEENAGLVWCIVKRFYNRGAEAEDLFQVGNIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K ++ + REPT Sbjct: 63 DMSYEVKFSTYAVPMISGEIKRFLRDDG-MIKVSRSLKELSYKAYLCQEKLQEALGREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EIA+ L + E + L + + SL PI ++ G I + + + + Sbjct: 122 ITEIAEYLEVDREELTMALDASGDIESLHKPIYQKE----GQEIRLMDKLPEKEGGEEKI 177 Query: 609 LRETTTRVLASLTPREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L + L ++ER ++ +R+ + T +VG++ +++ ++ ++E K +++L Sbjct: 178 LNHMLLQQLLEYLNKDERQLIYLRY----FANQTQSQVGQELGISQVQVSRLEKKILKRL 233 Query: 668 K 668 + Sbjct: 234 R 234 >gi|319760734|ref|YP_004124672.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia vafer str. BVAF] gi|318039448|gb|ADV33998.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia vafer str. BVAF] Length = 284 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 63/231 (27%), Positives = 119/231 (51%), Gaps = 8/231 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ +A+ Y+ GL DLIQEGNIGLMK+ +F+ L + ++A+ W Sbjct: 51 AAKKLIVSHLRFVVHIARNYSGYGLAQADLIQEGNIGLMKSVRRFNPELDVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + ++I R + +T +R+ E E +AK L + + Sbjct: 111 IKSEIHEYVLKNWRIVKIATTKAQRKLFFNLRKTKQRLG--WFNEEEIEMVAKTLHVTCK 168 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD---FIEDKNAVSPLDSAIQANLRETTTRVL 617 VR++ ++ + ++ E D++ + L +++DK + + + L Sbjct: 169 DVREMESRMAAQDMTFEQSSDDDEKNILSIPMLYLQDKVTMIDEEEEWINQVSNKLNIAL 228 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 SL R + ++R R+ + TL+E+ Q+ V+ ERIRQ+E A++K+K Sbjct: 229 NSLDKRSQHIIRARWLNTNDNKTTLQELANQYGVSAERIRQLEKNAMKKMK 279 >gi|299472548|emb|CBN77333.1| RNA polymerase sigma factor SigD [Ectocarpus siliculosus] Length = 825 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 81/279 (29%), Positives = 133/279 (47%), Gaps = 30/279 (10%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKY--TNRGLQFL--DLIQEGNIGLMKAAE 486 V +R+ E AK+E+V NL LV + K Y T +F DL Q+ +GL++A E Sbjct: 97 VESLRQALDEGEKAKQELVLDNLNLVDIIVKNYVGTFAYGRFTEKDLTQDATVGLIRAVE 156 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 KFD G+ F+TY WWV++ + + + + +RIP +I KV R + ++ R Sbjct: 157 KFDPEKGFFFATYGRWWVRKYLHEGVQNHNRMVRIPNSAAYRIAKVKRVRDELEGELGRA 216 Query: 547 PTPEEIAKKLAMPVEGVRKVL-----KITKEPISLETPIGDEDT---SHLGD-FIEDKNA 597 PT EIA + + V+ V L +I + + G DT SH G+ F+ + Sbjct: 217 PTKPEIALETDLTVQQVEACLEQDSFRIERLDGYMGHGFGMADTVFASHFGEGFLYGSDM 276 Query: 598 VS-PLDSA---------IQANLRETTTRVLASLTPREER-VLRMRFGIGMNTDHTLEEVG 646 ++ P ++ IQ++LR + L ER L +R+G+ +++E+ Sbjct: 277 LTHPGETPAPTVEGEKVIQSSLRGDLSSAFVRLLDATERECLVLRYGLHDGVTNSIEQTA 336 Query: 647 K--QFCVTRERIRQIEAKAIRKLKH---PSRSKKLRSFL 680 FC + +R I +A+ KL+ P KKL S+L Sbjct: 337 AIMDFCDP-DDVRIITTQAMAKLRDGCLPEERKKLMSYL 374 >gi|114331030|ref|YP_747252.1| RNA polymerase factor sigma-32 [Nitrosomonas eutropha C91] gi|114308044|gb|ABI59287.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas eutropha C91] Length = 280 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 79/277 (28%), Positives = 134/277 (48%), Gaps = 27/277 (9%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S E IS+++ M G+ A+ ++V ++LR V+ +A+ Sbjct: 15 LESYIRAANSFPVLSREEEISLAK-----KMQENGDINAA---HQLVLSHLRTVVMIARG 66 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +FD G + ++A+ W+K I I ++I Sbjct: 67 YLGYGLPHADLIQEGNIGLMKAVRRFDPERGVRLISFAIHWIKAEIHEFIMRNWRLVKIA 126 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R M + E +A++L + E V ++ + + ISLE P Sbjct: 127 TTKPQR--KLFFNLRSMKEGLDTMNQAEVATMAEQLGVKAEEVVEMETRFSGRDISLE-P 183 Query: 580 IGDEDTSHLGDFIEDKNAVSP--------LDSAIQANLRETTTRVLASLTPREERVLRMR 631 + D D + P L+ A L+++ L SL R R++ R Sbjct: 184 LTDSDEEDFSPIAYLTDGSDPSRELEKEQLERLTHAKLKDS----LDSLDERSRRIIEAR 239 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + TL E+ K+ V+ ER+RQIEAKA++K++ Sbjct: 240 W-LREDKAATLHELAKELGVSAERVRQIEAKAMKKMR 275 >gi|52080862|ref|YP_079653.1| sporulation sigma factor SigF [Bacillus licheniformis ATCC 14580] gi|52786234|ref|YP_092063.1| sporulation sigma factor SigF [Bacillus licheniformis ATCC 14580] gi|319645181|ref|ZP_07999414.1| RNA polymerase sigma-F factor [Bacillus sp. BT1B_CT2] gi|52004073|gb|AAU24015.1| RNA polymerase sporulation-specific sigma factor (sigma-F) [Bacillus licheniformis ATCC 14580] gi|52348736|gb|AAU41370.1| SigF [Bacillus licheniformis ATCC 14580] gi|317392990|gb|EFV73784.1| RNA polymerase sigma-F factor [Bacillus sp. BT1B_CT2] Length = 255 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/260 (27%), Positives = 132/260 (50%), Gaps = 17/260 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K + T + E + ++ + G+ +A + ++E N+RLV SV +++ NRG + Sbjct: 4 EVKKENQNTQLKDHEVKELIKNSQNGDQKA---RDLLIEKNMRLVWSVVQRFLNRGYEPD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD +FSTYA+ + I R I D T+++ +++ +K Sbjct: 61 DLFQIGCIGLLKSVDKFDLSYDVRFSTYAVPMIIGEIQRFIRDDG-TVKVSRSLKELGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + R +S R PT +EIA L + E V + + P S+ + D D L Sbjct: 120 IRRAKDELSKSNGRIPTVQEIADYLEISSEEVVMAQEAVRSPSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D I D++ D + L+E + L RE+ ++ +R+ D T EV + Sbjct: 180 DQIADQSEEKWFD---KIALKEA----IKDLDEREKLIVYLRY----YKDKTQSEVADRL 228 Query: 650 CVTRERIRQIEAKAIRKLKH 669 +++ ++ ++E K ++++K+ Sbjct: 229 GISQVQVSRLEKKILKQIKN 248 >gi|300782223|ref|YP_003762514.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299791737|gb|ADJ42112.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 259 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 57/223 (25%), Positives = 110/223 (49%), Gaps = 15/223 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +L L ++A+K+ NR DL+Q +GL+ A ++FD G F +A+ + Sbjct: 38 LVRTHLELARNLARKFRNRDEAMEDLVQIATVGLIHAVDRFDPAQGTDFLAFAVPTISGE 97 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + D S ++R+P +++ + ++ ++ R P P EIA +L +P+E V + L Sbjct: 98 LRHHFRDNSWSVRVPRRLKELNANISAAREELTVQLSRAPKPSEIAARLGVPIEDVYEGL 157 Query: 568 KITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + + G S HL + +P QA LRE +L SL RE Sbjct: 158 RAGQ---------GRYGASLDHLLENAAHTRFGAPDAELGQAELREALRPMLESLPERER 208 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +RFG GM+ ++ ++ V++ ++ ++ A ++KL+ Sbjct: 209 KIVALRFGSGMSQS----DIARRVGVSQMQVSRLLAATLKKLR 247 >gi|290796544|gb|ADD64842.1| RNA polymerase sigma factor [Xanthomonas arboricola] Length = 284 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 4/137 (2%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSSVFLQK 108 LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 3 LPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEAAAALT 62 Query: 109 RKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ Sbjct: 63 ALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLL 122 Query: 169 IWRDELNDGTTLLREII 185 + +G L EI+ Sbjct: 123 ADYEAHKEGKKRLAEIV 139 >gi|290796534|gb|ADD64837.1| RNA polymerase sigma factor [Xanthomonas dyei] Length = 283 Score = 87.4 bits (215), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 83/137 (60%), Gaps = 4/137 (2%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSSVFLQK 108 LP D V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + Sbjct: 1 LPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEAAAALT 60 Query: 109 RKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 D+ T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ Sbjct: 61 ALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLL 120 Query: 169 IWRDELNDGTTLLREII 185 + +G L EI+ Sbjct: 121 ADYEAHKEGKKRLAEIV 137 >gi|320539367|ref|ZP_08039036.1| RNA polymerase, sigma 32 (sigma H) factor [Serratia symbiotica str. Tucson] gi|320030492|gb|EFW12502.1| RNA polymerase, sigma 32 (sigma H) factor [Serratia symbiotica str. Tucson] Length = 285 Score = 87.0 bits (214), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 124/235 (52%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ A+LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILAHLRFVAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGD--FIEDKNAVSPLD---SAIQANLRETT 613 VR++ ++ + ++ + DE D L +++DK++ D ++N + Sbjct: 167 DVREMESRMAAQDMTFDPAPDDETRDGQSLAPVLYLQDKSSDFAEDIEEDNWESNAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KLK Sbjct: 227 AYALEGLDERSQHIIRARW-LDNDNKSTLQELADQYGVSAERVRQLEKNAMKKLK 280 >gi|319775860|ref|YP_004138348.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3047] gi|317450451|emb|CBY86667.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3047] Length = 281 Score = 87.0 bits (214), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 123/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + +++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLASFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLGV 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|262278444|ref|ZP_06056229.1| EsvH [Acinetobacter calcoaceticus RUH2202] gi|262258795|gb|EEY77528.1| EsvH [Acinetobacter calcoaceticus RUH2202] Length = 288 Score = 87.0 bits (214), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 121/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTAEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 S----LTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 NAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|251793696|ref|YP_003008426.1| RNA polymerase factor sigma-32 [Aggregatibacter aphrophilus NJ8700] gi|247535093|gb|ACS98339.1| alternative sigma factor RpoH [Aggregatibacter aphrophilus NJ8700] Length = 282 Score = 87.0 bits (214), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 66/233 (28%), Positives = 125/233 (53%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKKLVLSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PV 560 +K I + +++ R + +T +R + E + +A +L + P Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRFGWFSENE--VDMVANELGVSPQ 166 Query: 561 EGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDK--NAVSPLDSA-IQANLRETTTR 615 + V ++T ++ + P DE+T ++EDK N + L++ +A + Sbjct: 167 DVVEMESRMTGADVAFDLPTDDHDEETYAPALYLEDKGSNFAAELENENYEAQATDRLAV 226 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L R + +++ R+ T TL+++ +++ ++ ER+RQ+E A++KLK Sbjct: 227 ALDNLDARSQDIIKARWLD--ETKATLQDLAEKYNISAERVRQLETNALKKLK 277 >gi|117926357|ref|YP_866974.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] gi|117610113|gb|ABK45568.1| RNA polymerase, sigma 32 subunit, RpoH [Magnetococcus sp. MC-1] Length = 297 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 121/230 (52%), Gaps = 9/230 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V A+LRLV+ +A++Y DL+QEG+IGLM A +KFD G + +TYA+WW Sbjct: 56 AAHRLVHAHLRLVLKIAREYLYYRSSLPDLVQEGSIGLMHAVKKFDAQRGNRLATYAVWW 115 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ AI I + + +++ ++ + +R A+ + ++ EE+A K A + Sbjct: 116 IRAAIHDFILNTAHMVKVATTKLKRHLFFKLRQAKSSLAPLNQQEA-EELAVKFATDAQT 174 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LA 618 + ++ ++ SL P+ DE L + +ED+ L + V L Sbjct: 175 ILEMDSRLAGADSSLNQPLFDEG-GELIELLEDERPNQELQLQSAQQQQRLGRLVKQGLK 233 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE+ ++ RF +G + + E++ ++F ++ ER+RQIE +A+ KL+ Sbjct: 234 QLNEREQAIIISRF-MGEHAE-PREQLAQRFQISGERVRQIEQRAMAKLR 281 >gi|295698248|ref|YP_003602903.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|295698251|ref|YP_003602906.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|291157186|gb|ADD79631.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] gi|291157289|gb|ADD79734.1| alternative sigma factor RpoH [Candidatus Riesia pediculicola USDA] Length = 286 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 70/240 (29%), Positives = 126/240 (52%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI ++K Y+ GL DLIQEGN+GLMKA +KF+ + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHISKNYSGYGLLQADLIQEGNVGLMKAVQKFNPNASVRLVSFAIHW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I I +++ + K+ RR KI E +AKKL + + Sbjct: 108 IKAEIHEYILRNWRIVKVATTKAQR--KLFFNLRRNKKKIGWFDQTEIDSVAKKLGVSKK 165 Query: 562 GVRKV--LKITKEPISLETPIGDEDTSHLGDF-------IEDKNAVSPLDSAIQANLRET 612 VR++ + K+ + I +E+ DF +EDK++ + +S + N Sbjct: 166 DVREMESRMVAKDMV---FDINEEENRMKDDFFLIPALYLEDKSS-TFFESLEKDNWENH 221 Query: 613 T----TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T T+ L+ L R + +++ R+ + + TL+++ KQ+ V+ ERIRQ+E A++K++ Sbjct: 222 TIKRLTQALSKLDKRSQEIIKKRW-LNQSGRETLQDLAKQYKVSAERIRQLEKNAMKKIR 280 >gi|188583534|ref|YP_001926979.1| RNA polymerase factor sigma-32 [Methylobacterium populi BJ001] gi|179347032|gb|ACB82444.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium populi BJ001] Length = 290 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 67/250 (26%), Positives = 125/250 (50%), Gaps = 41/250 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 41 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPERDVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E EI ++A + Sbjct: 101 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTEEQVGSEIHGRIASAI 158 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETT 613 R+ + +++ +SL P+G+E +S DF+ D NA P ++ Sbjct: 159 GVSREDVALMDARLSGPDMSLNAPVGEESEASSERMDFLVD-NAALPDET---------- 207 Query: 614 TRVLASLTPREERVLRMRFGIGMNT---------------DHTLEEVGKQFCVTRERIRQ 658 +++L E R++ +R + + + TLE +G + +++ER+RQ Sbjct: 208 ---VSALVDGERRLVWLRQALTVLSERELRILRERRLAEDQATLEALGHRLGISKERVRQ 264 Query: 659 IEAKAIRKLK 668 IE +A+ KL+ Sbjct: 265 IENRALEKLR 274 >gi|291550016|emb|CBL26278.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus torques L2-14] Length = 260 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 55/164 (33%), Positives = 95/164 (57%), Gaps = 6/164 (3%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R+G+ +A++E ++ NLRLV+SV K++ + DL Q G +GL+KA + FD Sbjct: 31 IRQGD---KLAREEYIKGNLRLVLSVMKRFDSSNENADDLFQIGCVGLVKAVDNFDPDRQ 87 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 KFSTYA+ + I R + D S ++R+ +RD +KV+ T K +EP+ +EIA Sbjct: 88 VKFSTYAVPMIIGEIRRYLRDNS-SLRVSRSLRDIAYKVIYTREGYIRKNMKEPSIQEIA 146 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDE--DTSHLGDFIEDK 595 +++ + E V L + P+SL+ P+ ++ D ++ D + DK Sbjct: 147 EEIGLSKEEVVYALDAVQTPMSLQEPVYNDGGDALYVMDQVSDK 190 >gi|115378523|ref|ZP_01465679.1| sigma-D factor [Stigmatella aurantiaca DW4/3-1] gi|115364445|gb|EAU63524.1| sigma-D factor [Stigmatella aurantiaca DW4/3-1] Length = 171 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 40/91 (43%), Positives = 58/91 (63%), Gaps = 3/91 (3%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 + RKG+ A++ + +NL V++VAKK+ NRG + DLIQEGN+GLMKA E FD Sbjct: 33 LARAARKGD---ESARQTLATSNLAFVVAVAKKFANRGARLDDLIQEGNVGLMKAIEHFD 89 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 +F+TYA+WW++ ITR + D +R Sbjct: 90 PKKNVRFATYAVWWIRAYITRYLKDNRSQVR 120 >gi|328675965|gb|AEB28640.1| RNA polymerase sigma factor RpoH [Francisella cf. novicida 3523] Length = 292 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 124/240 (51%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPEQGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K + + +++ + K+ R +KI + + E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSEDIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|328955594|ref|YP_004372927.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Coriobacterium glomerans PW2] gi|328455918|gb|AEB07112.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Coriobacterium glomerans PW2] Length = 262 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 62/230 (26%), Positives = 122/230 (53%), Gaps = 15/230 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V +++ LV +A K+ NRG DL+Q G +GL+KA ++F+ G +F+TYA Sbjct: 32 AREKLVMSHMNLVRFLANKFKNRGEPLDDLMQVGYLGLLKAIDRFEPARGLEFTTYATPT 91 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ ++R+P +++ KV + ++ +++R P EEIA+ L V+ V Sbjct: 92 ILGEIKRHFRDKGWSVRVPRRLQELSAKVNQATDLLTTELQRSPKVEEIAEYLDATVDEV 151 Query: 564 RKVLKITK--EPISLE---TPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + ++ + + LE + D+ S + + D N +S D R L Sbjct: 152 LEAMESSSAYSSVPLEGTGSSENDDAPSIIDRYAIDDNVLSFTDD------RLIIEDALE 205 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 S +PRE V+ +RF GM T E+ +Q +++ ++ ++ + ++K++ Sbjct: 206 SFSPREREVVNLRFLKGM----TQIEIAEQLGISQVQVSRLLRRTLKKIQ 251 >gi|256823783|ref|YP_003147746.1| RNA polymerase sigma-32 subunit RpoH [Kangiella koreensis DSM 16069] gi|256797322|gb|ACV27978.1| RNA polymerase, sigma 32 subunit, RpoH [Kangiella koreensis DSM 16069] Length = 283 Score = 87.0 bits (214), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 126/235 (53%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V A+LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 50 AARQLVMAHLRFVVYIARSYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ N + + +A+ L + E Sbjct: 110 IKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRSKKKTLNWLNNDEV-NAVAQDLGVSEEE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLG---DFIEDKNAVSPLDSAIQANLR-ETTTRVL 617 VR++ ++ S + P +D + ++E N+ P + Q + + + R++ Sbjct: 169 VRRMEGRLNAHDASFDAPNASDDDDAVYAPIHYLESPNS-DPAQAIEQEDWQDQREVRLM 227 Query: 618 ASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++L +ER +L+ R+ + TL ++ ++ ++ ERIRQ+E A+ K+K+ Sbjct: 228 SALKTLDERSQDILQQRW--LSDQKATLHDLADKYGISAERIRQLEKNAMNKIKN 280 >gi|311897125|dbj|BAJ29533.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 296 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 115/243 (47%), Gaps = 23/243 (9%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S + FR + + G E + + ++E NL LV + ++ +R D++Q G IGL Sbjct: 50 LSRALFRRLAGL-ESGSAEHTYVRDTLIELNLPLVRYASARFRSRNEPMEDIVQVGTIGL 108 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA ++FD G +F T+AM V I R D S ++R+P +++ + + +S Sbjct: 109 IKAIDRFDPDRGVEFPTFAMPTVVGEIKRFFRDTSWSVRVPRRLQELRLALTKAGDELSQ 168 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--EDKNAVS 599 ++ R PT E+A L +T++ + +G+ T+ D ED Sbjct: 169 RLDRSPTVPELAAYLG-----------VTEDDVVEGLAVGNAYTASSLDSTPAEDDGGDG 217 Query: 600 PL-------DSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFC 650 PL D A++ RE+ +LA L PRE R++ +RF + EE+G Q Sbjct: 218 PLADRLGYEDLALEGVEYRESLKPLLAKLPPRERRIIMLRFFGNLTQSQIGEEIGISQMH 277 Query: 651 VTR 653 V+R Sbjct: 278 VSR 280 >gi|42524687|ref|NP_970067.1| RNA polymerase sigma factor for flagellar operon [Bdellovibrio bacteriovorus HD100] gi|39576897|emb|CAE78126.1| RNA polymerase sigma factor for flagellar operon [Bdellovibrio bacteriovorus HD100] Length = 261 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 114/235 (48%), Gaps = 14/235 (5%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 A K +++ L+ +A+K R ++ DLI G IGLM A EK+D KF Sbjct: 19 APTQKDDLIREYAPLIKFIAQKIAVRLPSNIELDDLISAGVIGLMDAIEKYDSTRDNKFK 78 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA + ++ AI + Q +P +RDK + +T ++ + R P+ EE+AK L Sbjct: 79 TYAEFRIRGAILDELRAQDW---VPRSIRDKAKLLDKTMVQLEADLGRTPSDEEVAKALN 135 Query: 558 MPVEG----VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + ++ V +V ++ PI T + D + D +E SP + N++E Sbjct: 136 VSIDEFHDLVNQVRPVSLLPIDQATSFSNTDKKSIMDILEGSRTNSPFNQLNVKNIKEVV 195 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L R+ VL + + +N L+E+G+ VT R+ Q+ A+A+ +L+ Sbjct: 196 AQAIEELPERQRLVLSLYYYEDLN----LKEIGQVLRVTESRVSQLHAQAVARLR 246 >gi|254369205|ref|ZP_04985217.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] gi|157122155|gb|EDO66295.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] Length = 292 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 123/240 (51%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K + + +++ + K+ R +KI +E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSENIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|78043803|ref|YP_360778.1| RNA polymerase sigma-F factor [Carboxydothermus hydrogenoformans Z-2901] gi|77995918|gb|ABB14817.1| RNA polymerase sigma-F factor [Carboxydothermus hydrogenoformans Z-2901] Length = 257 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/245 (28%), Positives = 124/245 (50%), Gaps = 13/245 (5%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ +KG+ A +++++ NL+LV V +++ +RG + DL Q G IGL+KA Sbjct: 20 EIKELIEKAQKGDVAA---REKLINCNLKLVFKVVERFLHRGYEVEDLFQIGTIGLIKAI 76 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD KFSTYA+ + I R + D IRI ++ K+++ ++ K+ R Sbjct: 77 DKFDLKQQVKFSTYAVPMIVGEIRRFLRDDQA-IRISRSTKELGVKILKEKEALTVKLGR 135 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 EPT E+ + L E + + L+ + SL + +D GD I + + Sbjct: 136 EPTIAELEETLGYSREAIVEALEAGQSLASLFETVHQDD----GDPIYLLDQIKQEGDEE 191 Query: 606 QANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 Q L + + VL+ L PRE +L RF + T E+ + +++ ++ ++E +A+ Sbjct: 192 QTLLENISIKEVLSKLEPRERYILINRF----FKEKTQMEIARTLGISQVQVSRLERQAL 247 Query: 665 RKLKH 669 KLK Sbjct: 248 LKLKR 252 >gi|75764482|ref|ZP_00743967.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488029|gb|EAO51760.1| RNA polymerase sigma-G factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 260 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 76/265 (28%), Positives = 133/265 (50%), Gaps = 20/265 (7%) Query: 410 RNEIKSISVETG----ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 RN+++ V+T + E R + ++ GE A ++++V NLRLV+SV +++ N Sbjct: 3 RNKVEICGVDTAKLPVLKNEEMRKLFREMQSGEISA---REKLVNGNLRLVLSVIQRFNN 59 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 RG DL Q G IGLMK+ + FD KFSTYA+ + I R + D + IR + Sbjct: 60 RGEYVDDLFQVGCIGLMKSIDNFDLGQNVKFSTYAVPMIIGEIRRYLRDNN-PIRFCAFL 118 Query: 526 -RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE- 583 R + ++ ++ + +EPT +IAK L + E + L ++P+SL PI ++ Sbjct: 119 GRYALINXLQVREKLIAENSKEPTAMDIAKVLEVTHEEIVFALDAIQDPVSLFEPIYNDG 178 Query: 584 -DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D + D + D+ + L+E R L RE+ ++R RF G Sbjct: 179 GDPIFVMDQLSDEKQKDE-QWVEELALKEGMKR----LNDREKMIIRKRFFQGKTQMEVA 233 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKL 667 EE+G +++ ++ ++E AI+++ Sbjct: 234 EEIG----ISQAQVSRLEKSAIKQM 254 >gi|156936376|ref|YP_001440292.1| RNA polymerase factor sigma-32 [Cronobacter sakazakii ATCC BAA-894] gi|260599762|ref|YP_003212333.1| RNA polymerase factor sigma-32 [Cronobacter turicensis z3032] gi|156534630|gb|ABU79456.1| hypothetical protein ESA_04276 [Cronobacter sakazakii ATCC BAA-894] gi|260218939|emb|CBA34294.1| RNA polymerase sigma-32 factor [Cronobacter turicensis z3032] Length = 285 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/276 (25%), Positives = 145/276 (52%), Gaps = 21/276 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H +G+ EA+ K+++ ++LR V+ +A+ Sbjct: 16 LDSYIRAANAWPMLSADEERALAEKLHY-----QGDLEAA---KKLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 580 IGDE--DTSHLGD--FIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 D+ D+ + F++DK+ A D + + + T + L R ++++R R+ Sbjct: 186 PDDDAGDSQPMAPVLFLQDKSSNFADGIEDDNWEEHAADKLTDAMQGLDERSQQIIRARW 245 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 246 -LDEDNKSTLQELANRYGVSAERVRQLEKNAMKKLR 280 >gi|299769389|ref|YP_003731415.1| RNA polymerase factor sigma-32 [Acinetobacter sp. DR1] gi|298699477|gb|ADI90042.1| RNA polymerase factor sigma-32 [Acinetobacter sp. DR1] Length = 288 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTAEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 ----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 DAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|56708190|ref|YP_170086.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis SCHU S4] gi|110670661|ref|YP_667218.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis FSC198] gi|134302102|ref|YP_001122071.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis WY96-3418] gi|187931929|ref|YP_001891914.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. mediasiatica FSC147] gi|224457293|ref|ZP_03665766.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis MA00-2987] gi|254370677|ref|ZP_04986682.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC033] gi|254875002|ref|ZP_05247712.1| alternative sigma factor rpoH [Francisella tularensis subsp. tularensis MA00-2987] gi|56604682|emb|CAG45745.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis SCHU S4] gi|110320994|emb|CAL09128.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC198] gi|134049879|gb|ABO46950.1| alternative sigma factor RpoH [Francisella tularensis subsp. tularensis WY96-3418] gi|151568920|gb|EDN34574.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. tularensis FSC033] gi|187712838|gb|ACD31135.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. mediasiatica FSC147] gi|254841001|gb|EET19437.1| alternative sigma factor rpoH [Francisella tularensis subsp. tularensis MA00-2987] gi|282159406|gb|ADA78797.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. tularensis NE061598] Length = 292 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 123/240 (51%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K + + +++ + K+ R +KI +E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSENIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ P D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|149917001|ref|ZP_01905502.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Plesiocystis pacifica SIR-1] gi|149822279|gb|EDM81670.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Plesiocystis pacifica SIR-1] Length = 411 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/234 (27%), Positives = 112/234 (47%), Gaps = 22/234 (9%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ + +LRLVIS+ +Y + + F + G +GL KA ++F+ G++FSTYA WW+ Sbjct: 162 RRRLFADSLRLVISLVHRY-RKHMDFATGMLRGALGLDKAIDRFEPERGWQFSTYATWWI 220 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK--LAMPVEG 562 +Q ITRS D + +R+PVH ++ + + + ++ PT EE+ + +E Sbjct: 221 RQNITRSSMDFATALRVPVHAAEQTTRFWMVQQELWSQTGVRPTDEEVLNQANFKFSIER 280 Query: 563 V-------RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + R ++ + I D D L + +P ++A + T + Sbjct: 281 LGDYRRHARTAHLTRRDQLGAAEAILDSDIPSLLE-------GNPASGWVRAAIDHATAQ 333 Query: 616 VLASLTPREER-----VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 V R R + R ++TL E+G++F +TRERIRQ EAK I Sbjct: 334 VDDKEHSRPSRGRWHAIFSRRILGDQIQNNTLRELGEEFDITRERIRQNEAKLI 387 >gi|294678332|ref|YP_003578947.1| RNA polymerase sigma-32 factor [Rhodobacter capsulatus SB 1003] gi|294477152|gb|ADE86540.1| RNA polymerase sigma-32 factor-2 [Rhodobacter capsulatus SB 1003] Length = 299 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 118/242 (48%), Gaps = 24/242 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ AI I +++ K K+ R+ +KI R +IA L Sbjct: 109 IRAAIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKSKIGALDEGDLRPDAVAKIAHDL 166 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDED---TSHLGDFIEDKNAVSPLDSAIQANLRET 612 + + V ++ ++ SL +G D + D++ED++A A L+ Sbjct: 167 NVSEDDVIEMNRRLAGSDASLNAQVGASDGESATQWQDWLEDEDADQAEAYAEADELQAR 226 Query: 613 TTRVLAS---LTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 ++A+ L RE +L R+R + TLEE+ Q+ V+RERIRQIE +A K Sbjct: 227 RAMLVAAMDVLNERERDILMARRLR-----DEPVTLEELSSQYDVSRERIRQIEVRAFEK 281 Query: 667 LK 668 L+ Sbjct: 282 LQ 283 >gi|167507931|gb|ABZ81286.1| RpoD [Thalassospira sp. MCCC 1A01172] Length = 253 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 97 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGETVPAATEKRYTKLKNEMV 156 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 157 ELMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGNELDPN 216 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ + I K+R +I +S E Sbjct: 217 WMERVAGLPGKGWKTFIERYPEEIAKLREDIGGVSAE 253 >gi|167507901|gb|ABZ81271.1| RpoD [Thalassospira sp. MCCC 1A00370] gi|167507963|gb|ABZ81302.1| RpoD [Thalassospira sp. MCCC 1A02060] Length = 253 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 97 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGETVPAATEKRYTKLKNEMV 156 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 157 ELMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGNELDPN 216 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ + I K+R +I +S E Sbjct: 217 WMERVAGLPGKGWKTFIERYPEEIAKLREDIGGVSAE 253 >gi|319899398|ref|YP_004159495.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] gi|319403366|emb|CBI76925.1| RNA polymerase sigma-32 factor [Bartonella clarridgeiae 73] Length = 303 Score = 87.0 bits (214), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 126/243 (51%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A ++ + DL+QEG +GL++AA +FD +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVISIASRFKRFKMPLGDLVQEGYVGLLEAAARFDPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP---TPEE----IAKKL 556 ++ +I I +R K + RR+ K+ ++ T +E I++KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAQDDSTLTKQEIFRTISEKL 173 Query: 557 AMPVEGVRKV-LKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAI--QANLR 610 + V V K+ + + SL + G+ + + ++D PL A+ QA Sbjct: 174 GVSVSDVEKMDFRFSAADNSLSLSVSENGENPIAKMDSLVDDH----PLPDAVIEQAIDG 229 Query: 611 ETTTR----VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIR 665 + T+ L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A++ Sbjct: 230 QRRTKWLYEALKILNERELEIIRFR---RLNEEGATLEVLGQKLGISKERVRQIEARALQ 286 Query: 666 KLK 668 KL+ Sbjct: 287 KLR 289 >gi|254490572|ref|ZP_05103758.1| alternative sigma factor RpoH [Methylophaga thiooxidans DMS010] gi|224464316|gb|EEF80579.1| alternative sigma factor RpoH [Methylophaga thiooxydans DMS010] Length = 287 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/244 (29%), Positives = 123/244 (50%), Gaps = 19/244 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR V+ +AK Y+ GL DLIQEGNIGLMKA ++F+ G + Sbjct: 47 GDLEAA---QRLVLSHLRFVVRIAKGYSGYGLPVADLIQEGNIGLMKAVKRFNPEKGVRL 103 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ WV+ I + ++I + K+ +R+A++ + +E E +A+ Sbjct: 104 VSFAVHWVRAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSAKQRLGWLNQEEV-EAVAED 162 Query: 556 LAMPVEGVRKVLKITKEP-ISLETPI--GDEDTSHLGD--FIEDKNAVSPLDSAIQANL- 609 L + V + + +P S + P D++ +H ++ P Q N Sbjct: 163 LGVTPANVMDMERRLAQPDASFDLPADSNDDEETHFSPVAYLAGPENSDPSQQLEQENYS 222 Query: 610 ---RETTTRVLASLTPREERVLRMRFGIGMNTD--HTLEEVGKQFCVTRERIRQIEAKAI 664 ++ T LA+L R ++ R+ +N D TL + Q+ V+ ERIRQIE A+ Sbjct: 223 DYQQQKLTNALATLDDRSRDIIMQRW---LNEDDKATLHTLADQYQVSAERIRQIENNAM 279 Query: 665 RKLK 668 +KLK Sbjct: 280 KKLK 283 >gi|260425792|ref|ZP_05779772.1| alternative sigma factor RpoH [Citreicella sp. SE45] gi|260423732|gb|EEX16982.1| alternative sigma factor RpoH [Citreicella sp. SE45] Length = 298 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/239 (29%), Positives = 118/239 (49%), Gaps = 17/239 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW++ Sbjct: 52 KLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWWIRA 111 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKLAMP 559 +I I +++ K K+ R+ ++I R E+IA L + Sbjct: 112 SIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKSRIGALEEGDLRPEHVEKIATDLGVS 169 Query: 560 VEGVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL---RETT 613 + V + +++ SL +G +D S + D++ED+ A D A + L R Sbjct: 170 KDEVISMNRRLSGGDASLNATVGSDDDSSMQWQDWLEDEGADQASDYAERNELEARRALL 229 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + + L RE+ +L R TLE++ + V+RERIRQIE +A KL+ R Sbjct: 230 AQAMDVLNDREKDILTQRRLAEQPV--TLEDLSSVYDVSRERIRQIEVRAFEKLQKRMR 286 >gi|330719751|gb|EGG98273.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC2047] Length = 283 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 122/234 (52%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LR V+ +AK Y+ GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 49 AARQLIMSHLRFVVHIAKSYSGYGLPQGDLIQEGNVGLMKAVKRFDPERGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R A++ + + + IA+ L + + Sbjct: 109 IKAEIHEYILRNWRIVKVATTKAQRKLFFNLRGAKKSLAWLSNDEV-DAIAEDLGVDAKV 167 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHL-GDFIEDKNAVSPLDSAIQANLRETTTR--- 615 VR++ L P + D+ +++EDK P+D Q N +ET+ R Sbjct: 168 VRQMEGRLSAHDAPFDMGADDDDDSAYQAPANYLEDKRC-DPVDLLEQQNWQETSNRKLF 226 Query: 616 -VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A L R + +L R+ + TL ++ ++ V+ ERIRQ+E A++K+K Sbjct: 227 EAMADLDERSKDILNARWLSEQKS--TLHDLADKYGVSAERIRQLEKNAMKKIK 278 >gi|304397877|ref|ZP_07379753.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. aB] gi|308188475|ref|YP_003932606.1| RNA polymerase sigma-32 factor [Pantoea vagans C9-1] gi|304354588|gb|EFM18959.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. aB] gi|308058985|gb|ADO11157.1| RNA polymerase sigma-32 factor [Pantoea vagans C9-1] Length = 285 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/284 (24%), Positives = 140/284 (49%), Gaps = 37/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S E +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYVRAANTWPMLSAEEEKALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DL+QEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLVQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 580 IGDED---------------TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 DE TS D IE+ N A+ + + + L R Sbjct: 186 ADDESSEGRSMAPVLYLQDKTSDFADGIEEDN--------WDAHAADKLSYAMEGLDERS 237 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 238 QHIIRARW-LDEDNKTTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|312128428|ref|YP_003993302.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311778447|gb|ADQ07933.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 256 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 98/190 (51%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V +L + +AKK+ RG+ + DL Q I L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNKHLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRIYETSAKIKLATEVLSTKLKRPPKVEEIARHLNMSTEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + ++ +Q E + + L+P Sbjct: 151 EVMEASNNYLPQSLDQTMYEDEEMTLGDVLGKSD-----ENILQVENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E ++ RF Sbjct: 206 FEREFVQKRF 215 >gi|303256291|ref|ZP_07342307.1| alternative sigma factor RpoH [Burkholderiales bacterium 1_1_47] gi|330998988|ref|ZP_08322713.1| alternative sigma factor RpoH [Parasutterella excrementihominis YIT 11859] gi|302861020|gb|EFL84095.1| alternative sigma factor RpoH [Burkholderiales bacterium 1_1_47] gi|329575730|gb|EGG57256.1| alternative sigma factor RpoH [Parasutterella excrementihominis YIT 11859] Length = 306 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 123/255 (48%), Gaps = 29/255 (11%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 V + G+ EA+ E+V ++LRLVIS+A++Y GL F DLIQEGNIGLMKA ++F+ Sbjct: 55 VRLQEHGDMEAA---GELVMSHLRLVISIARQYQGYGLPFGDLIQEGNIGLMKAVKRFNP 111 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT-- 548 G + T+AM W+K I + +++ + K+ R++ + K T Sbjct: 112 NNGARLVTFAMTWIKSEIQEYVLRNWRLVKVATTKSQR--KLFFNLRKLKDDTKLLGTSE 169 Query: 549 PEEIAKKLAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLG--------DFIEDKNAVS 599 E+IA+ L + P E ++ + ++ P G D D E+ A Sbjct: 170 AEKIAETLDVKPSEVFEMEKRMLGSDVEIDEPSGGTDEGMAPSEWLTDERDTPENTIARG 229 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH------TLEEVGKQFCVTR 653 ++ I+ L E + L R R++ R+ + D TL ++ K+ V++ Sbjct: 230 AYENTIENRLPEAVKK----LDDRSRRIIEARW---LYNDQDGSKGATLADLAKEMGVSQ 282 Query: 654 ERIRQIEAKAIRKLK 668 ER+RQ+E KA LK Sbjct: 283 ERVRQLEKKAFATLK 297 >gi|145637130|ref|ZP_01792792.1| RNA polymerase sigma factor [Haemophilus influenzae PittHH] gi|145640200|ref|ZP_01795784.1| RNA polymerase sigma factor [Haemophilus influenzae R3021] gi|229846357|ref|ZP_04466465.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 7P49H1] gi|145269575|gb|EDK09516.1| RNA polymerase sigma factor [Haemophilus influenzae PittHH] gi|145274786|gb|EDK14648.1| RNA polymerase sigma factor [Haemophilus influenzae 22.4-21] gi|229810450|gb|EEP46168.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 7P49H1] gi|309972570|gb|ADO95771.1| RNA polymerase sigma-32 factor [Haemophilus influenzae R2846] Length = 281 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPALYLEDKSSNFAAALENENFESQATEQLGA 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|260767580|ref|ZP_05876516.1| RNA polymerase sigma-32 factor [Vibrio furnissii CIP 102972] gi|260617480|gb|EEX42663.1| RNA polymerase sigma-32 factor [Vibrio furnissii CIP 102972] gi|315178774|gb|ADT85688.1| RNA polymerase sigma-32 factor [Vibrio furnissii NCTC 11218] Length = 258 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 126/244 (51%), Gaps = 21/244 (8%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 18 GDIEAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRL 74 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I R + ++ +R+ E E +A+ Sbjct: 75 VSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVAR 132 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANL 609 +L + VR++ ++ + + E D+D + ++EDK S L ++A Sbjct: 133 ELGVEPSEVREMESRLAAQDATFEMSNDDDDNPNAYTAPVLYLEDKQ--SDLAENVEAQN 190 Query: 610 RETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T L+SL R + ++R R+ TL+E+ + + V+ ERIRQ+E A+ Sbjct: 191 WEAHTNQRLALALSSLDERSQHIVRSRWLDDQKA--TLQELAEMYNVSAERIRQLEKNAM 248 Query: 665 RKLK 668 +KLK Sbjct: 249 KKLK 252 >gi|171060212|ref|YP_001792561.1| RNA polymerase sigma-32 subunit RpoH [Leptothrix cholodnii SP-6] gi|170777657|gb|ACB35796.1| RNA polymerase, sigma 32 subunit, RpoH [Leptothrix cholodnii SP-6] Length = 313 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/249 (28%), Positives = 120/249 (48%), Gaps = 29/249 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+SVA++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 63 AAGRLVLSHLRLVVSVARQYLGYGLPHGDLIQEGNVGLMKAVKRFDPEQGVRLVSYAMHW 122 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK--LAMPVE 561 +K I + +++ + K+ R M ++K E + + ++ Sbjct: 123 IKAEIHEYVLKNWRVVKLATTKAQR--KLFFNLRSMKRQLKGEAADGDTHRSSLTEAEID 180 Query: 562 GVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA-- 618 V + L + +E I +E D + ED + +P+ A A+ R+ TR L Sbjct: 181 TVARELNVKREEVIEMEARFAGGDVALEPGSDEDDESYTPI--AYLADERQEPTRALEAA 238 Query: 619 ---------------SLTPREERVLRMRFGIGMNTDH----TLEEVGKQFCVTRERIRQI 659 +L R R++ R+ + +N D TL ++ ++ V+ ERIRQI Sbjct: 239 HRDELAGPGLLRALDALDARSRRIVEERW-LKVNDDGSGGLTLHDLAAEYGVSAERIRQI 297 Query: 660 EAKAIRKLK 668 E A++K++ Sbjct: 298 EVAAMKKMR 306 >gi|167507905|gb|ABZ81273.1| RpoD [Thalassospira sp. MCCC 1A00385] gi|167507921|gb|ABZ81281.1| RpoD [Thalassospira sp. MCCC 1A01109] gi|167507961|gb|ABZ81301.1| RpoD [Thalassospira sp. MCCC 1A02059] Length = 253 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 97 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGETVPAATEKRYTKLKNEMV 156 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 157 ELMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGNELDPN 216 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ + I K+R +I +S E Sbjct: 217 WMERVAGLPGKGWKTFIERYPEEIAKLREDIGGVSAE 253 >gi|319764144|ref|YP_004128081.1| RNA polymerase sigma factor rpoh [Alicycliphilus denitrificans BC] gi|330826499|ref|YP_004389802.1| RNA polymerase sigma-32 subunit RpoH [Alicycliphilus denitrificans K601] gi|317118705|gb|ADV01194.1| RNA polymerase sigma factor RpoH [Alicycliphilus denitrificans BC] gi|329311871|gb|AEB86286.1| RNA polymerase, sigma 32 subunit, RpoH [Alicycliphilus denitrificans K601] Length = 311 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 72/254 (28%), Positives = 121/254 (47%), Gaps = 38/254 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGRLVLSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA--MPVE 561 +K I I +++ + K+ R M K + + ++ ++ Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADAIDADTHRETLSDHEID 177 Query: 562 GVRKVLKITKEP-ISLETPIGDEDT-----------------SHLGDFIEDKNAVSPLDS 603 V + L + +E I +ET + D ++L D + A+ Sbjct: 178 MVAEQLNVKREEVIEMETRLAGGDVLLDPAPSDDGEQAFGPIAYLADTAHEPTAM----- 232 Query: 604 AIQANLRET-----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRE 654 I++ R+ T LASL R R++ R+ + +N D TL E+ ++ V+ E Sbjct: 233 -IESRQRDALATDGITSALASLDARSRRIVEQRW-LQVNDDGSGGMTLHELAAEYGVSAE 290 Query: 655 RIRQIEAKAIRKLK 668 RIRQIE A++K+K Sbjct: 291 RIRQIEVAAMKKMK 304 >gi|296314331|ref|ZP_06864272.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] gi|296838970|gb|EFH22908.1| RNA polymerase sigma factor RpoD [Neisseria polysaccharea ATCC 43768] Length = 281 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 58/188 (30%), Positives = 102/188 (54%), Gaps = 4/188 (2%) Query: 7 RNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDT 66 RN++ + E++D L + +++I + ++RGY+T E+N LP D ++Q+++ Sbjct: 3 RNQNHE-EYQDDTRPLSIEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNI 61 Query: 67 VAMLSNMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYL 125 V+M+S +GI V + D ED S+++ A + DS T DPVRMY+ Sbjct: 62 VSMISGLGIQVTEHAPDAEDILLSDNAAVTDDDAVEEAEAALSSADSEFGRTTDPVRMYM 121 Query: 126 REMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ Sbjct: 122 REMGQVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEKIRKDEIRVDEVV 181 Query: 186 DLEACIGP 193 EA I P Sbjct: 182 --EAIIDP 187 >gi|110835430|ref|YP_694289.1| RNA polymerase sigma-32 factor [Alcanivorax borkumensis SK2] gi|110648541|emb|CAL18017.1| RNA polymerase sigma-32 factor [Alcanivorax borkumensis SK2] Length = 289 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V +A+ YT GL DL+QEGN+GLMKA ++FD G + ++A+ W Sbjct: 55 AARSLVLSHLRFVAHIARSYTGYGLPLGDLVQEGNVGLMKAVKRFDPTKGVRLVSFAVHW 114 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R ++ ++ E + +A L + Sbjct: 115 IKAEIHEYVIKNWRIVKVATTKAQRKLFFNLRGQKKRLGRLTLEEA-QRVADDLGVTAAQ 173 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V+++ ++ S + P D+D S + ++ N+ P D + + ++ +R L+ Sbjct: 174 VKEMEGRLGAYDASFDGPTNDDDDSTVVSPAAYLHSDNS-DPADLLAEQDQQQRESRQLS 232 Query: 619 S----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 S L R +L R+ + TL+E+ ++ V+ ERIRQ+E AI+KL++ Sbjct: 233 SALMALDERSRDILERRWLADQKS--TLQELADEYSVSAERIRQLENNAIKKLRN 285 >gi|227329284|ref|ZP_03833308.1| RNA polymerase factor sigma-32 [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 285 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 127/239 (53%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKHLILSHLRFVIHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ + E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQR--KLFFNLRKSKTRLGWFNQDEVELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + P +ED SH G +++DK+ S I+ + ET Sbjct: 167 DVREMESRMAAQDMTFD-PTPEED-SHDGKAMSPMLYLQDKS--SDFADGIEEDNWETHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 280 >gi|281420137|ref|ZP_06251136.1| RNA polymerase sigma-43 factor [Prevotella copri DSM 18205] gi|281405937|gb|EFB36617.1| RNA polymerase sigma-43 factor [Prevotella copri DSM 18205] Length = 205 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 108/234 (46%), Gaps = 38/234 (16%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V NL V SVA +Y +G++F DL+ EG + ++ AA KF G F YA +V + Sbjct: 8 KIVSENLNYVKSVANQYKGKGVEFDDLVSEGTLAMLMAARKFQADRGTDFVAYAGPFVHK 67 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 AI+++I QS R+P + + A R ++K Sbjct: 68 AISQAIDKQSGLYRLPKDQK-------KFAPRNADK------------------------ 96 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 +S++ P+ + L D + D + D+ +++ +A L PRE+ Sbjct: 97 ------AVSVDAPLSANNPYTLLDILNDPDVKIADDTLNIEMMKKKMAESIADLLPREKE 150 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 ++ +GIG+ + T+ E+ + + RER+RQI IR+L R + LR++ Sbjct: 151 IITKFYGIGVPKE-TMAEIAEDMGLKRERVRQIRNLTIRRLNRSIRHQALRNYF 203 >gi|153814532|ref|ZP_01967200.1| hypothetical protein RUMTOR_00746 [Ruminococcus torques ATCC 27756] gi|317500575|ref|ZP_07958796.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|331089324|ref|ZP_08338225.1| hypothetical protein HMPREF1025_01808 [Lachnospiraceae bacterium 3_1_46FAA] gi|145848026|gb|EDK24944.1| hypothetical protein RUMTOR_00746 [Ruminococcus torques ATCC 27756] gi|316898008|gb|EFV20058.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|330405505|gb|EGG85037.1| hypothetical protein HMPREF1025_01808 [Lachnospiraceae bacterium 3_1_46FAA] Length = 260 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 115/232 (49%), Gaps = 22/232 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV K++ N DL Q G +GLMKA + FD KFSTYA+ Sbjct: 38 AREKYIKGNLRLVLSVIKRFENSSENADDLFQIGCVGLMKAVDHFDPGRMVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D S IR+ +RD +K + + +EPT +EIA+++ + E + Sbjct: 98 IIGEIRRYLRDNS-PIRVSRSLRDTAYKAIYAKEGYIKRHMKEPTVQEIAEEIGIAKEEI 156 Query: 564 RKVLKITKEPISLETPIGD--EDTSHLGDFIEDK-----NAVSPLDSAIQANLRETTTRV 616 L + P+SL P+ +D + D + DK N + L + Sbjct: 157 VYALDAIQMPMSLHEPVYSDGQDALFVMDQVSDKKNKEENWIEEL----------SLEAA 206 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE ++ +RF G T EV +Q +++ ++ ++E A++ ++ Sbjct: 207 MERLNERERYIITLRFFEG----KTQMEVAEQINISQAQVSRLEKNALKIMR 254 >gi|167759902|ref|ZP_02432029.1| hypothetical protein CLOSCI_02266 [Clostridium scindens ATCC 35704] gi|167662521|gb|EDS06651.1| hypothetical protein CLOSCI_02266 [Clostridium scindens ATCC 35704] Length = 237 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 123/242 (50%), Gaps = 12/242 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H +++++K A+ +VE N LV + K++ NRG++ DL Q GNIGL+KA +KF Sbjct: 3 HTIALIQKSHDGDEEARARLVEENAGLVWCIVKRFYNRGVEAEDLFQVGNIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K R+ + R+PT Sbjct: 63 DMSYDVKFSTYAVPMISGEIKRFLRDDG-MIKVSRSLKELAYKAYLCQERLQEQWGRDPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQ 606 EIA+ L + E + L + + SL PI ++ L D + +K D + Sbjct: 122 ITEIAESLNVEREELTMALDASGDIESLHKPIYQKEGQEIRLMDKLPEKEGGE--DKILN 179 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 L + ++L L E +++ +R+ + T +VG++ +++ ++ ++E K ++ Sbjct: 180 HMLLQ---QLLNYLDKDERQLIYLRY----FANQTQTQVGRELGISQVQVSRMEKKILKN 232 Query: 667 LK 668 L+ Sbjct: 233 LR 234 >gi|212637488|ref|YP_002314013.1| RNA polymerase factor sigma-32 [Shewanella piezotolerans WP3] gi|212558972|gb|ACJ31426.1| RNA polymerase sigma-32 factor [Shewanella piezotolerans WP3] Length = 285 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 122/236 (51%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A KE++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKELIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNLRKTKKRLGWFSDNEVGM--VAESLGVSKA 169 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT--TRV 616 V ++ + L + DE ++ED + S L S ++ + E + TR+ Sbjct: 170 DVTEMESRMAAQDPAFDLASDNDDEQDYAPMHYLEDHS--SDLASQVENDNWEQSNQTRL 227 Query: 617 LASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ +ER +L+ R+ +N D TL+E+ + V+ ERIRQ+E A+ KLK Sbjct: 228 LSAIKTLDERSQHILQARW---LNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 280 >gi|254478671|ref|ZP_05092042.1| RNA polymerase sigma-F factor [Carboxydibrachium pacificum DSM 12653] gi|214035358|gb|EEB76061.1| RNA polymerase sigma-F factor [Carboxydibrachium pacificum DSM 12653] Length = 215 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 64/218 (29%), Positives = 108/218 (49%), Gaps = 12/218 (5%) Query: 452 NLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 N L+ S+ KK+ NRG + DL Q G IG +KA +KFD KFSTYA+ + I R Sbjct: 3 NSGLIWSIVKKFANRGYELEDLYQIGCIGFVKAVQKFDESYNVKFSTYAVPIIMGEIKRF 62 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK 571 + D I++ +++ K +SN++ REPT EIA++L + E + + Sbjct: 63 LRDDGL-IKVSRSLKELSSKAFYMKEVLSNELNREPTINEIAERLNVTPEEIAMAFESAA 121 Query: 572 EPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRM 630 SL I +E+ L + + DK L+ + T ++ L PRE++V+ + Sbjct: 122 TAESLYDSISHEEEDRQLIEMVGDKEDSVDLEEKL------TLHMIIDKLKPREKQVIFL 175 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ D T EV +++ ++ +IE K + K++ Sbjct: 176 RYF----KDMTQTEVANILGISQVQVSRIEKKVLEKIR 209 >gi|254428104|ref|ZP_05041811.1| alternative sigma factor RpoH [Alcanivorax sp. DG881] gi|196194273|gb|EDX89232.1| alternative sigma factor RpoH [Alcanivorax sp. DG881] Length = 287 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V +A+ YT GL DL+QEGN+GLMKA ++FD G + ++A+ W Sbjct: 53 AARSLVLSHLRFVAHIARSYTGYGLPLGDLVQEGNVGLMKAVKRFDPTKGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R ++ ++ E + +A L + Sbjct: 113 IKAEIHEYVIKNWRIVKVATTKAQRKLFFNLRGQKKRLGRLTMEEA-QRVADDLGVTATQ 171 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 V+++ ++ S + P D+D S + ++ N+ P D + + ++ +R L+ Sbjct: 172 VKEMEGRLGAYDASFDGPTNDDDDSTVVSPAAYLHSDNS-DPADLLAEQDKQQRESRQLS 230 Query: 619 S----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 S L R +L R+ + TL+E+ ++ V+ ERIRQ+E AI+KL++ Sbjct: 231 SALMALDERSRDILERRWLADQKS--TLQELADEYGVSAERIRQLENNAIKKLRN 283 >gi|15603449|ref|NP_246523.1| RNA polymerase factor sigma-32 [Pasteurella multocida subsp. multocida str. Pm70] gi|12721979|gb|AAK03668.1| RpoH [Pasteurella multocida subsp. multocida str. Pm70] Length = 281 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 124/232 (53%), Gaps = 11/232 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PV 560 +K I + +++ R + +T +R+ E E +A +L + P Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVEMVANELGVSPA 166 Query: 561 EGVRKVLKITKEPISLETPIGD-EDTSHLGDFIEDK--NAVSPLDSA-IQANLRETTTRV 616 + + ++T ++ + P D E+T ++EDK N + L++ +A E + Sbjct: 167 DVMEMESRMTGADVAFDLPTDDNEETYSPSLYLEDKGSNFAAELENENYEAQATEQLSVA 226 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +++ R+ + N TL+++ ++ ++ ER+RQ+E A++KLK Sbjct: 227 LEGLDERSLDIIKARW-LDEN-KATLQDLAAKYNISAERVRQLETNALKKLK 276 >gi|192289929|ref|YP_001990534.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] gi|192283678|gb|ACF00059.1| RNA polymerase, sigma 32 subunit, RpoH [Rhodopseudomonas palustris TIE-1] Length = 326 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 111/237 (46%), Gaps = 17/237 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ ++LRL +A+ Y G DLI E N+GLM A +KFD G +F+T A+WW++ A Sbjct: 59 LITSHLRLAAKLARNYRRYGFPIGDLIAEANLGLMMALDKFDPTRGARFATCAVWWIRSA 118 Query: 508 ITRSIADQSCTIRI---PVH--MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 I I +RI P + ++ +R R + + E+I+ L +P+ Sbjct: 119 IYDHIVRSWSLVRIGRTPAQKKLFFRLRGEIRRLRPDHHGALTKDLAEQISTSLDVPLRE 178 Query: 563 VRKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSAIQAN------LRETTTR 615 V ++ + +SL P+ D D S D I D SP AI A R Sbjct: 179 VIEMEQRLSGDLSLNAPLSDLDESGEWQDLIADD---SPNAEAILAGHDELDRQRGALRD 235 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L L RE + R +G + + E +G+ ++ ER+RQIEA+A K+ +R Sbjct: 236 ALVQLDARERYIFSARH-LG-DRPASFEAIGQSLSLSAERVRQIEARAFAKVATAAR 290 >gi|16272227|ref|NP_438438.1| RNA polymerase factor sigma-32 [Haemophilus influenzae Rd KW20] gi|68248876|ref|YP_247988.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 86-028NP] gi|260580848|ref|ZP_05848673.1| alternative sigma factor RpoH [Haemophilus influenzae RdAW] gi|319896604|ref|YP_004134797.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3031] gi|1173123|sp|P44404|RP32_HAEIN RecName: Full=RNA polymerase sigma-32 factor gi|1573235|gb|AAC21935.1| RNA polymerase sigma-32 factor (rpoH) [Haemophilus influenzae Rd KW20] gi|68057075|gb|AAX87328.1| RNA polymerase sigma-32 factor [Haemophilus influenzae 86-028NP] gi|260092471|gb|EEW76409.1| alternative sigma factor RpoH [Haemophilus influenzae RdAW] gi|317432106|emb|CBY80457.1| RNA polymerase sigma-32 factor [Haemophilus influenzae F3031] Length = 281 Score = 86.7 bits (213), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPALYLEDKSSNFAAELENENFESQATEQLGA 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|317046493|ref|YP_004114141.1| RNA polymerase,sigma 32 subunit,RpoH [Pantoea sp. At-9b] gi|316948110|gb|ADU67585.1| RNA polymerase, sigma 32 subunit, RpoH [Pantoea sp. At-9b] Length = 285 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 71/284 (25%), Positives = 140/284 (49%), Gaps = 37/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S E +++E H +G+ +A+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANVWPMLSAEEEKALAERLHY-----QGDLDAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 580 IGDED---------------TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 DE+ TS D IE+ N A+ + T + L R Sbjct: 186 ADDENGESKTMAPVLYLQDKTSDFADGIEEDN--------WDAHAADKLTDAMQGLDERS 237 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 238 QHIIRARW-LDEENKTTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|325264312|ref|ZP_08131043.1| putative RNA polymerase sigma factor RpoD [Clostridium sp. D5] gi|324030383|gb|EGB91667.1| putative RNA polymerase sigma factor RpoD [Clostridium sp. D5] Length = 288 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 113/246 (45%), Gaps = 20/246 (8%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLD-LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 ++ + N + + +++ +G LD L+QEG I L +A FD F YA +W+K Sbjct: 22 QLWQQNEPFIRMMGRRFAGQGKAELDDLMQEGYIALCEAVRHFDSEQAVPFINYAAFWIK 81 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP---VEG 562 Q + R I + T+RIP H RD + + + +P + + L + ++ Sbjct: 82 QGMKRYIENCCGTVRIPTHARDWVRRYGKIVAEYCKYYGSDPEDDVLCALLNISREKLQA 141 Query: 563 VRKVLKITKEPISLETPIGDEDTS-HLGDFIE-----DKNAVSPLDSAIQANLRETTTRV 616 VRK + K SL P+G ED ++ +FI + V LD N++E Sbjct: 142 VRKSEHMGK-ICSLNEPLGQEDGDLNMEEFIASEEDLEGETVRRLDY---QNMKEMLWEA 197 Query: 617 LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 + L ++ V+R RF DH TL E G+ +T++ + + A+R L P R +K Sbjct: 198 VEGLEEKQAEVIRCRF-----LDHKTLRETGELIGITKDAVVHQQNNALRLLGQPGRCRK 252 Query: 676 LRSFLD 681 R + + Sbjct: 253 YRGYYE 258 >gi|145635177|ref|ZP_01790882.1| RNA polymerase sigma factor [Haemophilus influenzae PittAA] gi|145267598|gb|EDK07597.1| RNA polymerase sigma factor [Haemophilus influenzae PittAA] Length = 281 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETEIYSPSLYLEDKSSNFAAELENENFESQATEQLNT 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|282862754|ref|ZP_06271815.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282562440|gb|EFB67981.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 298 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 66/252 (26%), Positives = 126/252 (50%), Gaps = 40/252 (15%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGY 494 +G E A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 61 EGTHEYQYARNTLIEMNLSLVRYAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREV 120 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F+T+A+ ++ I R D + ++ +P +++ ++ + +S ++ R+PT E+A Sbjct: 121 EFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVELAKAKETLSAQLDRDPTVAELAT 180 Query: 555 KLAMP----VEGVRKVLKITKEPISLETPIGDEDTSH--------LG------DFIEDKN 596 L +P +EG+ V SL+TP D ++ + LG + +E+ + Sbjct: 181 HLDLPEEEIIEGL--VAANGYSAGSLDTPSADSESGNEQRAYADLLGEDDPGMESVENLH 238 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A++PL L L RE ++RMRFG M T ++G + V++ + Sbjct: 239 ALAPL---------------LRQLDDRERTIVRMRFGQEM----TQAQIGAELGVSQMHV 279 Query: 657 RQIEAKAIRKLK 668 ++ ++ +++L+ Sbjct: 280 SRLLSRIVQRLR 291 >gi|254432127|ref|ZP_05045830.1| group2 RNA polymerase sigma factor RpoD6 [Cyanobium sp. PCC 7001] gi|197626580|gb|EDY39139.1| group2 RNA polymerase sigma factor RpoD6 [Cyanobium sp. PCC 7001] Length = 335 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 69/229 (30%), Positives = 116/229 (50%), Gaps = 21/229 (9%) Query: 448 MVEANLRLVISVAKKYTNR----GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 MV ANLRLV+ V ++Y R L+ LDL Q GNIGLM+A E FD GY+ STYA W Sbjct: 108 MVTANLRLVVMVCRRYRGRIGNLQLEMLDLYQAGNIGLMRAVELFDPSRGYRLSTYAFSW 167 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + QA+ R + IRIP +R+ ++ A+ + ++ + IA L + + Sbjct: 168 IHQAVQRCMTATGNGIRIPTALRNIAYR----AQLLEACAEQPLSIGAIAALLGEKEQRL 223 Query: 564 RKVLKITKE--PISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + L + ++ SL+ P EDT+ L + I D+ P D L E L + Sbjct: 224 QTALTVVRQCSTTSLDKPSASMGEDTT-LIEVIPDRRGNVPHDD--YRWLHEH----LDA 276 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R+ +VL++R+G + + + + V++ ++ +E + ++ L+ Sbjct: 277 LDLRDRQVLQLRYGD--DESRSCSKTARVLGVSKSCVQSVERRTLKNLR 323 >gi|300783890|ref|YP_003764181.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299793404|gb|ADJ43779.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 282 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 60/201 (29%), Positives = 105/201 (52%), Gaps = 12/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G GL+ A EKFD G +F TYAM ++ AI + Q +P +R K + Sbjct: 81 DLVQSGIFGLVDAIEKFDPERGLRFETYAMQRIRGAILDDLRSQDW---VPRAVRSKAKE 137 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPI-GDEDTSH 587 R R+ ++ R PT E+A +L + ++ +R L++T ++LE + +D+ Sbjct: 138 AERAMERLGARLHRTPTDAELAAELGIGLDDLRDFYGQLQLTSV-VALEDLVAAGKDSGS 196 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D + D +AV P+ + + R + +A LT R++ V+ + + + TL E+GK Sbjct: 197 LVDTLPDDDAVDPVAVLVDQDNRRQLAQAIAQLTERDKIVVSLYYFESL----TLAEIGK 252 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 VT R+ Q+ +A+ +L+ Sbjct: 253 VLGVTESRVSQLHTRAVMRLR 273 >gi|254486865|ref|ZP_05100070.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] gi|214043734|gb|EEB84372.1| alternative sigma factor RpoH [Roseobacter sp. GAI101] Length = 298 Score = 86.3 bits (212), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/240 (30%), Positives = 113/240 (47%), Gaps = 21/240 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ N+I R IA L Sbjct: 109 IRASIQEYILRSWSLVKLGTTSGQK--KLFFNLRKAKNRIGALEEGDMRPENVSRIATDL 166 Query: 557 AMP-VEGVRKVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + E V +++ SL +G E T D++ED++A D + L Sbjct: 167 GVTEAEVVSMNRRMSGGDASLNATVGSEGEGTMQWQDWLEDEDADQAGDYEEREELETRR 226 Query: 614 ---TRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L RE+ +L R +D TLE++ Q+ V+RERIRQIE +A KL+ Sbjct: 227 EMLAEALEVLNDREKDILTQR----RLSDETITLEDLSSQYDVSRERIRQIEVRAFEKLQ 282 >gi|319408110|emb|CBI81763.1| RNA polymerase sigma-32 factor [Bartonella schoenbuchensis R1] Length = 308 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 116/238 (48%), Gaps = 16/238 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGNIGLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAIGYRGYGLPIGEVISEGNIGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 +K +I + +++ K ++ R++ NK++ +EIA +L Sbjct: 109 IKASIQEYVLRSWSLVKMGTTANQK--RLFFNLRKLKNKLQALDNGDLNAEQVKEIATRL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPIGD---EDTSHLGDFIEDKNAVSP--LDSAIQANLRE 611 + + V + SL P+ E T ++D N+ ++ N R Sbjct: 167 NVTEDEVVSMNHRLSGDTSLNAPLRTKEGEKTEWQDWLVDDSNSQEQILIEQDELENRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +L RE+ + + R + TLEE+ F ++RER+RQIE +A K+++ Sbjct: 227 MLIHAIDNLNEREKHIFKARR--LSDESLTLEELSNTFNISRERVRQIEMRAFEKVRN 282 >gi|27375413|ref|NP_766942.1| RNA polymerase subunit [Bradyrhizobium japonicum USDA 110] gi|1834377|emb|CAA70861.1| RNA polymerase subunit [Bradyrhizobium japonicum] gi|27348550|dbj|BAC45567.1| RNA polymerase subunit [Bradyrhizobium japonicum USDA 110] Length = 307 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/234 (30%), Positives = 112/234 (47%), Gaps = 11/234 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRL +A+ Y GL +DLI E N+GL+ AA +F+ G +FSTYA+WW Sbjct: 58 AADALVTSHLRLAAKLARGYKGYGLPMVDLIAEANLGLVIAASRFEPGRGARFSTYAIWW 117 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTP---EEIAKKLAM 558 +K AI I ++I K K+ R+ + + TP E IA KL + Sbjct: 118 IKAAIHEYILRSWSLVKIGTTAAQKKLFFKLRSEIRKATGSVMSGLTPDVAELIAGKLDV 177 Query: 559 PVEGVRKVLKITKEPISLETPIGDEDT-SHLGDFIEDK--NAVSPLDSAIQANLRETTTR 615 V ++ +SL +G E++ + L + D +A + L Q R R Sbjct: 178 TAREVIEMDARLNGDMSLNARVGGEESGTELEALLVDGAVDAETMLADHEQTERRAKALR 237 Query: 616 V-LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V L L RE V R TL+++ ++ ++ ER+RQIE +A K+K Sbjct: 238 VALGGLAARERHVFEARRLT--ECPVTLDQLARELSISSERVRQIEIRAFAKVK 289 >gi|160914281|ref|ZP_02076502.1| hypothetical protein EUBDOL_00291 [Eubacterium dolichum DSM 3991] gi|158433908|gb|EDP12197.1| hypothetical protein EUBDOL_00291 [Eubacterium dolichum DSM 3991] Length = 260 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+E++ NL+LV+S+ +++ NR DL Q G IGL+K+ + FD +FSTYA+ Sbjct: 38 AKEELINGNLKLVLSIVQRFANRCENMDDLFQVGCIGLVKSIDHFDLKHEVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +R+ H++D +K R ++ ++EP+ +A++L + + + Sbjct: 98 IMGEIKRYLRDNQ-VLRVSRHLKDLAYKCFRLKEEYVHQHQKEPSITWLAEQLEVREKDI 156 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASL 620 L T+ +S+ P+ D D +L D I D K+ + L++ + +LR + L L Sbjct: 157 VDALDSTQNVLSIFEPVYNSDGDELYLLDQIRDEKDEIDLLNNVL--SLRSS----LKQL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +L R+ D T E+ + +++ ++ ++E AI L+ Sbjct: 211 KEKELEILDKRYY----QDMTQTEIANELGISQAQVSRLEKSAISTLR 254 >gi|222528460|ref|YP_002572342.1| Sig B/F/G subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222455307|gb|ACM59569.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 256 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 97/190 (51%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V L + +AKK+ RG+ + DL Q I L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNKYLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRIYETSAKIKLATEVLSTKLKRPPKVEEIAQHLNMSAEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + ++ +Q E + + L+P Sbjct: 151 EVMEASNNYLPQSLDQTMYEDEEMTLGDVLGKSD-----ENILQVENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E ++ RF Sbjct: 206 FEREFVQKRF 215 >gi|2384764|gb|AAC97123.1| heat shock sigma factor [Rhodobacter capsulatus] Length = 299 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/243 (30%), Positives = 123/243 (50%), Gaps = 26/243 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHRLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIAKKLAMP 559 ++ AI I +++ K K+ R+ +KI + + P+ +A K+A Sbjct: 109 IRAAIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKSKIGAFEEGDLRPDAVA-KIAHD 165 Query: 560 V---EG----VRKVLKITKEPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + EG + + L + ++ + GD E + D++ED++A A L+ Sbjct: 166 LNVSEGDVIEMNRRLAGSDASLNAQVGAGDGESATQWQDWLEDEDADQAEAYAEADELQA 225 Query: 612 TTTRVLAS---LTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++A+ L RE +L R+R + TLEE+ Q+ V+RERIRQIE +A Sbjct: 226 RRAMLVAAMDVLNERERDILMARRLR-----DEPVTLEELSSQYDVSRERIRQIEVRAFE 280 Query: 666 KLK 668 KL+ Sbjct: 281 KLQ 283 >gi|167507971|gb|ABZ81306.1| RpoD [Thalassospira sp. MCCC 1A02411] Length = 258 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 89/157 (56%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ ++IA+ Y +L Q+ A+N + ++ + + LK+++V Sbjct: 102 SLSKMEEELTEQVLEKFEKIAKTYEKLHKAQEQRLAALNKGESVPAATEKRYGKLKQEMV 161 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++ +QG ELDP+ Sbjct: 162 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRVKIKRPDFIKHYQGNELDPN 221 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK FV + I +R + +S E Sbjct: 222 WMEKVGNLPGKGWKLFVERYPEEIANLREGVGGVSAE 258 >gi|163845340|ref|YP_001622995.1| RNA polymerase factor sigma-32 [Brucella suis ATCC 23445] gi|163676063|gb|ABY40173.1| RNA polymerase sigma factor, sigma-70 family [Brucella suis ATCC 23445] Length = 311 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 15/247 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLV S+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVTSMAGRFRKFKLPMSDLIQEGYVGLLEAAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMS---NKIKREPT 548 +FSTYA WW++ ++ I +R K + R +++ + + + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKALFFNLCRLRSKLAQTDDNMTKAEI 173 Query: 549 PEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--LDS 603 EI+ +L + V + +++ SL P+ E+T S DF+ D + + +S Sbjct: 174 YREISDQLGVSTSDVEFMDSRLSGPDSSLSAPMNGEETGASRRMDFLVDDHPLQDEIAES 233 Query: 604 AIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEA 661 +I R TR L +L RE ++R R ++ D TLE +G++ +++ER+RQIE+ Sbjct: 234 SIDMERRNCWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQIES 290 Query: 662 KAIRKLK 668 +A+ KLK Sbjct: 291 RAMEKLK 297 >gi|4103484|gb|AAD01787.1| sigma-D factor [Myxococcus xanthus] Length = 297 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 37/77 (48%), Positives = 52/77 (67%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +NL V++VAKK+ NRG + DLIQEGN+GLMKA E FD +F+TYA+WW Sbjct: 44 ARQTTASSNLAFVVAVAKKFANRGARLDDLIQEGNVGLMKAIEHFDPKKNVRFATYAVWW 103 Query: 504 VKQAITRSIADQSCTIR 520 ++ ITR + D +R Sbjct: 104 IRAYITRYLKDNRSQVR 120 >gi|330945998|gb|EGH47306.1| RNA polymerase sigma factor RpoS [Pseudomonas syringae pv. pisi str. 1704B] Length = 163 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 45/148 (30%), Positives = 87/148 (58%) Query: 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 +P+H+ +++ +R AR ++ K+ EP+PEEIA L PV V+++L + + S++ + Sbjct: 1 MPIHVVKELNVYLRAARELTQKLDHEPSPEEIANLLEKPVGEVKRMLGLNERVSSVDVSL 60 Query: 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH 640 G + L D + D P + +L ++ + L+ LT ++ V+ RFG+ + Sbjct: 61 GPDSDKTLLDTLTDDRPTDPCELLQDDDLSQSIDQWLSELTEKQREVVIRRFGLRGHESS 120 Query: 641 TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TLE+VG + +TRER+RQI+ + +++L+ Sbjct: 121 TLEDVGLEIGLTRERVRQIQVEGLKRLR 148 >gi|119716157|ref|YP_923122.1| sigma-70 region 4 domain-containing protein [Nocardioides sp. JS614] gi|119536818|gb|ABL81435.1| sigma-70 region 4 domain protein [Nocardioides sp. JS614] Length = 282 Score = 86.3 bits (212), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/234 (29%), Positives = 114/234 (48%), Gaps = 13/234 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE E + + +V N + +VA ++ NRG+ DL Q GL KA +FD L Sbjct: 53 GEREEVLGR--VVVINRGVADAVAARFRNRGIPQEDLRQVAYEGLTKAVHRFDPELRNDL 110 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 TYA+ ++ + R DQ T+R P +++ +V + R++ + REP+ +EIA +L Sbjct: 111 LTYAVPTIRGELQRYFRDQGWTVRPPRRIQELQWRVNQVIERLTQERGREPSEDEIAAEL 170 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 VE R +P SL+ P+G E + +G+ I +A P A R Sbjct: 171 DTTVEEYRDAASAFGCFQPTSLDQPVGHEGETPVGELIAGADADGPATEA-----RMLLA 225 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ L R R+L +RF D T EE+G+ VT+ ++ ++ ++ + L+ Sbjct: 226 PVVRRLPERHRRILYLRF----FEDLTQEEIGRDLGVTQMQVSRLLSRILGDLR 275 >gi|221133912|ref|ZP_03560217.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola sp. HTCC2999] Length = 283 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 128/245 (52%), Gaps = 35/245 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ +AK Y+ GL DL+QEGNIGLMKA ++FD +G + ++A+ W Sbjct: 50 AARELVMSHLRFVVHIAKSYSGYGLAQADLVQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + ++ +R+ +E +++A++L Sbjct: 110 IKAEIHEFVLKNWRIVKVATTKAQRKLFFNLRKSKKRLGWFTHKE--VQKVAEEL----- 162 Query: 562 GVRKVLKITKEPISLETPIGDEDT-----SHLGD---------FIEDKN---AVSPLDSA 604 GV + KE + +E +G +DT S GD ++EDK+ + +++ Sbjct: 163 GVSE-----KEVLQMEARMGSQDTAFDLSSDDGDDNSNFSPAQYLEDKSENVEAAVINAD 217 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKA 663 +N + +L R + ++ R+ +N + TL+++ ++ V+ ER+RQIE A Sbjct: 218 YDSNASARLYSAIKTLDERSQYIIETRW---LNDNKMTLQDLAAKYEVSAERVRQIEKNA 274 Query: 664 IRKLK 668 ++K++ Sbjct: 275 MKKIQ 279 >gi|167507973|gb|ABZ81307.1| RpoD [Thalassospira sp. MCCC 1A02450] Length = 258 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 89/157 (56%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ ++IA+ Y +L Q+ A+N + ++ + + LK+++V Sbjct: 102 SLSKMEEELTEQVLEKFEKIAKTYEKLHKAQEQRLAALNKGESVPAATEKRYGKLKQEMV 161 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++ +QG ELDP+ Sbjct: 162 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRVKIKRPDFIKHYQGNELDPN 221 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK FV + I +R + +S E Sbjct: 222 WMEKVGNLPGKGWKLFVERYPEEIANLREGVGGVSAE 258 >gi|88813090|ref|ZP_01128332.1| RpoH [Nitrococcus mobilis Nb-231] gi|88789723|gb|EAR20848.1| RpoH [Nitrococcus mobilis Nb-231] Length = 292 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 125/237 (52%), Gaps = 18/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V+ +A+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 55 AARGLVLSHLRFVVHIARGYKGYGLPLTDLIQEGNIGLMKAVKRFDPAVGVRLVSFAVHW 114 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R A++ + R + +A L + E Sbjct: 115 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRGAKKRLGWLNRAEV-DAVANDLGVKPET 173 Query: 563 VRKV-LKITKEPISLET-PIGDED-------TSHLGDFIEDKNAVSPLDSA-IQANLRET 612 V+++ L+++ + +S + P ED ++L D + N ++S Q + E+ Sbjct: 174 VQEMELRLSGQEVSFDPGPDAAEDDDIVRAPAAYLRD--QRPNPAEEIESHDWQTHQSES 231 Query: 613 TTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R ++ R+ +N TL+E+ +++ V+ ERIRQ+E A++KL+ Sbjct: 232 LATALAHLDERSRAIVHERW---LNEPKATLQELAERYAVSAERIRQLEKNALKKLR 285 >gi|292489953|ref|YP_003532845.1| RNA polymerase sigma-32 factor [Erwinia amylovora CFBP1430] gi|292900984|ref|YP_003540353.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC 49946] gi|291200832|emb|CBJ47966.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC 49946] gi|291555392|emb|CBA23800.1| RNA polymerase sigma-32 factor [Erwinia amylovora CFBP1430] gi|312174141|emb|CBX82394.1| RNA polymerase sigma-32 factor [Erwinia amylovora ATCC BAA-2158] Length = 284 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/274 (24%), Positives = 143/274 (52%), Gaps = 18/274 (6%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRAANAWPMLTAEEEKALAERLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLE-TP 579 + K+ +R A++ ++ E +A++L + + VR++ ++ + ++ + TP Sbjct: 128 TTKAQRKLFFNLRKAKQRLGWFNQDEV-EMVARELGVSSKDVREMESRMAAQDMTFDPTP 186 Query: 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE-----TTTRVLASLTPREERVLRMRFGI 634 + + + + ++ S + I+ + E + + L R + ++R R+ + Sbjct: 187 DDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLSDAMQGLDERSQHIIRARW-L 245 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 246 DDDNKTTLQELADQYGVSAERVRQLEKNAMKKLR 279 >gi|153840380|ref|ZP_01993047.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AQ3810] gi|149745954|gb|EDM57084.1| alternative sigma factor RpoH [Vibrio parahaemolyticus AQ3810] Length = 274 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 74/262 (28%), Positives = 136/262 (51%), Gaps = 23/262 (8%) Query: 413 IKSISVETGISISEFRHIVSMVR-KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 I+S++ ++ E R + + KGE EA+ K ++ ++LR V+ VA+ Y+ GL Sbjct: 20 IRSVNSYPMLTADEERELAERLHYKGEIEAA---KGLILSHLRFVVHVARGYSGYGLPMA 76 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKI 529 DL+QEGNIGLMKA ++F+ +G + ++A+ W+K I + ++I R Sbjct: 77 DLVQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLF 136 Query: 530 HKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL 588 + ++ +R+ E E +A++L + VR++ ++ + + P D+D++ Sbjct: 137 FNLRKSKKRLGWFNNGE--VETVARELGVEPSEVREMESRLAAVDSTFDMPTDDDDSATS 194 Query: 589 GD-----FIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRMRFGIGMNT 638 ++EDK+ S + I+A E T LASL R +R++R R+ + Sbjct: 195 SYTAPMLYLEDKS--SDVADNIEAANWEMHTNNRLGHALASLDERSQRIVRSRWLD--DE 250 Query: 639 DHTLEEVGKQFCVTRERIRQIE 660 TL+++ +F V+ ERIRQ+E Sbjct: 251 KATLQDLADEFGVSAERIRQLE 272 >gi|302525186|ref|ZP_07277528.1| RNA polymerase sigma-G factor [Streptomyces sp. AA4] gi|302434081|gb|EFL05897.1| RNA polymerase sigma-G factor [Streptomyces sp. AA4] Length = 282 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 102/201 (50%), Gaps = 12/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G GL+ A EKFD G +F TYAM ++ AI + Q +P +R K + Sbjct: 81 DLVQSGIFGLVDAIEKFDPERGLRFETYAMQRIRGAILDDLRSQDW---VPRAVRSKAKE 137 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPI-GDEDTSH 587 R R+ ++ R PT E+A ++ + ++ +R L++T ++LE + +D Sbjct: 138 TARALERLGARLHRTPTDAELAGEMGISLDDLRDFYGQLRLTSV-VALEDLVAAGKDAGS 196 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D + D AV P+ + + R +A LT R++ V+ + + + TL E+GK Sbjct: 197 LVDTLPDDGAVDPVAVLVDQDNRRQLAEAIAQLTDRDKIVVSLYYFESL----TLAEIGK 252 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 VT R+ Q+ +A+ +L+ Sbjct: 253 VLGVTESRVSQLHTRAVMRLR 273 >gi|145628599|ref|ZP_01784399.1| RNA polymerase sigma factor [Haemophilus influenzae 22.1-21] gi|145632513|ref|ZP_01788247.1| RNA polymerase sigma factor [Haemophilus influenzae 3655] gi|148825451|ref|YP_001290204.1| RNA polymerase factor sigma-32 [Haemophilus influenzae PittEE] gi|144979069|gb|EDJ88755.1| RNA polymerase sigma factor [Haemophilus influenzae 22.1-21] gi|144986708|gb|EDJ93260.1| RNA polymerase sigma factor [Haemophilus influenzae 3655] gi|148715611|gb|ABQ97821.1| RNA polymerase sigma factor [Haemophilus influenzae PittEE] Length = 281 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDSA-IQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPSLYLEDKSSNFAAELENENFESQATEQLGV 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|332977407|gb|EGK14184.1| DNA-directed RNA polymerase sigma subunit RpoH [Psychrobacter sp. 1501(2011)] Length = 362 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 82/304 (26%), Positives = 140/304 (46%), Gaps = 34/304 (11%) Query: 383 WVSYAKDFPEGEWKNFV-ACEVD------SILKIRNEIKSISVETGISISEFRHIVSMVR 435 WVS+ +P+ ++ V A V+ ++ N + I + T E H Sbjct: 59 WVSH---YPDTSTRDLVPAMPVNLSAPGINLGAYMNSVHQIPILTTEQEQELAH--RYYD 113 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 114 EGDVEAA---RILVMSHLRFVIHIARSYSGYGLPQADLIQEGNLGLMKAVKRFDPNKGVR 170 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K H+ + R K + T EE A Sbjct: 171 LVSFAVHWIKAEIHEFVIRNWRIVKVAT---TKAHRKLFFNLRSLKKTNNQLTLEE-ADA 226 Query: 556 LAMPVEGVRKVL-----KITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQAN 608 +A + RK + ++T S E D++ H F+ED V P + A+ Sbjct: 227 IAADLNVTRKQVLEMESRLTSYDASFEAQSSDDEDGHYAPQLFLED--GVDPAEMVEDAD 284 Query: 609 LRETTTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ Sbjct: 285 WEENNTNALMDAMDTLDDRSRDIVEQRWLSEQKS--TLHELAAVYNISAERVRQIEKNAM 342 Query: 665 RKLK 668 K++ Sbjct: 343 DKIR 346 >gi|166710450|ref|ZP_02241657.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzicola BLS256] Length = 282 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 119/243 (48%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 47 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 107 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 155 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAI-------QA------ 607 K L ++ +E + +E+ + D D +D SP+ + QA Sbjct: 156 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPVSYLVANEEDPSQAYERHDS 215 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 N + +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIEA A++ Sbjct: 216 EDNHLQLLREGMAGLDTRSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIEANALK 274 Query: 666 KLK 668 K+K Sbjct: 275 KMK 277 >gi|205373764|ref|ZP_03226566.1| sporulation sigma factor SigF [Bacillus coahuilensis m4-4] Length = 244 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 68/240 (28%), Positives = 120/240 (50%), Gaps = 19/240 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + ++ + G+ +A + +V N+RLV SV +++ NRG + DL Q G+IGL+K+ Sbjct: 18 EIKQLIKRSQDGDVDA---RDMIVNRNMRLVWSVVQRFLNRGYEPDDLFQIGSIGLLKSV 74 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD KFSTYA+ + I R I D T+++ +++ +K+ R +S + R Sbjct: 75 DKFDLSYDVKFSTYAVPMIIGEIQRFIRD-DGTVKVSRSLKETGNKIRRAKEELSKTLNR 133 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 PT E+A L + E V + ++ P S+ + D D L D I D+N D Sbjct: 134 VPTISELADFLEITPEEVVLAQEASRTPSSIHETVYENDGDPITLLDQIADQNDQKWFDK 193 Query: 604 -AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A++ +RE L RE ++ +R+ D T EV + +++ ++ ++ K Sbjct: 194 IALKEAIRE--------LDERERLIVFLRY----YKDQTQSEVADRLGISQVQVSRLRKK 241 >gi|260582846|ref|ZP_05850631.1| alternative sigma factor RpoH [Haemophilus influenzae NT127] gi|260094059|gb|EEW77962.1| alternative sigma factor RpoH [Haemophilus influenzae NT127] Length = 281 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPSLYLEDKSSNFAAELENENFESQATEQLGV 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDARSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|283796413|ref|ZP_06345566.1| RNA polymerase sigma-F factor [Clostridium sp. M62/1] gi|291075823|gb|EFE13187.1| RNA polymerase sigma-F factor [Clostridium sp. M62/1] gi|295091441|emb|CBK77548.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Clostridium cf. saccharolyticum K10] gi|295114800|emb|CBL35647.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [butyrate-producing bacterium SM4/1] Length = 245 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 115/233 (49%), Gaps = 23/233 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +VE N+ LV S+ +++ RG + DL Q G+IGL+KA +KFD +FSTYA+ Sbjct: 24 ARDRLVEENMGLVWSIVRRFAGRGCETEDLFQIGSIGLIKAIDKFDTSYDVRFSTYAVPM 83 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ KV +++ + REPT EEIA + E V Sbjct: 84 IAGEIRRFLRDDGM-IKVSRSVKEMGIKVSAAREKLAGTLGREPTLEEIAGSVGASREEV 142 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-------RETTTRV 616 L+ + SL P G +DT+ +S LD Q + R ++ Sbjct: 143 AASLEAGAQVESLYAPAGGDDTN-----------LSLLDRLSQESRENEEVLDRMVLKKL 191 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L SL +E ++ R+ G T ++ Q +++ ++ ++E + ++K++ Sbjct: 192 LGSLGEKERELIVRRYFYG----QTQTKIAGQMGISQVQVSRMEKRILKKMRE 240 >gi|3219170|dbj|BAA28785.1| sigma-32 homolog [Hydrogenophilus thermoluteolus] Length = 309 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/234 (30%), Positives = 116/234 (49%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ANLR V+ +A++Y GL DLIQEGN+GL+KA +FD G +F T+A +W Sbjct: 70 AARKLVLANLRYVVMIARQYFGYGLPEADLIQEGNVGLLKAVRRFDPYKGVRFITFAAYW 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVE 561 +K I I ++I K K+ R++ S + R + IA+ LA+ E Sbjct: 130 IKAEIHDYILRNWRLVKIATTKAQK--KLFFNLRKLLGSEPLTRAKA-DAIAETLAVKPE 186 Query: 562 GVRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLR---ETTT 614 V ++ + ++LE PI DE+ ++ D + A R E Sbjct: 187 EVAEMHARFAGGDVALEAPIDSDEEADWRAPLAYLPDPSGTPEEAVAEAEAERLSHEGLQ 246 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R ++ R+ TL E+ ++ ++ ER+RQIEA A++KL+ Sbjct: 247 QALTQLDERSRAIVTRRW--LTEKPATLHELAAEYGISAERVRQIEAAALKKLR 298 >gi|238917528|ref|YP_002931045.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] gi|238872888|gb|ACR72598.1| RNA polymerase sporulation-specific sigma factor [Eubacterium eligens ATCC 27750] Length = 249 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 121/227 (53%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V NL L+ ++ K++ RG + DL Q G IGL+KA + F+ + FSTYA+ Sbjct: 28 AREKLVTDNLGLIWNIIKRFKGRGTEQEDLFQIGCIGLIKAIDNFNLDMDVAFSTYAVPM 87 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ K ++ A ++ + + EPT E+IA + VE + Sbjct: 88 ITGEIRRFLRDDG-MVKVSRSIKENAVKSMKAAGQLRDTLGCEPTVEQIAAACELSVEDI 146 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + E S+ I GD L D +EDK + S+ + +++ +L+ Sbjct: 147 TLSMSASMEVESIYKTIYQGDGSEVMLMDKLEDKADIGETASS-----KVALVQLMETLS 201 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++RMR+ D+T +V K+F +++ ++ ++E K + ++ Sbjct: 202 QREKELIRMRY----YDDYTQMQVAKEFGISQVQVSRMEKKILSGMR 244 >gi|167507975|gb|ABZ81308.1| RpoD [Thalassospira sp. MCCC 1A02753] gi|167507991|gb|ABZ81316.1| RpoD [Thalassospira sp. MCCC 1A02878] gi|167507995|gb|ABZ81318.1| RpoD [Thalassospira sp. MCCC 1A02921] Length = 257 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 101 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGETVPAATEKRYAKLKGEMV 160 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 161 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 220 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ +S E Sbjct: 221 WMERVSELPGKGWKAFIERYPDEIAQLREQVGGVSAE 257 >gi|325928799|ref|ZP_08189966.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas perforans 91-118] gi|325540772|gb|EGD12347.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas perforans 91-118] Length = 282 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 119/243 (48%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 47 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 107 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 155 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAI-------QA------ 607 K L ++ +E + +E+ + D D +D SP+ + QA Sbjct: 156 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPVSYLVANEEDPSQAYERHDS 215 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 N + +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIEA A++ Sbjct: 216 EDNQLQLLREGMAGLDARSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIEANALK 274 Query: 666 KLK 668 K+K Sbjct: 275 KMK 277 >gi|323138995|ref|ZP_08074055.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] gi|322395749|gb|EFX98290.1| RNA polymerase, sigma 32 subunit, RpoH [Methylocystis sp. ATCC 49242] Length = 294 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 75/245 (30%), Positives = 131/245 (53%), Gaps = 30/245 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A K+ + GL DL+QEG++GL++AA +F +FSTYA WW Sbjct: 41 ALHKLTAAHMRLVIALAAKFRHYGLPIADLVQEGHVGLLEAAARFAPERDVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP-------TPEEIAKKL 556 ++ +I + +R K + RR+ ++ R+P + IAK L Sbjct: 101 IRASIQDYVLRNWSIVRGGTSSSQK--ALFFNLRRLRARLARDPDAYGSGDAYQAIAKAL 158 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG---DFIEDKNAVSPL-DSAIQANLRE 611 + V + +++ +SL + D+D+S DF+ D + PL D A+Q + + Sbjct: 159 GVSRADVEMMDSRLSGSDVSLNAQLVDDDSSGSAQRMDFLVDDH---PLPDEAVQETM-D 214 Query: 612 TTTR------VLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKA 663 + R LA L+ RE R+++ R TD+ TLE +G + +++ER+RQIE++A Sbjct: 215 SDRRARWLKDALAILSERELRIVQER----RLTDNLVTLETLGDKLGISKERVRQIESRA 270 Query: 664 IRKLK 668 + KL+ Sbjct: 271 LIKLR 275 >gi|229086642|ref|ZP_04218811.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-44] gi|228696724|gb|EEL49540.1| RNA polymerase sigma-F factor [Bacillus cereus Rock3-44] Length = 252 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 126/240 (52%), Gaps = 16/240 (6%) Query: 432 SMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 ++++K + A+ +V++N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD Sbjct: 21 ALIQKSQDGDQGARDTIVQSNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLS 80 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 KFSTYA+ + I R + D ++++ +++ +K+ + +S + R PT E Sbjct: 81 FEVKFSTYAVPMIIGEIQRFLRDDG-SVKVSRSLKETGNKIRKMKDELSKEYGRAPTINE 139 Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS-AIQAN 608 +A+ L + E V + ++ P S+ + D D + D I D+ + A++ Sbjct: 140 VAEALELTPEEVVLAQEASRTPSSIHETVYENDGDPITILDQIADQTETKWFEKIALKEA 199 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +RE L RE ++ +R+ D T EV ++ +++ ++ ++E K ++++K Sbjct: 200 IRE--------LDERERLIVYLRY----YKDQTQSEVAERIGISQVQVSRLEKKILKQMK 247 >gi|308051462|ref|YP_003915028.1| RNA polymerase, sigma 32 subunit, RpoH [Ferrimonas balearica DSM 9799] gi|307633652|gb|ADN77954.1| RNA polymerase, sigma 32 subunit, RpoH [Ferrimonas balearica DSM 9799] Length = 286 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/262 (27%), Positives = 133/262 (50%), Gaps = 10/262 (3%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 I++++ +S E +++ V +G+ +A+ K ++ A+LR V+ VA+ Y GL D Sbjct: 24 IQAVNAIPMLSAEEEQYLARQVEQGDLDAA---KHLIMAHLRFVVHVARSYAGYGLPQAD 80 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHK 531 LIQEGNIGLMKA ++FD +G + ++A+ W+K I + +++ + K+ Sbjct: 81 LIQEGNIGLMKAVKRFDPNIGVRLVSFAVHWIKAEIHEYVLKNWRIVKVATTKAQRKLFF 140 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHLG 589 +R A++ E +A +L + V ++ ++ + + P D+D Sbjct: 141 NLRKAKKRLGWFSAEEV-STVADELGVSESEVMEMEARMAAVDAAFDIAPERDDDEGAFA 199 Query: 590 D--FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVG 646 F+EDK + + R++ R+ A+L +ER + ++ TL+E+ Sbjct: 200 PALFLEDKQSDHAEALEQEDWDRQSQQRLHAALNTLDERSRDILMARWLDEPKATLQELA 259 Query: 647 KQFCVTRERIRQIEAKAIRKLK 668 ++ V+ ERIRQ+E AI+KLK Sbjct: 260 DRYQVSAERIRQLEKNAIKKLK 281 >gi|297200169|ref|ZP_06917566.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] gi|197713380|gb|EDY57414.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] Length = 304 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 62/240 (25%), Positives = 119/240 (49%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTYEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ K+ R PT E+A Sbjct: 129 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQKLDRAPTVAELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 +L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 DRLGLSKEEVVEGMAASNAYTAASLDAQ-PEEDDSEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF GM T E+G++ +++ + ++ ++ + +L+ Sbjct: 242 YVESLKPLIAELPSRDRQILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVRLR 297 >gi|260554461|ref|ZP_05826682.1| alternative sigma factor RpoH [Acinetobacter baumannii ATCC 19606] gi|260411003|gb|EEX04300.1| alternative sigma factor RpoH [Acinetobacter baumannii ATCC 19606] Length = 288 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VMEMEGRLTAYDAAFEAQGDDDDDTPHTAPVLYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 ----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 DAMNQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|123440620|ref|YP_001004614.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332159850|ref|YP_004296427.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122087581|emb|CAL10362.1| RNA polymerase sigma-32 factor [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318607604|emb|CBY29102.1| RNA polymerase sigma factor RpoH [Yersinia enterocolitica subsp. palearctica Y11] gi|325664080|gb|ADZ40724.1| RNA polymerase factor sigma-32 [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330862604|emb|CBX72757.1| RNA polymerase sigma-32 factor [Yersinia enterocolitica W22703] Length = 285 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 127/243 (52%), Gaps = 16/243 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ---- 606 K+L + + VR++ +++ + ++ + DE D + + ++ S I+ Sbjct: 159 KELGVTSKDVREMESRMSAQDMTFDPTPDDEVRDGQSMAPVLYLQDKTSDFADGIEEDNW 218 Query: 607 -ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + + T L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++ Sbjct: 219 DNHAADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMK 277 Query: 666 KLK 668 KL+ Sbjct: 278 KLR 280 >gi|110635708|ref|YP_675916.1| RNA polymerase factor sigma-32 [Mesorhizobium sp. BNC1] gi|110286692|gb|ABG64751.1| RNA polymerase, sigma 32 subunit, RpoH [Chelativorans sp. BNC1] Length = 284 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 76/249 (30%), Positives = 123/249 (49%), Gaps = 29/249 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A M+ A++RLVI++A K+ N GL DLIQEG++GL++AA +FD +FSTYA WW Sbjct: 39 ALHRMIMAHMRLVIAMAGKFRNFGLSMSDLIQEGHVGLLEAAARFDPEREVRFSTYATWW 98 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE--PTP-----EEIAKKL 556 ++ ++ I +R K + RR+ K+++ TP E+A+ L Sbjct: 99 IRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRMKLQKAGGTTPSEDVYREVAQAL 156 Query: 557 AMPVEGVRKV-LKITKEPISLETPI-GDED-TSHLGDFI------EDKNAVSPLDSAIQA 607 + V + ++ SL P+ D D TS DF+ D+ +D +A Sbjct: 157 RVSESDVAMMDSRLAAADASLNAPLRSDSDPTSERIDFLICDKPQPDELVREAIDGERKA 216 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + L +L RE ++R R TLE +G +++ER+RQIE++A+ KL Sbjct: 217 ---QWLHQALGTLNGRELTIVRERR--LSEEGATLEALGASLGISKERVRQIESRALEKL 271 Query: 668 K------HP 670 + HP Sbjct: 272 RTALVKHHP 280 >gi|312623242|ref|YP_004024855.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312203709|gb|ADQ47036.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 256 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/190 (28%), Positives = 97/190 (51%), Gaps = 7/190 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V L + +AKK+ RG+ + DL Q I L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNRYLYIAEIIAKKFVGRGIDYEDLYQVACIALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+KR P EEIA+ L M E V Sbjct: 91 MGEIKRYFRDRASIIRLPRRIYETSAKIKLATEVLSTKLKRPPKVEEIAQHLNMSTEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 +V++ + P SL+ + +++ LGD + + ++ +Q E + + L+P Sbjct: 151 EVMEASNNYLPQSLDQTMYEDEEMTLGDVLGKSD-----ENILQVENVEAVKKAIERLSP 205 Query: 623 REERVLRMRF 632 E ++ RF Sbjct: 206 FEREFVQKRF 215 >gi|260550924|ref|ZP_05825130.1| alternative sigma factor RpoH [Acinetobacter sp. RUH2624] gi|260406051|gb|EEW99537.1| alternative sigma factor RpoH [Acinetobacter sp. RUH2624] Length = 288 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 ----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 DAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|160939297|ref|ZP_02086648.1| hypothetical protein CLOBOL_04191 [Clostridium bolteae ATCC BAA-613] gi|158438260|gb|EDP16020.1| hypothetical protein CLOBOL_04191 [Clostridium bolteae ATCC BAA-613] Length = 240 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 57/176 (32%), Positives = 95/176 (53%), Gaps = 6/176 (3%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 ++ E +++M +G+ A+ ++V N+ L+ S+ ++++ RG + DL Q G+IGL+ Sbjct: 3 AMDETMKLINMAHEGD---KAARDQLVMDNVGLIWSIVRRFSGRGYEMEDLFQIGSIGLI 59 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KFD KFSTYA+ + I R + D I++ +++ KV M+ Sbjct: 60 KAIDKFDTGFDVKFSTYAVPMITGEIKRFLRDDGM-IKVSRSIKELGVKVRAAREEMTYA 118 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 + REPT EEIA +L E V L+ E SL P GDE++++L D + N Sbjct: 119 LGREPTIEEIAGRLGTSREEVAASLEAAAEVESLYRPADSGDENSTYLMDRLAQDN 174 >gi|188574757|ref|YP_001911686.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae PXO99A] gi|188519209|gb|ACD57154.1| alternative sigma factor RpoH [Xanthomonas oryzae pv. oryzae PXO99A] Length = 282 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 119/243 (48%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 47 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 107 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 155 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAI-------QA------ 607 K L ++ +E + +E+ + D D +D SP+ + QA Sbjct: 156 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPVSYLVANEEDPSQAYERHDS 215 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 N + +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIEA A++ Sbjct: 216 EDNQLQLLREGMAGLDTRSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIEANALK 274 Query: 666 KLK 668 K+K Sbjct: 275 KMK 277 >gi|32490821|ref|NP_871075.1| RNA polymerase factor sigma-32 [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|25166027|dbj|BAC24218.1| rpoH [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 281 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 74/301 (24%), Positives = 148/301 (49%), Gaps = 48/301 (15%) Query: 397 NFVAC----EVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEAN 452 N + C ++S +K N +S+E ++E H G+ +A K+++ ++ Sbjct: 5 NILTCVNQSSLESYIKKANSYSMLSIEEEKILTERLHY-----NGDL---LAAKKLILSH 56 Query: 453 LRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSI 512 LR V+ +++ Y+ GLQ DLIQEGN+GLMKA ++F+ +G + ++A+ W+K I + Sbjct: 57 LRFVVHISRNYSGYGLQRADLIQEGNVGLMKAVKRFNPAIGVRLVSFAVHWIKAEIHEYV 116 Query: 513 ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKI 569 +++ + K+ R+ K+ + + +AK L + + VR++ ++ Sbjct: 117 LRNWRIVKVATTKAQR--KLFFNLRKAKKKLGWFNQYEVDMLAKSLGVTSKDVREMESRM 174 Query: 570 TKEPISLETPIGDED-------------TSHLGDFIEDKN----AVSPLDSAIQANLRET 612 + + ++ + +ED TS D IE+ N A L +A Sbjct: 175 SAKDMAFDFN-SEEDKHKNNAILYLKDKTSDFADTIEEDNWDIHATDKLSAA-------- 225 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L++L R + ++R R+ + + TL+E+ K++ ++ ERIRQ+E A++K++ Sbjct: 226 ----LSNLDLRSQEIIRSRW-LRYDNKSTLKELAKKYGISAERIRQLEKNAMKKIRFAVE 280 Query: 673 S 673 S Sbjct: 281 S 281 >gi|297588048|ref|ZP_06946692.1| RNA polymerase general stress sigma factor(sigma B) [Finegoldia magna ATCC 53516] gi|297574737|gb|EFH93457.1| RNA polymerase general stress sigma factor(sigma B) [Finegoldia magna ATCC 53516] Length = 258 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 118/228 (51%), Gaps = 18/228 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE NL + +AKKYT RG+++ DL Q IGL+ A +++D GY+FS+YA + Sbjct: 33 LVEKNLYIAEILAKKYTGRGIEYDDLYQVACIGLIYAIDRYDPSKGYEFSSYATPTIVGE 92 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ IR+P +++ KV ++ +++ PT E+IA L++ E V +VL Sbjct: 93 IKKYFRDKGWVIRVPRRIQELNKKVANAKIHLAQTMQKSPTVEDIADYLSISNEEVLEVL 152 Query: 568 KITK--EPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLASL 620 + K P SL+ I D+ ++L D I EDK+ ++ R+ R + L Sbjct: 153 EGAKVYAPQSLDQSIDQSSDDRDTNLSDLIGEEDKD-------MLKFENRDLINRCMEDL 205 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+++L R+ T + ++ +++ + ++E K ++K K Sbjct: 206 NEVEKKILLGRYF----DKKTQIVIAEELDISQMTVSRMEKKILKKFK 249 >gi|167507913|gb|ABZ81277.1| RpoD [Thalassospira sp. MCCC 1A01051] gi|167507917|gb|ABZ81279.1| RpoD [Thalassospira sp. MCCC 1A01072] gi|167507945|gb|ABZ81293.1| RpoD [Thalassospira sp. MCCC 1A01448] gi|167507967|gb|ABZ81304.1| RpoD [Thalassospira sp. MCCC 1A02094] Length = 260 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 104 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGESVPAATEKRYAKLKGEMV 163 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 164 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 223 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ +S E Sbjct: 224 WMERVSELPGKGWKAFIERYPDEIAQLREQVGGVSAE 260 >gi|167507911|gb|ABZ81276.1| RpoD [Thalassospira sp. MCCC 1A01041] gi|167507923|gb|ABZ81282.1| RpoD [Thalassospira sp. MCCC 1A01140] gi|167507999|gb|ABZ81320.1| RpoD [Thalassospira sp. MCCC 1A03005] gi|167508001|gb|ABZ81321.1| RpoD [Thalassospira sp. MCCC 1A03052] gi|167508003|gb|ABZ81322.1| RpoD [Thalassospira sp. MCCC 1A03093] Length = 260 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 104 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGESVPAATEKRYAKLKGEMV 163 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 164 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 223 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ +S E Sbjct: 224 WMERVSELPGKGWKAFIERYPDEIAQLREQVGGVSAE 260 >gi|167507897|gb|ABZ81269.1| RpoD [Thalassospira xiamenensis] Length = 255 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 99 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGESVPAATEKRYAKLKGEMV 158 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 159 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 218 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ +S E Sbjct: 219 WMERVSELPGKGWKAFIERYPDEIAQLREQVGGVSAE 255 >gi|134100730|ref|YP_001106391.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|291006467|ref|ZP_06564440.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133913353|emb|CAM03466.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 268 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 63/213 (29%), Positives = 107/213 (50%), Gaps = 10/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L + +A+++ +RG DL+Q +GL+KA ++FD G F +YA+ + Sbjct: 36 RDRLVTEHLPVAEHIARRFRHRGETHDDLVQVATLGLIKAVDRFDPGRGVGFMSYAVPTI 95 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D ++R+P M++ V +S ++ R PTP E+A L + V+ V+ Sbjct: 96 MGEVRRHFRDAGWSVRMPRRMQELHLSVSAGISALSQELGRAPTPSELAAHLKLSVDDVQ 155 Query: 565 KVLKI--TKEPISLETPIGDEDTSHLGDFIE-DKNAVSPLDSAIQANLRETTTRVLASLT 621 + L+ SL+ + D LG+ I D + ++ ++ RET +LA L Sbjct: 156 QGLEAGNAYRSASLDDLLTGTDDVPLGEAIGFDDSELAEVED------RETIRPLLAELP 209 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE R+L MRF GM E+VG Q V+R Sbjct: 210 ERERRILVMRFFRGMTQTEIAEQVGVSQMHVSR 242 >gi|293609550|ref|ZP_06691852.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292828002|gb|EFF86365.1| conserved hypothetical protein [Acinetobacter sp. SH024] Length = 288 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 ----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 DAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|21244548|ref|NP_644130.1| RNA polymerase factor sigma-32 [Xanthomonas axonopodis pv. citri str. 306] gi|21110222|gb|AAM38666.1| RNA polymerase sigma-32 factor [Xanthomonas axonopodis pv. citri str. 306] Length = 291 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 121/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 223 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIE Sbjct: 224 SEDNQLQLLREG----MAGLDARSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIE 278 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 279 ANALKKMK 286 >gi|121999080|ref|YP_001003867.1| RNA polymerase sigma-32 subunit RpoH [Halorhodospira halophila SL1] gi|121590485|gb|ABM63065.1| RNA polymerase, sigma 32 subunit, RpoH [Halorhodospira halophila SL1] Length = 287 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 67/247 (27%), Positives = 127/247 (51%), Gaps = 16/247 (6%) Query: 433 MVRKGECEASI-AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWC 491 + R+ + E + A +++V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD Sbjct: 41 LARRCQYEGDLDAARQLVLSHLRFVVHVARGYRGYGLALGDLIQEGNIGLMKAVKRFDPD 100 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPE 550 +G + ++A+ W++ I I +++ + K+ +R A++ + RE Sbjct: 101 VGVRLVSFAVHWIRAEIHEFILRNWRIVKVATTKAQRKLFFNLRGAKKRLGWMTREEV-N 159 Query: 551 EIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG---DFIEDKN-----AVSPL 601 +A+ L + E V ++ +++ + + + + +ED ++ED+ V Sbjct: 160 AVAEDLGVQPETVLEMESRLSGQDLGFDPLVSEEDEEQARAPVAYLEDRRFDPAEVVESS 219 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D + ++ + L L R + +LR R+ TL+E+ +++ V+ ERIRQ+E Sbjct: 220 DWGTHQD--DSLHQALGQLDERSQNILRARW--LEEERQTLQELAERYGVSAERIRQLEK 275 Query: 662 KAIRKLK 668 AI KL+ Sbjct: 276 NAISKLR 282 >gi|148265963|ref|YP_001232669.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter uraniireducens Rf4] gi|146399463|gb|ABQ28096.1| RNA polymerase, sigma 32 subunit, RpoH [Geobacter uraniireducens Rf4] Length = 280 Score = 85.9 bits (211), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 110/246 (44%), Gaps = 39/246 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ +NLR V+ +A +Y + G++ LDLIQEGNIGLM A KF+ G++ +YA+WW Sbjct: 41 AAHRLITSNLRFVVKIAGEYRSYGMKMLDLIQEGNIGLMMAVRKFNPYKGFRLISYAVWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I I ++I + R++ K+ + AK + G Sbjct: 101 IRAYIQNHIVSTWSLLKI---------GTTQAQRKLFFKLNQ-------AKSAIRSMTGG 144 Query: 564 RKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSP-----LDSAI------------ 605 L+ + + E+ + D GD+ D V+ L+S Sbjct: 145 GDDLQAAALSLDVKESEAQEMDQRMRGDYFLDAEVVTGEGLTMLESLPDERRNQEELLGE 204 Query: 606 ---QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A L L L +E V+ R + + TL+E+ F ++RER+RQIE Sbjct: 205 AEESAILEREVAAALTCLNEKERYVIEQR--VSSDEPLTLQEIADHFSISRERVRQIEEG 262 Query: 663 AIRKLK 668 A++K+K Sbjct: 263 ALKKMK 268 >gi|238755238|ref|ZP_04616583.1| RNA polymerase sigma-32 factor [Yersinia ruckeri ATCC 29473] gi|238706579|gb|EEP98951.1| RNA polymerase sigma-32 factor [Yersinia ruckeri ATCC 29473] Length = 285 Score = 85.5 bits (210), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 125/244 (51%), Gaps = 31/244 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQEE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDED----------------TSHLGDFIEDKNAVSPLDSA 604 VR++ +++ + ++ + P D+D TS D IE+ N Sbjct: 167 DVREMESRMSAQDMTFD-PTPDDDVRDGQSMAPVLYLQDKTSDFADGIEEDN-------- 217 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +++ + + L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A+ Sbjct: 218 WESHAADKLSYALEGLDERSQHIIRARW-LDDDNKTTLQELADQYGVSAERVRQLEKNAM 276 Query: 665 RKLK 668 +KL+ Sbjct: 277 KKLR 280 >gi|239832848|ref|ZP_04681177.1| RNA polymerase sigma factor, sigma-70 family [Ochrobactrum intermedium LMG 3301] gi|239825115|gb|EEQ96683.1| RNA polymerase sigma factor, sigma-70 family [Ochrobactrum intermedium LMG 3301] Length = 278 Score = 85.5 bits (210), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 126/249 (50%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 21 IRWRELKDQEALHRITSAHMRLVISMAGRFRKFKLPMNDLIQEGYVGLLEAAARFDPERE 80 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 81 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQSDDTMSKA 138 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL P+ E++ S DF+ D + + Sbjct: 139 EIYREISDQLGVSTSDVEIMDSRLSGPDSSLSAPVNSEESGASRRMDFLVDDHPLQDEIA 198 Query: 602 DSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R V L +L RE ++R R ++ D TLE +G++ +++ER+RQI Sbjct: 199 ESSIDMERRNQWLNVALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERVRQI 255 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 256 ESRAMEKLK 264 >gi|325122820|gb|ADY82343.1| RNA polymerase factor sigma-32 [Acinetobacter calcoaceticus PHEA-2] Length = 276 Score = 85.5 bits (210), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 41 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 100 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 101 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 159 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 160 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLVENEDWEEQSTSALH 218 Query: 619 ----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 219 DAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 270 >gi|255066480|ref|ZP_05318335.1| RNA polymerase sigma factor RpoD [Neisseria sicca ATCC 29256] gi|255049360|gb|EET44824.1| RNA polymerase sigma factor RpoD [Neisseria sicca ATCC 29256] Length = 649 Score = 85.5 bits (210), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/184 (29%), Positives = 99/184 (53%), Gaps = 4/184 (2%) Query: 12 DSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS 71 D + +D + L + +++I + ++RGY+T E+N LP D ++Q+++ V+M+S Sbjct: 9 DYQEQDDNRPLTLEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMIS 68 Query: 72 NMGINVVD-GDDLEDEEGSEDSLDLASSASNSSVFLQKRK-DSADRSTDDPVRMYLREMG 129 +GI V + D ED S+++ + + + DS T DPVRMY+REMG Sbjct: 69 GLGIQVTEQAPDAEDILLSDNAAAVTDDDAVAEAEAALSSADSEFGRTTDPVRMYMREMG 128 Query: 130 SIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEA 189 ++LL+RE EI IAK+IE M+ ++ P + ++ +++ + E++ EA Sbjct: 129 QVDLLTREDEIIIAKKIENALKNMVQAISACPGSIAEILELIEQIRKDEIRVDEVV--EA 186 Query: 190 CIGP 193 I P Sbjct: 187 IIDP 190 >gi|312963434|ref|ZP_07777916.1| sigma-70 [Pseudomonas fluorescens WH6] gi|311282240|gb|EFQ60839.1| sigma-70 [Pseudomonas fluorescens WH6] Length = 616 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 82/137 (59%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|119384948|ref|YP_916004.1| RNA polymerase factor sigma-32 [Paracoccus denitrificans PD1222] gi|119374715|gb|ABL70308.1| RNA polymerase, sigma 32 subunit, RpoH [Paracoccus denitrificans PD1222] Length = 301 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 120/243 (49%), Gaps = 24/243 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAQRLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------REPTPEEIAKKL 556 ++ +I I +++ K K+ R+ +K+ R +IA L Sbjct: 109 IRASIQEYILRSWSLVKMGTTSAQK--KLFFNLRKAKSKLGALEEGDLRPENVTQIAHDL 166 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGD---EDTSHLGDFIEDKNAVSPLDSAIQANL--- 609 + + V + +++ SL +G E T+ D++ED++A A L Sbjct: 167 NVTEQEVIDMNRRLSSGDASLNATVGSGDGESTAQWQDWLEDEDANQAEAFAEADELSAR 226 Query: 610 RETTTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 RE + L RE+ +L R+R + TLE++ ++ V+RERIRQIE +A K Sbjct: 227 REMLIAAMDVLNDREKDILMERRLR-----DDPMTLEDLSTRYGVSRERIRQIEVRAFEK 281 Query: 667 LKH 669 L++ Sbjct: 282 LQN 284 >gi|261866928|ref|YP_003254850.1| RNA polymerase factor sigma-32 [Aggregatibacter actinomycetemcomitans D11S-1] gi|261412260|gb|ACX81631.1| alternative sigma factor RpoH [Aggregatibacter actinomycetemcomitans D11S-1] Length = 282 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/274 (25%), Positives = 143/274 (52%), Gaps = 20/274 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ NE ++ E ++E + K + EA+ K++V ++LR VI VA+ Sbjct: 16 IEAYIRAANEYPMLTAEEEKELAE-----RLYYKEDIEAA---KKLVLSHLRFVIHVARG 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ E + +A +L + + V ++ ++T ++ + P Sbjct: 128 TTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSPQDVMEMESRMTGADVAFDLP 185 Query: 580 I--GDEDTSHLGDFIEDK--NAVSPLDSA-IQANLRETTTRVLASLTPREERVLRMRFGI 634 DE+T ++EDK N + L++ +A + L +L R + +++ R+ Sbjct: 186 GDEHDEETYAPALYLEDKSSNFAAELENENYEAQATDQLAVALDNLDARSQDIIKARWLD 245 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T TL+++ ++ ++ ER+RQ+E A++KLK Sbjct: 246 --ETKATLQDLAAKYNISAERVRQLETNALKKLK 277 >gi|84688065|ref|ZP_01015924.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84663915|gb|EAQ10420.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 298 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/244 (28%), Positives = 120/244 (49%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHQLVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTAR-RMSNKIKREPTPEEIAKKLAMPVE 561 ++ +I I +++ + K+ +R A+ R+ + PE +A+ Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQKKLFFNLRKAKARIGALEDGDLRPENVAQ------- 161 Query: 562 GVRKVLKITKEPI------------SLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQA 607 + L +T+E + SL I + + T D++ED++A D + Sbjct: 162 -IAHDLNVTEEEVISMNRRMSGGDASLNATITNDGDSTMQWQDWLEDEDADQAGDYEQRD 220 Query: 608 NL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 L RE + + L RE+ +L R + TLE++ Q+ V+RERIRQIE +A Sbjct: 221 ELTVRREMLAQAMDVLNDREKDILTQRR--LSDETVTLEDLSGQYDVSRERIRQIEVRAF 278 Query: 665 RKLK 668 KL+ Sbjct: 279 EKLQ 282 >gi|324998294|ref|ZP_08119406.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily protein [Pseudonocardia sp. P1] Length = 258 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 60/213 (28%), Positives = 107/213 (50%), Gaps = 9/213 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V L + +A+++ +RG DL+Q +GL+ A ++FD G +F ++A+ + Sbjct: 31 RDRLVTGYLPVAQHIARRFNHRGEPLDDLVQVATVGLINAIDRFDPDKGGEFFSFAVPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R DQS ++R+P ++D + +S + R P P EIA+ L +PV V Sbjct: 91 SGEVRRHFRDQSWSMRVPRRLKDMHVSINGAVSELSQTLGRSPRPSEIAEHLGLPVPEVL 150 Query: 565 KVLKITK--EPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L+ + SL+ + ED + +G+ + D +A LD + + RE+ +LA L Sbjct: 151 EGLEAAEAYRSSSLDEMLSSEDGGATVGELVGDADA--ELD---RVDYRESLRPLLAELA 205 Query: 622 PREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 PRE ++ +RF EVG Q V+R Sbjct: 206 PRERTIVMLRFFGNRTQTQIANEVGISQMHVSR 238 >gi|167507977|gb|ABZ81309.1| RpoD [Thalassospira sp. MCCC 1A02758] gi|167507979|gb|ABZ81310.1| RpoD [Thalassospira sp. MCCC 1A02767] gi|167507981|gb|ABZ81311.1| RpoD [Thalassospira sp. MCCC 1A02785] gi|167507985|gb|ABZ81313.1| RpoD [Thalassospira sp. MCCC 1A02843] gi|167507987|gb|ABZ81314.1| RpoD [Thalassospira sp. MCCC 1A02866] gi|167507989|gb|ABZ81315.1| RpoD [Thalassospira sp. MCCC 1A02873] gi|167507997|gb|ABZ81319.1| RpoD [Thalassospira sp. MCCC 1A02935] Length = 257 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 101 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGETVPAATEKRYAKLKGEMV 160 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 161 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 220 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK FV D I ++R ++ +S E Sbjct: 221 WMERVGELPGKGWKAFVERYPDEIAQLREQVGGVSAE 257 >gi|114561466|ref|YP_748979.1| RNA polymerase factor sigma-32 [Shewanella frigidimarina NCIMB 400] gi|114332759|gb|ABI70141.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella frigidimarina NCIMB 400] Length = 285 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 122/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + ++ +R+ E T +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKSKKRLGWFSDAEVTM--VAENLGVSKA 169 Query: 562 GVRKV--LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLR-ETTTRV 616 V ++ ++P T D+D ++ED ++ D AN ++ TR+ Sbjct: 170 DVTEMESRMAAQDPAFDLTNDSDDDHHDFAPALYLEDHSS-DVADQVEHANWEADSQTRL 228 Query: 617 LASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ +ER +LR R+ +T TL+E+ + V+ ERIRQ+E A+ KLK Sbjct: 229 LSAIKTLDERSQHILRARWLD--DTKVTLQELASTYEVSAERIRQLEKNAMNKLK 281 >gi|167507937|gb|ABZ81289.1| RpoD [Thalassospira sp. MCCC 1A01300] gi|167507941|gb|ABZ81291.1| RpoD [Thalassospira sp. MCCC 1A01330] Length = 255 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 99 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGETVPAATEKRYAKLKGEMV 158 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 159 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 218 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ +S E Sbjct: 219 WMERVGELPGKGWKAFIERYPDEIAQLREQVGGVSAE 255 >gi|255020686|ref|ZP_05292748.1| RNA polymerase sigma factor RpoH [Acidithiobacillus caldus ATCC 51756] gi|254969922|gb|EET27422.1| RNA polymerase sigma factor RpoH [Acidithiobacillus caldus ATCC 51756] Length = 285 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 128/236 (54%), Gaps = 20/236 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 50 AAKQLVLSHLRFVVRVARAYRGYGLPEADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+AR+ S + +E + IA+ L + E Sbjct: 110 IKAEMHEFILRNWRIVKVATTKAQRKLFFNLRSARQSSGWLGQEESA-AIAEDLGVSQEA 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-------RETTT 614 V ++ ++ + SL+ DE+ +ED P +S+++A + R+ Sbjct: 169 VLEMEGRMAGQDYSLQYESDDEEGHGRTLELED-----PGESSVEALIDRDWDQQRQRGL 223 Query: 615 R-VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L SL+ R+ +++ R+ ++ D TL+ +G++ V+ ER+RQ+E + KL+ Sbjct: 224 RAALQSLSERDRYIIQNRW---LSDDPKTLQALGEELGVSAERVRQLEKSGMEKLR 276 >gi|330938479|gb|EGH42082.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. pisi str. 1704B] Length = 183 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 82/137 (59%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|169632997|ref|YP_001706733.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii SDF] gi|169795347|ref|YP_001713140.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AYE] gi|184158784|ref|YP_001847123.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii ACICU] gi|213158666|ref|YP_002319964.1| alternative sigma factor RpoH (EsvH) [Acinetobacter baumannii AB0057] gi|215482881|ref|YP_002325084.1| alternative sigma factor RpoH [Acinetobacter baumannii AB307-0294] gi|239502880|ref|ZP_04662190.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB900] gi|301346949|ref|ZP_07227690.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB056] gi|301513493|ref|ZP_07238730.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB058] gi|301596794|ref|ZP_07241802.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii AB059] gi|332850459|ref|ZP_08432779.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013150] gi|332871911|ref|ZP_08440323.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013113] gi|169148274|emb|CAM86139.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter baumannii AYE] gi|169151789|emb|CAP00610.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter baumannii] gi|183210378|gb|ACC57776.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Acinetobacter baumannii ACICU] gi|193077812|gb|ABO12685.2| EsvH [Acinetobacter baumannii ATCC 17978] gi|213057826|gb|ACJ42728.1| alternative sigma factor RpoH (EsvH) [Acinetobacter baumannii AB0057] gi|213986534|gb|ACJ56833.1| alternative sigma factor RpoH [Acinetobacter baumannii AB307-0294] gi|322507403|gb|ADX02857.1| rpoH [Acinetobacter baumannii 1656-2] gi|323518699|gb|ADX93080.1| RNA polymerase factor sigma-32 [Acinetobacter baumannii TCDC-AB0715] gi|332730730|gb|EGJ62041.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013150] gi|332731125|gb|EGJ62426.1| alternative sigma factor RpoH [Acinetobacter baumannii 6013113] Length = 288 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 171 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPVLYLED-NRYDPARLVENEDWEEQSTSALH 230 Query: 619 ----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 DAMNQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 282 >gi|167040197|ref|YP_001663182.1| FliA/WhiG family RNA polymerase sigma factor [Thermoanaerobacter sp. X514] gi|300914281|ref|ZP_07131597.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter sp. X561] gi|307265137|ref|ZP_07546696.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter wiegelii Rt8.B1] gi|307724483|ref|YP_003904234.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter sp. X513] gi|326391064|ref|ZP_08212611.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus JW 200] gi|166854437|gb|ABY92846.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter sp. X514] gi|300889216|gb|EFK84362.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter sp. X561] gi|306919759|gb|EFN49974.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter wiegelii Rt8.B1] gi|307581544|gb|ADN54943.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter sp. X513] gi|325992849|gb|EGD51294.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus JW 200] Length = 246 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 111/222 (50%), Gaps = 12/222 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ N L+ S+ KK++NRG + DL Q G IG +KA +KFD K STYA+ + Sbjct: 30 LILENSGLIWSIVKKFSNRGYELEDLYQIGCIGFVKAIQKFDESYNVKLSTYAVPIIMGE 89 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R + D I++ +++ K +SN++ REPT EIA++L + E + Sbjct: 90 IKRFLRDDGL-IKVSRSLKELSTKAFYVKEILSNELNREPTINEIAERLNVSPEEIAMAF 148 Query: 568 KITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + SL + DED L + + ++ +D + + V+ L PRE++ Sbjct: 149 ESAATAESLYDNATHDEDDRLLIEMVSEEEKEVDIDDKLALQM------VINKLKPREKQ 202 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +R+ D T EV +++ ++ +IE K ++KL+ Sbjct: 203 IIFLRYF----KDMTQMEVASVLGISQVQVSRIEKKVLQKLR 240 >gi|88607306|ref|YP_505338.1| RNA polymerase sigma-32 factor [Anaplasma phagocytophilum HZ] gi|88598369|gb|ABD43839.1| RNA polymerase sigma-32 factor [Anaplasma phagocytophilum HZ] Length = 289 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 119/235 (50%), Gaps = 20/235 (8%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+ VA + + GL ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K Sbjct: 50 KLVTSHLRLVVKVAMGFRSYGLPLMELIMEGNIGLMQAVKKFNPELGFRLSTYAIWWIKA 109 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI------KREPTPEEIAKKLAMPV 560 +I I +RI K K+ + R++ +I + IA++ Sbjct: 110 SIKDYILRSWSCMRIGTTQAQK--KLFFSLRKIKRRILGCSASASQSDIRAIAEECGTSE 167 Query: 561 EGVRKVLK-ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR---- 615 + V + + + ISL + E + L D I SP + + E+ + Sbjct: 168 KEVESMDRFFSNRDISLSDKVCCESGTELQDLIP---CSSPNQEVMYLSHEESVMKDQMV 224 Query: 616 --VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++L R + R + + D TLE + +++ V++ERIRQIE ++ K++ Sbjct: 225 KEALSTLDERHRDIFSRR-KLKEHPD-TLETLSEEYGVSKERIRQIELQSFSKVR 277 >gi|78049505|ref|YP_365680.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|294626531|ref|ZP_06705130.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|294665098|ref|ZP_06730402.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|78037935|emb|CAJ25680.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|292599221|gb|EFF43359.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292605140|gb|EFF48487.1| RNA polymerase sigma factor [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] Length = 294 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 121/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 59 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 118 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 119 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 167 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 168 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 226 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIE Sbjct: 227 SEDNQLQLLREG----MAGLDARSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIE 281 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 282 ANALKKMK 289 >gi|297180174|gb|ADI16396.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [uncultured bacterium HF130_12L15] Length = 288 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 116/243 (47%), Gaps = 41/243 (16%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 A++RLVIS+A K+ GL DL+QEG++GL++AA +F+ +FSTYA WW++ ++ Sbjct: 47 AHMRLVISMAGKFRYFGLPMSDLVQEGHVGLLEAAARFEPERDVRFSTYATWWIRASMQD 106 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKLAMPVEGV 563 I +R K + RR+ ++ + P +EIA + + V V Sbjct: 107 HILRNWSIVRGGTSSAQK--ALFFNLRRLRARLAQGTEPLKGAAVYQEIADAIGVSVADV 164 Query: 564 RKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + +++ SL P+ D E TS DF+ ++ D + A++ + Sbjct: 165 ALMDSRLSGPDSSLNAPVADGGESTSERMDFLVSEDPTP--DEVVSASIDD--------- 213 Query: 621 TPREERVLRMRFGIGMNTDH---------------TLEEVGKQFCVTRERIRQIEAKAIR 665 E R + + +G+ D TLE +G + +++ER+RQIE +A+ Sbjct: 214 ---ERRTMWLNRALGVLNDRELRIIRERRLRDEGATLESLGAKLGISKERVRQIENRALE 270 Query: 666 KLK 668 KL+ Sbjct: 271 KLR 273 >gi|293393954|ref|ZP_06638260.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Serratia odorifera DSM 4582] gi|291423514|gb|EFE96737.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Serratia odorifera DSM 4582] Length = 285 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 64/243 (26%), Positives = 126/243 (51%), Gaps = 16/243 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KQLILSHLRFVAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAI----- 605 ++L + + VR++ ++ + ++ + DE D + + ++ S I Sbjct: 159 RELGVTSKDVREMESRMAAQDMTFDPTPDDEARDGQSMAPVLYLQDKTSDFAEGIEEDNW 218 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++N + L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++ Sbjct: 219 ESNAADKLAYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMK 277 Query: 666 KLK 668 KLK Sbjct: 278 KLK 280 >gi|296135250|ref|YP_003642492.1| RNA polymerase, sigma 32 subunit, RpoH [Thiomonas intermedia K12] gi|294339349|emb|CAZ87705.1| RNA polymerase sigma-32 factor (Heat shock regulatory protein F33.4) [Thiomonas sp. 3As] gi|295795372|gb|ADG30162.1| RNA polymerase, sigma 32 subunit, RpoH [Thiomonas intermedia K12] Length = 302 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 72/238 (30%), Positives = 123/238 (51%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV+S A++Y GL DLIQEGNIGLMKA ++FD G + +YA+ W Sbjct: 63 AAGKLVLSHLRLVVSTARQYLGYGLPHADLIQEGNIGLMKAVKRFDPAHGVRLVSYALHW 122 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM--SNKIKREPTPEEIAKKLAMPVE 561 +K I I +++ + K+ R M +N E +++A+ L + E Sbjct: 123 IKAEIHEYILRNWRLVKVATTKSQR--KLFFNLRSMKTANAGMNEAQIDDMAQALNVKRE 180 Query: 562 GVRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLR-ETTT 614 V ++ ++ I+L+ + D + S+L D ++ AV L++ L+ E Sbjct: 181 DVIEMESRMGGADIALDPTVEDGEESYAPISYLADNTQEPMAV--LEARSHDRLQVEGLE 238 Query: 615 RVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R ++ R+ + +N D TL E+ ++ V+ ERIRQIE A++K++ Sbjct: 239 NALELLDARSRAIVEQRW-LQVNDDGSGGKTLHELAAEYGVSAERIRQIEVAAMKKMR 295 >gi|154252606|ref|YP_001413430.1| RNA polymerase sigma-32 subunit RpoH [Parvibaculum lavamentivorans DS-1] gi|154156556|gb|ABS63773.1| RNA polymerase, sigma 32 subunit, RpoH [Parvibaculum lavamentivorans DS-1] Length = 340 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/246 (28%), Positives = 128/246 (52%), Gaps = 22/246 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E + A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ + Sbjct: 81 EHEDTEAAHQLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLA 140 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE-- 551 TYAMWW++ +I I +++ K K+ R++ +I+ + PE+ Sbjct: 141 TYAMWWIRASIQEYILRSWSLVKMGTTAAQK--KLFFNLRKVKGQIQAIEEGDLHPEQVK 198 Query: 552 -IAKKLAMPVEGVRKVLKITKEP-ISLETPI-GDEDTSHLGDFIEDKNA--VSPLDSAIQ 606 I+ +L + + V + + P SL P+ D + D++ D A + L A + Sbjct: 199 VISDRLGVTEDEVISMNRRLSGPDNSLNAPLRQDSEGGEWQDWLVDDTADQEATLGEAEE 258 Query: 607 ANL-RETTTRVLASLTPREERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + RE +A+L RE +L R++ + TLE++ +++ ++RER+RQIE + Sbjct: 259 LDQRREMLAAAMATLNEREMHILTERRLK-----DEPATLEDLSQEYGISRERVRQIEVR 313 Query: 663 AIRKLK 668 A KL+ Sbjct: 314 AFEKLQ 319 >gi|239981813|ref|ZP_04704337.1| RNA polymerase sigma factor [Streptomyces albus J1074] Length = 328 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 116/238 (48%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 95 EGTAEFAYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 154 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ K+ R PT E+A + Sbjct: 155 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQKLDRAPTVRELADR 214 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + VEG+ T + + P D+ L D I + D I+ Sbjct: 215 LGLSQEEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGIEGIEYV 267 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ R+L +RF M T E+G++ +++ + ++ + + +L+ Sbjct: 268 ESLKPLIAELPARDRRILSLRFTANM----TQSEIGEELGISQMHVSRLLTRTLNRLR 321 >gi|297196439|ref|ZP_06913837.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197722266|gb|EDY66174.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 292 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 61/215 (28%), Positives = 104/215 (48%), Gaps = 34/215 (15%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E A+ ++E N+ LV VA+++ NR D++Q G IGL+KA ++FD + Sbjct: 59 EGTPEYQYARNTLIEMNISLVRYVARRFRNRAESDEDIVQVGTIGLIKAIDRFDLSREVE 118 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D S + +P +++ ++V+ +S K+ R PT E+++ Sbjct: 119 FATFAVPYILGEIKRFFRDTSWAVHVPRRLQELRLELVQAVNELSGKLHRAPTAAELSEH 178 Query: 556 LAMPVEGVRKVLKITKEPI--SLETP---------------IGDEDTSHLGDFIEDKNAV 598 L +PVE V + L + S + P GD D + LG +ED A+ Sbjct: 179 LEIPVEEVTEGLVAMNGYVASSFDVPNTEGGPNAEAPFAERFGDLDPA-LG-LVEDLQAL 236 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 PL + L R+ +LR+RFG Sbjct: 237 KPL---------------IEELDDRDRLILRLRFG 256 >gi|284042121|ref|YP_003392461.1| RNA polymerase, sigma 32 subunit, RpoH [Conexibacter woesei DSM 14684] gi|283946342|gb|ADB49086.1| RNA polymerase, sigma 32 subunit, RpoH [Conexibacter woesei DSM 14684] Length = 300 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 75/252 (29%), Positives = 127/252 (50%), Gaps = 21/252 (8%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL---DLIQEGNIGLMKA 484 R +V + GE + A+ E+V+ + L+ SVA+ Y RG+ + +L+Q G +GL+ A Sbjct: 54 RALVLAAQGGE---TGARDELVDVFMPLIGSVARLY--RGVTSVHRAELMQAGVVGLLTA 108 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK---VVRTARRMSN 541 E+FD F TYA WWV+QA+ + +A+ + PV M D+ + +R ARR Sbjct: 109 LERFDPSRRAPFWTYASWWVRQAMQQVVAE----LARPVVMSDRGLRELARMRAARRDFT 164 Query: 542 KIK-REPTPEEIAKKLAMPVEGVRKVLKITKEPISLET--PIGDED--TSHLGDFIEDKN 596 ++ P+ +A + E + +L + P +LE+ DED G +ED Sbjct: 165 RLHDAGPSSVRLAAATGLTRERIETLLALELVPETLESEPAWSDEDDLARRSGHPLEDPG 224 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A D + + R++ L RE +L RFG+ + TL EV + ++ ER+ Sbjct: 225 AEEAFDRVLDRVECDRLLRLIGDLRQRERVILHARFGLD-GQERTLREVARMVGLSAERV 283 Query: 657 RQIEAKAIRKLK 668 RQ+E +A+ +L+ Sbjct: 284 RQLEHEALDELR 295 >gi|114705882|ref|ZP_01438785.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] gi|114538728|gb|EAU41849.1| RNA polymerase sigma factor [Fulvimarina pelagi HTCC2506] Length = 300 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 76/251 (30%), Positives = 126/251 (50%), Gaps = 23/251 (9%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR E A ++ A++RLVIS+A K+ + GL DLIQEG++GL++AA +F+ Sbjct: 43 VRWKENRDQEALHKITSAHMRLVISMASKFRHFGLAMNDLIQEGHVGLLEAAARFEPERE 102 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP---- 549 +FSTYA WW++ +I I +R K + RR+ ++ + P Sbjct: 103 VRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLSQGAEPISGN 160 Query: 550 ---EEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPL-D 602 EIA L + V + +++ SL P+ D+++ DF+ A PL D Sbjct: 161 AMYREIAGALKVSESDVALMDSRLSGPDSSLNAPLLDDESGSADRQDFL---VADDPLPD 217 Query: 603 SAIQANL---RETT--TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + ++ R T T L L+ RE +++R R + TLE +G + +++ER+R Sbjct: 218 ETVSVSIDDERRVTWLTSALDVLSERELKIIRERR--LQDDGATLEALGTKLGISKERVR 275 Query: 658 QIEAKAIRKLK 668 QIE +A+ KL+ Sbjct: 276 QIETRALEKLR 286 >gi|326775534|ref|ZP_08234799.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|326655867|gb|EGE40713.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 292 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/244 (25%), Positives = 125/244 (51%), Gaps = 14/244 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFD 489 + ++ +G A+ ++E NL LV AK++ NRG + D+IQ G IGL+KA ++F+ Sbjct: 50 LQVLEEGTHAYQYARNTLIEMNLSLVHFAAKRFRNRGSGEMEDIIQVGTIGLIKAIDRFE 109 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D + + +P +++ + +T +S ++ REPT Sbjct: 110 LSREVEFTSFAIPYIVGEIKRFFRDSTWAVHVPRRLQELRVTLAKTREALSTRLDREPTV 169 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSA 604 E+A L + +EG+ T SL+ PIG D++++ + + K V P Sbjct: 170 AELAHHLELTEEEVIEGLIAANGYTAG--SLDLPIGADQNSAETVTYGDIKGDVDPAMEL 227 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 ++ T +L L RE ++ MRFG M T ++G+ +++ + ++ ++ + Sbjct: 228 VED--LHTLAPLLEQLDEREREIVAMRFGREM----TQAQIGEHLGISQMHVSRLLSRLL 281 Query: 665 RKLK 668 KL+ Sbjct: 282 TKLR 285 >gi|260771645|ref|ZP_05880565.1| RNA polymerase sigma-32 factor [Vibrio metschnikovii CIP 69.14] gi|260613422|gb|EEX38621.1| RNA polymerase sigma-32 factor [Vibrio metschnikovii CIP 69.14] Length = 285 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 124/244 (50%), Gaps = 21/244 (8%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 45 GDIEAA---KTLILSHLRFVVHVARGYSGYGLPIADLVQEGNIGLMKAVKRFNPEVGVRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I R + ++ +R+ E E +A+ Sbjct: 102 VSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVAR 159 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANL 609 +L + VR++ ++ + E D+D + ++EDK S L I+A Sbjct: 160 ELGVEPAEVREMESRLAALDSTFEFSAEDDDNPNAYTAPVLYLEDKQ--SDLAENIEAQN 217 Query: 610 RETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T LASL R + ++R R+ TL+E+ + V+ ERIRQ+E A+ Sbjct: 218 WENHTNHRLSLALASLDERSQHIVRSRWLDDQKA--TLQELADLYQVSAERIRQLEKNAM 275 Query: 665 RKLK 668 +KLK Sbjct: 276 KKLK 279 >gi|1710646|sp|P50509|RP32_PROMI RecName: Full=RNA polymerase sigma-32 factor gi|1143374|dbj|BAA09441.1| sigma-32 homolog [Proteus mirabilis] Length = 284 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 70/277 (25%), Positives = 140/277 (50%), Gaps = 24/277 (8%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E ++E H +G+ EA+ K ++ ++LR VI VA+ Sbjct: 16 IEAYIRAANSYPMLTAEEEKELAERLHY-----EGDLEAA---KTLILSHLRFVIHVARS 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRHFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ ++ + E +AK+L + VR++ +++ + ++ + Sbjct: 128 TTKSQR--KLFFNLRKNKKRLGWFNQDEVELVAKELGVSESDVREMESRMSAQDMAFDMS 185 Query: 580 IGDEDTSHLGD---FIEDKNAVSPLDSAIQA-----NLRETTTRVLASLTPREERVLRMR 631 D D H F+EDK+ S I+ + + T + +L R + ++R R Sbjct: 186 ADDSDDPHPVAPVLFLEDKS--SDFADGIEEDNWDNHAADRLTLAIKTLDERSQDIIRAR 243 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 244 W-LEDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 279 >gi|168333394|ref|ZP_02691674.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family protein [Epulopiscium sp. 'N.t. morphotype B'] Length = 249 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 114/228 (50%), Gaps = 12/228 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +VE NL LV S+ K++TNRG DL Q G+IGL+K+ EKFD FSTYA+ Sbjct: 27 AKELLVEQNLGLVWSLVKRFTNRGYDLDDLFQVGSIGLLKSIEKFDLKYPVAFSTYAVPM 86 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ ++D K + REPT +EI+ L +P E + Sbjct: 87 IVGEIKRFLRDDGL-IKVSRSLKDLASKARNVKEDFQRQENREPTLKEISDILNVPCEEI 145 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVLASLT 621 L+ E SL + ++ + + +K SP + Q N+ E ++ +L+ Sbjct: 146 AVSLEANMEVESLNAVVNPNSSATIT--LAEKIDQSPDE---QKNIFENIYLKEIIKTLS 200 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E +++ R+ D T E+ + V++ +I +IE + + KL+ Sbjct: 201 SVERQIVNYRYF----EDLTQLEIANRLGVSQVQISRIEKRVLEKLRQ 244 >gi|291453672|ref|ZP_06593062.1| SigI protein [Streptomyces albus J1074] gi|291356621|gb|EFE83523.1| SigI protein [Streptomyces albus J1074] Length = 285 Score = 85.5 bits (210), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 62/238 (26%), Positives = 116/238 (48%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 52 EGTAEFAYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 111 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ K+ R PT E+A + Sbjct: 112 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQKLDRAPTVRELADR 171 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + VEG+ T + + P D+ L D I + D I+ Sbjct: 172 LGLSQEEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGIEGIEYV 224 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ R+L +RF M T E+G++ +++ + ++ + + +L+ Sbjct: 225 ESLKPLIAELPARDRRILSLRFTANM----TQSEIGEELGISQMHVSRLLTRTLNRLR 278 >gi|84625707|ref|YP_453079.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|289664834|ref|ZP_06486415.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. vasculorum NCPPB702] gi|289671390|ref|ZP_06492465.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. musacearum NCPPB4381] gi|84369647|dbj|BAE70805.1| RNA polymerase sigma-32 factor [Xanthomonas oryzae pv. oryzae MAFF 311018] Length = 291 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 121/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 223 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIE Sbjct: 224 SEDNQLQLLREG----MAGLDTRSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIE 278 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 279 ANALKKMK 286 >gi|229844972|ref|ZP_04465109.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 6P18H1] gi|229812106|gb|EEP47798.1| RNA polymerase factor sigma-32 [Haemophilus influenzae 6P18H1] Length = 281 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 48 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNENEVDMVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ +++ + + P D +T ++EDK N + L++ ++ E Sbjct: 166 DVIEMESRMSGADVGFDLPTDDAETETYSPSLYLEDKSSNFAAELENENFESQATEQLGV 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + +++ R+ + TL ++ ++ V+ ERIRQ+E A++KLK Sbjct: 226 ALQSLDVRSQDIIKARWLD--DNKATLHDLAAKYNVSAERIRQLETNALKKLK 276 >gi|167507927|gb|ABZ81284.1| RpoD [Thalassospira sp. MCCC 1A01166] gi|167507929|gb|ABZ81285.1| RpoD [Thalassospira sp. MCCC 1A01167] Length = 255 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 99 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGETVPAATEKRYAKLKNEMV 158 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 159 ELMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 218 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ + I K+R ++ +S E Sbjct: 219 WMERVAGLPGKGWKAFIERYPEEIAKLREDVGGVSAE 255 >gi|167507965|gb|ABZ81303.1| RpoD [Thalassospira sp. MCCC 1A02093] Length = 257 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 101 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGEAVPAATEKRYNKLKNEMV 160 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ + ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 161 DLMEDVHLNNFRIEELLDHMTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 220 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV D I +R + +S E Sbjct: 221 WMERVGGLPGKGWKTFVERYADEIANLREGVGGVSAE 257 >gi|258511711|ref|YP_003185145.1| sporulation sigma factor SigF [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478437|gb|ACV58756.1| RNA polymerase, sigma 28 subunit, SigF [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 256 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 124/249 (49%), Gaps = 17/249 (6%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R ++ G+ EA ++ ++ N RLV +V +++ RG + DL Q G IGL Sbjct: 19 LSDEEVRELLERSHNGDAEA---RERLIVHNQRLVWAVVQRFLGRGYEAEDLFQIGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KFD KFSTYA+ + I R + D S T+++ +++ ++ R++ Sbjct: 76 MKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDS-TVKVSRSLKETAKQIRHVRDRLAK 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 ++ R+P EIA+ + M + + + P S+ + D D +L D I D+ Sbjct: 135 ELGRQPHITEIAEAMGMEPSEIVFAQEALRAPASIHETVYENDGDPIYLMDQIADEETEG 194 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 D + L E ++ L RE ++ MRF D T +V + +++ ++ ++ Sbjct: 195 KFD---KVELHE----IIGRLPERERFIVYMRF----FRDKTQSDVARVLGISQVQVSRL 243 Query: 660 EAKAIRKLK 668 E + +++++ Sbjct: 244 EKRILQQIR 252 >gi|148652168|ref|YP_001279261.1| RNA polymerase factor sigma-32 [Psychrobacter sp. PRwf-1] gi|148571252|gb|ABQ93311.1| RNA polymerase, sigma 32 subunit, RpoH [Psychrobacter sp. PRwf-1] Length = 372 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 83/304 (27%), Positives = 138/304 (45%), Gaps = 34/304 (11%) Query: 383 WVSYAKDFPEGEWKNFV-ACEVD------SILKIRNEIKSISVETGISISEFRHIVSMVR 435 WVS D+P ++ V A V+ ++ N + I + T E H Sbjct: 69 WVS---DYPNTSTRDLVPAMPVNLSAPGINLGAYMNSVHQIPILTTEQEQELAH--RYYD 123 Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 G+ EA+ + +V ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 124 DGDVEAA---RILVMSHLRFVIHIARSYSGYGLPQADLIQEGNLGLMKAVKRFDPNKGVR 180 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I + +++ K H+ + R K + T EE A Sbjct: 181 LVSFAVHWIKAEIHEFVIRNWRIVKVAT---TKAHRKLFFNLRSLKKTNNQLTLEE-ADA 236 Query: 556 LAMPVEGVRKVL-----KITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQAN 608 +A + RK + ++T S E D++ H F+ED V P + A+ Sbjct: 237 IAADLNVTRKQVLEMESRLTSYDASFEAQSTDDEDGHYAPQLFLED--GVDPAEMVEDAD 294 Query: 609 LRETTTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 E T L +L R ++ R+ + TL E+ + ++ ER+RQIE A+ Sbjct: 295 WEENNTNALMDAMDTLDERSRDIVEQRWLSEQKS--TLHELAAVYNISAERVRQIEKNAM 352 Query: 665 RKLK 668 K++ Sbjct: 353 DKIR 356 >gi|330961076|gb|EGH61336.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. maculicola str. ES4326] Length = 326 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 82/137 (59%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|289676146|ref|ZP_06497036.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae FF5] Length = 178 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/137 (39%), Positives = 82/137 (59%), Gaps = 1/137 (0%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVVDGDDLEDEEGSED 91 K++I L R++ Y+T E+N LP D EQ+ED + M+++MGI V + D D Sbjct: 12 KELITLGREQKYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGIPVHESAPDADALMLAD 71 Query: 92 SLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRA 151 + ++A ++ L + R+TD PVRMY+REMG++ELL+REGEI IAKRIE G Sbjct: 72 ADTDEAAAEEAAAALAAVETDIGRTTD-PVRMYMREMGTVELLTREGEIEIAKRIEEGIR 130 Query: 152 MMMASLCESPLTFQALI 168 +M ++ P T ++ Sbjct: 131 EVMGAIAHFPGTVDHIL 147 >gi|148560551|ref|YP_001259508.1| RNA polymerase factor sigma-32 [Brucella ovis ATCC 25840] gi|294850906|ref|ZP_06791582.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] gi|148371808|gb|ABQ61787.1| alternative sigma factor RpoH [Brucella ovis ATCC 25840] gi|294821549|gb|EFG38545.1| alternative sigma factor RpoH [Brucella sp. NVSL 07-0026] Length = 303 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLSIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|124268355|ref|YP_001022359.1| RNA polymerase sigma-32 factor [Methylibium petroleiphilum PM1] gi|124261130|gb|ABM96124.1| RNA polymerase sigma-32 factor [Methylibium petroleiphilum PM1] Length = 319 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 71/249 (28%), Positives = 120/249 (48%), Gaps = 29/249 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+SV+++Y GL DLIQEGN+GLMKA ++FD G + +YA+ W Sbjct: 69 AAGRLVLSHLRLVVSVSRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPSQGVRLVSYALHW 128 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE-- 561 +K I + +++ + K+ R M K + T ++ + E Sbjct: 129 IKAEIHEYVLRNWRMVKLATTKAQR--KLFFNLRSMKQGFKGDATDSDLHRSTLTDAEID 186 Query: 562 GVRKVLKITKEP-ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS- 619 V LK+ +E I +ET + D + + + +P+ A A+ R TRVL + Sbjct: 187 IVASELKVKREEVIEMETRLSGGDVALDPQTDDGDESYAPI--AYLADDRHEPTRVLDAQ 244 Query: 620 ----------------LTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQI 659 L R R++ R+ + +N + TL E+ ++ V+ ERIRQI Sbjct: 245 RRDALAGDGIGEALDVLDARSRRIVEERW-LKVNDNGSGGMTLHELAAEYGVSAERIRQI 303 Query: 660 EAKAIRKLK 668 E A++K++ Sbjct: 304 EVAAMKKMR 312 >gi|319937136|ref|ZP_08011543.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319807502|gb|EFW04095.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 259 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 116/227 (51%), Gaps = 14/227 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K+++V +NL+LV+S+ +KY R DL Q G IGL+KA + FD L +FSTYA+ + Sbjct: 40 KEKLVLSNLKLVLSLVQKYHQRVSNLDDLFQVGVIGLIKAIDHFDTSLDVRFSTYAVPLI 99 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R I D S +RIP MRD +K + K +E + +E++K L + + Sbjct: 100 IGEIKRYIRDNS-PMRIPRSMRDLAYKALLANEEYMKKHHKEASTKELSKILDVDEFLLV 158 Query: 565 KVLKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L T SL + ++ + + KN + + ++I +L E + L Sbjct: 159 EALSSTNSVTSLSQEVQNDGNGQIDLESQIPDRKNQMEDMQNSI--DLYEA----MNHLD 212 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ R+ G HT E+ K+ +++ ++ +IE +A+ LK Sbjct: 213 EKELQIINERYFKG----HTQSEIAKELFISQAQVSRIEKQALSHLK 255 >gi|254392909|ref|ZP_05008077.1| sigma factor of sigB family [Streptomyces clavuligerus ATCC 27064] gi|294811525|ref|ZP_06770168.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326440088|ref|ZP_08214822.1| putative RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|197706564|gb|EDY52376.1| sigma factor of sigB family [Streptomyces clavuligerus ATCC 27064] gi|294324124|gb|EFG05767.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 289 Score = 85.1 bits (209), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 117/240 (48%), Gaps = 18/240 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G + + ++E NL LV A ++ NR Q D+IQ G IGL+KA ++F+ + Sbjct: 54 EGTRDHQYVRNTLIELNLALVKYAAGRFRNRAEQMEDIIQVGTIGLIKAIDRFELSREVE 113 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D S + +P +++ + + +S ++ R PT E+A+ Sbjct: 114 FATFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRIDLAKATDDLSQRLDRSPTTRELAEH 173 Query: 556 LAM----PVEGVRKVLKITKEPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 L + +EGV T S++ P+ D TS L D + +A + +QA Sbjct: 174 LGIDEQEVIEGVVAANGYTAG--SIDMPLEDSSDHTTSSLSDRLGAPDAGLEIAENVQA- 230 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R+ R+LRMRFG + T E+G + V++ + ++ + +L+ Sbjct: 231 ----LKPLIEELGERDRRILRMRFG----EELTQSEIGAELGVSQMHVSRLLTRITTRLR 282 >gi|306844673|ref|ZP_07477258.1| alternative sigma factor RpoH [Brucella sp. BO1] gi|306274845|gb|EFM56615.1| alternative sigma factor RpoH [Brucella sp. BO1] Length = 303 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSSEFGISRERVRQIEVRAF 277 >gi|332875153|ref|ZP_08442986.1| alternative sigma factor RpoH [Acinetobacter baumannii 6014059] gi|332736597|gb|EGJ67591.1| alternative sigma factor RpoH [Acinetobacter baumannii 6014059] Length = 280 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 45 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 104 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ E + IA L + E Sbjct: 105 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQ 163 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + E +T L Sbjct: 164 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPVLYLED-NRYDPARLVENEDWEEQSTSALH 222 Query: 619 ----SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 223 DAMNQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 274 >gi|291547959|emb|CBL21067.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Ruminococcus sp. SR1/5] Length = 260 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 121/236 (51%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + E N L+ SVAK++ RG++ DL Q G+IGL+KA +KFD KFSTYA+ Sbjct: 18 ARDLLFEENTGLIYSVAKRFLGRGVEMEDLFQIGSIGLLKAVDKFDMSYDVKFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +++ + ++ +++REPT E+A+++ + +E + Sbjct: 78 IIGEIKRYLRDDG-ILKVSRSLKENHYRIYQVREALTRRLEREPTTGEMAEEMGISIEEL 136 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP--LDSAIQANLRETTTRVLAS 619 ++ E SL I G+ L D + +K LD R +L + Sbjct: 137 VMTMESGAEVESLHKTIYQGEGTEISLMDKLPEKENRQEKVLD-------RIFLEEILGT 189 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L +E R++ MR+ M T E+ + V++ ++ ++E + +R L+ + K Sbjct: 190 LEAKERRLIYMRYFQNM----TQMEIAHELGVSQVQVSRMEKRILRSLQESAEKNK 241 >gi|317494584|ref|ZP_07952997.1| alternative sigma factor RpoH [Enterobacteriaceae bacterium 9_2_54FAA] gi|316917514|gb|EFV38860.1| alternative sigma factor RpoH [Enterobacteriaceae bacterium 9_2_54FAA] Length = 283 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 124/233 (53%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVSEK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKN---AVSPLDSAIQANLRETTTR 615 V ++ ++ + ++ + D+++S F++DK+ A D ++ + T Sbjct: 167 DVLEMESRMAAQDMAFDMSNDDDESSPAAPVLFLQDKSSDFANDIEDDNWDSHAADKLTL 226 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 AMEGLDERSQHIIRARW-LDDDNKATLQELADQYGVSAERVRQLEKNAMKKLR 278 >gi|251791618|ref|YP_003006339.1| RNA polymerase factor sigma-32 [Dickeya zeae Ech1591] gi|247540239|gb|ACT08860.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya zeae Ech1591] Length = 285 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + ED + G +++DK+ S I+ + ET Sbjct: 167 DVREMESRMAAQDMTFDP--SPEDDAQPGQPMAPMLYLQDKS--SDFADGIEEDNWETHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R + ++R R+ + + TL+E+ + V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADHYGVSAERVRQLEKNAMKKLR 280 >gi|21104386|dbj|BAB93463.1| putative rpoD gene [Variovorax sp. WFF52] gi|21104388|dbj|BAB93464.1| putative rpoD gene [Leptothrix discophora] gi|21104390|dbj|BAB93465.1| putative rpoD gene [Sphaerotilus natans] Length = 47 Score = 85.1 bits (209), Expect = 4e-14, Method: Composition-based stats. Identities = 39/46 (84%), Positives = 43/46 (93%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 LVIS+AKKYTNRGLQFLDLIQEGNIGLMKA +KF++ GYKFSTYA Sbjct: 1 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 46 >gi|226952985|ref|ZP_03823449.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ATCC 27244] gi|294650567|ref|ZP_06727924.1| RNA polymerase factor sigma-32 [Acinetobacter haemolyticus ATCC 19194] gi|226836306|gb|EEH68689.1| sigma H (sigma 32) factor of RNA polymerase [Acinetobacter sp. ATCC 27244] gi|292823564|gb|EFF82410.1| RNA polymerase factor sigma-32 [Acinetobacter haemolyticus ATCC 19194] Length = 289 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 54 AAKLLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 113 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S ++ E + IA L + E Sbjct: 114 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKRLTLEEA-QAIANDLNVTAEQ 172 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P A + + +T L Sbjct: 173 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLAEEEDYEAQSTAALH 231 Query: 619 ----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 232 QAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|150019061|ref|YP_001311315.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium beijerinckii NCIMB 8052] gi|149905526|gb|ABR36359.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium beijerinckii NCIMB 8052] Length = 242 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 71/237 (29%), Positives = 122/237 (51%), Gaps = 17/237 (7%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 K+++++ + LV +A + N+ +++ DL+ G +GLM A KFD G KFS+YA Sbjct: 9 GKEQIIQEYIPLVKYIASRVMFGKNKYMEYEDLVSYGMVGLMDALNKFDDTKGMKFSSYA 68 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +K A+ + I DK++K + + ++ REPT +EIAK L + + Sbjct: 69 SIRIKGAMIDELRRNR---PISKGAMDKLNKYNKAVDTLQLELLREPTNDEIAKYLGISM 125 Query: 561 EGVRKVLKITK--EPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLR-ETTTR 615 V ++ +SLE I DED + +G IEDKN+ SP D+ +Q + E T+ Sbjct: 126 SEVAEIENYINYISMVSLENVIFSDDEDVNLIG-IIEDKNSPSP-DAYLQDKEQLEILTK 183 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L ++ VL + + G+ TL+E+G V+ R+ Q+ ++AI L+ R Sbjct: 184 AIDLLKEKDRIVLNLYYYEGL----TLKEIGTVLSVSESRVCQLHSRAISSLRECMR 236 >gi|291619275|ref|YP_003522017.1| RpoH [Pantoea ananatis LMG 20103] gi|291154305|gb|ADD78889.1| RpoH [Pantoea ananatis LMG 20103] gi|327395604|dbj|BAK13026.1| RNA polymerase sigma-32 factor RpoH [Pantoea ananatis AJ13355] Length = 285 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 69/284 (24%), Positives = 141/284 (49%), Gaps = 37/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S E +++E H +G+ +A+ K ++ ++LR V+ +A+ Sbjct: 16 LESYVRAANTWPMLSAEEEKALAERLHY-----QGDLDAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 580 IGDED---------------TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 DE TS D IE+ N +++ + T + L R Sbjct: 186 ADDESGEGKSMAPVLYLQDKTSDFADGIEEDN--------WESHAADKLTYAMEGLDERS 237 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 238 QHIIRARW-LDEDNKTTLQELADRYGVSAERVRQLEKNAMKKLR 280 >gi|182435018|ref|YP_001822737.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|178463534|dbj|BAG18054.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] Length = 292 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 63/244 (25%), Positives = 125/244 (51%), Gaps = 14/244 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFD 489 + ++ +G A+ ++E NL LV AK++ NRG + D+IQ G IGL+KA ++F+ Sbjct: 50 LQVLEEGTHAYQYARNTLIEMNLSLVHFAAKRFRNRGSGEMEDIIQVGTIGLIKAIDRFE 109 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D + + +P +++ + +T +S ++ REPT Sbjct: 110 LSREVEFTSFAIPYIVGEIKRFFRDSTWAVHVPRRLQELRVTLAKTREALSTRLDREPTV 169 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSA 604 E+A L + +EG+ T SL+ PIG D++++ + + K V P Sbjct: 170 AELAHHLELTEEEVIEGLIAANGYTAG--SLDLPIGADQNSAETVTYGDIKGDVDPAMEL 227 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 ++ T +L L RE ++ MRFG M T ++G+ +++ + ++ ++ + Sbjct: 228 VED--LHTLAPLLERLDEREREIVAMRFGREM----TQAQIGEHLGISQMHVSRLLSRLL 281 Query: 665 RKLK 668 KL+ Sbjct: 282 TKLR 285 >gi|15614101|ref|NP_242404.1| sporulation sigma factor SigF [Bacillus halodurans C-125] gi|10174155|dbj|BAB05257.1| RNA polymerase sigma-F factor (stage II sporulation protein AC) [Bacillus halodurans C-125] Length = 252 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 70/259 (27%), Positives = 131/259 (50%), Gaps = 17/259 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K E + E + +++ + G+ EA + ++V N RLV SV +++ NRG + Sbjct: 4 EVKQNEKEQPFTDEEIKQLIAQSQAGDQEA---RDQIVSRNTRLVWSVVQRFLNRGYEAD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K Sbjct: 61 DLFQIGCIGLIKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSIKELGNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + + M+ + R PT EIA++L + E V ++ S+ + D D L Sbjct: 120 IRKLKDDMTKTLGRTPTVNEIAEQLEITPEEVVFAGDASRSLSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D +ED++ D + L+E + +L RE ++ +R+ D T EV ++ Sbjct: 180 DQLEDQSETRWFD---KIALKEA----IHNLEERERLIVYLRY----YKDQTQSEVAQRL 228 Query: 650 CVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K + +K Sbjct: 229 GISQVQVSRLEKKILETMK 247 >gi|271502546|ref|YP_003335572.1| RNA polymerase sigma-32 subunit RpoH [Dickeya dadantii Ech586] gi|270346101|gb|ACZ78866.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya dadantii Ech586] Length = 285 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + ED + G +++DK+ S I+ + ET Sbjct: 167 DVREMESRMAAQDMTFDP--SPEDDAQPGQPMAPMLYLQDKS--SDFADGIEEDNWETHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R + ++R R+ + + TL+E+ + V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADHYGVSAERVRQLEKNAMKKLR 280 >gi|225025101|ref|ZP_03714293.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC 23834] gi|224942062|gb|EEG23271.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC 23834] Length = 648 Score = 85.1 bits (209), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 52/164 (31%), Positives = 88/164 (53%), Gaps = 14/164 (8%) Query: 6 KRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMED 65 ++N + E ++S+ L + +++I ++RGY+T E+N LP D +EQ+++ Sbjct: 3 EQNNPATEEQDESNRPLTPEEQRARLRQLILQGKERGYITYAEINDALPDDMSDAEQIDN 62 Query: 66 TVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRK--------DSADRST 117 V M+S +GI V + E ++L +A + +N + + DS T Sbjct: 63 IVNMISGLGIQVTE------ETPDSETLLMADNTANMTDDDAVAEAEAALSSADSEFGRT 116 Query: 118 DDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESP 161 DPVRMY+REMG ++LL+RE EI IAK+IE M+ ++ P Sbjct: 117 TDPVRMYMREMGQVDLLTREDEIVIAKKIETALRNMIQAISACP 160 >gi|253682486|ref|ZP_04863283.1| RNA polymerase sigma-F factor [Clostridium botulinum D str. 1873] gi|253562198|gb|EES91650.1| RNA polymerase sigma-F factor [Clostridium botulinum D str. 1873] Length = 252 Score = 84.7 bits (208), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 118/226 (52%), Gaps = 16/226 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E+V+ NL LV S++KK+ NRG ++ D+ Q G++GL+KA FD +FSTYA+ + Sbjct: 34 ELVQKNLPLVSSISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYDVQFSTYAVPMIMG 93 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R I D I++ ++ K+ +++ ++ REP+ EE++K + E + Sbjct: 94 EIKRFIRDDGL-IKVSRSVKYTAKKLHYDKEKLTKELNREPSLEELSKFSGISKEDIIFS 152 Query: 567 LKITKEPISLETPIGDEDTS--HLGD--FIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + EP L I +D S +L D ++DK + LD + L+E L+ L Sbjct: 153 SEAINEPKYLYDTIHQDDGSPIYLIDKVVLDDKGEIDELD---KIALKEA----LSKLDQ 205 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R +++ +R+ D T +V K +++ ++ +IE K ++ +K Sbjct: 206 RSRQIIILRYF----KDITQVKVAKMLGISQVQVSRIEKKVLKSMK 247 >gi|71892394|ref|YP_278128.1| RNA polymerase factor sigma-32 [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|71796500|gb|AAZ41251.1| RNA polymerase sigma-32 factor [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 282 Score = 84.7 bits (208), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 122/240 (50%), Gaps = 27/240 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ V++ Y+ GL DLIQEGNIGLMKA +F+ L + ++A+ W Sbjct: 50 AAKKLIVSHLRFVVHVSRNYSGYGLPQADLIQEGNIGLMKAVRRFNPELDVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + ++I + R++ +++ T + + A +E V Sbjct: 110 IKSEIHEYVLKNWRIVKIA---------TTKAQRKLFFNLRK--TKQRLGWFNAGEIEIV 158 Query: 564 RKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAVS--PL----DSAIQAN-------- 608 K L +T + + +E+ + +D + ED ++ P+ D + +N Sbjct: 159 AKALNVTSKDVREMESRMSAQDMTFEQSSDEDNRGITIAPILYLQDKIVSSNEEEEWIDQ 218 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + +L R + ++R R+ + ++ TL+E+ Q+ V+ ER+RQ+E A++K+K Sbjct: 219 VSDKLNAAIKTLDERSQHIIRARW-LNVDNKSTLQELANQYGVSAERVRQLEKNAMKKMK 277 >gi|329120411|ref|ZP_08249077.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria bacilliformis ATCC BAA-1200] gi|327462095|gb|EGF08423.1| DNA-directed RNA polymerase sigma subunit RpoD [Neisseria bacilliformis ATCC BAA-1200] Length = 649 Score = 84.7 bits (208), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 59/189 (31%), Positives = 102/189 (53%), Gaps = 18/189 (9%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E ED + L + + +I ++RGY+T E+N LP D +EQ+++ V M+ + Sbjct: 12 EQEDGNRPLTPEEQRQRLRLLILQGKERGYITYAEINDALPDDMSDAEQIDNIVNMIQGL 71 Query: 74 GINVV----DGDDL-EDEEGS----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 GI V D D L ++ G+ +D+++ A +A +++ DS T DPVRMY Sbjct: 72 GIQVTEEAPDADTLLMNDTGTGMTDDDAVEEAEAALSNA-------DSEFGRTTDPVRMY 124 Query: 125 LREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREI 184 +REMG ++LL+RE EI IAK+IE M+ ++ P + ++ +++ G + E+ Sbjct: 125 MREMGQVDLLTREDEIIIAKKIENALKNMIQAISACPGSIAEILGLIEQVRSGEIKVDEV 184 Query: 185 IDLEACIGP 193 + EA + P Sbjct: 185 V--EAILDP 191 >gi|323154963|gb|EFZ41155.1| RNA polymerase sigma factor rpoS domain protein [Escherichia coli EPECa14] Length = 148 Score = 84.7 bits (208), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 34/59 (57%), Positives = 49/59 (83%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA W Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATW 148 >gi|309778067|ref|ZP_07673006.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 3_1_53] gi|308914161|gb|EFP59962.1| RNA polymerase sigma-G factor [Erysipelotrichaceae bacterium 3_1_53] Length = 259 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 128/247 (51%), Gaps = 17/247 (6%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +E + + +++G+ +A K+ ++ NL+LV+S+ ++++NR DL Q G IGL+K+ Sbjct: 22 AEMKELFVQLQQGDEQA---KETLINGNLKLVLSIVQRFSNRCENMDDLFQVGCIGLVKS 78 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 + FD +FSTYA+ + I R + D IR+ H++D ++ + +K + Sbjct: 79 IDNFDLKHEVRFSTYAVPMIMGEIKRYLRDNQ-VIRVSRHLKDLAYRAFKLKEEYVHKNQ 137 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFI-EDKNAVSPL 601 +EPT +A++L + + + L T+ +S+ P+ D D L D I +DK+ + L Sbjct: 138 KEPTIAWLAEQLEVKEKDIVDALDSTQSVLSIFEPVYNSDGDELFLLDQIKDDKDEIEHL 197 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 ++ + R L L +E +++ R+ D T E+ + +++ ++ ++E Sbjct: 198 NNIM------ALKRSLKRLKGKELDIIQKRY----YQDMTQTEIAGELGISQAQVSRLEK 247 Query: 662 KAIRKLK 668 AI LK Sbjct: 248 NAIAVLK 254 >gi|325924311|ref|ZP_08185855.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas gardneri ATCC 19865] gi|325545176|gb|EGD16486.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas gardneri ATCC 19865] Length = 291 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 121/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 223 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE L+ L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIE Sbjct: 224 SEDNQLQLLREG----LSGLDTRSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIE 278 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 279 ANALKKMK 286 >gi|302871563|ref|YP_003840199.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] gi|302574422|gb|ADL42213.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor obsidiansis OB47] Length = 240 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 120/239 (50%), Gaps = 12/239 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + +A+++++E+NL LV SV KK+ +G++ DL Q G IGL+KA ++FD Sbjct: 9 LISKAKNGDKVARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSF 68 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 69 NVRFSTYAVPMIIGEIKRYLRDDG-RIKVSRKIKENQSKIKKLRNQFVSDNGREPTISEI 127 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + E + + + E SL I E+ L D D+ S + A L+ Sbjct: 128 SQLTGLSSEEILLCMDASSEVASLSEVINQEEGKPITLMDLASDEEDYSTKLLDLMA-LK 186 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E L L RE ++ MR+ + T E+ KQ +++ + +IE +A+ ++K Sbjct: 187 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKQLNISQVHVSRIEKRALERIKR 237 >gi|291563747|emb|CBL42563.1| RNA polymerase, sigma subunit, RpoX/SigF [butyrate-producing bacterium SS3/4] Length = 239 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 64/229 (27%), Positives = 117/229 (51%), Gaps = 16/229 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V N LV S+ +++ RG + DL Q GNIGL+KA + FD LG +FSTYA+ Sbjct: 18 ARDRLVMENAGLVWSIVRRFIGRGPEPDDLFQIGNIGLIKAIDHFDTELGVRFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ KV ++ + REPT EE+A+ + E V Sbjct: 78 ITGEIRRFLRDDGM-IKVSRPLKELAGKVGAAREKLEADLGREPTVEELARSVGASREEV 136 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS--PLDSAIQANLRETTTRVLAS 619 ++ S+ P GDE L D I +K + + LD + A L L+ Sbjct: 137 AASMEAGARVGSIYEPFDAGDESGGCLADKIAEKTSENDRVLDRIVLAEL-------LSG 189 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +E+++++MR+ + T + + +++ ++ ++E K +R+++ Sbjct: 190 LGEKEQQIIKMRY----FENMTQTVIAGRLGISQVQVSRMEKKILREMR 234 >gi|306841398|ref|ZP_07474101.1| alternative sigma factor RpoH [Brucella sp. BO2] gi|306288583|gb|EFM59932.1| alternative sigma factor RpoH [Brucella sp. BO2] Length = 303 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|283787904|ref|YP_003367769.1| RNA polymerase sigma-32 factor [Citrobacter rodentium ICC168] gi|282951358|emb|CBG91057.1| RNA polymerase sigma-32 factor [Citrobacter rodentium ICC168] Length = 284 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/283 (24%), Positives = 139/283 (49%), Gaps = 36/283 (12%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 580 IGDED--------------TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 DE TS+ D IE+ N S + T + L R + Sbjct: 186 PDDESDSQPMAPVLYLQDKTSNFADGIEEDNWEDQAASKL--------THAMEGLDERSQ 237 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 238 AIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|167507919|gb|ABZ81280.1| RpoD [Thalassospira sp. MCCC 1A01103] gi|167507957|gb|ABZ81299.1| RpoD [Thalassospira sp. MCCC 1A02041] gi|167507959|gb|ABZ81300.1| RpoD [Thalassospira sp. MCCC 1A02042] Length = 261 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 105 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGEAVPAATEKRYNKLKNEMV 164 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 165 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 224 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV D I +R + +S E Sbjct: 225 WMERVGGLPGKGWKAFVERYPDEIANLREGVGGVSAE 261 >gi|292492240|ref|YP_003527679.1| RNA polymerase sigma factor RpoH [Nitrosococcus halophilus Nc4] gi|291580835|gb|ADE15292.1| RNA polymerase sigma factor RpoH [Nitrosococcus halophilus Nc4] Length = 287 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 120/236 (50%), Gaps = 17/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 53 AARQLVLSHLRFVVRIARGYSGYGLPLADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R+A++ + R+ +E+A+ L + Sbjct: 113 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKKRLGWLNRKEV-DEVARDLGV---S 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAV---SPLDSAIQA-------NLRET 612 ++VL++ S +TP + + D I A D A Q + + Sbjct: 169 PKQVLEMEARLSSQDTPFEGPNAENSEDDIPAPIAYLFDPTTDPARQMERLDQENHYGQR 228 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L +L PR ++ R+ + TL E+ ++ ++ ERIRQ+E AI+KL+ Sbjct: 229 LQQALEALDPRSRAIIHRRW--LQESKSTLHELAAEYQISAERIRQLENNAIKKLR 282 >gi|153008471|ref|YP_001369686.1| RNA polymerase factor sigma-32 [Ochrobactrum anthropi ATCC 49188] gi|151560359|gb|ABS13857.1| RNA polymerase, sigma 32 subunit, RpoH [Ochrobactrum anthropi ATCC 49188] Length = 311 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/252 (29%), Positives = 128/252 (50%), Gaps = 25/252 (9%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++AA +FD Sbjct: 54 IRWKELKDQDALHRITSAHMRLVISMAGRFRKFKLPMNDLIQEGYVGLLEAAARFDPERE 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-------RE 546 +FSTYA WW++ ++ I +R K + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRSKLAQSDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPL-- 601 EI+ +L + V + +++ SL P+ +E++ + DF+ D + PL Sbjct: 172 EMYREISDQLGVSTSDVEIMDSRLSGPDSSLSAPVNNEESGAVRRMDFLVDDH---PLQD 228 Query: 602 ---DSAIQANLRETTTRV-LASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERI 656 +S+I R V L +L RE ++R R ++ D TLE +G++ +++ER+ Sbjct: 229 EIAESSIDMERRNQWLNVALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKERV 285 Query: 657 RQIEAKAIRKLK 668 RQIE++A+ KLK Sbjct: 286 RQIESRAMEKLK 297 >gi|126664542|ref|ZP_01735526.1| RNA polymerase sigma factor [Marinobacter sp. ELB17] gi|126630868|gb|EBA01482.1| RNA polymerase sigma factor [Marinobacter sp. ELB17] Length = 286 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 69/279 (24%), Positives = 144/279 (51%), Gaps = 23/279 (8%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 ++S ++ + I ++V+ ++SE + +G+ +A+ ++++ ++LR VI + Sbjct: 14 GANLESYIQAASRIPILTVDEERALSE-----RLYYEGDVDAA---RQLILSHLRFVIHI 65 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+ Y+ GL DL+QEGN+GLMKA ++F+ G + ++A+ W+K I I + Sbjct: 66 ARSYSGYGLNQSDLVQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIV 125 Query: 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKV-LKITKEPISL 576 ++ + K+ R K+ E +A L + VR++ +++ + Sbjct: 126 KVATTKAQR--KLFFNLRGQKKKLAWLSHDELNAVAADLGVEARVVREMEGRLSSHDTAF 183 Query: 577 ETPIG-DEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTT----RVLASLTPREERVLR 629 + P+ DED+++ ++ED + +P ++N E + + L+SL R + +LR Sbjct: 184 DGPMNDDEDSAYQAPAYYLEDHRS-NPATQLERSNWTEDSNGRLMQALSSLDDRSQDILR 242 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ T TL ++ ++ V+ ERIRQ+E A++K++ Sbjct: 243 ERW--LSETKSTLHQLADRYGVSAERIRQLEKNAMKKIR 279 >gi|54298657|ref|YP_125026.1| RNA polymerase factor sigma-32 [Legionella pneumophila str. Paris] gi|296108313|ref|YP_003620014.1| RNA polymerase sigma-32 factor [Legionella pneumophila 2300/99 Alcoy] gi|53752442|emb|CAH13874.1| RNA polymerase sigma-32 factor [Legionella pneumophila str. Paris] gi|295650215|gb|ADG26062.1| RNA polymerase sigma-32 factor [Legionella pneumophila 2300/99 Alcoy] Length = 284 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/291 (25%), Positives = 136/291 (46%), Gaps = 39/291 (13%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +DS + N+I +++E I+ +E H +G+ EA+ +++V A+LR V Sbjct: 11 NLPVGSLDSYIHRVNQIPMLTLEEEIAYAERFH-----SEGDIEAA---RQLVLAHLRYV 62 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 63 VRVARGYLGYGLPLSDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 122 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 +++ + K+ R+M N++ E V+ V K L +++E + L Sbjct: 123 RIVKVATTKAQR--KLFFNLRQMKNRLGWFSNEE---------VDAVAKDLGVSREDVLL 171 Query: 577 -ETPIGDEDTSHLGDF-----------------IEDKNAVSPLDSAIQANLRETTTRVLA 618 E + D+S+ + D AV + RE + Sbjct: 172 MEQRLNVMDSSYDAPDVDDNDDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAME 231 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L R + +L+ R+ TL ++ +++ V+ ER+RQ+E A++K++ Sbjct: 232 QLDERSQDILQQRW--LAEEKLTLHDLAEKYGVSAERVRQLEKNAMKKIRQ 280 >gi|167037535|ref|YP_001665113.1| FliA/WhiG family RNA polymerase sigma factor [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256752057|ref|ZP_05492925.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus CCSD1] gi|320115950|ref|YP_004186109.1| RNA polymerase sigma-F factor [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166856369|gb|ABY94777.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256749067|gb|EEU62103.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacter ethanolicus CCSD1] gi|319929041|gb|ADV79726.1| RNA polymerase sigma-F factor [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 246 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 61/222 (27%), Positives = 111/222 (50%), Gaps = 12/222 (5%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ N L+ S+ KK++NRG + DL Q G IG +KA +KFD K STYA+ + Sbjct: 30 LILENSGLIWSIVKKFSNRGYELEDLYQIGCIGFVKAIQKFDESYNVKLSTYAVPIIMGE 89 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R + D I++ +++ K +SN++ REPT EIA++L + E + Sbjct: 90 IKRFLRDDGL-IKVSRSLKELSTKAFYVKEILSNELNREPTINEIAERLNVSPEEIAMAF 148 Query: 568 KITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + SL + DED L + + ++ +D + + V+ L PRE++ Sbjct: 149 ESAATAESLYDNATHDEDDKLLIEMVSEEEKEVDIDDKLALQM------VINKLKPREKQ 202 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +R+ D T EV +++ ++ ++E K ++KL+ Sbjct: 203 IIFLRYF----KDMTQMEVANILGISQVQVSRLEKKVLQKLR 240 >gi|254703436|ref|ZP_05165264.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261754065|ref|ZP_05997774.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] gi|261743818|gb|EEY31744.1| RNA polymerase factor sigma-32 [Brucella suis bv. 3 str. 686] Length = 300 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 46 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 106 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 163 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 164 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 223 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 224 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 274 >gi|307128894|ref|YP_003880910.1| RNA polymerase sigma-32 (sigma H) factor [Dickeya dadantii 3937] gi|306526423|gb|ADM96353.1| RNA polymerase, sigma 32 (sigma H) factor [Dickeya dadantii 3937] Length = 285 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + ED + G +++DK+ S I+ + ET Sbjct: 167 DVREMESRMAAQDMTFDP--SPEDDAQPGQPMAPMLYLQDKS--SDFADGIEEDNWETHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R + ++R R+ + + TL+E+ + V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLTYALEGLDERSQHIIRARW-LDDDNKSTLQELADHYGVSAERVRQLEKNAMKKLR 280 >gi|167507953|gb|ABZ81297.1| RpoD [Thalassospira sp. MCCC 1A02039] gi|167507955|gb|ABZ81298.1| RpoD [Thalassospira sp. MCCC 1A02040] Length = 257 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 52/157 (33%), Positives = 84/157 (53%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-AVNGQKDEKSSV----KCKVLKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ V K E V + LK ++V Sbjct: 101 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGEAVPVATEKRYNKLKNEMV 160 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ + ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 161 DLMEDVHLNNFRIEELLDHMTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 220 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV D I +R + +S E Sbjct: 221 WMERVGGLPGKGWKTFVERYSDEIANLREGVGGVSAE 257 >gi|163748787|ref|ZP_02156039.1| RNA polymerase sigma factor [Shewanella benthica KT99] gi|161331561|gb|EDQ02366.1| RNA polymerase sigma factor [Shewanella benthica KT99] Length = 286 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 120/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ E +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKAKKRLGWFSDAEVGMVAENLGVSKA 169 Query: 562 GVRKV--LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT--TRVL 617 V ++ ++P D+D + ++ S L S ++ + E + TR+L Sbjct: 170 DVTEMESRMAAQDPAFDLVSDSDDDIQDYAPALYLEDHSSDLASQVETDNLEASNQTRLL 229 Query: 618 ASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A++ +ER +L+ R+ +N D TL+E+ + V+ ERIRQ+E A+ KLK Sbjct: 230 AAIKTLDERSQHILQARW---LNEDKTTLQELAATYQVSAERIRQLEKNAMNKLK 281 >gi|307611543|emb|CBX01223.1| RNA polymerase sigma-32 factor [Legionella pneumophila 130b] Length = 284 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/291 (25%), Positives = 136/291 (46%), Gaps = 39/291 (13%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +DS + N+I +++E I+ +E H +G+ EA+ +++V A+LR V Sbjct: 11 NLPVGSLDSYIHRVNQIPMLTLEEEIAYAERFH-----SEGDIEAA---RQLVLAHLRYV 62 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 63 VRVARGYLGYGLPLSDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 122 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 +++ + K+ R+M N++ E V+ V K L +++E + L Sbjct: 123 RIVKVATTKAQR--KLFFNLRQMKNRLGWFSNEE---------VDAVAKDLGVSREDVLL 171 Query: 577 -ETPIGDEDTSHLGDF-----------------IEDKNAVSPLDSAIQANLRETTTRVLA 618 E + D+S+ + D AV + RE + Sbjct: 172 MEQRLNVMDSSYDAPDVDDNDDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAME 231 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L R + +L+ R+ TL ++ +++ V+ ER+RQ+E A++K++ Sbjct: 232 QLDERSQDILQQRW--LAEEKLTLHDLAEKYGVSAERVRQLEKNAMKKIRQ 280 >gi|299534115|ref|ZP_07047467.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni S44] gi|298718024|gb|EFI59029.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni S44] Length = 314 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 73/253 (28%), Positives = 124/253 (49%), Gaps = 33/253 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGRLVMSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP--TPEEIAKKLAMP-- 559 +K I I +++ + K+ R M + +K + EE+A + + Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKHDLKSDAAMADEELALRETLTSN 177 Query: 560 -VEGVRKVLKITKEP-ISLETPIGDEDT-----------------SHLGDFIEDKNAVSP 600 ++ V L + +E I +ET + D ++L D + A+ Sbjct: 178 EIDAVAAKLNVKREEVIEMETRLAGGDVLLDPSPSDDGEQAFGPIAYLADASHEPTAM-- 235 Query: 601 LDSAIQANL-RETTTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRER 655 L+S + +L + L L R R++ R+ + +N D TL E+ ++ V+ ER Sbjct: 236 LESRQRDHLATDGLVMALEGLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAEYGVSAER 294 Query: 656 IRQIEAKAIRKLK 668 IRQIE A++K+K Sbjct: 295 IRQIEVAAMKKMK 307 >gi|52842873|ref|YP_096672.1| RNA polymerase factor sigma-32 [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52629984|gb|AAU28725.1| RNA polymerase sigma-32 factor RpoH [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 292 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/291 (25%), Positives = 136/291 (46%), Gaps = 39/291 (13%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +DS + N+I +++E I+ +E H +G+ EA+ +++V A+LR V Sbjct: 19 NLPVGSLDSYIHRVNQIPMLTLEEEIAYAERFH-----SEGDIEAA---RQLVLAHLRYV 70 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 71 VRVARGYLGYGLPLSDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 130 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 +++ + K+ R+M N++ E V+ V K L +++E + L Sbjct: 131 RIVKVATTKAQR--KLFFNLRQMKNRLGWFSNEE---------VDAVAKDLGVSREDVLL 179 Query: 577 -ETPIGDEDTSHLGDF-----------------IEDKNAVSPLDSAIQANLRETTTRVLA 618 E + D+S+ + D AV + RE + Sbjct: 180 MEQRLNVMDSSYDAPDVDDNDDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAME 239 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L R + +L+ R+ TL ++ +++ V+ ER+RQ+E A++K++ Sbjct: 240 QLDERSQDILQQRWLA--EEKLTLHDLAEKYGVSAERVRQLEKNAMKKIRQ 288 >gi|52424080|ref|YP_087217.1| RNA polymerase factor sigma-32 [Mannheimia succiniciproducens MBEL55E] gi|52306132|gb|AAU36632.1| RpoD protein [Mannheimia succiniciproducens MBEL55E] Length = 282 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 124/233 (53%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVIHVARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFSDNE--LDLVANELGVTKE 166 Query: 562 GVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDK--NAVSPLDSA-IQANLRETTTR 615 V ++ ++T + + P D E+T ++EDK N + L+S + + + Sbjct: 167 DVIEMESRMTGADVGFDLPTDDSEEETFAPSMYLEDKSSNFAAELESENFETQAIDQLSN 226 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L R + +++ R+ +T TL E+ ++ ++ ER+RQ+E A++KLK Sbjct: 227 AMENLDERSKDIIQARWLD--DTKATLHELAAKYNISAERVRQLETNALKKLK 277 >gi|302531661|ref|ZP_07284003.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] gi|302440556|gb|EFL12372.1| RNA polymerase sigma-B factor [Streptomyces sp. AA4] Length = 258 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 59/224 (26%), Positives = 118/224 (52%), Gaps = 17/224 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V +L L ++A+K+ NR DL+Q +GL+ A +++D G F +A+ + Sbjct: 37 LVREHLELARNLARKFRNRDEAMDDLVQIATVGLIHAVDRYDPTQGTDFLAFAVPTISGE 96 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKREPTPEEIAKKLAMPVEGVRKV 566 + D S ++R+P +++ ++ + AR ++ ++ R P P EIA+ L +P+E V + Sbjct: 97 LRHHFRDNSWSVRVPRRLKE-LNATISAAREELTVRLSRAPKPSEIARHLDVPIEDVYEG 155 Query: 567 LKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 L+ + SL+ + E+++H D N QA LRE +L SL RE Sbjct: 156 LRAGQGRYGASLDNLL--ENSAHTRFGAPDANLG-------QAELREALRPMLDSLPERE 206 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +RFG GM+ ++ ++ V++ ++ ++ A ++KL+ Sbjct: 207 RKIVALRFGSGMSQ----SDIARRVGVSQMQVSRLLAATLKKLR 246 >gi|254719685|ref|ZP_05181496.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|265984700|ref|ZP_06097435.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306840038|ref|ZP_07472825.1| alternative sigma factor RpoH [Brucella sp. NF 2653] gi|264663292|gb|EEZ33553.1| RNA polymerase factor sigma-32 [Brucella sp. 83/13] gi|306404852|gb|EFM61144.1| alternative sigma factor RpoH [Brucella sp. NF 2653] Length = 303 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|23502510|ref|NP_698637.1| RNA polymerase factor sigma-32 [Brucella suis 1330] gi|161619585|ref|YP_001593472.1| RNA polymerase factor sigma-32 [Brucella canis ATCC 23365] gi|163845234|ref|YP_001622889.1| RNA polymerase factor sigma-32 [Brucella suis ATCC 23445] gi|225628222|ref|ZP_03786256.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|254708479|ref|ZP_05170307.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|254708670|ref|ZP_05170481.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|254714517|ref|ZP_05176328.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|254717415|ref|ZP_05179226.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|256030196|ref|ZP_05443810.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|256061694|ref|ZP_05451831.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|256160370|ref|ZP_05458060.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|256255578|ref|ZP_05461114.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260167873|ref|ZP_05754684.1| RNA polymerase factor sigma-32 [Brucella sp. F5/99] gi|260568745|ref|ZP_05839213.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|261219245|ref|ZP_05933526.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261222781|ref|ZP_05937062.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|261315977|ref|ZP_05955174.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261316160|ref|ZP_05955357.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261322306|ref|ZP_05961503.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261325699|ref|ZP_05964896.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261757310|ref|ZP_06001019.1| sigma-70 factor family [Brucella sp. F5/99] gi|265987224|ref|ZP_06099781.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] gi|265998739|ref|ZP_06111296.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|23348506|gb|AAN30552.1| RNA polymerase sigma-70 factor family protein [Brucella suis 1330] gi|161336396|gb|ABX62701.1| alternative sigma factor RpoH [Brucella canis ATCC 23365] gi|163675957|gb|ABY40067.1| alternative sigma factor RpoH [Brucella suis ATCC 23445] gi|225616068|gb|EEH13116.1| alternative sigma factor RpoH [Brucella ceti str. Cudo] gi|260154129|gb|EEW89211.1| sigma-70 factor family protein [Brucella suis bv. 4 str. 40] gi|260921365|gb|EEX88018.1| RNA polymerase factor sigma-32 [Brucella ceti B1/94] gi|260924334|gb|EEX90902.1| RNA polymerase factor sigma-32 [Brucella ceti M13/05/1] gi|261294996|gb|EEX98492.1| RNA polymerase factor sigma-32 [Brucella ceti M644/93/1] gi|261295383|gb|EEX98879.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis B2/94] gi|261301679|gb|EEY05176.1| RNA polymerase factor sigma-32 [Brucella neotomae 5K33] gi|261305003|gb|EEY08500.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M163/99/10] gi|261737294|gb|EEY25290.1| sigma-70 factor family [Brucella sp. F5/99] gi|262553428|gb|EEZ09197.1| RNA polymerase factor sigma-32 [Brucella ceti M490/95/1] gi|264659421|gb|EEZ29682.1| RNA polymerase factor sigma-32 [Brucella pinnipedialis M292/94/1] Length = 303 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|119503515|ref|ZP_01625598.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] gi|119460577|gb|EAW41669.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2080] Length = 282 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 125/237 (52%), Gaps = 21/237 (8%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +E+V A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++FD G + ++A+ W+K Sbjct: 50 RELVLAHLRFVVHIARSYSGYGLAEGDLIQEGNVGLMKAVKRFDPNKGVRLVSFAVHWIK 109 Query: 506 QAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + I +++ + K+ +R+A++ + E T + IA L + V+ Sbjct: 110 AEMHEFILRNWRIVKVATTKAQRKLFFNLRSAKKSLGWLNAEET-QAIAADLGVDEAEVQ 168 Query: 565 KV-LKITKEPISLETPI--GDEDT-----SHLGDFIED-KNAVSPLDSAIQANLRETTTR 615 ++ +++ I+ + P DED ++L D D + DSA R+ R Sbjct: 169 RMEGRLSSRDIAFDLPTDADDEDAWQSPQAYLDDISTDPARCIEAEDSA-----RDGENR 223 Query: 616 VLASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + A+L+ +ER ++ R+ TL E+ ++ V+ ERIRQ+E A++KLK+ Sbjct: 224 LRAALSDLDERSRNIVTQRWLAEQKA--TLHELAAEYGVSAERIRQLEVNAMKKLKN 278 >gi|265991792|ref|ZP_06104349.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|263002748|gb|EEZ15151.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] Length = 293 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 126/249 (50%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 36 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 95 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 96 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 153 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL + E+T S DF+ D + + Sbjct: 154 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLVDDHPLQDEIA 213 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ ++++R+RQI Sbjct: 214 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKQRVRQI 270 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 271 ESRAMEKLK 279 >gi|262372449|ref|ZP_06065728.1| alternative sigma factor RpoH [Acinetobacter junii SH205] gi|262312474|gb|EEY93559.1| alternative sigma factor RpoH [Acinetobacter junii SH205] Length = 289 Score = 84.7 bits (208), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 70/235 (29%), Positives = 121/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 54 AAKLLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 113 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S ++ E + IA L + E Sbjct: 114 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKRLTLEEA-QSIANDLNVTPEQ 172 Query: 563 VRKV-LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA 618 V ++ ++T + E D+DT H ++ED N P + + E +T L Sbjct: 173 VLEMEGRLTAYDAAFEAQGDDDDDTPHTAPALYLED-NRYDPARLIEEEDYEEQSTSALH 231 Query: 619 ----SLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 232 EAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|148358598|ref|YP_001249805.1| hypothetical protein LPC_0471 [Legionella pneumophila str. Corby] gi|148280371|gb|ABQ54459.1| hypothetical protein LPC_0471 [Legionella pneumophila str. Corby] Length = 284 Score = 84.3 bits (207), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 75/295 (25%), Positives = 137/295 (46%), Gaps = 39/295 (13%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +DS + N+I +++E I+ +E H +G+ EA+ +++V A+LR V Sbjct: 11 NLPVGSLDSYIHRVNQIPMLTLEEEIAYAERFH-----SEGDIEAA---RQLVLAHLRYV 62 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 63 VRVARGYLGYGLPLSDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 122 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL 576 +++ + K+ R+M N++ E V+ V K L +++E + L Sbjct: 123 RIVKVATTKAQR--KLFFNLRQMKNRLGWFSNEE---------VDAVAKDLGVSREDVLL 171 Query: 577 -ETPIGDEDTSHLGDF-----------------IEDKNAVSPLDSAIQANLRETTTRVLA 618 E + D+S+ + D AV + RE + Sbjct: 172 MEQRLNVMDSSYDAPDVDDNDDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAME 231 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L R + +L+ R+ TL ++ +++ V+ ER+RQ+E A++K++ S Sbjct: 232 QLDERSQDILQQRW--LAEEKLTLHDLAEKYGVSAERVRQLEKNAMKKIRQYMES 284 >gi|167755690|ref|ZP_02427817.1| hypothetical protein CLORAM_01205 [Clostridium ramosum DSM 1402] gi|237734438|ref|ZP_04564919.1| sporulation sigma factor sigF [Mollicutes bacterium D7] gi|167704629|gb|EDS19208.1| hypothetical protein CLORAM_01205 [Clostridium ramosum DSM 1402] gi|229382668|gb|EEO32759.1| sporulation sigma factor sigF [Coprobacillus sp. D7] Length = 240 Score = 84.3 bits (207), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 118/228 (51%), Gaps = 16/228 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V NL LV S+ ++ N DL Q G IGLMKA FD G +FSTYA+ Sbjct: 20 AKELVVSQNLGLVWSIVHRFKNNYYDKEDLFQIGCIGLMKAVNNFDTNYGVQFSTYAVPI 79 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D TI++ +++ K+ + ++N+ ++PT E+IA L + V+ V Sbjct: 80 IMGEIKRYFRDDG-TIKVSRSLKELNLKINKARELLTNQTGQDPTVEQIAAYLDVDVQDV 138 Query: 564 RKVLKITKEPISLETPIGDEDTSHLG--DFIEDK-NAVSPLDSAIQANLRETTTRVLASL 620 + + + P SL PI ++D S + + IE+K N + A++ + + L Sbjct: 139 VEAIDSSYYPTSLSEPIYEKDGSSISMEERIENKHNKMWFEKIALEMEIDK--------L 190 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+ +L MR+ + N E V ++ +++ ++ ++E K I KL+ Sbjct: 191 DEKEKLILYMRYQLDFNQ----ERVAQRLNISQVQVSRLEKKIIAKLR 234 >gi|300718824|ref|YP_003743627.1| RNA polymerase sigma-32 factor [Erwinia billingiae Eb661] gi|299064660|emb|CAX61780.1| RNA polymerase sigma-32 factor [Erwinia billingiae Eb661] Length = 284 Score = 84.3 bits (207), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 73/286 (25%), Positives = 140/286 (48%), Gaps = 42/286 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRAANVWPMLTAEEEKALAERLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R A++ +E E +A++L + + V ++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKAKQRLGWFNQEEV-EMVARELGVTSKDVLEMESRMAAQDMTFDPTP 186 Query: 581 GDED--------------TSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASLTP 622 DE +S D IE+ N A L A+Q L Sbjct: 187 DDEGEGRSMAPMLYLQDKSSDFADGIEEDNWESHAADKLSDAMQG------------LDE 234 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 235 RSQNIIRARW-LDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLR 279 >gi|89076088|ref|ZP_01162448.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] gi|89048240|gb|EAR53822.1| RNA polymerase sigma factor [Photobacterium sp. SKA34] Length = 286 Score = 84.3 bits (207), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 124/234 (52%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + K +V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 SAKALVMSHLRFVVHIARGYSGYGLPIADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R +++ + +A++L + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKSKKRLGWFNNDEV-NMVAEQLGVEPSD 167 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGD--FIEDKN---AVSPLDSAIQANLRETTT 614 VR++ L ++ + DT+ + ++EDK+ A++ ++ + + + Sbjct: 168 VREMESRLAAQDPTFEMQNDDDERDTTPVAPAYYLEDKSSDVALTYEENNWENHANNRLS 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + LASL R + ++R R+ + TL+++ + V+ ERIRQ+E A++KLK Sbjct: 228 QALASLDERSQHIVRSRWLD--DEKSTLQDLANNYGVSAERIRQLEKNAMKKLK 279 >gi|333024988|ref|ZP_08453052.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|332744840|gb|EGJ75281.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 316 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 120/238 (50%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 83 EGTHAHSYVRHTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 142 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PTP E+A+K Sbjct: 143 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTPSELAEK 202 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + +EG+ T + + P D+ S L D + + D +++ Sbjct: 203 LGIEREEVIEGMAASNAYTASSLDAQ-PEEDDSESALADRLGYE------DHSLEGIEYI 255 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 256 ESLKPMIARLPQRDRKILSLRFVANM----TQSEIGEELGISQMHVSRLLSRTLVKLR 309 >gi|319781051|ref|YP_004140527.1| RNA polymerase sigma factor, sigma-70 family [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317166939|gb|ADV10477.1| RNA polymerase sigma factor, sigma-70 family [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 287 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 117/235 (49%), Gaps = 26/235 (11%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 A++RLVIS+A K+ + GL DL+QEG++GL++AA +F+ +FSTYA WW++ ++ Sbjct: 47 AHMRLVISMASKFRHYGLPLGDLVQEGHVGLLEAAARFEPEREVRFSTYATWWIRASMQD 106 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKLAMPVEGV 563 I +R K + RR+ ++ P E+++ L + V Sbjct: 107 YILRNWSIVRGGTSSAQK--ALFFNLRRLRARLANGAEPLSNATLYREVSEALGVSEADV 164 Query: 564 RKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR----- 615 + +++ SL P+ D+ T + + D PL I + + R Sbjct: 165 AMMDSRLSAPDSSLNMPVADDAGSTERMEFLVSD----DPLPDEIVGDKIDVARRSLWLR 220 Query: 616 -VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L RE R++ R +N + TLE +G+ +++ER+RQIEA+A+ KLK Sbjct: 221 EALRALNARELRIIEER---RLNDEGATLEALGETLGISKERVRQIEARAMEKLK 272 >gi|226323675|ref|ZP_03799193.1| hypothetical protein COPCOM_01450 [Coprococcus comes ATCC 27758] gi|225207859|gb|EEG90213.1| hypothetical protein COPCOM_01450 [Coprococcus comes ATCC 27758] Length = 205 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 60/191 (31%), Positives = 103/191 (53%), Gaps = 8/191 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++ ++ NLRLV+SV K+++ DL Q G IGL+KA F+ L KFSTYA+ Sbjct: 13 AKEQYIKGNLRLVLSVIKRFSGSSENPDDLFQIGCIGLIKAINNFNPELEVKFSTYAVPM 72 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D + +IR+ +RD +K + ++EPT +EIA+++ + E + Sbjct: 73 IIGEIRRFIRDNN-SIRVSRSLRDTAYKAIYAKENYVKVNQKEPTVQEIAEEIGIAKEEI 131 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P+SL P+ ++ D ++ D I DK + D ++ + + + L Sbjct: 132 VYALDAIQMPVSLNEPVYNDNGDAMYVMDQISDKR--NKEDRWVE---KLSLQAAMDRLG 186 Query: 622 PREERVLRMRF 632 RE+ ++R+RF Sbjct: 187 KREKYIIRLRF 197 >gi|146295518|ref|YP_001179289.1| FliA/WhiG family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145409094|gb|ABP66098.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 257 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 57/192 (29%), Positives = 101/192 (52%), Gaps = 11/192 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V +L + VAKK+ NRG+++ DL Q + L+ A E+F+ GYKF+++A + Sbjct: 31 RNELVNRHLYIAEIVAKKFINRGIEYDDLYQVACMALINAVERFEPNKGYKFTSFATPTI 90 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D++ IR+P + + K+ +S K+K+ P EEIA+ + + E V Sbjct: 91 MGEIKRYFRDRASLIRLPRRIYETSAKIKLATEILSAKLKQPPKIEEIAQYIGITPEEVL 150 Query: 565 KVLKITKE--PISLETPIGDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLASL 620 +V++ + P SL+ + +++ LGD + D+N V Q ET + + L Sbjct: 151 EVMEASNNYLPQSLDQTMYEDEEMTLGDVLGKSDENLV-------QIENTETVKKAIDKL 203 Query: 621 TPREERVLRMRF 632 +P E ++ RF Sbjct: 204 SPLEREFVQKRF 215 >gi|239623681|ref|ZP_04666712.1| RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239521712|gb|EEQ61578.1| RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 239 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 56/169 (33%), Positives = 93/169 (55%), Gaps = 6/169 (3%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++M +G+ A+ ++V N+ L+ S+ ++++ RG + DL Q G+IGL+KA +KFD Sbjct: 7 LINMAHEGD---KAARDQLVMDNVGLIWSIVRRFSGRGYEMEDLFQIGSIGLIKAIDKFD 63 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ KV M+ + REPT Sbjct: 64 TGFEVKFSTYAVPMITGEIKRFLRDDGM-IKVSRSIKELGFKVRAAREEMTYSLGREPTI 122 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKN 596 EEIA +L E V ++ E SL P GD++T L D +E++N Sbjct: 123 EEIAARLDTSREEVAASMEAGAEVESLYRPTGNGDDNTMFLMDRLEEEN 171 >gi|167507899|gb|ABZ81270.1| RpoD [Thalassospira sp. MCCC 1A00350] gi|167507915|gb|ABZ81278.1| RpoD [Thalassospira sp. MCCC 1A01057] gi|167507925|gb|ABZ81283.1| RpoD [Thalassospira sp. MCCC 1A01148] gi|167507933|gb|ABZ81287.1| RpoD [Thalassospira sp. MCCC 1A01275] gi|167507969|gb|ABZ81305.1| RpoD [Thalassospira sp. MCCC 1A02096] Length = 257 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 101 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGEAVPAATEKRYNKLKNEMV 160 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ + ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 161 DLMEDVHLNNFRIEELLDHMTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 220 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV D I +R + +S E Sbjct: 221 WMERVGGLPGKGWKTFVERYSDEIANLREGVGGVSAE 257 >gi|90420276|ref|ZP_01228184.1| RNA polymerase major sigma-32 factor [Aurantimonas manganoxydans SI85-9A1] gi|90335610|gb|EAS49360.1| RNA polymerase major sigma-32 factor [Aurantimonas manganoxydans SI85-9A1] Length = 289 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 72/245 (29%), Positives = 124/245 (50%), Gaps = 30/245 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A K+ + GL DLIQEG++GL++AA +F+ +FSTYA WW Sbjct: 40 ALHKITSAHMRLVISMAAKFRHFGLAMNDLIQEGHVGLLEAAARFEPEREVRFSTYATWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ +I I +R K + R R+S T + K++A Sbjct: 100 IRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARLSQGADGGVTGSAMYKEIA---- 155 Query: 562 GVRKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAV----------SPL-DSAIQANL 609 LK+++ ++L ++ + D+S +ED++ SPL D + ++ Sbjct: 156 ---TALKVSEGDVALMDSRLSGPDSSLNAPLMEDESGSADRQDFLVSNSPLPDEMVSVSI 212 Query: 610 ---RETT--TRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 R T L L+ RE +++R R + D TLE +G + +++ER+RQIE +A Sbjct: 213 DDERRVTWLHSALDVLSERELKIIRER---RLQDDGATLEALGTKLGISKERVRQIETRA 269 Query: 664 IRKLK 668 + KL+ Sbjct: 270 LEKLR 274 >gi|332995320|gb|AEF05375.1| RNA polymerase sigma factor [Alteromonas sp. SN2] Length = 284 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/242 (25%), Positives = 129/242 (53%), Gaps = 10/242 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR E E A +++V ++LR V+ +AK Y+ GL DLIQEGNIGLMKA ++FD +G Sbjct: 41 VRLREDEDLEAARKLVMSHLRFVVHIAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPTVG 100 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 + ++A+ W+K I + +++ + K+ +R A++ E + + Sbjct: 101 VRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQRKLFFNLRKAKKRLGWFTHEEV-QTV 159 Query: 553 AKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNA---VSPLDSAIQ 606 A +L + + V ++ +++ + + + +++T + F+EDK+ + +++ Sbjct: 160 ASELGVSTKEVLQMEARMSSQDQAFDLSADEDETGNFAPVQFLEDKSTDVEMDVINNDWD 219 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 N + + +L R + ++ R+ ++ TL+++ ++ V+ ER+RQIE A++K Sbjct: 220 TNASKRLYSAIKTLDDRSQDIIETRW--LADSKITLQDLADKYEVSAERVRQIEKNAMKK 277 Query: 667 LK 668 L+ Sbjct: 278 LQ 279 >gi|318056726|ref|ZP_07975449.1| SigL-like sigma factor [Streptomyces sp. SA3_actG] gi|318075360|ref|ZP_07982692.1| SigL-like sigma factor [Streptomyces sp. SA3_actF] Length = 316 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 119/238 (50%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 83 EGTHAHSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 142 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PTP E+A+K Sbjct: 143 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTPSELAEK 202 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + +EG+ T + + P D+ S L D + + D ++ Sbjct: 203 LGIEREEVIEGMAASNAYTASSLDAQ-PEEDDSESALADRLGYE------DHGLEGIEYI 255 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 256 ESLKPMIARLPQRDRKILSLRFVANM----TQSEIGEELGISQMHVSRLLSRTLVKLR 309 >gi|169823706|ref|YP_001691317.1| RNA polymerase sigma B factor [Finegoldia magna ATCC 29328] gi|302380124|ref|ZP_07268597.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna ACS-171-V-Col3] gi|303234447|ref|ZP_07321085.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna BVS033A4] gi|167830511|dbj|BAG07427.1| RNA polymerase sigma B factor [Finegoldia magna ATCC 29328] gi|302312066|gb|EFK94074.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna ACS-171-V-Col3] gi|302494402|gb|EFL54170.1| RNA polymerase sigma-70 factor, sigma-B/F/G family protein [Finegoldia magna BVS033A4] Length = 258 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 118/228 (51%), Gaps = 18/228 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE NL + +AKKYT RG+++ DL Q IGL+ A +++D GY+FS+YA + Sbjct: 33 LVEKNLYIAEILAKKYTGRGIEYDDLYQVACIGLIYAIDRYDPSKGYEFSSYATPTIVGE 92 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ IR+P +++ KV +S +++ PT E+IA L++ E V +VL Sbjct: 93 IKKYFRDKGWVIRVPRRIQELNKKVATAKVHLSQTMQKSPTVEDIADYLSISNEEVLEVL 152 Query: 568 KITK--EPISLETPI--GDED-TSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLASL 620 + K P SL+ I +ED ++L D I EDK+ ++ R+ R + L Sbjct: 153 EGAKVYAPQSLDQSIDQSNEDRETNLSDLIGEEDKD-------MLKFENRDLINRCMQDL 205 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++L R+ T + ++ +++ + ++E K ++K K Sbjct: 206 NKVERKILLGRYF----DKKTQIVIAEELDISQMTVSRMEKKILKKFK 249 >gi|298490935|ref|YP_003721112.1| FliA/WhiG subfamily RNA polymerase sigma 28 subunit ['Nostoc azollae' 0708] gi|298232853|gb|ADI63989.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily ['Nostoc azollae' 0708] Length = 265 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 118/243 (48%), Gaps = 10/243 (4%) Query: 423 SISEFRHIVSMVRK--GECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNI 479 + +E +H +S + + +C + + ++V+ N LV A + N+ + + DLIQ G + Sbjct: 12 ATNELKHEISQLLREYQQCPSERLRNQLVKVNFGLVRKEAHYWINQCQESYDDLIQVGCL 71 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL++A EKF+ G FS+YA+ +++ I + D+ T+RIP + + +R + Sbjct: 72 GLIRAIEKFELSKGNAFSSYAIPYIRGEIQHYLRDKGVTMRIPRRWLALQQQAIGLSRSL 131 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPI--GDEDTSHLGDFIEDK 595 K R+PT E+A LA+ + K+ + + P+SL+ PI G+E S LG+ + D Sbjct: 132 REKYNRQPTDAELAAVLAISLSEWEEIKLAWMNRSPLSLDVPIKDGEEGASCLGELVPDP 191 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 + S A + +R + L L R VL F + E +G R Sbjct: 192 HYRS-FQLAQEDQIR--LQQALVQLENRTREVLECVFLQDLTQKQVAEHLGISVVTVSRR 248 Query: 656 IRQ 658 +++ Sbjct: 249 VKK 251 >gi|238921550|ref|YP_002935065.1| RNA polymerase factor sigma-32 [Edwardsiella ictaluri 93-146] gi|238871119|gb|ACR70830.1| alternative sigma factor RpoH, putative [Edwardsiella ictaluri 93-146] Length = 284 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 68/275 (24%), Positives = 141/275 (51%), Gaps = 20/275 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E ++ E H KG+ +A+ K+++ ++LR V+ VA+ Sbjct: 16 LEAYVRAANAYPMLTAEEERALGERLHY-----KGDLDAA---KQLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + V ++ ++ + ++ + P Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVSEKDVLEMESRMAAQDMAFDLP 185 Query: 580 IGDEDTSHLGD---FIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 DE F++DK+ A D +++ + + L L R + ++R R+ Sbjct: 186 GDDEQEGAPAAPVLFLQDKSSDFANEIEDDNWESHAADKLSVALEGLDERSQHIIRARW- 244 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 245 LDSDNKATLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|302521363|ref|ZP_07273705.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] gi|302430258|gb|EFL02074.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] Length = 312 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 119/238 (50%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 79 EGTHAHSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 138 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PTP E+A+K Sbjct: 139 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTPSELAEK 198 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + +EG+ T + + P D+ S L D + + D ++ Sbjct: 199 LGIEREEVIEGMAASNAYTASSLDAQ-PEEDDSESALADRLGYE------DHGLEGIEYI 251 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 252 ESLKPMIARLPQRDRKILSLRFVANM----TQSEIGEELGISQMHVSRLLSRTLVKLR 305 >gi|167507949|gb|ABZ81295.1| RpoD [Thalassospira sp. MCCC 1A02030] gi|167507951|gb|ABZ81296.1| RpoD [Thalassospira sp. MCCC 1A02031] Length = 258 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 50/157 (31%), Positives = 90/157 (57%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 102 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVALNKGEAVPAATEKRYAKLKNEMV 161 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 +L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 162 ELMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 221 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ + I K+R ++ +S E Sbjct: 222 WMERVAGLPGKGWKAFIERYPEEIAKLREDVGGVSAE 258 >gi|264680055|ref|YP_003279964.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni CNB-2] gi|262210570|gb|ACY34668.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni CNB-2] Length = 324 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 73/253 (28%), Positives = 124/253 (49%), Gaps = 33/253 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 70 AAGRLVMSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP--TPEEIAKKLAMP-- 559 +K I I +++ + K+ R M + +K + EE+A + + Sbjct: 130 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKHDLKSDAAMADEELALRETLTSN 187 Query: 560 -VEGVRKVLKITKEP-ISLETPIGDEDT-----------------SHLGDFIEDKNAVSP 600 ++ V L + +E I +ET + D ++L D + A+ Sbjct: 188 EIDAVAAKLNVKREEVIEMETRLAGGDVLLDPSPSDDGEQAFGPIAYLADASHEPTAM-- 245 Query: 601 LDSAIQANL-RETTTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRER 655 L+S + +L + L L R R++ R+ + +N D TL E+ ++ V+ ER Sbjct: 246 LESRQRDHLATDGLVMALEGLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAEYGVSAER 304 Query: 656 IRQIEAKAIRKLK 668 IRQIE A++K+K Sbjct: 305 IRQIEVAAMKKMK 317 >gi|312622111|ref|YP_004023724.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kronotskyensis 2002] gi|312202578|gb|ADQ45905.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kronotskyensis 2002] Length = 240 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 117/228 (51%), Gaps = 12/228 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A+++++E+NL LV SV KK+ +G++ DL Q G+IGL+KA ++FD +FSTYA+ Sbjct: 19 LARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGSIGLIKAVDRFDPSFNVRFSTYAVP 78 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + I R + D I++ +++ K+ + + + REPT EI++ + + Sbjct: 79 MIIGEIKRYLRDDG-KIKVSRKIKENQGKIKKLRNQFVSNHGREPTISEISQLTGLSNDE 137 Query: 563 VRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 + L + E SL I E+ L D D+ S + A L+E L L Sbjct: 138 ILLCLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLLDLMA-LKEG----LKKL 192 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ MR+ + T E+ KQ +++ + +IE +A+ ++K Sbjct: 193 KGRERYIIFMRYF----KNKTQSEIAKQLNISQVHVSRIEKRALERIK 236 >gi|56963560|ref|YP_175291.1| sporulation sigma factor SigF [Bacillus clausii KSM-K16] gi|56909803|dbj|BAD64330.1| DNA-directed RNA polymerase sigma factor sigma-F [Bacillus clausii KSM-K16] Length = 254 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 68/259 (26%), Positives = 131/259 (50%), Gaps = 17/259 (6%) Query: 412 EIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL 471 E+K+ + +S + + +++ ++G+ EA + +V N RLV SV +++ NRG + Sbjct: 4 EVKNGGKKKPLSDKQVKELIAKSQEGDTEA---RDSIVNHNTRLVWSVVQRFLNRGYEAD 60 Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL Q G IGL+K+ +KFD KFSTYA+ + I R + D T+++ +++ +K Sbjct: 61 DLFQIGCIGLIKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSIKELSNK 119 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLG 589 + + ++ ++R PT EIA+ L + E + + S+ + D D L Sbjct: 120 IRKAKDELTKTLRRAPTINEIAEHLGVTPEEIVFAGDANRSLSSIHETVYENDGDPITLL 179 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 D I D + V D + L+E + L RE ++ +R+ D T EV ++ Sbjct: 180 DQIADHSQVKWFD---KIALKEA----ICDLGERERLIVYLRY----YKDQTQSEVAERL 228 Query: 650 CVTRERIRQIEAKAIRKLK 668 +++ ++ ++E K + ++K Sbjct: 229 GISQVQVSRLEKKILEQMK 247 >gi|294138987|ref|YP_003554965.1| RNA polymerase sigma-32 factor [Shewanella violacea DSS12] gi|293325456|dbj|BAJ00187.1| RNA polymerase sigma-32 factor [Shewanella violacea DSS12] Length = 286 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 74/244 (30%), Positives = 124/244 (50%), Gaps = 33/244 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + +++ + K+ R+ ++ E V V Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKSKKRLGWFSDAE---------VGMV 160 Query: 564 RKVLKITKEPIS-LETPIGDED-----TSHLGDFIEDKNAVSPLD--SAIQANLRET--- 612 + L ++K ++ +E+ + +D S D I+D L+ S+ AN ET Sbjct: 161 AENLGVSKADVTEMESRMAAQDPAFDLASDNDDDIQDYAPALYLEDHSSDLANQVETDNF 220 Query: 613 ----TTRVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAI 664 TR+LA++ +ER +L+ R+ +N D TL+E+ + V+ ERIRQ+E A+ Sbjct: 221 EADNQTRLLAAIKTLDERSQHILQARW---LNEDKTTLQELAATYQVSAERIRQLEKNAM 277 Query: 665 RKLK 668 KLK Sbjct: 278 NKLK 281 >gi|238750715|ref|ZP_04612214.1| RNA polymerase sigma-32 factor [Yersinia rohdei ATCC 43380] gi|238711105|gb|EEQ03324.1| RNA polymerase sigma-32 factor [Yersinia rohdei ATCC 43380] Length = 285 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 123/235 (52%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQA-----NLRETT 613 VR++ +++ + ++ + DE D + + ++ S +I+ + + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADSIEEDNWDDHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 SYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|254519401|ref|ZP_05131457.1| RNA polymerase [Clostridium sp. 7_2_43FAA] gi|226913150|gb|EEH98351.1| RNA polymerase [Clostridium sp. 7_2_43FAA] Length = 241 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 70/240 (29%), Positives = 124/240 (51%), Gaps = 18/240 (7%) Query: 438 ECEASIAKKE-MVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 EC++ I KE +VE + LV +A + + +++ DL+ G +GL+ A ++D G Sbjct: 2 ECQSPIIHKEQIVEKYIPLVKYLASRVMLGKTKYIEYEDLVSYGIVGLLDAINRYDSTKG 61 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVH--MRDKIHKVVRTARRMSNKIKREPTPEE 551 KFS+YA +K A+ I + C P+ DK+ K ++ N+ REP+ +E Sbjct: 62 MKFSSYATLRIKGAMIDEI--RKCR---PISKGAMDKLAKYNECVEKLQNRYMREPSLQE 116 Query: 552 IAKKLAMPVEGVRKVLKITK--EPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 IA +L + E V +V ISLE+ I D+D + + +EDKN++SP +S Sbjct: 117 IALELNISEEEVSQVENYINYMSIISLESIIYSDDDDVTIMETLEDKNSISPEESLEDKE 176 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + L +++ +L + + + TL+E+G+ V+ R+ Q+ ++AIR L+ Sbjct: 177 KLEILAEAIEKLKDKDKLILNLYYYEKL----TLKEIGQILEVSESRVCQLHSRAIRNLR 232 >gi|1710647|sp|P50510|RP32_SERMA RecName: Full=RNA polymerase sigma-32 factor gi|1143376|dbj|BAA09442.1| sigma-32 homolog [Serratia marcescens] Length = 285 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAI-----QANLRETT 613 VR++ ++ + ++ + DE D + + ++ S I ++N + Sbjct: 167 DVREMESRMAAQDMTFDPTPDDEARDGQSMAPVLYLQDKSSDFAEGIEEDNWESNAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KLK Sbjct: 227 AYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLK 280 >gi|238798006|ref|ZP_04641495.1| RNA polymerase sigma-32 factor [Yersinia mollaretii ATCC 43969] gi|238718109|gb|EEQ09936.1| RNA polymerase sigma-32 factor [Yersinia mollaretii ATCC 43969] Length = 285 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-----ANLRETT 613 VR++ +++ + ++ + DE D + + ++ S +I+ + + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADSIEEDNWDGHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 AYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|302555286|ref|ZP_07307628.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302472904|gb|EFL35997.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 264 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 75/234 (32%), Positives = 116/234 (49%), Gaps = 16/234 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + ++ E +A + E+VEA L + +A ++ +RG F DL Q +GL+KA + Sbjct: 22 FRRLATLPAGPERDA--LRDEIVEAWLPMADRLAGRFRSRGESFEDLRQVAALGLVKAVD 79 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-R 545 ++D LG F +YA+ V I R D T+ +P ++D ++V ++ +S I R Sbjct: 80 RYDPELGNAFESYAVPTVTGEIKRHFRDHMWTLHVPRRVQDLRNRVRVASQDLSQTISGR 139 Query: 546 EPTPEEIAKKLAMPVEGVRKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSP- 600 PT EIA+ M + V+ L+ T + E P G ED L D + +V P Sbjct: 140 RPTIAEIAEHAKMSEDDVKAGLEALESFTALSLDAELP-GSEDGYSLSDAL---GSVDPA 195 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 LD+ + RE+ LA+L RE +L MRF M EE+G Q V+R Sbjct: 196 LDTVVD---RESVKARLAALPERERAILYMRFFGDMTQSRIAEELGISQMHVSR 246 >gi|153947554|ref|YP_001399239.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis IP 31758] gi|152959049|gb|ABS46510.1| alternative sigma factor RpoH [Yersinia pseudotuberculosis IP 31758] Length = 285 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRET-----T 613 VR++ +++ + ++ + DE D + + ++ S I+ + +T Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQFMAPVLYLQDKTSDFADGIEEDNWDTHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R + ++R R+ + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 SYALEGLDERSQHIIRARW-LDDENKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|159901988|gb|ABX10718.1| RNA polymerase sigma factor [uncultured planctomycete 13FN] Length = 391 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 110/230 (47%), Gaps = 61/230 (26%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A + +++ANLRLV+S+A+++ + +LI +GN+ LMKA ++F++ LG++FSTY Sbjct: 205 DARQVRDHIIQANLRLVVSIARRFVTDFISLDELISDGNLILMKAVDRFNFSLGFRFSTY 264 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A V++ R+ + RR Sbjct: 265 ATHAVQRDFYRN---------------------YKNGRR--------------------- 282 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R+V++I +P L + D I D +AV+ L + + + Sbjct: 283 ----RRVMEIATDPAVLFGSVVASDDEQQ---INDVHAVAYLKKLL-----------VDA 324 Query: 620 LTPREERVLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+PRE+ +L MR G+ + TL EVG++ +++ER+RQ++ +AI +++ Sbjct: 325 LSPREQTILDMRLGLKADDGGKTLREVGEKLSISKERVRQLQTRAIEQVR 374 >gi|270264290|ref|ZP_06192557.1| RNA polymerase sigma-32 factor [Serratia odorifera 4Rx13] gi|270041939|gb|EFA15036.1| RNA polymerase sigma-32 factor [Serratia odorifera 4Rx13] Length = 285 Score = 84.3 bits (207), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 127/243 (52%), Gaps = 16/243 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KQLILSHLRFVAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLE-TPIGD-EDTSHLGDFIEDKNAVSPLDSAI----- 605 ++L + + VR++ ++ + ++ + TP D D + + ++ S I Sbjct: 159 RELGVTSKDVREMESRMAAQDMTFDPTPDDDARDGQSMAPVLYLQDKSSDFAEGIEEDNW 218 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++N + L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++ Sbjct: 219 ESNAADKLAYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMK 277 Query: 666 KLK 668 KLK Sbjct: 278 KLK 280 >gi|325913818|ref|ZP_08176177.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas vesicatoria ATCC 35937] gi|325539893|gb|EGD11530.1| RNA polymerase, sigma 32 subunit, RpoH [Xanthomonas vesicatoria ATCC 35937] Length = 291 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 120/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 223 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE +A L R +++ R+ + + TL+E+ ++ V+ ERIRQIE Sbjct: 224 SEDNQLQLLREG----MAGLDTRSRDIVKRRW-LDSESKVTLQELADEYGVSAERIRQIE 278 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 279 ANALKKMK 286 >gi|260589293|ref|ZP_05855206.1| RNA polymerase sigma-F factor [Blautia hansenii DSM 20583] gi|331082700|ref|ZP_08331823.1| hypothetical protein HMPREF0992_00747 [Lachnospiraceae bacterium 6_1_63FAA] gi|260540374|gb|EEX20943.1| RNA polymerase sigma-F factor [Blautia hansenii DSM 20583] gi|330400319|gb|EGG79961.1| hypothetical protein HMPREF0992_00747 [Lachnospiraceae bacterium 6_1_63FAA] Length = 237 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 117/227 (51%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + E N+ LV S+A+++ NRG + DL+Q G IGL+KA +KFD +FSTYA+ Sbjct: 18 ARDILTEKNMGLVHSIARRFQNRGAELEDLVQIGCIGLLKAIDKFDLSYEVRFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ K + K +EP+ EEIAK+L++ E + Sbjct: 78 ITGEIKRFLRDDGM-VKVSRSLKEAAGKAYAVREELLMKTGQEPSMEEIAKELSVSEEEL 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR--VLASLT 621 ++ + + SL+ I D S + +EDK P + Q + + +L SL Sbjct: 137 IMAMESSAQVESLQKTIYQSDGSDIA--LEDK---LPYEKDEQEEVLDKLLLEDILGSLN 191 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ +RF + T + K +++ ++ ++E K ++ L+ Sbjct: 192 ARERELIYLRF----FKEKTQTSIAKMMGMSQVQVSRLEKKILKALR 234 >gi|21233199|ref|NP_639116.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66770141|ref|YP_244903.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. 8004] gi|188993348|ref|YP_001905358.1| RNA polymerase factor sigma-32 [Xanthomonas campestris pv. campestris str. B100] gi|3046929|gb|AAC38329.1| heat shock sigma factor 32 [Xanthomonas campestris pv. campestris] gi|21115547|gb|AAM43471.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|66575473|gb|AAY50883.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris str. 8004] gi|167735108|emb|CAP53320.1| RNA polymerase sigma-32 factor [Xanthomonas campestris pv. campestris] Length = 291 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 118/243 (48%), Gaps = 30/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 56 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPEMGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 116 IRAEMHEFILKNWRIVKV---------ATTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 164 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAI-------QA------ 607 K L ++ +E + +E+ + D D +D SP+ + QA Sbjct: 165 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPVSYLVANEEDPSQAYERHDS 224 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 N + +A L R +++ R+ + + TL+E+ ++ V+ ERIRQIEA A++ Sbjct: 225 EDNQLQLLREGMAGLDTRSRDIVKRRW-LDSESKVTLQELADEYGVSAERIRQIEANALK 283 Query: 666 KLK 668 K+K Sbjct: 284 KMK 286 >gi|259910110|ref|YP_002650466.1| RNA polymerase factor sigma-32 [Erwinia pyrifoliae Ep1/96] gi|224965732|emb|CAX57264.1| RNA polymerase sigma-32 factor [Erwinia pyrifoliae Ep1/96] gi|283480207|emb|CAY76123.1| RNA polymerase sigma-32 factor [Erwinia pyrifoliae DSM 12163] gi|310765698|gb|ADP10648.1| RNA polymerase factor sigma-32 [Erwinia sp. Ejp617] Length = 284 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 72/286 (25%), Positives = 141/286 (49%), Gaps = 42/286 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E +++E H +G EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRAANAWPMLTAEEEKALAERLHY-----QGCLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R A++ ++ E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKAKQRLGWFNQDEV-EMVARELGVSSKDVREMESRMAAQDMTFDPTP 186 Query: 581 GDED--------------TSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASLTP 622 DE +S + IE+ N A L+ A+Q L Sbjct: 187 DDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLNDAMQG------------LDE 234 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 235 RSQHIIRARW-LDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLR 279 >gi|90581423|ref|ZP_01237218.1| RNA polymerase sigma factor [Vibrio angustum S14] gi|90437400|gb|EAS62596.1| RNA polymerase sigma factor [Vibrio angustum S14] Length = 286 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 124/234 (52%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + K +V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 49 SAKALVMSHLRFVVHIARGYSGYGLPIADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R +++ + +A++L + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKSKKRLGWFNNDEV-NMVAEQLGVEPSD 167 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGD--FIEDKN---AVSPLDSAIQANLRETTT 614 VR++ L ++ + DT+ + ++EDK+ A++ ++ + + + Sbjct: 168 VREMESRLAAQDPTFEMQNDDDERDTTPVAPAYYLEDKSSDLALTYEENNWENHANNRLS 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + LASL R + ++R R+ + TL+++ + V+ ERIRQ+E A++KLK Sbjct: 228 QALASLDERSQHIVRSRWLD--DEKSTLQDLADNYGVSAERIRQLEKNAMKKLK 279 >gi|22124334|ref|NP_667757.1| RNA polymerase factor sigma-32 [Yersinia pestis KIM 10] gi|45442990|ref|NP_994529.1| RNA polymerase factor sigma-32 [Yersinia pestis biovar Microtus str. 91001] gi|51594579|ref|YP_068770.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis IP 32953] gi|108806209|ref|YP_650125.1| RNA polymerase factor sigma-32 [Yersinia pestis Antiqua] gi|108810319|ref|YP_646086.1| RNA polymerase factor sigma-32 [Yersinia pestis Nepal516] gi|145600678|ref|YP_001164754.1| RNA polymerase factor sigma-32 [Yersinia pestis Pestoides F] gi|153997132|ref|ZP_02022265.1| RNA polymerase sigma-32 factor [Yersinia pestis CA88-4125] gi|162418961|ref|YP_001605171.1| RNA polymerase factor sigma-32 [Yersinia pestis Angola] gi|165926363|ref|ZP_02222195.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. F1991016] gi|165939186|ref|ZP_02227737.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. IP275] gi|166011667|ref|ZP_02232565.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. E1979001] gi|166213537|ref|ZP_02239572.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. B42003004] gi|167401873|ref|ZP_02307361.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167420986|ref|ZP_02312739.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167426241|ref|ZP_02317994.1| alternative sigma factor RpoH [Yersinia pestis biovar Mediaevalis str. K1973002] gi|170026187|ref|YP_001722692.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis YPIII] gi|186893581|ref|YP_001870693.1| RNA polymerase factor sigma-32 [Yersinia pseudotuberculosis PB1/+] gi|218930813|ref|YP_002348688.1| RNA polymerase factor sigma-32 [Yersinia pestis CO92] gi|229837138|ref|ZP_04457303.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Pestoides A] gi|229839498|ref|ZP_04459657.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229900061|ref|ZP_04515198.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229900493|ref|ZP_04515622.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Nepal516] gi|270488848|ref|ZP_06205922.1| alternative sigma factor RpoH [Yersinia pestis KIM D27] gi|294505476|ref|YP_003569538.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|21957109|gb|AAM84008.1|AE013642_9 RNA polymerase, sigma(32) factor [Yersinia pestis KIM 10] gi|45437857|gb|AAS63406.1| RNA polymerase sigma-32 factor [Yersinia pestis biovar Microtus str. 91001] gi|51587861|emb|CAH19464.1| RNA polymerase sigma-32 factor [Yersinia pseudotuberculosis IP 32953] gi|108773967|gb|ABG16486.1| RNA polymerase sigma-32 factor [Yersinia pestis Nepal516] gi|108778122|gb|ABG12180.1| RNA polymerase sigma-32 factor [Yersinia pestis Antiqua] gi|115349424|emb|CAL22397.1| RNA polymerase sigma-32 factor [Yersinia pestis CO92] gi|145212374|gb|ABP41781.1| RNA polymerase sigma-32 factor [Yersinia pestis Pestoides F] gi|149289438|gb|EDM39516.1| RNA polymerase sigma-32 factor [Yersinia pestis CA88-4125] gi|162351776|gb|ABX85724.1| alternative sigma factor RpoH [Yersinia pestis Angola] gi|165912959|gb|EDR31585.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. IP275] gi|165921887|gb|EDR39084.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. F1991016] gi|165989436|gb|EDR41737.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. E1979001] gi|166205210|gb|EDR49690.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. B42003004] gi|166961115|gb|EDR57136.1| alternative sigma factor RpoH [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167048766|gb|EDR60174.1| alternative sigma factor RpoH [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167054760|gb|EDR64564.1| alternative sigma factor RpoH [Yersinia pestis biovar Mediaevalis str. K1973002] gi|169752721|gb|ACA70239.1| RNA polymerase, sigma 32 subunit, RpoH [Yersinia pseudotuberculosis YPIII] gi|186696607|gb|ACC87236.1| RNA polymerase, sigma 32 subunit, RpoH [Yersinia pseudotuberculosis PB1/+] gi|229682512|gb|EEO78599.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Nepal516] gi|229686841|gb|EEO78920.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. India 195] gi|229695864|gb|EEO85911.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis biovar Orientalis str. PEXU2] gi|229706081|gb|EEO92090.1| RNA polymerase, sigma 32 (sigma H) factor [Yersinia pestis Pestoides A] gi|262363541|gb|ACY60262.1| RNA polymerase sigma factor [Yersinia pestis D106004] gi|262367470|gb|ACY64027.1| RNA polymerase sigma factor [Yersinia pestis D182038] gi|270337352|gb|EFA48129.1| alternative sigma factor RpoH [Yersinia pestis KIM D27] gi|294355935|gb|ADE66276.1| RNA polymerase sigma factor [Yersinia pestis Z176003] gi|320013591|gb|ADV97162.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 285 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-----ANLRETT 613 VR++ +++ + ++ + DE D + + ++ S I+ ++ + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQFMAPVLYLQDKTSDFADGIEEDNWDSHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R + ++R R+ + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 SYALEGLDERSQHIIRARW-LDDENKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|58583919|ref|YP_202935.1| RNA polymerase factor sigma-32 [Xanthomonas oryzae pv. oryzae KACC10331] gi|58428513|gb|AAW77550.1| RNA polymerase sigma-32 factor [Xanthomonas oryzae pv. oryzae KACC10331] Length = 329 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 121/248 (48%), Gaps = 40/248 (16%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ VA+ Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 94 AARELVHSHLRFVVHVARGYNGYGLPLGDLIQEGNIGLMKAVKRFDPDMGVRLVSFAVHW 153 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ + I +++ + R++ +++ T + A V V Sbjct: 154 IRAEMHEFILKNWRIVKVA---------TTKAQRKLFFNLRKSKT--RLGWLNASEVTAV 202 Query: 564 RKVLKIT-KEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQAN------------ 608 K L ++ +E + +E+ + D D +D SP+ S + AN Sbjct: 203 AKDLNVSEREVMEMESRLSGRDIGFDASSDEDDDHGPPSPV-SYLVANEEDPSQAYERHD 261 Query: 609 --------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LRE +A L R +++ R+ + ++ TL+E+ ++ V+ ERIRQIE Sbjct: 262 SEDNQLQLLREG----MAGLDTRSRDIVKRRW-LDSDSKVTLQELADEYGVSAERIRQIE 316 Query: 661 AKAIRKLK 668 A A++K+K Sbjct: 317 ANALKKMK 324 >gi|297157938|gb|ADI07650.1| SigL-like sigma factor [Streptomyces bingchenggensis BCW-1] Length = 322 Score = 84.3 bits (207), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 121/241 (50%), Gaps = 16/241 (6%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ +G E + + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ Sbjct: 86 ILEEGTHEYAYVRNTLVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFELSR 145 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+ Sbjct: 146 GVEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTAGEL 205 Query: 553 AKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA- 607 A++L + +EG+ T + + P D+ L D I + D ++ Sbjct: 206 AERLGLTTAEVIEGMAASNAYTASSLDAQ-PEEDDTEGALADRIGYE------DHGLEGI 258 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E+ ++A L+PR+ ++L +RF M T E+G + +++ + ++ ++ + +L Sbjct: 259 EYVESLKPLIADLSPRDRKILSLRFVANM----TQSEIGDELGISQMHVSRLLSRTLVRL 314 Query: 668 K 668 + Sbjct: 315 R 315 >gi|323345486|ref|ZP_08085709.1| RNA polymerase sigma-43 factor [Prevotella oralis ATCC 33269] gi|323093600|gb|EFZ36178.1| RNA polymerase sigma-43 factor [Prevotella oralis ATCC 33269] Length = 238 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 116/236 (49%), Gaps = 49/236 (20%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + + +ANL+ V+ +AK+Y ++G+ DL+ EGNIGL+ AA+K+ +F+ +A + Sbjct: 41 ALERLTKANLKFVVFIAKQYQHQGVDMEDLVSEGNIGLLYAAKKYTPSKEKRFAPFAAPF 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++ I + + Q + R+S + E Sbjct: 101 IRKQIEQLLLRQGAD----------------SQSRLSASLTSE----------------- 127 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSP----LDSAIQANLRETTTRVL 617 +K+ +S+E PI G ++ +L ++D NA+ D + +A L RV Sbjct: 128 ------SKKVVSVEAPIPAGSRNSFNLLHVLKDTNALMADEHINDESFKAELERLMRRV- 180 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L R+++V+ + FGIG HTL E+G + RER+RQI KA++K++ +++ Sbjct: 181 --LDQRQQQVISLFFGIGCE-KHTLMEIGDFMNLKRERVRQIRDKALQKIRKIAKT 233 >gi|164687591|ref|ZP_02211619.1| hypothetical protein CLOBAR_01232 [Clostridium bartlettii DSM 16795] gi|164603365|gb|EDQ96830.1| hypothetical protein CLOBAR_01232 [Clostridium bartlettii DSM 16795] Length = 255 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 73/241 (30%), Positives = 120/241 (49%), Gaps = 14/241 (5%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ V+ G+ EA K ++ +NL LV SV K++N G + DL Q G+IGL+KA KFD Sbjct: 22 LIQKVQNGDEEA---KALLISSNLGLVRSVIGKFSNIGYERDDLFQLGSIGLIKAIYKFD 78 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D +++ ++ KV +S K+ R+PT Sbjct: 79 PSYNVKFSTYAVPMILGEIKRYLRDDGM-VKVSRSLKQLAIKVKMQGEMLSKKLGRDPTI 137 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA 607 EE+A+ + + E V ++ L+ I +E+ S L D I K Sbjct: 138 EELAEAIGVEKEDVVMAIESNFSVEYLQGVIHEEEGSPICLIDKISQKGEAEEDKVVDNI 197 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E VL L RE +++ +R+ D T E+G+ +++ ++ +IE K + KL Sbjct: 198 LLKE----VLGKLDKRERQIIMLRY----FEDKTQSEIGELLNISQVQVSRIEKKVLHKL 249 Query: 668 K 668 K Sbjct: 250 K 250 >gi|309378784|emb|CBX22610.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 287 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 129/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 44 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHM-RDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + +P+E A+ Sbjct: 101 LFSFAVHWIKAEIHEFILKNWRLVRVATTKPQRKLFFNLRSMRKNLNAL----SPKE-AQ 155 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 +A + GV+ E + +E + D + + D +D + +P+D Sbjct: 156 SIADDL-GVK-----LSEVLEMEQRMTGRDIAIMADNNDDDDNFAPIDWLADHDSEPSRQ 209 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 210 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 268 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 269 EAKAMQKLR 277 >gi|261400394|ref|ZP_05986519.1| alternative sigma factor RpoH [Neisseria lactamica ATCC 23970] gi|313668808|ref|YP_004049092.1| RNA polymerase sigma-32 factor [Neisseria lactamica ST-640] gi|269209833|gb|EEZ76288.1| alternative sigma factor RpoH [Neisseria lactamica ATCC 23970] gi|313006270|emb|CBN87733.1| putative RNA polymerase sigma-32 factor [Neisseria lactamica 020-06] Length = 290 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 73/249 (29%), Positives = 129/249 (51%), Gaps = 31/249 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 KG+ A+ K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + Sbjct: 47 KGDLNAA---KQLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPGRGAR 103 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I I +R+ + K+ +R+ R+ N + +P+E A+ Sbjct: 104 LFSFAVHWIKAEIHEFILKNWRLVRVATTKPQRKLFFNLRSMRKNLNAL----SPKE-AQ 158 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD------------ 602 +A + GV+ E + +E + D + + D +D + +P+D Sbjct: 159 SIADDL-GVK-----LSEVLEMEQRMTGRDIAIMADNNDDDDNFAPIDWLADHDSEPSRQ 212 Query: 603 ---SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 A A E LA L R R++ R+ + + TL ++ ++ V+ ERIRQI Sbjct: 213 LSKQAHYALQTEGLQNALAQLDDRSRRIVESRW-LQDDGGLTLHQLAAEYGVSAERIRQI 271 Query: 660 EAKAIRKLK 668 EAKA++KL+ Sbjct: 272 EAKAMQKLR 280 >gi|146313497|ref|YP_001178571.1| RNA polymerase factor sigma-32 [Enterobacter sp. 638] gi|145320373|gb|ABP62520.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter sp. 638] Length = 285 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 62/242 (25%), Positives = 128/242 (52%), Gaps = 14/242 (5%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K ++ ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KTLILSHLRFVVHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + +++ + K+ +R A++ +E E +A+ Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKAKQRLGWFNQEEV-EMVAR 159 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 +L + + VR++ ++ + ++ + D +D+ + + ++ S I+ + E Sbjct: 160 ELGVSSKDVREMESRMAAQDMTFDMSSDDDAQDSQPMAPVLYLQDKTSNFADGIEEDNWE 219 Query: 612 -----TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 T + L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++K Sbjct: 220 DQAANKLTHAMEGLDERSQAIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKK 278 Query: 667 LK 668 L+ Sbjct: 279 LR 280 >gi|291464148|gb|ADE05599.1| RNA polymerase sigma factor [Thalassospira tepidiphila] Length = 262 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 106 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGEAVPAATEKRYNKLKNEMV 165 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 166 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 225 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV + I +R I +S E Sbjct: 226 WMERVGGLPGKGWKTFVERYSEEIANLREGIGGVSAE 262 >gi|170750108|ref|YP_001756368.1| RNA polymerase factor sigma-32 [Methylobacterium radiotolerans JCM 2831] gi|170656630|gb|ACB25685.1| RNA polymerase, sigma 32 subunit, RpoH [Methylobacterium radiotolerans JCM 2831] Length = 291 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 124/236 (52%), Gaps = 13/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 41 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPERDVRFSTYATWW 100 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E +EI +++A + Sbjct: 101 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTEEHVGDEIHRRIASAI 158 Query: 561 EGVRKVL-----KITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETT 613 R + +++ +SL P+G++ +S DF+ D + + + Sbjct: 159 GVSRDDVALMDARLSGPDMSLNAPVGEDSDASSERMDFLVDGADLPDETVSATVDGERRL 218 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + +LT ER LR+ + D TLE +G++ +++ER+RQIE +A+ KL+ Sbjct: 219 SWLQQALTVLSERELRILRERRLAEDQATLEALGQRLGISKERVRQIENRALEKLR 274 >gi|188535384|ref|YP_001909181.1| RNA polymerase factor sigma-32 [Erwinia tasmaniensis Et1/99] gi|188030426|emb|CAO98320.1| RNA polymerase sigma-32 factor [Erwinia tasmaniensis Et1/99] Length = 284 Score = 84.0 bits (206), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 71/286 (24%), Positives = 142/286 (49%), Gaps = 42/286 (14%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N ++ E +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LDSYIRAANARPMLTAEEEKALAERLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R A++ ++ E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKAKQRLGWFNQDEV-EMVARELGVSSKDVREMESRMAAQDMTFDPAP 186 Query: 581 GDED--------------TSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASLTP 622 DE +S + IE+ N A L+ A+Q L Sbjct: 187 DDEGEGRSMAPMLYLQDKSSDFANGIEEDNWEDHAADKLNDAMQG------------LDE 234 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 235 RSQHIIRARW-LDDDNKTTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|332289156|ref|YP_004420008.1| RNA polymerase factor sigma-32 [Gallibacterium anatis UMN179] gi|330432052|gb|AEC17111.1| RNA polymerase factor sigma-32 [Gallibacterium anatis UMN179] Length = 281 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 127/237 (53%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVIHIARGYSGYGLPQADLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRM----SNKIKREPTPEEIAKKLA 557 +K I + +++ R + +T +R+ +N++ + +A +L Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNANEV------DMVANELG 162 Query: 558 MPVEGVRKV-LKITKEPISLETPIGD-EDTSHLGDFIEDK--NAVSPLDSA-IQANLRET 612 + E V+++ +++ ++ + P D E+T ++EDK N + L+ + + Sbjct: 163 VSAEDVQEMESRMSGIDMAFDLPTDDSEETYSPALYLEDKSSNFAAELEEENFENQATDQ 222 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L L R +++ R+ + TL+E+ + V+ ERIRQ+E+ A++KL++ Sbjct: 223 LSEALEQLDERSRHIIQTRWLD--DNKATLQELADHYGVSAERIRQLESNALKKLRN 277 >gi|261407955|ref|YP_003244196.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. Y412MC10] gi|329929288|ref|ZP_08283041.1| RNA polymerase sigma factor, FliA/WhiG family [Paenibacillus sp. HGF5] gi|261284418|gb|ACX66389.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus sp. Y412MC10] gi|328936657|gb|EGG33100.1| RNA polymerase sigma factor, FliA/WhiG family [Paenibacillus sp. HGF5] Length = 262 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 64/230 (27%), Positives = 115/230 (50%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AKK+++E +L +V V+ + + + DL G +GL+ A EKFD+ G +F TYA Sbjct: 26 AKKKLIEYHLHIVDYVSSRLAIGLPKNVSKGDLASNGVMGLIDAIEKFDYKRGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W V+ AI S+ +P +R+K K+ +++ K R + E++ L + Sbjct: 86 SWRVRGAILDSLRQGDW---VPRSVREKAKKIETAYQQLEQKYLRSVSDSEMSDYLDVTE 142 Query: 561 EGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + R +L+ SLE PI +E++ + D+ A +P + LRE + + Sbjct: 143 KEFRHMLQEVAVMTLTSLEDPIREEESETRMSLLVDEKAKNPDHKVHEFYLREALMKGIG 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+E V+ + + D +L E+ + ++ RI Q+ +KAI +L+ Sbjct: 203 KLTPKERTVVSLLY----YEDLSLSEIAEVMSLSPSRISQLHSKAILRLR 248 >gi|167507903|gb|ABZ81272.1| RpoD [Thalassospira lucentensis] Length = 267 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 52/157 (33%), Positives = 84/157 (53%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN-AVNGQKDEK----SSVKCKVLKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ V K E + + LK ++V Sbjct: 111 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAHNKGEAVPAATEKRYNKLKNEMV 170 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 171 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGNELDPN 230 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK F+ D I +R I +S E Sbjct: 231 WMERVSGLPGKGWKAFIERYPDEIANLREGIGGVSAE 267 >gi|313901043|ref|ZP_07834531.1| RNA polymerase sigma-G factor [Clostridium sp. HGF2] gi|312954001|gb|EFR35681.1| RNA polymerase sigma-G factor [Clostridium sp. HGF2] Length = 259 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 61/228 (26%), Positives = 118/228 (51%), Gaps = 14/228 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ NL+LV+S+ ++++NR DL Q G IGL+K+ + FD +FSTYA+ Sbjct: 38 AKETLINGNLKLVLSIVQRFSNRCENMDDLFQVGCIGLVKSIDNFDLKHEVRFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D IR+ H++D ++ + +K ++EP+ +A++L + + + Sbjct: 98 IMGEIKRYLRDNQ-VIRVSRHLKDLAYRAFKLKEEYVHKHQKEPSVSWLAQQLEVKEKDI 156 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASL 620 L T+ +S+ P+ D D L D I +DK+ + L++ + R L L Sbjct: 157 VDALDSTQSVLSIFEPVYNSDGDELFLLDQIKDDKDEIERLNNLM------ALKRSLTRL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +E +++ R+ D T E+ + +++ ++ ++E AI LK Sbjct: 211 KGKELDIIQKRY----YQDMTQTEIAGELGISQAQVSRLEKNAIAVLK 254 >gi|152978131|ref|YP_001343760.1| RNA polymerase factor sigma-32 [Actinobacillus succinogenes 130Z] gi|150839854|gb|ABR73825.1| RNA polymerase, sigma 32 subunit, RpoH [Actinobacillus succinogenes 130Z] Length = 281 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 122/233 (52%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 48 AAKALILSHLRFVIHVARGYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A +L + E Sbjct: 108 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFSENEVDLVANELGVSKE 165 Query: 562 GVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDK--NAVSPLDS-AIQANLRETTTR 615 V ++ ++T I + P D E+T ++EDK N + L++ + + T Sbjct: 166 DVIEMESRMTGADIGFDLPADDAEEETFAPSMYLEDKSSNFAAELENENFETQAVDQLTV 225 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L R + +++ R+ + N TL ++ ++ ++ ER+RQ+E+ A++KLK Sbjct: 226 AMETLDARSQDIIKTRW-LDENK-ATLHDLAAKYNISAERVRQLESNALKKLK 276 >gi|331697274|ref|YP_004333513.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951963|gb|AEA25660.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 296 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 61/257 (23%), Positives = 130/257 (50%), Gaps = 21/257 (8%) Query: 424 ISEFRHI------VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEG 477 ++E+ H+ ++ + KG S + ++ +L L +AK+++ RG DL Q Sbjct: 1 MNEYSHLSPLFTELACLPKGHRRRSRLRDRLIIEHLPLARHIAKRFSQRGEPLQDLEQVA 60 Query: 478 NIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR 537 +GL+ A ++FD G +F +A+ + + R D++ TIR+P +++ + A Sbjct: 61 VLGLINAVDRFDPARGPEFLAFAIPTITGEVLRWFRDRAWTIRVPRRLKELDMSISTAAD 120 Query: 538 RMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPIGDE---DTSHLGDFI 592 R++ ++ R PTP EIA +L + + V + ++ +SL+ P+ E ++ H G Sbjct: 121 RLTQELGRAPTPSEIAARLDVALSDVVESIQAREAYRCVSLDVPLSTESEDESVHNGILA 180 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 V+ ++ RE + ++ +LT RE+R++ +RF D T E+G++ ++ Sbjct: 181 RTDPGVALVED------REVLSPLVDALTEREQRIVLLRF----FEDMTQNEIGQEIGIS 230 Query: 653 RERIRQIEAKAIRKLKH 669 + + ++ A+ +L+ Sbjct: 231 QMHVSRVLTAALERLRQ 247 >gi|13473307|ref|NP_104874.1| RNA polymerase factor sigma-32 [Mesorhizobium loti MAFF303099] gi|14024055|dbj|BAB50660.1| RpoH-like sigma factor C [Mesorhizobium loti MAFF303099] Length = 287 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 117/234 (50%), Gaps = 24/234 (10%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 A++RLVIS+A K+ + GL DLIQEG++GL++AA +F+ +FSTYA WW++ ++ Sbjct: 47 AHMRLVISMASKFRHYGLPLGDLIQEGHVGLLEAAARFEPEREVRFSTYATWWIRASMQD 106 Query: 511 SIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKLAMPVEGV 563 I +R K + RR+ ++ P E++ L + V Sbjct: 107 YILRNWSIVRGGTSSAQK--ALFFNLRRLRARLANGAEPLSNTTLYREVSVALGVSEADV 164 Query: 564 RKV-LKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR------ 615 + +++ SL P+ D+ + DF+ + PL I + + R Sbjct: 165 AMMDSRLSAPDSSLNMPLADDAGATERMDFLVSDD---PLPDEIVGDKIDVARRSLWLKE 221 Query: 616 VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L RE R++ R +N + TLE +G+ +++ER+RQIEA+A+ KLK Sbjct: 222 ALHALNARELRIIEER---RLNDEGATLEALGETLGISKERVRQIEARAMEKLK 272 >gi|222529665|ref|YP_002573547.1| Sig B/F/G subfamily RNA polymerase sigma-28 factor [Caldicellulosiruptor bescii DSM 6725] gi|222456512|gb|ACM60774.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor bescii DSM 6725] Length = 232 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 66/238 (27%), Positives = 120/238 (50%), Gaps = 12/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 M+ + + +A+++++E NL LV SV KK+ +G++ DL Q G+IGL+KA ++FD Sbjct: 1 MISRAKNGDKLARQQLIENNLALVWSVVKKFAAKGVELEDLFQIGSIGLIKAVDRFDPSF 60 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 61 NVRFSTYAVPMIIGEIKRYLRDDG-KIKVSRKIKENQGKIKKLRNQFVSNHGREPTISEI 119 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + + + L + E SL I E+ L D D+ S + A L+ Sbjct: 120 SQLTGLSNDEILLCLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLLDLMA-LK 178 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E L L RE ++ MR+ + T E+ KQ +++ + +IE +A+ ++K Sbjct: 179 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKQLNISQVHVSRIEKRALERIK 228 >gi|238763647|ref|ZP_04624607.1| RNA polymerase sigma-32 factor [Yersinia kristensenii ATCC 33638] gi|238789414|ref|ZP_04633200.1| RNA polymerase sigma-32 factor [Yersinia frederiksenii ATCC 33641] gi|238793542|ref|ZP_04637166.1| RNA polymerase sigma-32 factor [Yersinia intermedia ATCC 29909] gi|238698125|gb|EEP90882.1| RNA polymerase sigma-32 factor [Yersinia kristensenii ATCC 33638] gi|238722557|gb|EEQ14211.1| RNA polymerase sigma-32 factor [Yersinia frederiksenii ATCC 33641] gi|238727132|gb|EEQ18662.1| RNA polymerase sigma-32 factor [Yersinia intermedia ATCC 29909] Length = 285 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-----ANLRETT 613 VR++ +++ + ++ + DE D + + ++ S I+ + + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADGIEEDNWDNHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 SYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|88658518|ref|YP_507464.1| RNA polymerase sigma-32 factor [Ehrlichia chaffeensis str. Arkansas] gi|88599975|gb|ABD45444.1| RNA polymerase sigma-32 factor [Ehrlichia chaffeensis str. Arkansas] Length = 297 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 69/249 (27%), Positives = 119/249 (47%), Gaps = 45/249 (18%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LRLV+ VA + N L ++LI EGNIGLM+A +KF+ LG++ STYA+WW+K Sbjct: 51 LVTSHLRLVVKVALSFKNYELPLIELIMEGNIGLMQAVKKFNPTLGFRLSTYAIWWIKAF 110 Query: 508 ITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEI---AKKLAMPVEGV 563 I I I+I + K+ +R ++ K T E+I A K + + V Sbjct: 111 IKDYILKSWSCIKIGTTQAQRKLFFSLRKIKKKLFKYNHNITKEDIKLIANKCSTSEQEV 170 Query: 564 RKVLKI----------------------TKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 ++ + +E I +TP EDT L + + K A+ Sbjct: 171 EQMNRYFLYRDRSLNELVFSNDNQNGVELQEIIKCDTP-NQEDTYLLNEELNIKKAL--- 226 Query: 602 DSAIQANLRETTTRVLASLTPREERV-LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 ++ L++L R + +R R + TL+++ +++ +++ER+RQIE Sbjct: 227 -----------ISQALSTLNERYRDIFIRRRL---IEEPDTLDKLSQEYNISKERVRQIE 272 Query: 661 AKAIRKLKH 669 A K+K+ Sbjct: 273 MHAFTKVKN 281 >gi|260439092|ref|ZP_05792908.1| RNA polymerase sigma-F factor [Butyrivibrio crossotus DSM 2876] gi|292808404|gb|EFF67609.1| RNA polymerase sigma-F factor [Butyrivibrio crossotus DSM 2876] Length = 241 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 126/245 (51%), Gaps = 17/245 (6%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 + ++++ +G EA + +V N+ LV S+AK++ NRG + D++ G IGL+KA +K Sbjct: 5 KELIALAHEGNKEA---RDMLVMHNMGLVYSIAKRFANRGYEMDDIVSIGTIGLIKAIDK 61 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 FD + STYA+ + I R I D I+I +++ K+ + +S K+KRE Sbjct: 62 FDLNMDVMLSTYAVPMISGEIKRFIRDDGI-IKISRSIKENGWKINQAKDYLSQKLKREV 120 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP----LDS 603 T EEI+K+ + E + ++ +K+ S+ I D + + ++ DK A S D Sbjct: 121 TIEEISKETGICTEDIVVAMEASKDVESIYQTIYQSDGNQI--YVVDKLAASAKESDHDK 178 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + + E T +L E+ ++ MR+ + T EV K +++ ++ ++E K Sbjct: 179 IMNHVMLEETMNILE---KDEKTIIEMRYF----QEKTQSEVAKILGISQVQVSRMEKKI 231 Query: 664 IRKLK 668 + +++ Sbjct: 232 LLRMR 236 >gi|89256211|ref|YP_513573.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica LVS] gi|115314678|ref|YP_763401.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica OSU18] gi|156502270|ref|YP_001428335.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica FTNF002-00] gi|167009752|ref|ZP_02274683.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica FSC200] gi|254367537|ref|ZP_04983563.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica 257] gi|290952961|ref|ZP_06557582.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica URFT1] gi|295313833|ref|ZP_06804405.1| RNA polymerase factor sigma-32 [Francisella tularensis subsp. holarctica URFT1] gi|89144042|emb|CAJ79290.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica LVS] gi|115129577|gb|ABI82764.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica OSU18] gi|134253353|gb|EBA52447.1| RNA polymerase sigma-32 factor [Francisella tularensis subsp. holarctica 257] gi|156252873|gb|ABU61379.1| alternative sigma factor RpoH [Francisella tularensis subsp. holarctica FTNF002-00] Length = 292 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 64/240 (26%), Positives = 122/240 (50%), Gaps = 13/240 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLLSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K + + +++ + K+ R +KI +E+A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSENIKELAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAV---SPLDSAIQANLRETTT 614 V ++ K + + SL+ D+D TS ++EDK++ + N + Sbjct: 174 TVIEMEKRMCQGDASLDLSYTDDDGEQTSQQSLYLEDKSSNIEHQVVQQDYYDNFKAIVK 233 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 VL+ R + ++ R+ ++ TL+++ ++ ++ ER+RQIE A+ KLK +++ Sbjct: 234 DVLSGFDTRTKDIIMSRY--LLDNKATLQDLAAKYNISAERVRQIEEDALAKLKKAIKNR 291 >gi|120556648|ref|YP_960999.1| RNA polymerase factor sigma-32 [Marinobacter aquaeolei VT8] gi|120326497|gb|ABM20812.1| RNA polymerase, sigma 32 subunit, RpoH [Marinobacter aquaeolei VT8] Length = 286 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 73/281 (25%), Positives = 147/281 (52%), Gaps = 27/281 (9%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 ++S ++ + I +SV+ ++E H G+ EA+ +++V ++LR VI + Sbjct: 14 GANLESYIQAASRIPVLSVDEERELAERLHY-----HGDVEAA---RQLVLSHLRFVIHI 65 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+ Y GL DLIQEGN+GLMKA ++F+ G + ++A+ W+K I I + Sbjct: 66 ARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIV 125 Query: 520 RIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLE 577 ++ + K+ +R+ ++ + + + +A L + VR++ ++ + + + Sbjct: 126 KVATTKAQRKLFFNLRSQKKKLAWLNHDEL-KAVANDLGVEPHVVREMEGRLASQDTAFD 184 Query: 578 TPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQ---ANLRE-TTTRVLASLTPREER---V 627 P+ DED ++ ++ED+ + D A+Q A+ E + R++ +L +ER + Sbjct: 185 GPMDDDEDNAYQAPAYYLEDRRS----DPAVQLENADWSEDSNGRLMQALEQLDERSQDI 240 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR R+ + TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 241 LRERW--LSESKSTLHELADKYGVSAERIRQLEKNAMKKIR 279 >gi|311277614|ref|YP_003939845.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae SCF1] gi|308746809|gb|ADO46561.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae SCF1] Length = 285 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 72/290 (24%), Positives = 145/290 (50%), Gaps = 49/290 (16%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K+++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAEKLHY-----QGDLEAA---KKLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFD-- 183 Query: 580 IGDED-----------------TSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLA 618 +G +D +S+ D IED N A + L A+Q Sbjct: 184 LGPDDDAQDGQPMAPVLYLQDKSSNFADGIEDDNWEEQAANKLTDAMQG----------- 232 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 -LDERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 280 >gi|294813001|ref|ZP_06771644.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326441452|ref|ZP_08216186.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294325600|gb|EFG07243.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 306 Score = 84.0 bits (206), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 121/239 (50%), Gaps = 16/239 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ G + Sbjct: 73 EGTHEHAYVRNTLVELNLSLVRFAAARFRSRSEPMDDIVQVGTIGLIKAIDRFELSRGVE 132 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM V I R D S ++R+P +++ + R ++ ++ R PT E+A+ Sbjct: 133 FPTFAMPTVIGEIKRFFRDTSWSVRVPRRLQELRLDLARAGDELTARLDRSPTVAELAEY 192 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + VEG+ V P SL+ +E+ H G E + D ++ Sbjct: 193 LGIGADEVVEGM--VASNAYTPSSLDARPQNEE--HDGTLAER---IGYEDGGLEGVEYI 245 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E+ ++A L R+ R+L +RFG D T ++G++ +++ ++ ++ ++ + +L+ Sbjct: 246 ESLKPLIAGLPDRDRRILSLRFG----ADMTQSDIGEELGISQMQVSRLLSRTLVRLRR 300 >gi|156933482|ref|YP_001437398.1| flagellar biosynthesis sigma factor [Cronobacter sakazakii ATCC BAA-894] gi|156531736|gb|ABU76562.1| hypothetical protein ESA_01300 [Cronobacter sakazakii ATCC BAA-894] Length = 229 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 58/201 (28%), Positives = 103/201 (51%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L++P+E R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATELEVAERLSIPLEEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I ED +PL +++NLRE + SL RE+ VL + + +N L+E+G Sbjct: 147 IELVTEDNQNENPLHQLLESNLRERVMEAIESLPEREQMVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|167627742|ref|YP_001678242.1| RNA polymerase factor sigma-32 [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597743|gb|ABZ87741.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 292 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 63/242 (26%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K + + +++ + K+ R +KI + + ++A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSEDIKQLAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAVSPLDSAIQA-----NLRET 612 V ++ K + + SL+ P D++ ++ ++EDK+ S ++ I N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDEGGQSNQQSFYLEDKS--SDIEHQIVQQDYYDNFKAI 231 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 V++ R + ++ R+ ++T TL+++ ++ ++ ER+RQIE +A+ KL+ + Sbjct: 232 VKDVISGFDTRTKDIIMSRY--LLDTKATLQDLAAKYNISAERVRQIEEEALVKLRKAIK 289 Query: 673 SK 674 +K Sbjct: 290 NK 291 >gi|152972335|ref|YP_001337481.1| RNA polymerase factor sigma-32 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206580698|ref|YP_002236168.1| alternative sigma factor RpoH [Klebsiella pneumoniae 342] gi|238896924|ref|YP_002921669.1| RNA polymerase factor sigma-32 [Klebsiella pneumoniae NTUH-K2044] gi|262040527|ref|ZP_06013768.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288933158|ref|YP_003437217.1| RNA polymerase, sigma 32 subunit, RpoH [Klebsiella variicola At-22] gi|290511960|ref|ZP_06551328.1| alternative sigma factor RpoH [Klebsiella sp. 1_1_55] gi|329999131|ref|ZP_08303332.1| alternative sigma factor RpoH [Klebsiella sp. MS 92-3] gi|150957184|gb|ABR79214.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|206569756|gb|ACI11532.1| alternative sigma factor RpoH [Klebsiella pneumoniae 342] gi|238549251|dbj|BAH65602.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259042120|gb|EEW43150.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|288887887|gb|ADC56205.1| RNA polymerase, sigma 32 subunit, RpoH [Klebsiella variicola At-22] gi|289775750|gb|EFD83750.1| alternative sigma factor RpoH [Klebsiella sp. 1_1_55] gi|328538425|gb|EGF64546.1| alternative sigma factor RpoH [Klebsiella sp. MS 92-3] Length = 284 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 68/255 (26%), Positives = 129/255 (50%), Gaps = 41/255 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KKLILSHLRFVVHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVA 158 Query: 554 KKLAMPVEGVRKV----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN- 596 ++L + + VR++ + +P++ + D+ TS+ D IED N Sbjct: 159 RELGVSSKDVREMESRMAAQDMTFDMSSDDESDSQPMAPVLYLQDK-TSNFADGIEDDNW 217 Query: 597 ---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 A + L A+Q L R + ++R R+ + + TL+E+ ++ V+ Sbjct: 218 EEQAANKLTDAMQG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVSA 264 Query: 654 ERIRQIEAKAIRKLK 668 ER+RQ+E A++KL+ Sbjct: 265 ERVRQLEKNAMKKLR 279 >gi|332142899|ref|YP_004428637.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|332143056|ref|YP_004428794.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|327552921|gb|AEA99639.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] gi|327553078|gb|AEA99796.1| RNA polymerase sigma factor [Alteromonas macleodii str. 'Deep ecotype'] Length = 284 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 141/269 (52%), Gaps = 16/269 (5%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I I+++S +S E R + VR E E A +++V ++LR V+ +AK Y+ GL Sbjct: 18 IEGYIQAVSSIDMLSAEEERELA--VRLREDEDLQAARKLVMSHLRFVVHIAKSYSGYGL 75 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRD 527 DLIQEGNIGLMKA ++FD +G + ++A+ W+K I + +++ + Sbjct: 76 PQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQR 135 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS 586 K+ +R A++ + + +A +L + + V ++ +++ + + + +++T Sbjct: 136 KLFFNLRKAKKRLGWFTHDEV-QTVANELGVSTKEVLQMEARMSSQDQAFDLSADEDETG 194 Query: 587 HLG--DFIEDKNAVSPLDSAIQANLRETTT-----RVLASLTPREERVLRMRFGIGMNTD 639 + F+EDK+ S +++ + N +T + +L R + ++ R+ + Sbjct: 195 NFAPVQFLEDKS--SDVETDVINNDWDTAASKRLYSAIKTLDDRSQDIIETRW--LADNK 250 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ ++ V+ ER+RQIE A++KL+ Sbjct: 251 ITLQDLADKYQVSAERVRQIEKNAMKKLQ 279 >gi|256370062|ref|YP_003107573.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] gi|256000225|gb|ACU48624.1| RNA polymerase factor sigma-32 [Brucella microti CCM 4915] Length = 303 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 117/233 (50%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGD-FIEDKNAVSP--LDSAIQANLRE 611 + + V + + SL P+ + ++ D ++D N+ ++ + R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDRLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE R+ R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERRIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|323492929|ref|ZP_08098069.1| RNA polymerase factor sigma-32 [Vibrio brasiliensis LMG 20546] gi|323312822|gb|EGA65946.1| RNA polymerase factor sigma-32 [Vibrio brasiliensis LMG 20546] Length = 285 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 127/243 (52%), Gaps = 19/243 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE EA+ K ++ ++LR V+ VA+ Y+ GL DL+QEGNIGLMKA ++F+ +G + Sbjct: 45 GEIEAA---KGLILSHLRFVVHVARGYSGYGLPMADLVQEGNIGLMKAVKRFNPEVGVRL 101 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + ++I R + ++ +R+ E E +A+ Sbjct: 102 VSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNNGE--VETVAR 159 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANL 609 +L + VR++ ++ + + E P D+D++ ++EDK A D+ AN Sbjct: 160 ELGVEPAEVREMESRLAAQDATFEMPSDDDDSASSYTAPMVYLEDK-ASDVADNVEAANW 218 Query: 610 RETTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 T L +L R + ++R R+ + TL+E+ + + V+ ERIRQ+E A++ Sbjct: 219 EAHTNNRLSLALKTLDDRSQHIVRSRWLD--DNKSTLQELAETYSVSAERIRQLEKNAMK 276 Query: 666 KLK 668 KLK Sbjct: 277 KLK 279 >gi|260598417|ref|YP_003210988.1| flagellar biosynthesis sigma factor [Cronobacter turicensis z3032] gi|260217594|emb|CBA31853.1| RNA polymerase sigma factor for flagellar operon [Cronobacter turicensis z3032] Length = 239 Score = 84.0 bits (206), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 58/201 (28%), Positives = 102/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L++P+E R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATELEVAERLSIPLEEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I ED +PL ++ NLRE + SL RE+ VL + + +N L+E+G Sbjct: 157 IELVTEDNQNENPLHQLLEGNLRERVMEAIESLPEREQMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|239982297|ref|ZP_04704821.1| RNA polymerase sigma factor [Streptomyces albus J1074] gi|291454142|ref|ZP_06593532.1| sigma factor [Streptomyces albus J1074] gi|291357091|gb|EFE83993.1| sigma factor [Streptomyces albus J1074] Length = 298 Score = 83.6 bits (205), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 63/258 (24%), Positives = 126/258 (48%), Gaps = 39/258 (15%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFD 489 + + +G E A+ ++E NL LV A ++ +RG + D++Q G IGL+KA ++FD Sbjct: 53 LQTLEEGTPEHQYARNTLIEMNLSLVRYAAGRFRHRGPGEMEDIVQVGTIGLIKAIDRFD 112 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+T+A+ ++ I R D S + +P +++ + + ++ ++ REPT Sbjct: 113 LSREVEFTTFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRVDMAKAKESLAAELDREPTV 172 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSH---------LG------D 590 +E+A KL VEG+ T + + T GD++ + LG + Sbjct: 173 KELAAKLERTEEEVVEGLVAANGYTAGSLDVPTESGDDNRAGGSPRSLADTLGAPDPAQE 232 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +ED +A++PL L +L RE R++ MRFG + T ++G + Sbjct: 233 LVEDLHALAPL---------------LETLDERERRIVEMRFG----QELTQSQIGAELG 273 Query: 651 VTRERIRQIEAKAIRKLK 668 +++ + ++ ++ + +L+ Sbjct: 274 ISQMHVSRLLSRILTRLR 291 >gi|121611388|ref|YP_999195.1| RNA polymerase sigma-32 subunit RpoH [Verminephrobacter eiseniae EF01-2] gi|121556028|gb|ABM60177.1| RNA polymerase, sigma 32 subunit, RpoH [Verminephrobacter eiseniae EF01-2] Length = 313 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/252 (28%), Positives = 117/252 (46%), Gaps = 32/252 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S+A++Y GL DLIQEGNIGLMKA ++FD G + +YAM W Sbjct: 60 AAGRLVLSHLRLVVSIARQYLGYGLPHGDLIQEGNIGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---------------EPT 548 +K I I +++ + K+ R M K E Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADAGATDAATYRDTLSEHE 177 Query: 549 PEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + +A +L + E V ++ +++ + L+ D+ G +A + I++ Sbjct: 178 IDAVAAQLHVKREEVIEMETRMSGGDVLLDPAPSDDGEQAFGPIAYLADASHEPTALIES 237 Query: 608 NLRET-----TTRVLASLTPREERVLRMRF------GIGMNTDHTLEEVGKQFCVTRERI 656 R+ + LASL R R+++ R+ G G T H L + + V+ ERI Sbjct: 238 RQRDALATDGIAKALASLDERSRRIVQERWLKVNDDGTGGMTLHDLAAI---YGVSAERI 294 Query: 657 RQIEAKAIRKLK 668 RQIE A++K+K Sbjct: 295 RQIEVAAMKKMK 306 >gi|304406109|ref|ZP_07387766.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304344693|gb|EFM10530.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 257 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/215 (29%), Positives = 113/215 (52%), Gaps = 12/215 (5%) Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 ++ K NR F DL+Q G + L+K ++D +G +F YAM + + + D+S Sbjct: 41 MAAGKIARNRPDLFEDLVQVGQMSLLKLFHQYDPSVGVQFEPYAMKSIIGHMKNYLRDKS 100 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL--KITKEPI 574 I++P +++K V + ++ K++R P EEIA+++ + VE ++L + + Sbjct: 101 WYIQVPRRIKEKGIAVQQAIDELTVKLERSPRVEEIAERMELTVEETVEILGGRDLYHYV 160 Query: 575 SLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 SL+TPI +E+ T+ LG+ I SPLD + + +A+L P E +VL++ F Sbjct: 161 SLDTPISEEESTTTLGELIG-----SPLDDFGLIDKKLDIEAAMAALKPEERQVLKLVFE 215 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 G + +Q V++ I +I+ +AI KLK Sbjct: 216 DG----EPQRVIAEQLGVSQMSISRIQRRAIEKLK 246 >gi|17986563|ref|NP_539197.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. 16M] gi|17982171|gb|AAL51461.1| RNA polymerase sigma-32 factor [Brucella melitensis bv. 1 str. 16M] Length = 319 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 126/249 (50%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 62 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 121 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 122 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 179 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL + E+T S DF+ D + + Sbjct: 180 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLVDDHPLQDEIA 239 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ ++++R+RQI Sbjct: 240 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKQRVRQI 296 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 297 ESRAMEKLK 305 >gi|312135430|ref|YP_004002768.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor owensensis OL] gi|311775481|gb|ADQ04968.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor owensensis OL] Length = 240 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 120/239 (50%), Gaps = 12/239 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + +A+++++E+NL LV SV KK+ +G++ DL Q G IGL+KA ++FD Sbjct: 9 LISKAKNGDKVARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSF 68 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 69 NVRFSTYAVPMIIGEIKRYLRDDG-RIKVSRKIKENQGKIKKLRNQFVSSNGREPTISEI 127 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + + + L + E SL + E+ L D D+ S + A L+ Sbjct: 128 SQLTGLSSDEILLCLDASSEVASLNEVVNQEEGKPITLMDIASDEEDYSTKLLDLMA-LK 186 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E L L RE ++ MR+ + T E+ KQ +++ + +IE +A+ ++K Sbjct: 187 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKQLNISQVHVSRIEKRALERIKR 237 >gi|256045366|ref|ZP_05448260.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|260565741|ref|ZP_05836224.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260151114|gb|EEW86209.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] Length = 311 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/249 (28%), Positives = 126/249 (50%), Gaps = 19/249 (7%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R E + A + A++RLVIS+A ++ L DLIQEG +GL++ A +FD Sbjct: 54 IRWKETKDQDALHRITSAHMRLVISMAGRFRKFKLPMSDLIQEGYVGLLEEAARFDPDRD 113 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-------KRE 546 +FSTYA WW++ ++ I +R K+ + RR+ +K+ + Sbjct: 114 VRFSTYASWWIRASMQDYILRNWSIVRGGTSSAQKV--LFFNLRRLRSKLAQTDDNMTKA 171 Query: 547 PTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDT--SHLGDFIEDKNAVSP--L 601 EI+ +L + V + +++ SL + E+T S DF+ D + + Sbjct: 172 EIYREISDQLGVSTSDVEFMDSRLSGPDSSLSASMNGEETGASRRMDFLVDDHPLQDEIA 231 Query: 602 DSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQI 659 +S+I R TR L +L RE ++R R ++ D TLE +G++ ++++R+RQI Sbjct: 232 ESSIDMERRNRWLTRALDTLNERELHIIRER---RLDDDGVTLEALGEKLGISKQRVRQI 288 Query: 660 EAKAIRKLK 668 E++A+ KLK Sbjct: 289 ESRAMEKLK 297 >gi|168235161|ref|ZP_02660219.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|194737973|ref|YP_002116503.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|194713475|gb|ACF92696.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197291332|gb|EDY30684.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] Length = 284 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/288 (25%), Positives = 142/288 (49%), Gaps = 46/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 + +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 186 SDDESDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQ------------GL 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + +T TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 DERSQDIIRARW-LDEDTKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|330466807|ref|YP_004404550.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily protein [Verrucosispora maris AB-18-032] gi|328809778|gb|AEB43950.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily protein [Verrucosispora maris AB-18-032] Length = 273 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/249 (26%), Positives = 123/249 (49%), Gaps = 12/249 (4%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S ++ + ++ + G + + +EA L L +A +Y+ RG DL Q +GL+ Sbjct: 27 SATDLLNAMAALPAGHPSRAALRDRAIEAWLPLANHLAHRYSGRGEPTDDLAQTAAVGLI 86 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KFD G F+ YA+ + + R D++ IR+P +++ + + Sbjct: 87 KAIDKFDPTRGVDFAGYAIPTIIGELKRHFRDRTWDIRVPRRLQELRLAISDANSSLLQT 146 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDED-TSHLGDFIEDKNAVS 599 + R PT +IA L + E V + L+ + +SL TP GD D + LGD + +++ Sbjct: 147 LGRSPTVADIAAHLKLTEEEVLEGLEGARAYNAVSLSTPTGDGDRATELGDMLGGEDSEF 206 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 L A LR LA+L RE+++L +RF + T ++ +Q V++ + ++ Sbjct: 207 EL-----AELRVALGPALATLDEREQKILTLRF----YGNLTQSQIAEQIGVSQMHVSRL 257 Query: 660 EAKAIRKLK 668 A+A+ KL+ Sbjct: 258 LARALTKLR 266 >gi|304415276|ref|ZP_07395971.1| RNA polymerase sigma 32 (sigma H) factor [Candidatus Regiella insecticola LSR1] gi|304282866|gb|EFL91334.1| RNA polymerase sigma 32 (sigma H) factor [Candidatus Regiella insecticola LSR1] Length = 285 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 65/248 (26%), Positives = 127/248 (51%), Gaps = 39/248 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVTHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPAIGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R +++ ++ E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKSKQRLGWFNQDEV-EMVAKELGVSKKD 167 Query: 563 VRKV-LKITKEPISLE-TP---------------IGDEDTSHLGDFIE---DKNAVSPLD 602 V ++ +++ + ++ + +P + D ++ GD E D +AV L Sbjct: 168 VHEMESRMSAQDMTFDLSPDDDTRDGQLVAPVLYLQDRNSDFAGDVEEDNWDNHAVDKLS 227 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIE 660 A++ L R + ++R R+ +N D+ TL+E+ Q+ V+ ER+RQ+E Sbjct: 228 FALE------------KLDERSQHIIRARW---LNDDNKATLQELANQYGVSAERVRQLE 272 Query: 661 AKAIRKLK 668 A++KL+ Sbjct: 273 KNAMKKLR 280 >gi|269140667|ref|YP_003297368.1| RNA polymerase factor sigma-32 [Edwardsiella tarda EIB202] gi|267986328|gb|ACY86157.1| RNA polymerase factor sigma-32 [Edwardsiella tarda EIB202] gi|304560452|gb|ADM43116.1| RNA polymerase sigma factor RpoH [Edwardsiella tarda FL6-60] Length = 284 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/275 (24%), Positives = 141/275 (51%), Gaps = 20/275 (7%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E ++ E H KG+ +A+ K+++ ++LR V+ VA+ Sbjct: 16 LEAYVRAANAYPMLTAEEERALGERLHY-----KGDLDAA---KQLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + V ++ ++ + ++ + P Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVSEKDVLEMESRMAAQDMAFDLP 185 Query: 580 IGDEDTSHLGD---FIEDKN---AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 DE F++DK+ A D +++ + + L L R + ++R R+ Sbjct: 186 GDDEQEGAPTAPVLFLQDKSSDFANEIEDDNWESHAADKLSVALEGLDERSQHIIRARW- 244 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 245 LDSDNKATLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|167507983|gb|ABZ81312.1| RpoD [Thalassospira sp. MCCC 1A02803] gi|167507993|gb|ABZ81317.1| RpoD [Thalassospira sp. MCCC 1A02898] Length = 262 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 106 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGEAVPAATEKRYNKLKNEMV 165 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 166 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 225 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV + I +R I +S E Sbjct: 226 WMERVGGLPGKGWKTFVERYSEEIANLREGIGGVSAE 262 >gi|307328229|ref|ZP_07607407.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306886063|gb|EFN17071.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 307 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 59/236 (25%), Positives = 120/236 (50%), Gaps = 9/236 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + ++E NL LV A+++ NR ++ D++Q G IGL+KA ++FD + Sbjct: 71 EGTHEYQYVRNTLIELNLSLVRYAARRFHNRSVEMEDIVQVGTIGLIKAIDRFDLSREVE 130 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D S + +P +++ + + + ++ R PT E+A+ Sbjct: 131 FTTFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRIDLAKANEELFQRLDRSPTTAELAEH 190 Query: 556 LAMPVEGVRKVLKITKEPI--SLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRET 612 L + + V L + + SL+ P E + + + + V P A++ NL Sbjct: 191 LQLSEDEVVDGLVASNGYLTSSLDAPAEQESGATRVTTYADRFGDVDPAMEAVE-NLHAL 249 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R+ R+L++RFG M T E+G + V++ + ++ ++A+ +L+ Sbjct: 250 KP-LVEELGERDRRILQLRFGEEM----TQSEIGAELGVSQMHVSRLLSRALSRLR 300 >gi|221065333|ref|ZP_03541438.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni KF-1] gi|220710356|gb|EED65724.1| RNA polymerase, sigma 32 subunit, RpoH [Comamonas testosteroni KF-1] Length = 324 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/253 (28%), Positives = 125/253 (49%), Gaps = 33/253 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 70 AAGRLVMSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP--TPEEIAKKLAMP-- 559 +K I I +++ + K+ R M +++K + +E+A + + Sbjct: 130 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKHELKSDAAMADDELALRETLTSN 187 Query: 560 -VEGVRKVLKITKEP-ISLETPIGDEDT-----------------SHLGDFIEDKNAVSP 600 ++ V L + +E I +ET + D ++L D + A+ Sbjct: 188 EIDAVAAKLNVKREEVIEMETRLAGGDVLLDPSPSDDGEQAFGPIAYLADASHEPTAM-- 245 Query: 601 LDSAIQANL-RETTTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRER 655 L+S + +L + L L R R++ R+ + +N D TL E+ ++ V+ ER Sbjct: 246 LESRQRDHLATDGLVMALEGLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAEYGVSAER 304 Query: 656 IRQIEAKAIRKLK 668 IRQIE A++K+K Sbjct: 305 IRQIEVAAMKKMK 317 >gi|167507907|gb|ABZ81274.1| RpoD [Thalassospira sp. MCCC 1A01013] gi|167507909|gb|ABZ81275.1| RpoD [Thalassospira sp. MCCC 1A01017] Length = 258 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 49/157 (31%), Positives = 89/157 (56%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 102 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGETVPAATEKRYAKLKGEMV 161 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 162 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFVKQYQGHELDPN 221 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ + P WK F+ D I ++R ++ + E Sbjct: 222 WMERVGELPGKGWKAFIERYPDEIAQLREQVGGVPAE 258 >gi|242241268|ref|YP_002989449.1| RNA polymerase factor sigma-32 [Dickeya dadantii Ech703] gi|242133325|gb|ACS87627.1| RNA polymerase, sigma 32 subunit, RpoH [Dickeya dadantii Ech703] Length = 285 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 125/239 (52%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPDVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T RR+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKRRLGWFNQDE--VELVARELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET-- 612 VR++ ++ + ++ + P D+D + G +++DK+ S I+ + ET Sbjct: 167 DVREMESRMAAQDMTYD-PTPDDD-AQPGQPMAPMLYLQDKS--SDFADGIEEDNWETHA 222 Query: 613 ---TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + + TL+E+ + V+ ER+RQ+E A++KL+ Sbjct: 223 ADKLAYALEGLDERSQHIIRARW-LDDDNKSTLQELADYYGVSAERVRQLEKNAMKKLR 280 >gi|182418318|ref|ZP_02949613.1| RNA polymerase sigma factor for flagellar operon [Clostridium butyricum 5521] gi|237666658|ref|ZP_04526643.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377700|gb|EDT75244.1| RNA polymerase sigma factor for flagellar operon [Clostridium butyricum 5521] gi|237657857|gb|EEP55412.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium butyricum E4 str. BoNT E BL5262] Length = 243 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/232 (28%), Positives = 117/232 (50%), Gaps = 15/232 (6%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 K++++E + LV +A + N+ +++ DL+ G IGL+ A KFD G KFS+YA Sbjct: 10 GKEQIIEEYIPLVKYIASRVMFAKNKYMEYEDLVSYGMIGLIDAINKFDNSKGMKFSSYA 69 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +K A+ + I DK+++ + + ++ REPT +EI+ L + Sbjct: 70 SIRIKGAMIDELRKNRP---ISKGAMDKLNRYNKAIEELQGRLLREPTTQEISNYLGISS 126 Query: 561 EGVRKVLKITK--EPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 V ++ +SLE+ I DED + +G IEDKN+ SP E T+ Sbjct: 127 SEVAEIENYINYISMVSLESVIFSDDEDVNLMG-VIEDKNSPSPHSYLEDKEKLEILTQA 185 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L ++ +L + + G+ TL+E+GK V+ R+ Q+ +++IR L+ Sbjct: 186 IELLKEKDRMILNLYYYEGL----TLKEIGKILEVSESRVCQLHSRSIRNLR 233 >gi|317121977|ref|YP_004101980.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter marianensis DSM 12885] gi|315591957|gb|ADU51253.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermaerobacter marianensis DSM 12885] Length = 250 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/239 (27%), Positives = 119/239 (49%), Gaps = 22/239 (9%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 R+G+ EA ++ +V ++ LV VA+++ G + DL+Q G IGL++A + FD GY Sbjct: 10 RRGDAEA---RERLVALHMPLVRHVARRFAGFGHEMDDLVQAGTIGLLQAIDGFDPARGY 66 Query: 495 KFSTYAMWWVKQAITRSI--ADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + +D + R MR ++ + R A M ++ P + Sbjct: 67 QFSTYAVPAILGEIRRWLRASDPAGLTRA---MRARVAAIRRVAEAMEQELGHRPPAAAV 123 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDS-AIQANLR 610 A++L V V L+ ++ P+SL+ P+ D D S G + D+ A++A L Sbjct: 124 AERLGCDVADVTFALEASQVPVSLDEPLSSDPDASARGQRLAAPAEPDWSDAVAVRAALT 183 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L PR ++ +RF D T EV +++ ++ ++E A+ +L+ Sbjct: 184 Q--------LPPRLRTIVTLRF----FRDMTQAEVAAAVGLSQPQVSRLEKLALGQLRQ 230 >gi|241668310|ref|ZP_04755888.1| RNA polymerase factor sigma-32 [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254876843|ref|ZP_05249553.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254842864|gb|EET21278.1| RNA polymerase sigma-32 factor [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 292 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/242 (26%), Positives = 128/242 (52%), Gaps = 17/242 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V +A+ ++ GL DLIQEGNIGLMKA KFD G + ++A+ W Sbjct: 56 AAQQLVLSHLRFVTKIARNFSGYGLSIADLIQEGNIGLMKAVSKFDPDQGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K + + +++ + K+ R +KI + + ++A++L + E Sbjct: 116 IKAEMHDYVLKNWKIVKVATTKAQR--KLFFNLRSSKDKIGWLSSEDIKQLAEELGVKEE 173 Query: 562 GVRKVLK-ITKEPISLETPIGDED---TSHLGDFIEDKNAVSPLDSAIQA-----NLRET 612 V ++ K + + SL+ P D++ ++ ++EDK+ S ++ I N + Sbjct: 174 TVIEMEKRMCQGDASLDLPYTDDEGGQSNQQSLYLEDKS--SDIEHQIVQQDYYDNFKAI 231 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 V++ R + ++ R+ ++T TL+++ ++ ++ ER+RQIE +A+ KL+ + Sbjct: 232 VKDVISGFDTRTKDIIMSRY--LLDTKATLQDLATKYNISAERVRQIEEEALVKLRKAIK 289 Query: 673 SK 674 +K Sbjct: 290 NK 291 >gi|15803973|ref|NP_290009.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 EDL933] gi|15833564|ref|NP_312337.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. Sakai] gi|16131333|ref|NP_417918.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. MG1655] gi|26250076|ref|NP_756116.1| RNA polymerase factor sigma-32 [Escherichia coli CFT073] gi|74314061|ref|YP_312480.1| RNA polymerase factor sigma-32 [Shigella sonnei Ss046] gi|82545824|ref|YP_409771.1| RNA polymerase factor sigma-32 [Shigella boydii Sb227] gi|82778725|ref|YP_405074.1| RNA polymerase factor sigma-32 [Shigella dysenteriae Sd197] gi|89110551|ref|AP_004331.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. W3110] gi|91212950|ref|YP_542936.1| RNA polymerase factor sigma-32 [Escherichia coli UTI89] gi|110643701|ref|YP_671431.1| RNA polymerase factor sigma-32 [Escherichia coli 536] gi|117625739|ref|YP_859062.1| RNA polymerase factor sigma-32 [Escherichia coli APEC O1] gi|157158396|ref|YP_001464926.1| RNA polymerase factor sigma-32 [Escherichia coli E24377A] gi|157162938|ref|YP_001460256.1| RNA polymerase factor sigma-32 [Escherichia coli HS] gi|168747045|ref|ZP_02772067.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4113] gi|168753229|ref|ZP_02778236.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4401] gi|168759499|ref|ZP_02784506.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4501] gi|168765824|ref|ZP_02790831.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4486] gi|168772630|ref|ZP_02797637.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4196] gi|168779560|ref|ZP_02804567.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4076] gi|168785282|ref|ZP_02810289.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC869] gi|168797247|ref|ZP_02822254.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC508] gi|170018307|ref|YP_001723261.1| RNA polymerase factor sigma-32 [Escherichia coli ATCC 8739] gi|170082975|ref|YP_001732295.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. DH10B] gi|170683649|ref|YP_001745710.1| RNA polymerase factor sigma-32 [Escherichia coli SMS-3-5] gi|170766775|ref|ZP_02901228.1| alternative sigma factor RpoH [Escherichia albertii TW07627] gi|187730400|ref|YP_001882152.1| RNA polymerase factor sigma-32 [Shigella boydii CDC 3083-94] gi|188495507|ref|ZP_03002777.1| alternative sigma factor RpoH [Escherichia coli 53638] gi|191169502|ref|ZP_03031234.1| alternative sigma factor RpoH [Escherichia coli B7A] gi|191170346|ref|ZP_03031899.1| alternative sigma factor RpoH [Escherichia coli F11] gi|193061907|ref|ZP_03043004.1| alternative sigma factor RpoH [Escherichia coli E22] gi|193068783|ref|ZP_03049743.1| alternative sigma factor RpoH [Escherichia coli E110019] gi|194427076|ref|ZP_03059628.1| alternative sigma factor RpoH [Escherichia coli B171] gi|194431093|ref|ZP_03063386.1| alternative sigma factor RpoH [Shigella dysenteriae 1012] gi|194435828|ref|ZP_03067931.1| alternative sigma factor RpoH [Escherichia coli 101-1] gi|195934955|ref|ZP_03080337.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. EC4024] gi|208806017|ref|ZP_03248354.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4206] gi|208814463|ref|ZP_03255792.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4045] gi|208821158|ref|ZP_03261478.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4042] gi|209398124|ref|YP_002272905.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4115] gi|209920920|ref|YP_002295004.1| RNA polymerase factor sigma-32 [Escherichia coli SE11] gi|215488736|ref|YP_002331167.1| RNA polymerase factor sigma-32 [Escherichia coli O127:H6 str. E2348/69] gi|217325718|ref|ZP_03441802.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. TW14588] gi|218550723|ref|YP_002384514.1| RNA polymerase factor sigma-32 [Escherichia fergusonii ATCC 35469] gi|218556012|ref|YP_002388925.1| RNA polymerase factor sigma-32 [Escherichia coli IAI1] gi|218560529|ref|YP_002393442.1| RNA polymerase factor sigma-32 [Escherichia coli S88] gi|218691746|ref|YP_002399958.1| RNA polymerase factor sigma-32 [Escherichia coli ED1a] gi|218697144|ref|YP_002404811.1| RNA polymerase factor sigma-32 [Escherichia coli 55989] gi|218702206|ref|YP_002409835.1| RNA polymerase factor sigma-32 [Escherichia coli IAI39] gi|218707055|ref|YP_002414574.1| RNA polymerase factor sigma-32 [Escherichia coli UMN026] gi|227883607|ref|ZP_04001412.1| RNA polymerase factor sigma-32 [Escherichia coli 83972] gi|237703208|ref|ZP_04533689.1| alternative sigma factor RpoH [Escherichia sp. 3_2_53FAA] gi|238902552|ref|YP_002928348.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli BW2952] gi|253771710|ref|YP_003034541.1| RNA polymerase factor sigma-32 [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254038629|ref|ZP_04872685.1| alternative sigma factor RpoH [Escherichia sp. 1_1_43] gi|254163385|ref|YP_003046493.1| RNA polymerase factor sigma-32 [Escherichia coli B str. REL606] gi|254795381|ref|YP_003080218.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. TW14359] gi|256020809|ref|ZP_05434674.1| RNA polymerase factor sigma-32 [Shigella sp. D9] gi|256025815|ref|ZP_05439680.1| RNA polymerase factor sigma-32 [Escherichia sp. 4_1_40B] gi|260846245|ref|YP_003224023.1| RNA polymerase, sigma 32 factor [Escherichia coli O103:H2 str. 12009] gi|260857567|ref|YP_003231458.1| RNA polymerase, sigma 32 factor [Escherichia coli O26:H11 str. 11368] gi|260870186|ref|YP_003236588.1| RNA polymerase, sigma 32 factor [Escherichia coli O111:H- str. 11128] gi|261224744|ref|ZP_05939025.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261254361|ref|ZP_05946894.1| RNA polymerase, sigma 32 factor [Escherichia coli O157:H7 str. FRIK966] gi|291284801|ref|YP_003501619.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|293407042|ref|ZP_06650966.1| RNA polymerase factor sigma-32 [Escherichia coli FVEC1412] gi|293412884|ref|ZP_06655552.1| alternative sigma factor RpoH [Escherichia coli B354] gi|293416865|ref|ZP_06659502.1| alternative sigma factor RpoH [Escherichia coli B185] gi|293453766|ref|ZP_06664185.1| alternative sigma factor RpoH [Escherichia coli B088] gi|297517521|ref|ZP_06935907.1| RNA polymerase factor sigma-32 [Escherichia coli OP50] gi|298382788|ref|ZP_06992383.1| RNA polymerase sigma-32 factor [Escherichia coli FVEC1302] gi|300815334|ref|ZP_07095559.1| alternative sigma factor RpoH [Escherichia coli MS 107-1] gi|300822733|ref|ZP_07102870.1| alternative sigma factor RpoH [Escherichia coli MS 119-7] gi|300898837|ref|ZP_07117141.1| alternative sigma factor RpoH [Escherichia coli MS 198-1] gi|300907388|ref|ZP_07125036.1| alternative sigma factor RpoH [Escherichia coli MS 84-1] gi|300917205|ref|ZP_07133887.1| alternative sigma factor RpoH [Escherichia coli MS 115-1] gi|300930998|ref|ZP_07146356.1| alternative sigma factor RpoH [Escherichia coli MS 187-1] gi|300936478|ref|ZP_07151398.1| alternative sigma factor RpoH [Escherichia coli MS 21-1] gi|300946790|ref|ZP_07161034.1| alternative sigma factor RpoH [Escherichia coli MS 116-1] gi|300956796|ref|ZP_07169063.1| alternative sigma factor RpoH [Escherichia coli MS 175-1] gi|300985247|ref|ZP_07177344.1| alternative sigma factor RpoH [Escherichia coli MS 45-1] gi|300987360|ref|ZP_07178168.1| alternative sigma factor RpoH [Escherichia coli MS 200-1] gi|301018548|ref|ZP_07182926.1| alternative sigma factor RpoH [Escherichia coli MS 69-1] gi|301021811|ref|ZP_07185775.1| alternative sigma factor RpoH [Escherichia coli MS 196-1] gi|301050314|ref|ZP_07197203.1| alternative sigma factor RpoH [Escherichia coli MS 185-1] gi|301302348|ref|ZP_07208480.1| alternative sigma factor RpoH [Escherichia coli MS 124-1] gi|301645904|ref|ZP_07245818.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|306816195|ref|ZP_07450333.1| RNA polymerase factor sigma-32 [Escherichia coli NC101] gi|307140144|ref|ZP_07499500.1| RNA polymerase factor sigma-32 [Escherichia coli H736] gi|307311872|ref|ZP_07591510.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli W] gi|309794740|ref|ZP_07689162.1| alternative sigma factor RpoH [Escherichia coli MS 145-7] gi|312968227|ref|ZP_07782437.1| alternative sigma factor RpoH [Escherichia coli 2362-75] gi|331644161|ref|ZP_08345290.1| alternative sigma factor RpoH [Escherichia coli H736] gi|331649268|ref|ZP_08350354.1| alternative sigma factor RpoH [Escherichia coli M605] gi|331655044|ref|ZP_08356043.1| alternative sigma factor RpoH [Escherichia coli M718] gi|331659757|ref|ZP_08360695.1| alternative sigma factor RpoH [Escherichia coli TA206] gi|331665070|ref|ZP_08365971.1| alternative sigma factor RpoH [Escherichia coli TA143] gi|331670287|ref|ZP_08371126.1| alternative sigma factor RpoH [Escherichia coli TA271] gi|331674946|ref|ZP_08375703.1| alternative sigma factor RpoH [Escherichia coli TA280] gi|331679529|ref|ZP_08380199.1| alternative sigma factor RpoH [Escherichia coli H591] gi|331685107|ref|ZP_08385693.1| alternative sigma factor RpoH [Escherichia coli H299] gi|332282016|ref|ZP_08394429.1| RNA polymerase sigma 32 (sigma H) factor [Shigella sp. D9] gi|84028120|sp|P0AGB5|RP32_ECO57 RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|84028121|sp|P0AGB4|RP32_ECOL6 RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|84028122|sp|P0AGB3|RP32_ECOLI RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein F33.4 gi|12518117|gb|AAG58570.1|AE005569_10 RNA polymerase, sigma(32) factor; regulation of proteins induced at high temperatures [Escherichia coli O157:H7 str. EDL933] gi|26110505|gb|AAN82690.1|AE016768_108 RNA polymerase sigma-32 factor [Escherichia coli CFT073] gi|147732|gb|AAA24587.1| RNA polymerase sigma-32 subunit [Escherichia coli] gi|466597|gb|AAB18436.1| RNA polymerase sigma-32 subunit [Escherichia coli str. K-12 substr. MG1655] gi|1789871|gb|AAC76486.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. MG1655] gi|13363784|dbj|BAB37733.1| RNA polymerase sigma32 factor [Escherichia coli O157:H7 str. Sakai] gi|73671328|gb|AAZ80075.1| RpoH [Escherichia coli LW1655F+] gi|73857538|gb|AAZ90245.1| RNA polymerase, sigma(32) factor [Shigella sonnei Ss046] gi|81242873|gb|ABB63583.1| RNA polymerase, sigma(32) factor [Shigella dysenteriae Sd197] gi|81247235|gb|ABB67943.1| RNA polymerase sigma(32) factor [Shigella boydii Sb227] gi|85676582|dbj|BAE77832.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K12 substr. W3110] gi|91074524|gb|ABE09405.1| component of RNA polymerase, sigma 32 factor [Escherichia coli UTI89] gi|110345293|gb|ABG71530.1| RNA polymerase sigma-32 factor [Escherichia coli 536] gi|115514863|gb|ABJ02938.1| RNA polymerase sigma factor [Escherichia coli APEC O1] gi|157068618|gb|ABV07873.1| alternative sigma factor RpoH [Escherichia coli HS] gi|157080426|gb|ABV20134.1| alternative sigma factor RpoH [Escherichia coli E24377A] gi|169753235|gb|ACA75934.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli ATCC 8739] gi|169890810|gb|ACB04517.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli str. K-12 substr. DH10B] gi|170124213|gb|EDS93144.1| alternative sigma factor RpoH [Escherichia albertii TW07627] gi|170521367|gb|ACB19545.1| alternative sigma factor RpoH [Escherichia coli SMS-3-5] gi|187427392|gb|ACD06666.1| alternative sigma factor RpoH [Shigella boydii CDC 3083-94] gi|187771635|gb|EDU35479.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4196] gi|188018405|gb|EDU56527.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4113] gi|188490706|gb|EDU65809.1| alternative sigma factor RpoH [Escherichia coli 53638] gi|189002511|gb|EDU71497.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4076] gi|189359084|gb|EDU77503.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4401] gi|189364663|gb|EDU83082.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4486] gi|189369524|gb|EDU87940.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4501] gi|189374649|gb|EDU93065.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC869] gi|189380077|gb|EDU98493.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC508] gi|190900463|gb|EDV60280.1| alternative sigma factor RpoH [Escherichia coli B7A] gi|190909154|gb|EDV68740.1| alternative sigma factor RpoH [Escherichia coli F11] gi|192932697|gb|EDV85294.1| alternative sigma factor RpoH [Escherichia coli E22] gi|192957859|gb|EDV88302.1| alternative sigma factor RpoH [Escherichia coli E110019] gi|194415037|gb|EDX31307.1| alternative sigma factor RpoH [Escherichia coli B171] gi|194420548|gb|EDX36624.1| alternative sigma factor RpoH [Shigella dysenteriae 1012] gi|194425371|gb|EDX41355.1| alternative sigma factor RpoH [Escherichia coli 101-1] gi|208725818|gb|EDZ75419.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4206] gi|208735740|gb|EDZ84427.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4045] gi|208741281|gb|EDZ88963.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4042] gi|209159524|gb|ACI36957.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. EC4115] gi|209756038|gb|ACI76331.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756040|gb|ACI76332.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756042|gb|ACI76333.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756044|gb|ACI76334.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209756046|gb|ACI76335.1| RNA polymerase sigma32 factor [Escherichia coli] gi|209914179|dbj|BAG79253.1| RNA polymerase sigma-32 factor [Escherichia coli SE11] gi|215266808|emb|CAS11249.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O127:H6 str. E2348/69] gi|217321939|gb|EEC30363.1| alternative sigma factor RpoH [Escherichia coli O157:H7 str. TW14588] gi|218353876|emb|CAV00268.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli 55989] gi|218358264|emb|CAQ90911.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia fergusonii ATCC 35469] gi|218362780|emb|CAR00406.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli IAI1] gi|218367298|emb|CAR05076.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli S88] gi|218372192|emb|CAR20054.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli IAI39] gi|218429310|emb|CAR10124.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli ED1a] gi|218434152|emb|CAR15069.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli UMN026] gi|222035167|emb|CAP77912.1| RNA polymerase sigma-32 factor [Escherichia coli LF82] gi|226839135|gb|EEH71158.1| alternative sigma factor RpoH [Escherichia sp. 1_1_43] gi|226902472|gb|EEH88731.1| alternative sigma factor RpoH [Escherichia sp. 3_2_53FAA] gi|227839486|gb|EEJ49952.1| RNA polymerase factor sigma-32 [Escherichia coli 83972] gi|238863499|gb|ACR65497.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli BW2952] gi|242378982|emb|CAQ33780.1| RNA polymerase, sigma 32 (sigma H) factor, subunit of RNA polymerase sigma 32 [Escherichia coli BL21(DE3)] gi|253322754|gb|ACT27356.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253975286|gb|ACT40957.1| RNA polymerase sigma factor [Escherichia coli B str. REL606] gi|253979442|gb|ACT45112.1| RNA polymerase sigma factor [Escherichia coli BL21(DE3)] gi|254594781|gb|ACT74142.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli O157:H7 str. TW14359] gi|257756216|dbj|BAI27718.1| RNA polymerase, sigma 32 factor [Escherichia coli O26:H11 str. 11368] gi|257761392|dbj|BAI32889.1| RNA polymerase, sigma 32 factor [Escherichia coli O103:H2 str. 12009] gi|257766542|dbj|BAI38037.1| RNA polymerase, sigma 32 factor [Escherichia coli O111:H- str. 11128] gi|260447523|gb|ACX37945.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli DH1] gi|281180490|dbj|BAI56820.1| RNA polymerase sigma-32 factor [Escherichia coli SE15] gi|284923451|emb|CBG36546.1| RNA polymerase sigma-32 factor [Escherichia coli 042] gi|290764674|gb|ADD58635.1| RNA polymerase sigma factor [Escherichia coli O55:H7 str. CB9615] gi|291321892|gb|EFE61323.1| alternative sigma factor RpoH [Escherichia coli B088] gi|291425853|gb|EFE98887.1| RNA polymerase factor sigma-32 [Escherichia coli FVEC1412] gi|291431441|gb|EFF04426.1| alternative sigma factor RpoH [Escherichia coli B185] gi|291468531|gb|EFF11024.1| alternative sigma factor RpoH [Escherichia coli B354] gi|294492777|gb|ADE91533.1| alternative sigma factor RpoH [Escherichia coli IHE3034] gi|298276624|gb|EFI18142.1| RNA polymerase sigma-32 factor [Escherichia coli FVEC1302] gi|299881444|gb|EFI89655.1| alternative sigma factor RpoH [Escherichia coli MS 196-1] gi|300297943|gb|EFJ54328.1| alternative sigma factor RpoH [Escherichia coli MS 185-1] gi|300306228|gb|EFJ60748.1| alternative sigma factor RpoH [Escherichia coli MS 200-1] gi|300316435|gb|EFJ66219.1| alternative sigma factor RpoH [Escherichia coli MS 175-1] gi|300357522|gb|EFJ73392.1| alternative sigma factor RpoH [Escherichia coli MS 198-1] gi|300399667|gb|EFJ83205.1| alternative sigma factor RpoH [Escherichia coli MS 69-1] gi|300400897|gb|EFJ84435.1| alternative sigma factor RpoH [Escherichia coli MS 84-1] gi|300408118|gb|EFJ91656.1| alternative sigma factor RpoH [Escherichia coli MS 45-1] gi|300415544|gb|EFJ98854.1| alternative sigma factor RpoH [Escherichia coli MS 115-1] gi|300453547|gb|EFK17167.1| alternative sigma factor RpoH [Escherichia coli MS 116-1] gi|300458400|gb|EFK21893.1| alternative sigma factor RpoH [Escherichia coli MS 21-1] gi|300461176|gb|EFK24669.1| alternative sigma factor RpoH [Escherichia coli MS 187-1] gi|300524733|gb|EFK45802.1| alternative sigma factor RpoH [Escherichia coli MS 119-7] gi|300532226|gb|EFK53288.1| alternative sigma factor RpoH [Escherichia coli MS 107-1] gi|300842511|gb|EFK70271.1| alternative sigma factor RpoH [Escherichia coli MS 124-1] gi|301075893|gb|EFK90699.1| alternative sigma factor RpoH [Escherichia coli MS 146-1] gi|305850591|gb|EFM51048.1| RNA polymerase factor sigma-32 [Escherichia coli NC101] gi|306908016|gb|EFN38516.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli W] gi|307555555|gb|ADN48330.1| component of RNA polymerase [Escherichia coli ABU 83972] gi|307628534|gb|ADN72838.1| RNA polymerase factor sigma-32 [Escherichia coli UM146] gi|308121790|gb|EFO59052.1| alternative sigma factor RpoH [Escherichia coli MS 145-7] gi|309703867|emb|CBJ03208.1| RNA polymerase sigma-32 factor [Escherichia coli ETEC H10407] gi|312287052|gb|EFR14962.1| alternative sigma factor RpoH [Escherichia coli 2362-75] gi|312948014|gb|ADR28841.1| RNA polymerase factor sigma-32 [Escherichia coli O83:H1 str. NRG 857C] gi|315062740|gb|ADT77067.1| RNA polymerase, sigma 32 (sigma H) factor [Escherichia coli W] gi|315138035|dbj|BAJ45194.1| RNA polymerase sigma factor [Escherichia coli DH1] gi|315256058|gb|EFU36026.1| alternative sigma factor RpoH [Escherichia coli MS 85-1] gi|315286128|gb|EFU45566.1| alternative sigma factor RpoH [Escherichia coli MS 110-3] gi|315291684|gb|EFU51040.1| alternative sigma factor RpoH [Escherichia coli MS 153-1] gi|315295969|gb|EFU55278.1| alternative sigma factor RpoH [Escherichia coli MS 16-3] gi|320175708|gb|EFW50796.1| RNA polymerase sigma factor RpoH [Shigella dysenteriae CDC 74-1112] gi|320187771|gb|EFW62446.1| RNA polymerase sigma factor RpoH [Shigella flexneri CDC 796-83] gi|320191521|gb|EFW66171.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. EC1212] gi|320194037|gb|EFW68670.1| RNA polymerase sigma factor RpoH [Escherichia coli WV_060327] gi|320199638|gb|EFW74228.1| RNA polymerase sigma factor RpoH [Escherichia coli EC4100B] gi|320639745|gb|EFX09339.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. G5101] gi|320645244|gb|EFX14260.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H- str. 493-89] gi|320650555|gb|EFX19021.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H- str. H 2687] gi|320655748|gb|EFX23671.1| RNA polymerase factor sigma-32 [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320661531|gb|EFX28946.1| RNA polymerase factor sigma-32 [Escherichia coli O55:H7 str. USDA 5905] gi|320666554|gb|EFX33537.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. LSU-61] gi|323154300|gb|EFZ40503.1| alternative sigma factor RpoH [Escherichia coli EPECa14] gi|323174100|gb|EFZ59728.1| alternative sigma factor RpoH [Escherichia coli LT-68] gi|323376672|gb|ADX48940.1| RNA polymerase, sigma 32 subunit, RpoH [Escherichia coli KO11] gi|323934553|gb|EGB30953.1| sigma protein RpoH [Escherichia coli E1520] gi|323939321|gb|EGB35532.1| sigma proteinRpoH [Escherichia coli E482] gi|323944315|gb|EGB40390.1| sigma protein RpoH [Escherichia coli H120] gi|323950129|gb|EGB46012.1| sigma proteinRpoH [Escherichia coli H252] gi|323954785|gb|EGB50566.1| sigma proteinRpoH [Escherichia coli H263] gi|323959687|gb|EGB55338.1| sigma proteinRpoH [Escherichia coli H489] gi|323966125|gb|EGB61562.1| sigma proteinRpoH [Escherichia coli M863] gi|323970059|gb|EGB65334.1| sigma proteinRpoH [Escherichia coli TA007] gi|323974898|gb|EGB70009.1| sigma proteinRpoH [Escherichia coli TW10509] gi|324009349|gb|EGB78568.1| alternative sigma factor RpoH [Escherichia coli MS 57-2] gi|324014559|gb|EGB83778.1| alternative sigma factor RpoH [Escherichia coli MS 60-1] gi|324018638|gb|EGB87857.1| alternative sigma factor RpoH [Escherichia coli MS 117-3] gi|324111782|gb|EGC05762.1| sigma proteinRpoH [Escherichia fergusonii B253] gi|324116341|gb|EGC10260.1| sigma proteinRpoH [Escherichia coli E1167] gi|325499010|gb|EGC96869.1| RNA polymerase factor sigma-32 [Escherichia fergusonii ECD227] gi|326337569|gb|EGD61404.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. 1044] gi|326344680|gb|EGD68429.1| RNA polymerase sigma factor RpoH [Escherichia coli O157:H7 str. 1125] gi|330909502|gb|EGH38016.1| RNA polymerase sigma factor RpoH [Escherichia coli AA86] gi|331036455|gb|EGI08681.1| alternative sigma factor RpoH [Escherichia coli H736] gi|331041766|gb|EGI13910.1| alternative sigma factor RpoH [Escherichia coli M605] gi|331047059|gb|EGI19137.1| alternative sigma factor RpoH [Escherichia coli M718] gi|331052972|gb|EGI25005.1| alternative sigma factor RpoH [Escherichia coli TA206] gi|331057580|gb|EGI29566.1| alternative sigma factor RpoH [Escherichia coli TA143] gi|331062349|gb|EGI34269.1| alternative sigma factor RpoH [Escherichia coli TA271] gi|331067855|gb|EGI39253.1| alternative sigma factor RpoH [Escherichia coli TA280] gi|331072701|gb|EGI44026.1| alternative sigma factor RpoH [Escherichia coli H591] gi|331077478|gb|EGI48690.1| alternative sigma factor RpoH [Escherichia coli H299] gi|332085344|gb|EGI90516.1| alternative sigma factor RpoH [Shigella boydii 5216-82] gi|332085690|gb|EGI90854.1| alternative sigma factor RpoH [Shigella dysenteriae 155-74] gi|332090225|gb|EGI95323.1| alternative sigma factor RpoH [Shigella boydii 3594-74] gi|332104368|gb|EGJ07714.1| RNA polymerase sigma 32 (sigma H) factor [Shigella sp. D9] gi|332345416|gb|AEE58750.1| alternative sigma factor RpoH [Escherichia coli UMNK88] Length = 284 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/288 (25%), Positives = 139/288 (48%), Gaps = 46/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LDSYIRAANAWPMLSADEERALAEKLHY-----HGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDLS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 186 SDDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQG------------L 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 DERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|294638156|ref|ZP_06716412.1| alternative sigma factor RpoH [Edwardsiella tarda ATCC 23685] gi|291088723|gb|EFE21284.1| alternative sigma factor RpoH [Edwardsiella tarda ATCC 23685] Length = 284 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 122/234 (52%), Gaps = 12/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEMGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVARELGVSEK 166 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD---FIEDKN---AVSPLDSAIQANLRETTT 614 V ++ ++ + ++ + P DE F++DK+ A D +++ + + Sbjct: 167 DVLEMESRMAAQDMAFDLPNDDEQEGAPAAPVLFLQDKSSDFANEIEDDNWESHAADKLS 226 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 227 VALEGLDERSQHIIRARW-LDSENKATLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|332981002|ref|YP_004462443.1| RNA polymerase sigma-28 subunit SigF [Mahella australiensis 50-1 BON] gi|332698680|gb|AEE95621.1| RNA polymerase, sigma 28 subunit, SigF [Mahella australiensis 50-1 BON] Length = 256 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 68/246 (27%), Positives = 126/246 (51%), Gaps = 15/246 (6%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E ++ VR+G +A+ + + E NL LV +V +K+ NRG ++ DL Q G++GL+KA Sbjct: 21 EIEDLIVKVRQGNKQAA---EILAERNLGLVHNVVRKFMNRGYEYDDLFQVGSMGLVKAI 77 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +D KFSTYA+ + I R + D +I++ ++ +K+ R+ ++ R Sbjct: 78 NNYDLSYNVKFSTYAVPMIMGEIKRFLRDDG-SIKVSRSVKIAAYKIHNAQDRIKKELGR 136 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISL-ETPIGDEDTS-HLGDFIEDKNAVSPLDS 603 EP+ +E+A L M V ++ P+SL ++ D ++S L D I D + + D Sbjct: 137 EPSVQELATALDMEPADVVYAMEADTVPVSLYDSAYEDGESSISLIDRISDGDELDT-DV 195 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 + L+E +A L + +V+ +R+ D T EV + +T+ ++ +IE K Sbjct: 196 IDRVALKEC----IAQLDAKGRQVILLRYF----KDKTQSEVAQMLGITQVQVCRIEKKV 247 Query: 664 IRKLKH 669 + ++ Sbjct: 248 LEFMRQ 253 >gi|157368473|ref|YP_001476462.1| RNA polymerase factor sigma-32 [Serratia proteamaculans 568] gi|157320237|gb|ABV39334.1| RNA polymerase, sigma 32 subunit, RpoH [Serratia proteamaculans 568] Length = 285 Score = 83.6 bits (205), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/244 (26%), Positives = 129/244 (52%), Gaps = 18/244 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KQLILSHLRFVAHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVA 158 Query: 554 KKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGD-----FIEDKN---AVSPLDSA 604 ++L + + VR++ ++ + ++ + P D+D +++DK+ A + Sbjct: 159 RELGVTSKDVREMESRMAAQDMTFD-PTPDDDAREGQSMAPVLYLQDKSSDFAEGIEEDN 217 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 ++N + + L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A+ Sbjct: 218 WESNAADKLAYAMEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAM 276 Query: 665 RKLK 668 +KLK Sbjct: 277 KKLK 280 >gi|54295507|ref|YP_127922.1| RNA polymerase factor sigma-32 [Legionella pneumophila str. Lens] gi|53755339|emb|CAH16835.1| RNA polymerase sigma-32 factor [Legionella pneumophila str. Lens] Length = 284 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 73/285 (25%), Positives = 135/285 (47%), Gaps = 39/285 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS + N+I +++E I+ +E H +G+ EA+ +++V A+LR V+ VA+ Sbjct: 17 LDSYIHRVNQIPMLTLEEEIAYAERFH-----SEGDIEAA---RQLVLAHLRYVVRVARG 68 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + +++ Sbjct: 69 YLGYGLPLSDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNWRIVKVA 128 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISL-ETPIG 581 + K+ R+M N++ E V+ V K L +++E + L E + Sbjct: 129 TTKAQR--KLFFNLRQMKNRLGWFSNEE---------VDAVAKDLGVSREDVLLMEQRLN 177 Query: 582 DEDTSHLGDF-----------------IEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 D+S+ + D AV + RE + L R Sbjct: 178 VMDSSYDAPDVDDNDDAYKAPERYLFNVNDDPAVLLENEDTGDQGREKLLFAMEQLDERS 237 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + +L+ R+ TL ++ +++ V+ ER+RQ+E A++K++ Sbjct: 238 QDILQQRW--LAEEKLTLHDLAEKYGVSAERVRQLEKNAMKKIRQ 280 >gi|238784413|ref|ZP_04628423.1| RNA polymerase sigma-32 factor [Yersinia bercovieri ATCC 43970] gi|238714705|gb|EEQ06707.1| RNA polymerase sigma-32 factor [Yersinia bercovieri ATCC 43970] Length = 285 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-----ANLRETT 613 VR++ +++ + ++ + DE D + + ++ S I+ + + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGQSMAPVLYLQDKTSDFADGIEEDNWDNHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 AYALEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|295109704|emb|CBL23657.1| RNA polymerase, sigma subunit, RpsG/SigG [Ruminococcus obeum A2-162] Length = 259 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 72/233 (30%), Positives = 123/233 (52%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++ ++ NLRLV+SV +++ N DL Q G IGLMKA + FD L KFSTYA+ Sbjct: 38 AREQYIKGNLRLVLSVIRRFQNSNENPDDLFQIGCIGLMKAVDNFDDTLMVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT EEIA+++ + E + Sbjct: 98 IIGEIRRYLRDYN-SIRVSRSLRDIAYKAIYAKENYIRQNLKEPTMEEIAEEIGIEKEMI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSP--LDSAIQANLRETTTRVLAS 619 L + P+SL P+ E DT ++ D I D+ L++ +L+E R Sbjct: 157 VYALDAIQSPVSLYEPVYSEGGDTLYVMDQISDRKNKEEHWLEN---LSLKEAMNR---- 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L RE ++ MRF G T EV + +++ ++ ++E A++ +++ R Sbjct: 210 LGSRERHIIEMRFYEG----KTQMEVADEIGISQAQVSRLEKNALKTMRNYLR 258 >gi|297195554|ref|ZP_06912952.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197721376|gb|EDY65284.1| sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 291 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/251 (26%), Positives = 124/251 (49%), Gaps = 13/251 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 IS S F + S+ +G E + ++E NL LV A ++ NR Q D+IQ G IGL Sbjct: 43 ISKSFFVRLASL-EEGTHEYQYVRNTLIELNLALVKYAAGRFRNRAEQMEDIIQVGTIGL 101 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA ++F+ +F+T+A+ ++ I R D S + +P +++ + + +S Sbjct: 102 IKAIDRFELSREVEFATFAVPYIIGEIKRFFRDTSWAVHVPRRLQELRIDLAKAVDELSQ 161 Query: 542 KIKREPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 K+ PT E+A+ L M +EGV T S++ P+ D+ + H + D+ Sbjct: 162 KLDHTPTTAELAEHLGMDEEEIIEGVVASNGYTAG--SIDMPM-DDASDHGAVPLSDRLG 218 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + I N+ + ++ L R+ ++L+MRFG M T E+G + V++ + Sbjct: 219 APDAELEIAENV-QALKPLIEELDERDRQILQMRFGEEM----TQSEIGAELGVSQMHVS 273 Query: 658 QIEAKAIRKLK 668 ++ ++ +L+ Sbjct: 274 RLLSRITARLR 284 >gi|256787303|ref|ZP_05525734.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 308 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 119/240 (49%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E + + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 73 LEEGTHEHAYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 132 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A Sbjct: 133 VEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTVSELA 192 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 + L + VEG+ T + + P D+ L D I + D ++ Sbjct: 193 EHLGLSKDEVVEGMAASNAYTASSLDAQ-PEEDDAEGALADRIGYE------DHGLEGIE 245 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF GM T E+G++ +++ + ++ ++ + +L+ Sbjct: 246 YVESLKPLIAELPSRDRKILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVRLR 301 >gi|21221509|ref|NP_627288.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289771198|ref|ZP_06530576.1| SigI protein [Streptomyces lividans TK24] gi|5911753|emb|CAB55836.1| SigI protein [Streptomyces coelicolor A3(2)] gi|7672251|emb|CAB89440.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289701397|gb|EFD68826.1| SigI protein [Streptomyces lividans TK24] Length = 304 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 119/240 (49%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E + + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G Sbjct: 69 LEEGTHEHAYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRG 128 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A Sbjct: 129 VEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTVSELA 188 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 + L + VEG+ T + + P D+ L D I + D ++ Sbjct: 189 EHLGLSKDEVVEGMAASNAYTASSLDAQ-PEEDDAEGALADRIGYE------DHGLEGIE 241 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF GM T E+G++ +++ + ++ ++ + +L+ Sbjct: 242 YVESLKPLIAELPSRDRKILSLRFVAGM----TQSEIGEELGISQMHVSRLLSRTLVRLR 297 >gi|238759635|ref|ZP_04620796.1| RNA polymerase sigma-32 factor [Yersinia aldovae ATCC 35236] gi|238702178|gb|EEP94734.1| RNA polymerase sigma-32 factor [Yersinia aldovae ATCC 35236] Length = 285 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 61/235 (25%), Positives = 123/235 (52%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVAHVARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VELVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQ-----ANLRETT 613 VR++ +++ + ++ + DE D + + ++ S I+ ++ + Sbjct: 167 DVREMESRMSAQDMTFDPSPDDEARDGHSMAPVLYLQDKSSDFADGIEEDNWDSHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L R + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 227 SYAMEGLDERSQHIIRARW-LDDDNKSTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|27904539|ref|NP_777665.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|31340406|sp|Q89B27|RP32_BUCBP RecName: Full=RNA polymerase sigma-32 factor gi|27903936|gb|AAO26770.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 287 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/243 (25%), Positives = 117/243 (48%), Gaps = 28/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI V++ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 50 AAKTLILSHLRFVIHVSRNYSGYGLLQADLIQEGNIGLMKAVRRFNPKIGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E E +A++L + E Sbjct: 110 IKSEIHEYVLRNWRIVKVATTKSQRKLFFNLRKTKQRLGWFNDHE--LELVAQELGVKRE 167 Query: 562 GVRKV-LKITKEPISLE---------------TPIGDEDTSHLGDFIEDKNAVSPLDSAI 605 VR++ +++ + I+L P + S + +E+ N Sbjct: 168 DVREMESRMSAQDIALHHVPDNFREEQNFSYTIPYLKDSLSDFANHVEEDNW-------- 219 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 +A+ + L+SL R ++ R+ + TL E+ + ++ ER+RQ+E A++ Sbjct: 220 EAHKTNKLSNALSSLDERSRNIIHARWLDDSDHKMTLREIAHNYGISAERVRQLEKNAMK 279 Query: 666 KLK 668 KLK Sbjct: 280 KLK 282 >gi|225026956|ref|ZP_03716148.1| hypothetical protein EUBHAL_01212 [Eubacterium hallii DSM 3353] gi|224955721|gb|EEG36930.1| hypothetical protein EUBHAL_01212 [Eubacterium hallii DSM 3353] Length = 275 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 40/133 (30%), Positives = 81/133 (60%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++EANL + +AK+Y RGL DLIQEGNIGLM A +F+ + F ++ Sbjct: 138 ARNLLIEANLSRAVEIAKEYEGRGLLLSDLIQEGNIGLMVAVNEFEPDIDKDFHAFSEKM 197 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++ + ++ + + + R V M ++++++ A + + +RE P EIA+++ + E V Sbjct: 198 IRKHLEETLEEYNSSTRSAVKMANRVNEMNDIATAFAKEYEREAKPSEIAERMGITEEEV 257 Query: 564 RKVLKITKEPISL 576 R+++K++ + I++ Sbjct: 258 RELMKVSLDAIAV 270 >gi|325662347|ref|ZP_08150956.1| hypothetical protein HMPREF0490_01695 [Lachnospiraceae bacterium 4_1_37FAA] gi|325471349|gb|EGC74572.1| hypothetical protein HMPREF0490_01695 [Lachnospiraceae bacterium 4_1_37FAA] Length = 234 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 52/154 (33%), Positives = 86/154 (55%), Gaps = 3/154 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ ++ NLRLV+SV K++ + DL Q G +GLMKA + F+ L KFSTYA+ Sbjct: 38 ARERYIKGNLRLVLSVIKRFASSNENVDDLFQIGCVGLMKAIDNFNTDLQVKFSTYAVPM 97 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D + +IR+ +RD +K + + +EPT EEIA+++ + E + Sbjct: 98 IIGEIRRYLRDNN-SIRVSRSLRDTAYKAIYAKEGYMKRHLKEPTVEEIAEEIGIAKEDI 156 Query: 564 RKVLKITKEPISLETPIGDE--DTSHLGDFIEDK 595 L + P+SL P+ ++ D ++ D I DK Sbjct: 157 IFALDAIQAPMSLNEPVYNDSGDALYVMDQISDK 190 >gi|331269204|ref|YP_004395696.1| FliA/WhiG family RNA polymerase sigma 28 subunit [Clostridium botulinum BKT015925] gi|329125754|gb|AEB75699.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium botulinum BKT015925] Length = 252 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 118/226 (52%), Gaps = 16/226 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V+ NL LV +++KK+ NRG ++ D+ Q G++GL+KA FD +FSTYA+ + Sbjct: 34 QLVQKNLPLVSAISKKFLNRGYEYEDIFQIGSMGLIKAINNFDSSYNVQFSTYAVPMIMG 93 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R I D I++ ++ K+ +++ ++ REP+ EE++K + E + Sbjct: 94 EIKRFIRDDGL-IKVSRSVKYTAKKLHYDKEKLTKQLNREPSIEELSKFSGISKEEIIFS 152 Query: 567 LKITKEPISLETPIGDEDTS--HLGD--FIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + EP L I +D S +L D ++DK + LD + L+E L+ L Sbjct: 153 SEAINEPKYLYDTIHQDDGSPIYLIDKVVVDDKGEIDELD---KIALKEA----LSKLDQ 205 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R +++ +R+ D T +V K +++ ++ +IE K ++ +K Sbjct: 206 RSRQIIILRYF----KDITQVKVAKMLGISQVQVSRIEKKVLKSMK 247 >gi|253580606|ref|ZP_04857870.1| RNA polymerase [Ruminococcus sp. 5_1_39B_FAA] gi|251847977|gb|EES75943.1| RNA polymerase [Ruminococcus sp. 5_1_39BFAA] Length = 237 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 62/242 (25%), Positives = 126/242 (52%), Gaps = 12/242 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++ K + A+ + + N LV S+AK++ R ++ D++Q G+IGL+KA ++F Sbjct: 3 HTLALIMKSQQGDKEARDTVFKENAGLVYSMAKRFAGRSVEMEDIVQIGSIGLLKAIDRF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D +++ ++++ ++ + ++ REP Sbjct: 63 DISYDVKFSTYAVPMIIGEIRRYLRDDGM-LKVSRNLKENCARIYSAREALEKELGREPI 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQ 606 EE+AK + V+ V ++ E SL I GD + L D +++K + D+A+ Sbjct: 122 LEEVAKATELSVDEVVMSMESGAEVESLHKIIYQGDGNDISLMDRLQEKE--NGQDAALN 179 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R +L L RE +++ MR+ D T E+ + +++ ++ ++E + +++ Sbjct: 180 ---RIFLDEILKKLDARERQLIGMRY----FKDMTQTEIAAEMGISQVQVSRMEKRILKE 232 Query: 667 LK 668 LK Sbjct: 233 LK 234 >gi|326318574|ref|YP_004236246.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax avenae subsp. avenae ATCC 19860] gi|323375410|gb|ADX47679.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax avenae subsp. avenae ATCC 19860] Length = 313 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 118/250 (47%), Gaps = 28/250 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD + +YAM W Sbjct: 60 AAGRMVMSHLRLVVSIARQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-----------REPTPEE- 551 +K I I +++ + K+ R M K RE E+ Sbjct: 120 IKAEIHEYILKNWRMVKVATTKSQR--KLFFNLRSMKQGFKADSAAGNTGTHRETLSEQE 177 Query: 552 ---IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +A++L + E V ++ +++ + L+ D+ G + + I++ Sbjct: 178 IDVVAQQLNVKREEVIEMETRLSGGDVMLDPAPSDDGEQAYGPIAYLADGTHEPTAMIES 237 Query: 608 NLRET-----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQ 658 R+ LA+L R R++ R+ + +N D TL E+ + V+ ERIRQ Sbjct: 238 RQRDVLATDGIANALATLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAVYGVSAERIRQ 296 Query: 659 IEAKAIRKLK 668 IE A++K+K Sbjct: 297 IEVAAMKKMK 306 >gi|90023234|ref|YP_529061.1| RNA polymerase factor sigma-32 [Saccharophagus degradans 2-40] gi|89952834|gb|ABD82849.1| CheW protein [Saccharophagus degradans 2-40] Length = 284 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 71/235 (30%), Positives = 122/235 (51%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ G + ++A+ W Sbjct: 50 AARKMVMAHLRFVVHIAKSYSGYGLSQSDLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I I ++I R + +R++ E E +A+ L + V+ Sbjct: 110 IKAEIHEFILRNWRIVKIATTKAQRKLFFNLRGQKKRLAWLTNSE--AEAVAQDLNVDVK 167 Query: 562 GVRKV-LKITKEPISLETPIG-DEDTSHL--GDFIEDKNA-VSPL--DSAIQANLRETTT 614 VR++ ++ + + D+DT++ +++ED+ S L D N T Sbjct: 168 HVREMEGRLASFDATFDAGADEDDDTAYQAPANYLEDRRYDPSTLLEDEDWTENSVSGLT 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R +L+ R+ ++ D TL ++ Q+ V+ ERIRQ+E A++K+K Sbjct: 228 TALESLDDRSRDILQQRW---LSDDKSTLHDLAAQYGVSAERIRQLEKNAMKKVK 279 >gi|126642303|ref|YP_001085287.1| EsvH [Acinetobacter baumannii ATCC 17978] Length = 233 Score = 83.2 bits (204), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 118/231 (51%), Gaps = 15/231 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K Sbjct: 2 LVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHWIKAE 61 Query: 508 ITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I + ++I + K+ +R+ ++ S K+ E + IA L + E V ++ Sbjct: 62 IHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEA-QSIANDLNVTPEQVLEM 120 Query: 567 -LKITKEPISLETPI-GDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA---- 618 ++T + E D+DT H ++ED N P + E +T L Sbjct: 121 EGRLTAYDAAFEAQGDDDDDTPHTAPVLYLED-NRYDPARLVENEDWEEQSTSALHDAMN 179 Query: 619 SLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 180 QLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNAMEKIK 227 >gi|167507895|gb|ABZ81268.1| RpoD [Thalassospira profundimaris] Length = 262 Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 87/157 (55%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ + IA+ Y +L Q+ A+N + ++ + + LK ++V Sbjct: 106 SLSKMEEELTEQVLEKFELIAKTYEKLHKAQEQRLVAMNKGEAVPAATEKRYNKLKNEMV 165 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 166 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRFADRCKIKRPDFIKQYQGHELDPN 225 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ P WK FV + I +R I +S E Sbjct: 226 WMERVGGLPGKGWKTFVERYSEEIASLREGIGGVSAE 262 >gi|120600694|ref|YP_965268.1| RNA polymerase factor sigma-32 [Shewanella sp. W3-18-1] gi|146291400|ref|YP_001181824.1| RNA polymerase factor sigma-32 [Shewanella putrefaciens CN-32] gi|120560787|gb|ABM26714.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. W3-18-1] gi|145563090|gb|ABP74025.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella putrefaciens CN-32] gi|319428373|gb|ADV56447.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella putrefaciens 200] Length = 285 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/235 (29%), Positives = 122/235 (51%), Gaps = 16/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R A++ E +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKAKKRLGWFSDEEVT-MVAENLGVSKAD 170 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RVL 617 V ++ + L + DE ++ED + S L I+ + E+ R+L Sbjct: 171 VTEMESRMAAQDPAFDLTSDNDDEQDFAPVHYLEDHS--SDLAENIENDNWESNAQGRLL 228 Query: 618 ASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +ER +LR R+ ++ D TL+E+ + + V+ ERIRQ+E A+ KLK Sbjct: 229 SAIKTLDERSQHILRARW---LDDDKTTLQELAETYQVSAERIRQLEKNAMNKLK 280 >gi|109900247|ref|YP_663502.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoalteromonas atlantica T6c] gi|109702528|gb|ABG42448.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudoalteromonas atlantica T6c] Length = 289 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/235 (26%), Positives = 123/235 (52%), Gaps = 14/235 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A ++++ ++LR V+ +AK Y+ GL DLIQEGNIGLMKA +FD +G + ++A+ Sbjct: 56 LAARKLIMSHLRFVVHIAKSYSGYGLPQADLIQEGNIGLMKAVRRFDPTVGVRLVSFAVH 115 Query: 503 WVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W+K I + +++ R + + +R+ E +++A L + Sbjct: 116 WIKAEIHEFVLRNWRIVKVATTKAQRKLFFNLRKNKKRLGWFTHAE--VQKVASDLGVSE 173 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETTTRVL 617 + V ++ +++ + + D+++ F+EDK+A D + A+ T ++ L Sbjct: 174 KEVLQMEARMSSHDQAFDLSADDDESGSFAPVQFLEDKSADVETD-VVNADWDATASQKL 232 Query: 618 AS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 S L R + +++ R+ T TL+++ ++ V+ ER+RQIE A++KL+ Sbjct: 233 YSAIKTLDERSQHIIQTRWLSDDKT--TLQDLADKYQVSAERVRQIEKNAMKKLQ 285 >gi|149923127|ref|ZP_01911542.1| RNA polymerase sigma-C factor [Plesiocystis pacifica SIR-1] gi|149816035|gb|EDM75549.1| RNA polymerase sigma-C factor [Plesiocystis pacifica SIR-1] Length = 304 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 110/234 (47%), Gaps = 16/234 (6%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A + ++EA+LR V+++A+ Y N G +L+ EGN+GL++A E FD G +F TY + Sbjct: 52 LAGQRLIEAHLRDVVAIARGYRNYGHPMAELVAEGNVGLVRALESFDPERGLRFMTYGRY 111 Query: 503 WVKQAITRSIADQSCTIRI---PVHMR--DKIHKVVRTARRMSNKIKREPTPEE--IAKK 555 WV+ I + +R+ H R +H+ R + +R+ E +A+ Sbjct: 112 WVRARILAHVQRSWSLVRVGSSSAHTRLFYGLHRA--RGRFQATAGERDGAAERAALAEY 169 Query: 556 LAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 V + +I +SL+ P S E + + + +RE Sbjct: 170 FGCSEAHVEAMAARIDGRDLSLDHPSSAALVS------ESTVEATIFEREVGELVRERIA 223 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ L PRE +LR R + +L EVG++ ++RER RQ+E + KL+ Sbjct: 224 AVIRELDPRERVILRRRLLDESGSPPSLVEVGRELGLSRERTRQLEQRVKTKLR 277 >gi|315648111|ref|ZP_07901212.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus vortex V453] gi|315276757|gb|EFU40100.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Paenibacillus vortex V453] Length = 262 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 115/230 (50%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AKK+++E +L +V V+ + + + DL G +GL+ A EKFD+ G +F TYA Sbjct: 26 AKKKLIEYHLHIVDYVSSRLAIGLPKNVSKGDLASNGVMGLIDAIEKFDYKRGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W V+ AI S+ +P +R+K ++ +++ K R + E++ L + Sbjct: 86 SWRVRGAILDSLRQGDW---VPRSVREKAKRIETAYQQLEQKYLRSVSDSEMSDYLDVTE 142 Query: 561 EGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + R +L+ SLE PI +E++ + D+ A +P + LRE + + Sbjct: 143 KEFRHMLQEVAVMTLTSLEDPIREEESETRMSLLVDEKAKNPDHKVHEFYLREALMKGIG 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LTP+E V+ + + D +L E+ + ++ RI Q+ +KAI +L+ Sbjct: 203 KLTPKERTVVSLLY----YEDLSLSEIAEVMSLSPSRISQLHSKAILRLR 248 >gi|49474699|ref|YP_032741.1| RNA polymerase factor sigma-32 [Bartonella quintana str. Toulouse] gi|49240203|emb|CAF26671.1| RNA polymerase sigma-32 factor [Bartonella quintana str. Toulouse] Length = 303 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 121/245 (49%), Gaps = 31/245 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++ +I I +R + ++R K+V+ N + ++ IA+ Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAKLVQD----DNALTKQDIFRTIAE 171 Query: 555 KLAMPVEGVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 +L + V V + + D + + ++D SPL A+ + Sbjct: 172 RLGVSVRDVETMDFRFSSSDNSLSVSVSENSDNPIAKMDALVDD----SPLPDALIEQVI 227 Query: 611 ETTTRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKA 663 ++ R L SL RE ++R R +N + TLE +G++ +++ER+RQIEA+A Sbjct: 228 DSQRRTQWLHDALQSLNERELEIIRFR---RLNEEGATLEVLGEKLGISKERVRQIEARA 284 Query: 664 IRKLK 668 ++KL+ Sbjct: 285 LQKLR 289 >gi|325660705|ref|ZP_08149334.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 4_1_37FAA] gi|331085570|ref|ZP_08334654.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 9_1_43BFAA] gi|325473012|gb|EGC76221.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 4_1_37FAA] gi|330407457|gb|EGG86959.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 9_1_43BFAA] Length = 240 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 123/241 (51%), Gaps = 10/241 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++++ A++++VE N LV + K++ RG DL Q G+IGL+KA +KF Sbjct: 3 HTIALIQRSHDGDEKAREQLVEENTGLVWCIVKRFFGRGTDSEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K R+ K REPT Sbjct: 63 DLNYDVKFSTYAVPMISGEIRRFLRDDGM-IKVSRSLKETAYKAFLARERLQKKYNREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EE+A +L + E + L + E SL PI +D G+ I+ + + + + Sbjct: 122 MEELAAELEVEKEELAMALDASGEVESLHKPIYQKD----GNEIQLLDKLEEEEGQEETI 177 Query: 609 LRETTTRVLASLTPREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L R L REER ++ +R+ + T E+GK+ +++ ++ ++E K ++ + Sbjct: 178 LNHMLIRQLLEELDREERQLIYLRY----FANQTQSEIGKKLGISQVQVSRLEKKILKNM 233 Query: 668 K 668 + Sbjct: 234 R 234 >gi|222112015|ref|YP_002554279.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax ebreus TPSY] gi|221731459|gb|ACM34279.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax ebreus TPSY] Length = 311 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/248 (28%), Positives = 119/248 (47%), Gaps = 26/248 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGRLVLSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK---------REPTPEE--- 551 +K I I +++ + K+ R M K RE + Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADALDADTHRETLSDHEID 177 Query: 552 -IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +A++L + E V ++ +++ + L+ D+ G +A + I++ Sbjct: 178 LVAEQLNVKREEVIEMETRLSGGDVLLDPAPSDDGEQAFGPIAYLADAGHEPTAMIESRQ 237 Query: 610 RET-----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIE 660 R+ L SL R R++ R+ + +N D TL E+ ++ V+ ERIRQIE Sbjct: 238 RDALATDGIATALDSLDARSRRIVEQRW-LQVNDDGSGGMTLHELAAEYGVSAERIRQIE 296 Query: 661 AKAIRKLK 668 A++K+K Sbjct: 297 VAAMKKMK 304 >gi|332969043|gb|EGK08083.1| deoxyuridine 5'-triphosphate nucleotidohydrolase [Kingella kingae ATCC 23330] Length = 287 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 86/302 (28%), Positives = 144/302 (47%), Gaps = 44/302 (14%) Query: 384 VSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASI 443 +++A P G ++ + N I +S+E + ++E R I KG+ EA+ Sbjct: 1 MNFALPIPSGH------GSLEQYIHTVNNIPMLSLEEEVGLAE-RQI-----KGDLEAA- 47 Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 K+++ ++LR+V+S+A+ Y GL DLIQEGNIGLMKA ++++ G + ++A+ W Sbjct: 48 --KKLILSHLRVVVSIARGYDGYGLNQADLIQEGNIGLMKAVKRYEPNHGARLFSFAVHW 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPV 560 +K I I +R+ + K+ R M + + +P+E IA L + + Sbjct: 106 IKAEIHEFILRNWRLVRVATTKPQR--KLFFNLRSMRSSLS-ALSPKEAQSIADDLGVKL 162 Query: 561 EGVRKV-LKITKEPISL-----------ETPI-GDEDTSH-LGDFIEDKNAVSPLDSAIQ 606 V ++ ++T I L PI D SH +E K + +Q Sbjct: 163 SEVMEMEQRMTGRDIGLLADNNDDDDAAFAPIEWLSDASHEPSQQLERKAHYALQTDGLQ 222 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 A LA L R R++ R+ + TL E+ ++ V+ ERIRQIE KA++K Sbjct: 223 A--------ALAQLDERSRRIVETRW-LQDEGALTLHELAAEYGVSAERIRQIEVKAMQK 273 Query: 667 LK 668 LK Sbjct: 274 LK 275 >gi|289578314|ref|YP_003476941.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|297544594|ref|YP_003676896.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528027|gb|ADD02379.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter italicus Ab9] gi|296842369|gb|ADH60885.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 246 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 61/239 (25%), Positives = 120/239 (50%), Gaps = 12/239 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++R + + ++++ N L+ S+ KK++NRG + DL Q G +G +KA +KFD Sbjct: 13 LTLIRAAQKNDKESLEKLILENSGLIWSIVKKFSNRGYELEDLYQIGCMGFVKAVQKFDE 72 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 K STYA+ + I R + D I++ +++ K +S+++ REPT Sbjct: 73 SYNVKLSTYAVPIIMGEIKRFLRDDGL-IKVSRSLKELSTKAFYLKEVLSSELNREPTIN 131 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EIA++L + E V + SL + DED L + + ++ +D + + Sbjct: 132 EIAERLKVSPEEVAMAFESAATAESLYDNATHDEDDRLLIEMVSEEEKEVDIDDKLALQM 191 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ L PRE++++ +R+ D T E+ +++ ++ +IE K ++KL+ Sbjct: 192 ------VINKLKPREKQIIFLRYF----KDMTQMEIASILGISQVQVSRIEKKVLQKLR 240 >gi|332529979|ref|ZP_08405929.1| RNA polymerase sigma-32 subunit RpoH [Hylemonella gracilis ATCC 19624] gi|332040452|gb|EGI76828.1| RNA polymerase sigma-32 subunit RpoH [Hylemonella gracilis ATCC 19624] Length = 326 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/255 (27%), Positives = 126/255 (49%), Gaps = 31/255 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV++ A++Y GL DLIQEGN+GLMKA ++FD G + +YA+ W Sbjct: 66 AAGKLVLSHLRLVVATARQYMGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYALHW 125 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARR---------------MSNKIKREP 547 +K I I +++ + K+ +R+ ++ + RE Sbjct: 126 IKAEIHEYILKNWRMVKVATTKAQRKLFFNLRSKKQGYKAASAADSSLHDGLDAATHRET 185 Query: 548 TPE----EIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 E ++A++L + E V ++ +++ + L+ G++ G +A Sbjct: 186 LSEHEIDQMARELNVKREEVIEMETRLSGGDVMLDPGPGEDGEDSFGPIAYLTDAGHEPT 245 Query: 603 SAIQANLR-----ETTTRVLASLTPREERVLRMRFGIGMNTDH----TLEEVGKQFCVTR 653 + I+A R + + L +L PR R++ R+ + +N D TL E+ ++ V+ Sbjct: 246 AMIEARQRDRLATDGIAKALDALDPRSRRIVEERW-LKVNDDASGGMTLHELAAEYGVSA 304 Query: 654 ERIRQIEAKAIRKLK 668 ERIRQIE A++K+K Sbjct: 305 ERIRQIEVAAMKKMK 319 >gi|254412979|ref|ZP_05026751.1| RNA polymerase sigma factor, sigma-70 family [Microcoleus chthonoplastes PCC 7420] gi|196180143|gb|EDX75135.1| RNA polymerase sigma factor, sigma-70 family [Microcoleus chthonoplastes PCC 7420] Length = 260 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 48/156 (30%), Positives = 89/156 (57%), Gaps = 5/156 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + ++V N+ LV A + N+ + + DL+Q G +GL++A E+F G FS++A+ Sbjct: 30 TRNQLVYLNIGLVRREAHYWVNQCTESYEDLLQVGCLGLIRAIERFAPSKGNAFSSFAIP 89 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +++ I + D+ IRIP + + R++ ++ R+PT E+A+ L +P+ Sbjct: 90 YIRGEIQHYLRDRGGCIRIPRRWLALQQQSIAIIRQLRAQLNRQPTDAEVAEALEIPLAE 149 Query: 563 VR--KVLKITKEPISLETPIGDED--TSHLGDFIED 594 + K+ +EP+SL+TP+GDE+ T+ LGD + D Sbjct: 150 WQEIKLAHQNREPLSLDTPVGDEEDGTTSLGDIVPD 185 >gi|114776576|ref|ZP_01451621.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114553406|gb|EAU55804.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 281 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/249 (26%), Positives = 128/249 (51%), Gaps = 26/249 (10%) Query: 432 SMVRKGECEASIAK-KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++ RK + + +A ++++ ANL +V ++A++Y + GL DLIQEG +GLM+A ++FD Sbjct: 33 ALARKWQRDHDLASVQQLINANLHVVAAIAREYRHFGLPEEDLIQEGTLGLMQAVKRFDP 92 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G++ TYA +W++ +I I +++ + + RR+ +++ Sbjct: 93 DRGFRLKTYAAYWIRASIHDFILRSWSIVKMGTN---------KLQRRIFAGLQKAECA- 142 Query: 551 EIAKKLAMPVEGVRKVLKITKEPI-SLETPIGDEDTSHLGDFIEDKNAV---SPLDSAIQ 606 IA +EGV ++ E + D S D ED N + +P D+ Q Sbjct: 143 -IAALEGRGLEGVASQYGVSGESYQQIAASFLRRDYSIDSDATEDGNIIELPAPGDTPEQ 201 Query: 607 A----NLRETTT----RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 A + + TT + + +L+ R+ ++R R+ + TL+E+ + ++ ER+RQ Sbjct: 202 ALVAKDWQSFTTMQLKQAMEALSERDRNIIRQRYLV--EPPSTLKELSEDLGISIERVRQ 259 Query: 659 IEAKAIRKL 667 +EA+A++K+ Sbjct: 260 LEARAMKKI 268 >gi|325983562|ref|YP_004295964.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas sp. AL212] gi|325533081|gb|ADZ27802.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosomonas sp. AL212] Length = 281 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 125/240 (52%), Gaps = 14/240 (5%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ ++++ ++LR V+++A+ Y GL DLIQEGNIGLMKA ++FD G + Sbjct: 42 RGDIEAA---QQLIMSHLRFVVAIARGYKGYGLPQADLIQEGNIGLMKAVKRFDPERGVR 98 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI--- 552 ++A+ W+K I I ++I + + K+ R M + + P+E+ Sbjct: 99 LVSFAVHWIKAEIHEFIMRNWRLVKIATTKQQR--KLFFNLRSMKHGLD-TMNPQEVDAM 155 Query: 553 AKKLAMPVEGVRKVLK-ITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQ-ANL 609 A +L + E V ++ K ISLE DE DT +++ D S L Q +L Sbjct: 156 AAQLGVKAEEVIEMEKRFNGSDISLEPVSEDEDDTFSPINYLTDGTEPSQLLEKEQITHL 215 Query: 610 RET-TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE + L L R ++ R+ +T TL ++ + V+ ER+RQIE KA++K++ Sbjct: 216 REKGLQKSLDCLDKRSRHIIEARWLREKDTA-TLHDLADELGVSAERVRQIEVKALQKMR 274 >gi|302556259|ref|ZP_07308601.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302473877|gb|EFL36970.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 281 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 60/258 (23%), Positives = 134/258 (51%), Gaps = 34/258 (13%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKA 484 +F ++++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 36 QFFDRLAVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKA 95 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 ++FD +F+++A+ ++ I R D + + +P +++ ++ R + +++ Sbjct: 96 IDRFDLSREAEFTSFAVPYIVGEIKRFFRDTTWAVHVPRRLQEARVQLARATEELRSRLG 155 Query: 545 REPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPI--GDEDTSHLGDFI-------- 592 R PT +E+++ +++P + VR ++ SL+ I D+ + L DFI Sbjct: 156 RTPTVKELSELMSLPEQEVREARIAANGYNSSSLDATISGSDDGEAALQDFIGAEDQAME 215 Query: 593 --EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 ED +A++PL LA L R+ ++RMRF + T ++G++ Sbjct: 216 LVEDFHALAPL---------------LAELDERDRHIIRMRF----VEELTQAQIGERLG 256 Query: 651 VTRERIRQIEAKAIRKLK 668 V++ ++ ++ ++ + +L+ Sbjct: 257 VSQMQVSRLLSRTLARLR 274 >gi|297194001|ref|ZP_06911399.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|297152057|gb|EFH31507.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 305 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/240 (27%), Positives = 113/240 (47%), Gaps = 33/240 (13%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S + F + S+ +G E + + +VE NL LV A ++ R D+IQ G IGL Sbjct: 59 LSKTLFARLASL-EEGTHEYAYVRNTLVELNLALVKFAASRFRTRSEPMEDIIQVGTIGL 117 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA ++F+ G +F T+AM + I R D S ++R+P +++ + + +S Sbjct: 118 IKAIDRFELSRGVEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELSQ 177 Query: 542 KIKREPTPEEIAKKLAMP----VEGVRKVLKITKEPI-----------SLETPIGDEDTS 586 ++ R PT +E+A++L + VEG+ T + +L IG ED Sbjct: 178 QLDRAPTVDELAQRLDIGRDEVVEGMAASNAYTASSLDAQPEEDDSEGALANRIGYED-- 235 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 H + IE ++ P+ +ASL PR+ ++L +RF M EE+G Sbjct: 236 HGLEGIEYIESLRPM---------------IASLPPRDRKILSLRFVANMTQSEIGEELG 280 >gi|303304828|emb|CBL59288.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304830|emb|CBL59289.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304832|emb|CBL59290.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304834|emb|CBL59291.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304836|emb|CBL59292.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304838|emb|CBL59293.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304840|emb|CBL59294.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304842|emb|CBL59295.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304844|emb|CBL59296.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304846|emb|CBL59297.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304848|emb|CBL59298.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] gi|303304850|emb|CBL59299.1| RNA polymerase sigma-70 factor [Xanthomonas arboricola pv. pruni] Length = 246 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 51/132 (38%), Positives = 80/132 (60%), Gaps = 4/132 (3%) Query: 58 VSSEQMEDTVAMLSNMGINV----VDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSA 113 V EQ+ED ++M++ MGI+V D + L +G+ + ++ +A+ + D+ Sbjct: 1 VDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEEAAAALTALDTE 60 Query: 114 DRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDE 173 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + Sbjct: 61 GGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEA 120 Query: 174 LNDGTTLLREII 185 +G L EI+ Sbjct: 121 HKEGKKRLAEIV 132 >gi|120612533|ref|YP_972211.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax citrulli AAC00-1] gi|120590997|gb|ABM34437.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax citrulli AAC00-1] Length = 313 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/250 (28%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A MV ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD + +YAM W Sbjct: 60 AAGRMVMSHLRLVVSIARQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-----------REPTPEE- 551 +K I I +++ + K+ R M K RE E+ Sbjct: 120 IKAEIHEYILKNWRMVKVATTKSQR--KLFFNLRSMKQGFKADAAAGDAGTHRETLSEQE 177 Query: 552 ---IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 +A++L + E V ++ +++ + L+ D+ G + + + I++ Sbjct: 178 IDVVAQQLNVKREEVIEMETRLSGGDVMLDPAPSDDGEQAYGPIAYLADGMHEPTAMIES 237 Query: 608 NLRET-----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQ 658 R+ LA+L R R++ R+ + +N D TL E+ + V+ ERIRQ Sbjct: 238 RQRDVLATDGIANALATLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAVYGVSAERIRQ 296 Query: 659 IEAKAIRKLK 668 IE A++K+K Sbjct: 297 IEVAAMKKMK 306 >gi|71280363|ref|YP_266929.1| RNA polymerase factor sigma-32 [Colwellia psychrerythraea 34H] gi|71146103|gb|AAZ26576.1| RNA polymerase sigma-32 factor [Colwellia psychrerythraea 34H] Length = 285 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 127/245 (51%), Gaps = 31/245 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E++ ++LR VI VAK Y+ GL DL+QEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 48 AAQELIMSHLRFVIHVAKGYSGYGLPHADLVQEGNVGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ T E +A+ L + + Sbjct: 108 IKAEIHEFVLKNWRIVKVATTKAQR--KLFFNLRKNKKRLGWFSTEEVNTVAENLGVTTK 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLG-------DFIEDKNAVSPLDSAIQ------- 606 V ++ +++ + E D+D +LG +++DK + D A++ Sbjct: 166 DVMEMESRMSSHDQAFELSKDDDD--NLGSSSFSPAQYLQDKQS----DLAVEVENDNWD 219 Query: 607 --ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 AN R +T L +L R + +++ R+ T TL+E+ ++ ++ ER+RQ+E A+ Sbjct: 220 NHANKRLST--ALVTLDERSQDIIKTRWLTEDKT--TLQELANKYQISAERVRQLEKNAL 275 Query: 665 RKLKH 669 KLK+ Sbjct: 276 SKLKN 280 >gi|157373363|ref|YP_001471963.1| RNA polymerase factor sigma-32 [Shewanella sediminis HAW-EB3] gi|157315737|gb|ABV34835.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sediminis HAW-EB3] Length = 285 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 72/243 (29%), Positives = 124/243 (51%), Gaps = 32/243 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPNVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + +++ K + + R S K + EE+ V Sbjct: 112 IKAEIHEYVLKNWRIVKVAT---TKAQRKLFFNLRKSKKRLGWFSDEEVGM--------V 160 Query: 564 RKVLKITKEPIS-LETPIGDEDTSH-LGDFIEDKNAVSPL--------DSAIQA---NLR 610 L ++K ++ +E+ + +D + L +D + +P+ D A Q NL Sbjct: 161 ADNLGVSKADVTEMESRMAAQDPAFDLASDNDDDHDFAPMHYLEDHSSDLASQVENDNLE 220 Query: 611 ETT-TRVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIR 665 + R+L+++ +ER +L+ R+ +N D TL+E+ + V+ ERIRQ+E A+ Sbjct: 221 ASNQARLLSAIKTLDERSQHILQARW---LNEDKTTLQELAATYQVSAERIRQLEKNAMN 277 Query: 666 KLK 668 KLK Sbjct: 278 KLK 280 >gi|315127793|ref|YP_004069796.1| RNA polymerase factor sigma-32 [Pseudoalteromonas sp. SM9913] gi|315016307|gb|ADT69645.1| RNA polymerase factor sigma-32 [Pseudoalteromonas sp. SM9913] Length = 287 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 122/234 (52%), Gaps = 11/234 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V +AK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVAHIAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + + +R+ + E + +A +L + + Sbjct: 112 IKAEIHEFVLKNWRIVKVATTKAQRKLFFNLRKNKKRLGWFNQAEVST--VASELGVSEK 169 Query: 562 GVRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 VR++ +++ + + + D D T ++ D +A D Q ++ TR Sbjct: 170 EVREMESRMSGQDMGFDLTGDDNDDAPTSTYSPVQYLTDGSADLADDIEQQQWQEQSHTR 229 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++L +ER + ++ D TL+E+ +++ V+ ER+RQ+E A++KL+ Sbjct: 230 LFSALKTLDERSQDIVSARWLSDDKATLQELAEKYSVSAERVRQLEKTAMKKLQ 283 >gi|312793875|ref|YP_004026798.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Caldicellulosiruptor kristjanssonii 177R1B] gi|312181015|gb|ADQ41185.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor kristjanssonii 177R1B] Length = 240 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/239 (26%), Positives = 120/239 (50%), Gaps = 12/239 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + +A+++++E+NL LV SV KK+ +G++ DL Q G IGL+KA ++FD Sbjct: 9 LISKAKNGDKLARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSF 68 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 69 NVRFSTYAVPMIIGEIKRYLRDDG-KIKVSRKIKENQSKIKKLRNQFVSSNGREPTISEI 127 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + + + + T E SL + E+ L D D+ S + A L+ Sbjct: 128 SQLTGLSSDEILLCMDATSEVASLNDVVNQEEGKPITLMDIASDEEDYSTKLLDLMA-LK 186 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E L L RE ++ MR+ + T E+ K+ +++ + +IE +A+ ++K Sbjct: 187 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKELNISQVHVSRIEKRALERIKR 237 >gi|328952031|ref|YP_004369365.1| putative RNA polymerase, sigma 70 family subunit [Desulfobacca acetoxidans DSM 11109] gi|328452355|gb|AEB08184.1| putative RNA polymerase, sigma 70 family subunit [Desulfobacca acetoxidans DSM 11109] Length = 328 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 120/238 (50%), Gaps = 20/238 (8%) Query: 444 AKKEMVEANLRLVISVA---KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A ++ +NLRLV+ +A +K+ R L LDLIQEGNIGLM+A +KFD G K S YA Sbjct: 79 AAYTLITSNLRLVVKIALDFQKFWMRNL--LDLIQEGNIGLMQAIKKFDPYRGIKLSYYA 136 Query: 501 MWWVKQAITRSIADQSCTIRI-PVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 +W+K I + I D ++I + K+ ++ + E P+ I+ +L + Sbjct: 137 SFWIKAYILKFIMDNWKLVKIGTTQAQRKLFFSLKKEKERLRAQGYEADPKLISTRLNVK 196 Query: 560 -VEGVRKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 E + ++ SL+ P+ D + H+ + A + + +++ L Sbjct: 197 EAEVIEMDQRLGSWEFSLDAPLKSDSEELHINFLTSGETAAD--EHLAREEMKDIFLMRL 254 Query: 618 A----SLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 A +L E +L +R + +H TL+E+G + ++RER+RQIE + ++KL+ Sbjct: 255 AEFRNTLKDNERDILDLR----LLAEHPLTLQEIGARHNISRERVRQIEERLLKKLRQ 308 >gi|225389231|ref|ZP_03758955.1| hypothetical protein CLOSTASPAR_02977 [Clostridium asparagiforme DSM 15981] gi|225044710|gb|EEG54956.1| hypothetical protein CLOSTASPAR_02977 [Clostridium asparagiforme DSM 15981] Length = 239 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/155 (34%), Positives = 85/155 (54%), Gaps = 3/155 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V N+ L+ S+ +++ RG + DL Q G+IGLMKA +KFD KFSTYA+ Sbjct: 18 ARDQLVMDNVGLIWSIVRRFAGRGYEMEDLFQIGSIGLMKAIDKFDTTFEVKFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ KV M+ ++ REPT EEIA + + E V Sbjct: 78 ITGEIKRFLRDDG-MIKVSRSIKELGLKVKCAREEMTYELGREPTIEEIAGSVGVSREEV 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHLG--DFIEDKN 596 ++ E SL P+G D + L D +E++N Sbjct: 137 AASMEAGAEVESLYRPVGGSDDNQLCLMDRLEEEN 171 >gi|30424475|dbj|BAC76410.1| heat shock sigma-32 factor [Colwellia maris] Length = 285 Score = 82.8 bits (203), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 125/243 (51%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E++ ++LR VI VAK Y+ GL DL+QEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 48 AAQELIMSHLRFVIHVAKGYSGYGLPHADLVQEGNVGLMKAVKRFNPEVGVRLVSFAVHW 107 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ T E +A+ L + + Sbjct: 108 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKNKKRLGWFSTEEVNTVAENLGVTTK 165 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGDF-----IEDKNAVSPLDSAIQ--------- 606 V ++ +++ + E D+D +F ++DK + D A++ Sbjct: 166 DVMEMESRMSSYDQAFELSKDDDDNLGASNFSPAQYLQDKQS----DLAVEVENDNWDNH 221 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 AN R +T L +L R + +++ R+ T TL+E+ ++ ++ ER+RQ+E A+ K Sbjct: 222 ANKRLST--ALVTLDERSQDIIKTRWLTEDKT--TLQELANKYQISAERVRQLEKNALSK 277 Query: 667 LKH 669 LK+ Sbjct: 278 LKN 280 >gi|332975259|gb|EGK12159.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella kingae ATCC 23330] Length = 654 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 57/166 (34%), Positives = 88/166 (53%), Gaps = 8/166 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 +++I L ++RGY+T E+N LP D +EQ++ V M+ ++GI V D D L + Sbjct: 32 RRLIMLGKERGYITYAEINDSLPDDMSDAEQIDGIVNMIQSLGIQVTEEAPDADALLMND 91 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D + A + Q DS T DPVRMY+REMG +ELL+RE EI IAK IE Sbjct: 92 NSTGITDDDAVAEAEAALSQ--ADSEFGRTTDPVRMYMREMGQVELLTREDEIKIAKEIE 149 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGP 193 M+ ++ P + ++ +++ + E++ EA I P Sbjct: 150 NALKNMIQAISACPGSVGEILELIEQIKKDEIRVDEVV--EAIIDP 193 >gi|295836990|ref|ZP_06823923.1| RNA polymerase sigma factor [Streptomyces sp. SPB74] gi|197697450|gb|EDY44383.1| RNA polymerase sigma factor [Streptomyces sp. SPB74] Length = 312 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 118/238 (49%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 79 EGTHAHSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 138 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PTP E+A + Sbjct: 139 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTPSELADR 198 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + +EG+ T + + P D+ S L D + + D ++ Sbjct: 199 LGIEREEVIEGMAASNAYTASSLDAQ-PEEDDSESALADRLGYE------DHGLEGIEYI 251 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 252 ESLKPMIARLPQRDRKILSLRFVANM----TQSEIGEELGISQMHVSRLLSRTLVKLR 305 >gi|121595815|ref|YP_987711.1| RNA polymerase sigma-32 subunit RpoH [Acidovorax sp. JS42] gi|120607895|gb|ABM43635.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax sp. JS42] Length = 321 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 70/248 (28%), Positives = 119/248 (47%), Gaps = 26/248 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 70 AAGRLVLSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 129 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK---------REPTPEE--- 551 +K I I +++ + K+ R M K RE + Sbjct: 130 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADALDADTHRETLSDHEID 187 Query: 552 -IAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +A++L + E V ++ +++ + L+ D+ G +A + I++ Sbjct: 188 LVAEQLNVKREEVIEMETRLSGGDVLLDPAPSDDGEQAFGPIAYLADAGHEPTALIESRQ 247 Query: 610 RET-----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIE 660 R+ L SL R R++ R+ + +N D TL E+ ++ V+ ERIRQIE Sbjct: 248 RDALATDGIATALDSLDARSRRIVEQRW-LQVNDDGSGGMTLHELATEYGVSAERIRQIE 306 Query: 661 AKAIRKLK 668 A++K+K Sbjct: 307 VAAMKKMK 314 >gi|239934552|emb|CAR94590.1| DNA-directed RNA polymerase subunit D [uncultured alpha proteobacterium] Length = 237 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 39/54 (72%), Positives = 44/54 (81%), Gaps = 1/54 (1%) Query: 144 KRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESK 196 KRIEAGR M+A LCESPLTFQA+IIWRDELN+ LLR+IIDLEA GP+ K Sbjct: 8 KRIEAGREAMIAGLCESPLTFQAIIIWRDELNETKILLRDIIDLEATYDGPDKK 61 >gi|312127292|ref|YP_003992166.1| RNA polymerase, sigma 28 subunit, flia/whig subfamily [Caldicellulosiruptor hydrothermalis 108] gi|311777311|gb|ADQ06797.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Caldicellulosiruptor hydrothermalis 108] Length = 240 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 65/238 (27%), Positives = 120/238 (50%), Gaps = 12/238 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + +A+++++E+NL LV SV KK+ +G++ DL Q G IGL+KA ++FD Sbjct: 9 LISKAKNGDKLARQQLIESNLALVWSVVKKFAAKGVELEDLFQIGCIGLIKAVDRFDPSF 68 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 69 NVRFSTYAVPMIIGEIKRYLRDDG-KIKVSRKIKENQGKIKKLRNQFVSNHGREPTISEI 127 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + + + L + E SL I E+ L D D+ S + A L+ Sbjct: 128 SQLTGLSSDEILLCLDASSEVASLSEVINQEEGKPITLMDIASDEEDYSTKLLDLMA-LK 186 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E L L RE ++ MR+ + T E+ K+ +++ + +IE +A+ ++K Sbjct: 187 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKELNISQVHVSRIEKRALERIK 236 >gi|17986661|ref|NP_539295.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. 16M] gi|62290526|ref|YP_222319.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 1 str. 9-941] gi|82700442|ref|YP_415016.1| RNA polymerase factor sigma-32 [Brucella melitensis biovar Abortus 2308] gi|189024748|ref|YP_001935516.1| RNA polymerase factor sigma-32 [Brucella abortus S19] gi|225853116|ref|YP_002733349.1| RNA polymerase factor sigma-32 [Brucella melitensis ATCC 23457] gi|237816032|ref|ZP_04595028.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|254689824|ref|ZP_05153078.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|254694316|ref|ZP_05156144.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|254697972|ref|ZP_05159800.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|254730858|ref|ZP_05189436.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|256045266|ref|ZP_05448160.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|256114225|ref|ZP_05454970.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|256258077|ref|ZP_05463613.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|256263396|ref|ZP_05465928.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|260547226|ref|ZP_05822964.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260565841|ref|ZP_05836324.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260755355|ref|ZP_05867703.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260758577|ref|ZP_05870925.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260762409|ref|ZP_05874746.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260884371|ref|ZP_05895985.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|261214622|ref|ZP_05928903.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|265991691|ref|ZP_06104248.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|265995528|ref|ZP_06108085.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|297248928|ref|ZP_06932636.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|17982279|gb|AAL51559.1| RNA polymerase sigma-32 factor [Brucella melitensis bv. 1 str. 16M] gi|62196658|gb|AAX74958.1| RNA polymerase sigma-70 factor family protein [Brucella abortus bv. 1 str. 9-941] gi|82616543|emb|CAJ11621.1| Sigma-70 factor family:Sigma-70 region 2:Sigma-70 region 4 [Brucella melitensis biovar Abortus 2308] gi|189020320|gb|ACD73042.1| Sigma-70 factor family [Brucella abortus S19] gi|225641481|gb|ACO01395.1| alternative sigma factor RpoH [Brucella melitensis ATCC 23457] gi|237788695|gb|EEP62907.1| alternative sigma factor RpoH [Brucella abortus str. 2308 A] gi|260095591|gb|EEW79469.1| sigma-70 factor family protein [Brucella abortus NCTC 8038] gi|260151214|gb|EEW86309.1| sigma-70 factor family protein [Brucella melitensis bv. 1 str. 16M] gi|260668895|gb|EEX55835.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 4 str. 292] gi|260672835|gb|EEX59656.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 2 str. 86/8/59] gi|260675463|gb|EEX62284.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 6 str. 870] gi|260873899|gb|EEX80968.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 9 str. C68] gi|260916229|gb|EEX83090.1| RNA polymerase factor sigma-32 [Brucella abortus bv. 3 str. Tulya] gi|262766812|gb|EEZ12430.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 3 str. Ether] gi|263002647|gb|EEZ15050.1| RNA polymerase factor sigma-32 [Brucella melitensis bv. 1 str. Rev.1] gi|263093393|gb|EEZ17462.1| sigma-70 factor [Brucella melitensis bv. 2 str. 63/9] gi|297174061|gb|EFH33418.1| alternative sigma factor RpoH [Brucella abortus bv. 5 str. B3196] gi|326409662|gb|ADZ66727.1| Sigma-70 factor family [Brucella melitensis M28] gi|326539369|gb|ADZ87584.1| alternative sigma factor RpoH [Brucella melitensis M5-90] Length = 303 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 114/233 (48%), Gaps = 16/233 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ R+M +KI+ + P+ +IA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQALDDGDLNPDQVKQIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL---RE 611 + + V + + SL P+ + ++ D++ D + Q L R Sbjct: 167 NVSEDEVVSMNRRLSGDASLNAPLRASEGESGEWQDWLVDDSNSQEQVLIEQDELESRRS 226 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 + + +L RE + R TLE++ +F ++RER+RQIE +A Sbjct: 227 MLEQAMETLNDRERHIFEARRLA--EEPMTLEDLSGEFGISRERVRQIEVRAF 277 >gi|239994826|ref|ZP_04715350.1| RNA polymerase sigma factor [Alteromonas macleodii ATCC 27126] Length = 284 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/269 (25%), Positives = 144/269 (53%), Gaps = 16/269 (5%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 I I+++S +S E R + VR E E A +++V ++LR V+ +AK Y+ GL Sbjct: 18 IEGYIQAVSSIDMLSAEEERELA--VRLREDEDLQAARKLVMSHLRFVVHIAKSYSGYGL 75 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRD 527 DLIQEGNIGLMKA ++FD +G + ++A+ W+K I + +++ + Sbjct: 76 PQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHWIKAEIHEFVLKNWRIVKVATTKAQR 135 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS 586 K+ +R A++ + + +A +L + + V ++ +++ + + + +++T Sbjct: 136 KLFFNLRKAKKRLGWFTHDEV-QTVANELGVSTKEVLQMEARMSSQDQAFDLTADEDETG 194 Query: 587 HLG--DFIEDKNAVSPLDSAIQANLRETTT--RVLASLTPREER---VLRMRFGIGMNTD 639 + ++EDK+ S +++ + N +T R+ +++ +ER ++ R+ + Sbjct: 195 NFAPVQYLEDKS--SDVETDVINNDWDTAASKRLYSAIKTLDERSQDIIETRW--LADNK 250 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+++ ++ V+ ER+RQIE A++KL+ Sbjct: 251 ITLQDLADKYQVSAERVRQIEKNAMKKLQ 279 >gi|161505889|ref|YP_001573001.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160867236|gb|ABX23859.1| hypothetical protein SARI_04068 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 284 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/287 (24%), Positives = 142/287 (49%), Gaps = 44/287 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV--------------- 566 + K+ +R A++ ++ E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKAKQRLGWFNQDEV-EMVARELGVSSKDVREMESRMAAQDMTFDMSS 186 Query: 567 -LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASLT 621 + +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 187 DDESDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQ------------GLD 233 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 234 ERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|319409355|emb|CBI82999.1| RNA polymerase sigma-32 factor [Bartonella schoenbuchensis R1] Length = 303 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 121/241 (50%), Gaps = 23/241 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVIS+A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVISIASRFKRFKMPLSDLVQEGYVGLLEAAARFEPDRDVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIR---------IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++ +I I +R + ++R ++V+ MS ++ I++ Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQKALFFNLRRLRAQLVQDDSTMS----KQDIFRVISE 171 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDED---TSHLGDFIEDKNAVSPLDSAIQANLR 610 KL + V V + + + SL + + D + L +++K L + R Sbjct: 172 KLGVSVSDVETMDFRFSGTDNSLSMSVSENDDNSVTKLDTLVDEKPLPDSLIEKVIDGQR 231 Query: 611 ETT--TRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKL 667 T L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A++KL Sbjct: 232 RTQWLYDALQILNERELEIIRFR---RLNEESATLEFLGEKLGISKERVRQIEARALQKL 288 Query: 668 K 668 + Sbjct: 289 R 289 >gi|158341591|ref|YP_001522756.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] gi|158311832|gb|ABW33441.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] Length = 423 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 74/263 (28%), Positives = 126/263 (47%), Gaps = 21/263 (7%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-Q 469 N S S+ETG + ++ + + + A+ + N RLV + AK+Y RGL Sbjct: 5 NVFNSQSLETGPFSRKVQY--PQIERAQAGDRRAEDRFIRKNQRLVFNEAKRY--RGLVD 60 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR-IPVHMRDK 528 + DL+ G +GL A +KFD G++FSTYA+ ++ I + I +Q R I H++ Sbjct: 61 WDDLVNAGTLGLSIAIQKFDLSRGFQFSTYAVKPIRTEIRQLICEQRGLSREITKHLK-- 118 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTS 586 K+ + + +++R+PT +E+A++ + + + SL G E Sbjct: 119 --KIDEAEQDLKLELERKPTLDELAERTGYSHRVITNAWSKARVVDTSSLNVLTGTEQGI 176 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 DF+ED + D A N+++ +A L RE ++R R H+ E+G Sbjct: 177 ECLDFVEDLEQLDSWDFAESINMKD----YIAQLPDRESFIVRAR-----RDGHSYREIG 227 Query: 647 KQFCVTRERIRQIEAKAIRKLKH 669 ++ ERIRQ+ KA+ LKH Sbjct: 228 TMLKLSGERIRQLYQKALEYLKH 250 >gi|29830033|ref|NP_824667.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607143|dbj|BAC71202.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 306 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 60/238 (25%), Positives = 117/238 (49%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E S + +VE NL LV A ++ +R D+IQ G IGL+KA ++F+ G + Sbjct: 73 EGTHEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIGLIKAIDRFELSRGVE 132 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A++ Sbjct: 133 FPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTVSELAER 192 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLR 610 L + VEG+ T + + P D+ L D I + D ++ Sbjct: 193 LGISNGEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGLEGIEFV 245 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A L R+ ++L +RF M T E+G + +++ + ++ ++ + +L+ Sbjct: 246 ESLKPLIAQLPSRDRKILSLRFVANM----TQSEIGDELGISQMHVSRLLSRTLVRLR 299 >gi|170724574|ref|YP_001758600.1| RNA polymerase factor sigma-32 [Shewanella woodyi ATCC 51908] gi|169809921|gb|ACA84505.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella woodyi ATCC 51908] Length = 283 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 119/243 (48%), Gaps = 32/243 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 50 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + +++ K + + R S K + EE+ V Sbjct: 110 IKAEIHEYVLKNWRIVKVAT---TKAQRKLFFNLRKSKKRLGWFSDEEVGM--------V 158 Query: 564 RKVLKITKEPIS-LETPIGDEDTSH-LGDFIEDKNAVSPL---------------DSAIQ 606 L ++K ++ +E+ + +D + L +D SP+ + ++ Sbjct: 159 ADNLGVSKADVTEMESRMAAQDPAFDLASDNDDDQDFSPVHYLEDHSSDLASQVENDNLE 218 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIR 665 +N + + +L R + +L+ R+ +N D TL+E+ + V+ ERIRQ+E A+ Sbjct: 219 SNNQARLLSAIKTLDERSQHILQARW---LNEDKTTLQELAATYQVSAERIRQLEKNAMN 275 Query: 666 KLK 668 KLK Sbjct: 276 KLK 278 >gi|21672319|ref|NP_660386.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|25091196|sp|Q8KA76|RP32_BUCAP RecName: Full=RNA polymerase sigma-32 factor gi|21622919|gb|AAM67597.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 285 Score = 82.4 bits (202), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 124/235 (52%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI +++ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKTLILSHLRFVIHISRNYSGYGLLQADLIQEGNIGLMKAVRRFNPDIGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R ++ +E E +A++L + E Sbjct: 109 IKSEIHEYVLRNWRIVKVATTKSQRKLFFNLRKNKKRLGWFNQEEI-EIVARELGVSSED 167 Query: 563 VRKV-LKITKEPISLETPIGDEDTSH---LGDFIEDKNAVSPLDSAI-QANLRETTTRVL 617 VR++ +++ + I+ P +ED G+ ++ S + + Q N + TT L Sbjct: 168 VREMESRMSAQDITF-NPFPEEDLKDGKINGNMFYLQDKTSNFANGLEQDNWNKHTTSKL 226 Query: 618 AS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R ++R R+ + +TL+++ + ++ ER+RQ+E A++KLK Sbjct: 227 SNALLRLDERSRNIIRARW-LDKKEKNTLQKIANNYGISAERVRQLEKNAMKKLK 280 >gi|158341383|ref|YP_001522549.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] gi|158311624|gb|ABW33234.1| RNA polymerase sigma-24 subunit [Acaryochloris marina MBIC11017] Length = 423 Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 74/263 (28%), Positives = 125/263 (47%), Gaps = 21/263 (7%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-Q 469 N S S+ETG + ++ + + + A+ + N RLV AK+Y RGL Sbjct: 5 NVFNSQSLETGPFSRKVQY--PQIERAQAGDRRAEDRFIRKNQRLVFKEAKRY--RGLVD 60 Query: 470 FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR-IPVHMRDK 528 + DL+ G +GL A +KFD G++FSTYA+ ++ I + I +Q R I H++ Sbjct: 61 WDDLVNAGTLGLSIAIQKFDLSRGFQFSTYAVKPIRTEIRQLICEQRGLSREITKHLK-- 118 Query: 529 IHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTS 586 K+ + + +++R+PT +E+A++ + + + SL G E Sbjct: 119 --KIDEAEQDLELELERKPTLDELAERTGYSHRVITNAWNKARVVDTSSLNVLTGTEQGI 176 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 DF+ED + D A N+++ +A L RE ++R R H+ E+G Sbjct: 177 ECLDFVEDFEQLDSWDFAESINMKD----YIAQLPDRESFIVRAR-----RDGHSYREIG 227 Query: 647 KQFCVTRERIRQIEAKAIRKLKH 669 ++ ERIRQ+ KA+ LKH Sbjct: 228 TMLKLSGERIRQLYQKALEYLKH 250 >gi|4102217|gb|AAD11814.1| sigma-like factor [Streptomyces sp. A21] Length = 343 Score = 82.4 bits (202), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 65/252 (25%), Positives = 125/252 (49%), Gaps = 40/252 (15%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGY 494 +G + A+ ++E NL LV A ++ NRG D+IQ G IGL+KA ++FD Sbjct: 106 EGTHDYQYARNTLIEMNLSLVRFAASRFRNRGGDDTEDIIQVGTIGLIKAIDRFDLSREV 165 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F+T+A+ ++ I R D + ++ +P +++ ++ + +S + R+PT E+A Sbjct: 166 EFATFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVELAKAKEALSADLDRDPTVAELAA 225 Query: 555 KLAMP----VEGVRKVLKITKEPISLETPIGDEDTSH--------LG------DFIEDKN 596 +L + +EG+ V SL+TP D ++ + LG + +E+ + Sbjct: 226 RLDLSEEEIIEGL--VAANGYSAGSLDTPSADSESGNEQRAYADLLGEDDPGMESVENLH 283 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 A++PL L L RE ++RMRFG M T ++G + V++ + Sbjct: 284 ALAPL---------------LRQLDDRERAIVRMRFGQEM----TQAQIGAELGVSQMHV 324 Query: 657 RQIEAKAIRKLK 668 ++ ++ +R+L+ Sbjct: 325 SRLLSRIVRRLR 336 >gi|254283645|ref|ZP_04958613.1| alternative sigma factor RpoH [gamma proteobacterium NOR51-B] gi|219679848|gb|EED36197.1| alternative sigma factor RpoH [gamma proteobacterium NOR51-B] Length = 291 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 70/242 (28%), Positives = 119/242 (49%), Gaps = 17/242 (7%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GEC AS +E+V A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 52 GECVAS--ARELVLAHLRFVVHIARSYSGYGLAEADLIQEGNVGLMKAVKRFDPNKGVRL 109 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K + I +++ + K+ +R+A++ + + T + IA+ Sbjct: 110 VSFAVHWIKAEMHEFILRNWRIVKVATTKAQRKLFFNLRSAKKNLSWLTHSET-QAIAED 168 Query: 556 LAMPVEGVRKV--------LKITKEPISLETPIGDEDTSHLGDFIEDKN-AVSPLDSAIQ 606 L +P V+++ + + + +L D D AV +S+ Sbjct: 169 LGVPEAEVQRMEGRLSCRDMAFDAPSDADDDDAWQAPQHYLQDLSSDPAVAVEAANSSAD 228 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R LA L R + +L R+ TL E+ + V+ ERIRQ+EA A++K Sbjct: 229 DETRLHAA--LAQLDARSQDILARRW--LAEKKATLHELAAEHGVSAERIRQLEANAMKK 284 Query: 667 LK 668 L+ Sbjct: 285 LR 286 >gi|241764416|ref|ZP_04762441.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax delafieldii 2AN] gi|241366206|gb|EER60777.1| RNA polymerase, sigma 32 subunit, RpoH [Acidovorax delafieldii 2AN] Length = 312 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 72/255 (28%), Positives = 115/255 (45%), Gaps = 39/255 (15%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S+A++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGRLVMSHLRLVVSIARQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP---V 560 +K I I +++ + K+ R M K + + + + + Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADAAVDAATHRDTLSEQEI 177 Query: 561 EGVRKVLKITKEP-ISLETPIGDEDTSHLGDFIED-------KNAVSPLDSAIQANLRET 612 + V L + +E I +ET + GD + D + A P+ A+ T Sbjct: 178 DAVATQLNVKREEVIEMETRMAG------GDVLLDPAPSDDGEQAFGPIGYLADASHEPT 231 Query: 613 T---------------TRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTR 653 LA L R R++ R+ + +N D TL E+ + V+ Sbjct: 232 AMIESRQRDALATDGIAMALARLDDRSRRIVEERW-LKVNDDGTGGMTLHELAAVYGVSA 290 Query: 654 ERIRQIEAKAIRKLK 668 ERIRQIE A++K+K Sbjct: 291 ERIRQIEVAAMKKMK 305 >gi|83643468|ref|YP_431903.1| RNA polymerase factor sigma-32 [Hahella chejuensis KCTC 2396] gi|83631511|gb|ABC27478.1| RNA polymerase sigma-32 factor RpoH [Hahella chejuensis KCTC 2396] Length = 284 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 126/234 (53%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V A+LR V+ +AK Y+ GL DL+QEGNIGLMKA ++F+ G + ++A+ W Sbjct: 50 AARQLVMAHLRFVVHIAKSYSGYGLSQADLVQEGNIGLMKAVKRFNPEFGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+A++ + + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKKRLAWLTNDEA-KAVAEDLGVDTHV 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRE-TTTRVL 617 VR++ ++ + S + ++D + +++ED+ P N E + +R+ Sbjct: 169 VREMESRLAGQDTSFDAGADEDDETAFKAPANYLEDRR-YDPAMMLENENWEEDSNSRLH 227 Query: 618 ASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +LT +ER +++ R+ + N TL E+ ++ V+ ERIRQ+E A++K+K Sbjct: 228 DALTQLDERSKDIIQKRW-LAENKA-TLHELADEYGVSAERIRQLEKNAMKKVK 279 >gi|146410|gb|AAA23991.1| heat shock regulatory protein [Escherichia coli] Length = 284 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 72/287 (25%), Positives = 141/287 (49%), Gaps = 44/287 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LDSYIRAANAWPMLSADEERALAEKLHY-----HGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLE-- 577 R + +T +R+ + E E +A++L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDLA 185 Query: 578 ----------TPI--GDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASLT 621 P+ + +S+ D IED N A + L A+Q L Sbjct: 186 SDDDSDSHAMAPVLYLQDKSSNFADGIEDDNWEEQAANRLTDAMQ------------GLD 233 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 234 ERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|300926841|ref|ZP_07142609.1| alternative sigma factor RpoH [Escherichia coli MS 182-1] gi|301329786|ref|ZP_07222521.1| alternative sigma factor RpoH [Escherichia coli MS 78-1] gi|300417191|gb|EFK00502.1| alternative sigma factor RpoH [Escherichia coli MS 182-1] gi|300844135|gb|EFK71895.1| alternative sigma factor RpoH [Escherichia coli MS 78-1] Length = 284 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 73/288 (25%), Positives = 139/288 (48%), Gaps = 46/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LDSYIRAANAWPMLSADEERALAEKLHY-----HGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDQS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 186 SDDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQG------------L 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 DERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|159045149|ref|YP_001533943.1| RNA polymerase factor sigma-32 [Dinoroseobacter shibae DFL 12] gi|157912909|gb|ABV94342.1| RNA polymerase [Dinoroseobacter shibae DFL 12] Length = 298 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 74/250 (29%), Positives = 121/250 (48%), Gaps = 33/250 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +MV ++LRL +A Y GL ++I E N+GLM+A ++FD G++ +TYAMWW Sbjct: 49 AAHKMVTSHLRLAAKIAMGYRGYGLPQAEVISEANVGLMQAVKRFDPEKGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI----KREPTPEEIAKKLAMP 559 ++ +I I +++ K K+ R+ N+I + + PE +A+ Sbjct: 109 IRASIQEYILRSWSLVKLGTTSAQK--KLFFNLRKAKNRIGALEEGDLRPENVAR----- 161 Query: 560 VEGVRKVLKITKEPI------------SLETPIGD--EDTSHLGDFIEDKNAVSPLDSAI 605 + L +T++ + SL IG E + D++ED++A D A Sbjct: 162 ---IANDLNVTEDEVISMNRRMSGGDASLNAMIGSDGEGATEWQDWLEDEDADQADDFAE 218 Query: 606 QANL---RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + L RE + L RE+ +L R + TLEE+ + + V+RERIRQIE + Sbjct: 219 KDELMVRRELLAEAMGVLNDREKDILMKRR--LEDKPATLEELSEVYGVSRERIRQIEVR 276 Query: 663 AIRKLKHPSR 672 A KL+ R Sbjct: 277 AFEKLQKAMR 286 >gi|332763556|gb|EGJ93795.1| alternative sigma factor RpoH [Shigella flexneri 2930-71] Length = 280 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 73/284 (25%), Positives = 138/284 (48%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H G+ EA+ K ++ ++LR V+ +A+ Sbjct: 12 LDSYIRAANAWPMLSADEERALAEKLHY-----HGDLEAA---KTLILSHLRFVVHIARN 63 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 64 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 123 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 124 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDLS 181 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +P++ + D+ +S+ D IED N QA R T + L R Sbjct: 182 SDDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWEE------QAANR--LTDAMHGLDERS 232 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 QDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 275 >gi|24114721|ref|NP_709231.1| RNA polymerase factor sigma-32 [Shigella flexneri 2a str. 301] gi|30065262|ref|NP_839433.1| RNA polymerase factor sigma-32 [Shigella flexneri 2a str. 2457T] gi|110807289|ref|YP_690809.1| RNA polymerase factor sigma-32 [Shigella flexneri 5 str. 8401] gi|24053937|gb|AAN44938.1| sigma(32) factor of RNA polymerase [Shigella flexneri 2a str. 301] gi|30043524|gb|AAP19244.1| sigma(32) factor of RNA polymerase [Shigella flexneri 2a str. 2457T] gi|110616837|gb|ABF05504.1| RNA polymerase sigma factor [Shigella flexneri 5 str. 8401] gi|281602809|gb|ADA75793.1| Sigma(32) factor of RNA polymerase [Shigella flexneri 2002017] gi|313647240|gb|EFS11692.1| alternative sigma factor RpoH [Shigella flexneri 2a str. 2457T] gi|332749439|gb|EGJ79856.1| alternative sigma factor RpoH [Shigella flexneri K-671] gi|332750286|gb|EGJ80697.1| alternative sigma factor RpoH [Shigella flexneri 4343-70] gi|332751371|gb|EGJ81774.1| alternative sigma factor RpoH [Shigella flexneri 2747-71] gi|332996248|gb|EGK15875.1| alternative sigma factor RpoH [Shigella flexneri VA-6] gi|332996590|gb|EGK16215.1| alternative sigma factor RpoH [Shigella flexneri K-272] gi|332997356|gb|EGK16972.1| alternative sigma factor RpoH [Shigella flexneri K-218] gi|333012512|gb|EGK31893.1| alternative sigma factor RpoH [Shigella flexneri K-304] gi|333012998|gb|EGK32374.1| alternative sigma factor RpoH [Shigella flexneri K-227] Length = 284 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 73/284 (25%), Positives = 138/284 (48%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +DS ++ N +S + +++E H G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LDSYIRAANAWPMLSADEERALAEKLHY-----HGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDLS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +P++ + D+ +S+ D IED N QA R T + L R Sbjct: 186 SDDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWEE------QAANR--LTDAMHGLDERS 236 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 237 QDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|29828415|ref|NP_823049.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29605518|dbj|BAC69584.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 264 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 69/215 (32%), Positives = 106/215 (49%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E+VEA L + +A ++ NRG + DL Q ++GL+KA +++D LG F +YA+ + Sbjct: 38 REEIVEAWLPMAERLAGRFRNRGENYEDLRQVASLGLVKAVDRYDPELGNAFESYAVPTI 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P ++D ++V ++ +S I R PT EIA+ M E V Sbjct: 98 TGEIKRHFRDHMWTLHVPRRVQDLRNRVRFASQDLSQTISGRRPTVAEIAEHANMSEEDV 157 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R L+ T + E P G ED L D + +A LD + RE L + Sbjct: 158 RAGLEALESFTALSLDAELP-GSEDGYSLSDAL--GSADPALDIVVD---REAVKPRLQA 211 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L RE +L MRF M E++G Q V+R Sbjct: 212 LPERERDILYMRFFGDMTQSRIAEQLGISQMHVSR 246 >gi|317501595|ref|ZP_07959789.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] gi|316897012|gb|EFV19089.1| RNA polymerase sigma factor [Lachnospiraceae bacterium 8_1_57FAA] Length = 239 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 47/158 (29%), Positives = 91/158 (57%), Gaps = 1/158 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++RK A++++V+ N+ LV V K++ RG + DL Q G+IGL+KA +KFD Sbjct: 5 IALIRKSHSGDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDL 64 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 KFSTYA+ + I R + D I++ +++ +K V+ R+ + + REPT E Sbjct: 65 TYNVKFSTYAVPLISGEIKRFLRDDG-MIKVSRSLKEIAYKSVQARERLISSLGREPTIE 123 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 E+++++ + E + + ++ E S+ P+ ++ S + Sbjct: 124 ELSEEVGVEREELVQAMEAGCEIESIYRPVHQKEGSEI 161 >gi|284008659|emb|CBA75293.1| RNA polymerase sigma-32 factor [Arsenophonus nasoniae] Length = 292 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 130/239 (54%), Gaps = 21/239 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI +A+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 56 AAKQLILSHLRFVIHIARNYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + +++ + K+ R+ +I + + +AK+L + + Sbjct: 116 IKAEIHEYVLRNWRIVKVATTKAQR--KLFFNLRKNKKRIGWFNQNEVDMVAKELGVTSK 173 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLGD--------FIEDKN---AVSPLDSAIQANL 609 VR++ ++ + ++ + + D+D S G+ +++DK+ A S + + + Sbjct: 174 DVREMESRMAAQDMAFD--MNDDDDS--GENTTIAPVLYLQDKSSDFADSIEEDNWENHA 229 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + T+ L++L R + ++R R+ N TL+++ ++ V+ ER+RQ+E A++KL+ Sbjct: 230 TDKLTQALSTLDERSQDIIRARWLDDENKT-TLQDLADKYSVSAERVRQLEKNAMKKLR 287 >gi|157145286|ref|YP_001452605.1| flagellar biosynthesis sigma factor [Citrobacter koseri ATCC BAA-895] gi|157082491|gb|ABV12169.1| hypothetical protein CKO_01023 [Citrobacter koseri ATCC BAA-895] Length = 229 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 57/201 (28%), Positives = 103/201 (51%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++LA+PVE R++L T DE GD Sbjct: 90 VAQAMGQLEQELGRNATETEVAERLAIPVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL +++NLR+ + SL RE+ VL + + +N L+E+G Sbjct: 147 IELVTEEHQQENPLQQLLESNLRQRVMDAIESLPEREQLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|296164736|ref|ZP_06847300.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295899907|gb|EFG79349.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 288 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 68/228 (29%), Positives = 111/228 (48%), Gaps = 12/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V L L VA + RG DL+Q +GLM A +FD G F +A+ + Sbjct: 65 RERIVARCLPLADHVASHFARRGEGLDDLVQVARLGLMNAVNRFDPDKGPSFIGFAVPTM 124 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +R+ ++ RT ++ K+ R PT E+++ L +P E + Sbjct: 125 MGEVRRYFRDYSWGMRVPRRLRELHVQISRTTGDLAQKLGRAPTAGELSRALEVPHEEIV 184 Query: 565 KVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL-ASL 620 + L + + SL+ P+G D+S + D AV +D I+ RVL A+L Sbjct: 185 ECL-VAGDAYRLDSLDAPMG-TDSSGTPRLVAD--AVGGIDPQIEHITNREALRVLVAAL 240 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE VLRMRF M E +G V++ ++ +I A +R L+ Sbjct: 241 PEREREVLRMRFFESMTQSQIAERIG----VSQMQVSRILAGTLRCLR 284 >gi|306021726|gb|ADM80299.1| RNA-polymerase sigma subunit [Geobacillus pallidus] Length = 256 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 60/200 (30%), Positives = 100/200 (50%), Gaps = 10/200 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL A EKFD KF TYA + ++ AI + + +P R+K K Sbjct: 56 DLISFGLMGLYDALEKFDPTRDLKFDTYASFRIRGAILDGLRKEDW---LPRSFREKAKK 112 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL--KITKEPISLETPIGD-EDTSHL 588 V R+ K R TP E+A++L M E V V+ +S++ + D E+ + Sbjct: 113 VEAAIERLEQKYHRNVTPNEVAEELGMTPEEVVHVVNENFFANVLSIDEQLHDQEEGEQM 172 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ++D ++P + ++ L E T++++ L +E+ VL + + + TL E+G Sbjct: 173 NIVLKDDKTLTPEEHLLKEELFEHLTKLISQLNDKEQLVLSLFY----KEELTLTEIGNV 228 Query: 649 FCVTRERIRQIEAKAIRKLK 668 ++ RI QI +KA+ KLK Sbjct: 229 LNLSTSRISQIHSKALYKLK 248 >gi|293400808|ref|ZP_06644953.1| RNA polymerase sigma-F factor [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305834|gb|EFE47078.1| RNA polymerase sigma-F factor [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 241 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 61/213 (28%), Positives = 106/213 (49%), Gaps = 10/213 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK VE N LV S+ ++++ + + DL Q G +GLMKA FD KFSTYA+ Sbjct: 21 AKSIFVEKNSPLVYSIVRRFSRQRIAMDDLFQIGCVGLMKALNNFDTSYQVKFSTYAVPI 80 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D +RI +++ ++ + + K+ REPT +EIA L+M V V Sbjct: 81 IMGEIKRFFRDDG-NMRISRSLKEGYLQMSKKKEELLQKLNREPTYQEIADALSMDVADV 139 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + + SL+ I + D S + +EDK + + + ++ + +A L R Sbjct: 140 ILAFEANQFVYSLDETIYENDGSPI--LLEDKVSNRKEEDVV---MKVSLQNEIAHLEQR 194 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 E+ +L R+ +GM EE+ K+ +++ ++ Sbjct: 195 EQLLLHYRYDLGMKQ----EEIAKKLQISQVQV 223 >gi|114321809|ref|YP_743492.1| RNA polymerase, sigma 32 subunit, RpoH [Alkalilimnicola ehrlichii MLHE-1] gi|114228203|gb|ABI58002.1| RNA polymerase, sigma 32 subunit, RpoH [Alkalilimnicola ehrlichii MLHE-1] Length = 285 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 121/233 (51%), Gaps = 12/233 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V+ +A+ Y GL D+IQEGN+GLMKA ++FD G + ++A+ W Sbjct: 53 AARALVLSHLRFVVHIARSYRGYGLPLGDIIQEGNVGLMKAVKRFDPAQGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I + +++ + K+ +R+ R+ + E + +A+ L + E Sbjct: 113 IRAEIHEYVLRNWRIVKVATTKAQRKLFFNLRSGRKHLGWLTSEEV-DAMARDLGVKPET 171 Query: 563 VRKV-LKITKEPISLE-TPIGDEDTSHLG-DFIEDKNAVSPLDSAIQANLR----ETTTR 615 VR++ ++T + + TP D++ H ++EDK P + +A+ + + Sbjct: 172 VREMEARMTGNDTTFDPTPGQDDEGIHAPVAYLEDKR-YDPATAVEEADWEQHRDQNLHQ 230 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R + +L R+ TL+E+ + + V+ ERIRQ+E A+ +LK Sbjct: 231 ALAGLDERSQDILARRWLSERKA--TLKELAEHYQVSAERIRQLEKNAMGRLK 281 >gi|86747323|ref|YP_483819.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] gi|86570351|gb|ABD04908.1| sigma 32 (RpoH) [Rhodopseudomonas palustris HaA2] Length = 329 Score = 82.0 bits (201), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 115/246 (46%), Gaps = 27/246 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ++LRL +A+ + G DLI E N+GLM A ++FD G +FST A+WW Sbjct: 55 AADALITSHLRLAAKLARDFRRYGFPLGDLIAEANLGLMMALDRFDPERGARFSTCAVWW 114 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR-EP---------TPEEIA 553 ++ AI I +RI R K + R+ +I+R +P E+I+ Sbjct: 115 IRSAIYDHIIRSWSLVRI---GRTPAQK--KLFFRLRGEIRRLQPDHHGTLTKELAEQIS 169 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSAIQA----- 607 L +P+ V ++ + SL TP+ D D S D I D +P A+ A Sbjct: 170 ATLDVPLREVIEMEQRLSGDRSLNTPLSDLDESGEWQDLIADD---APNAEAVLAGHDEL 226 Query: 608 -NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 + R L L RE + R +G + E +G+ ++ ER+RQIEA+A K Sbjct: 227 DHQRRALQDALVQLDARERYIFSARH-LG-ERPASFETIGQSLSISAERVRQIEARAFAK 284 Query: 667 LKHPSR 672 + + +R Sbjct: 285 VANSAR 290 >gi|108804196|ref|YP_644133.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941] gi|108765439|gb|ABG04321.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM 9941] Length = 258 Score = 81.6 bits (200), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 62/215 (28%), Positives = 105/215 (48%), Gaps = 10/215 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++++ L L +A+K+ RG DL+Q ++GL+KA ++FD +FSTYA Sbjct: 28 AREQVIQEQLPLAEFLARKFAGRGEPLEDLVQVASVGLIKAVDRFDVDRNIEFSTYATPN 87 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D+ +R+P +++ V R + + R PT +E+A++L VE V Sbjct: 88 ILGEIKRHFRDKGWAMRVPRGLQELRQAVKEAIREETVRTGRSPTMDELAERLDTDVESV 147 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNA--VSPLDSAIQANLRETTTRVLAS 619 + L + + SL+ PI +D GD I D A P++ L + R Sbjct: 148 AEALTLGRAYNTTSLDAPISQDDAE--GDTIMDLQADENQPIEGIEDKLLLQEAMR---G 202 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L ++ +LR+RF G E +G Q V+R Sbjct: 203 LREQQREILRLRFNEGKTQTEIAERIGVSQMHVSR 237 >gi|16762736|ref|NP_458353.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16766854|ref|NP_462469.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29144223|ref|NP_807565.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62182067|ref|YP_218484.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161616616|ref|YP_001590580.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167549215|ref|ZP_02342974.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|167990783|ref|ZP_02571882.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168232714|ref|ZP_02657772.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168241719|ref|ZP_02666651.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168260704|ref|ZP_02682677.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168465152|ref|ZP_02699044.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168818616|ref|ZP_02830616.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194443524|ref|YP_002042813.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194449082|ref|YP_002047593.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194469731|ref|ZP_03075715.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197250526|ref|YP_002148491.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197265856|ref|ZP_03165930.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|198244039|ref|YP_002217526.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200387614|ref|ZP_03214226.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204928638|ref|ZP_03219837.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205354814|ref|YP_002228615.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207858806|ref|YP_002245457.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213426834|ref|ZP_03359584.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213619347|ref|ZP_03373173.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] gi|213649997|ref|ZP_03380050.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213857359|ref|ZP_03384330.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|224585360|ref|YP_002639159.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238910431|ref|ZP_04654268.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289829445|ref|ZP_06547057.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|25288476|pir||AB0992 RNA polymerase sigma-32 factor [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16422128|gb|AAL22428.1| sigma H factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16505042|emb|CAD08062.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhi] gi|29139860|gb|AAO71425.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62129700|gb|AAX67403.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock proteins induced by cytoplasmic stress [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161365980|gb|ABX69748.1| hypothetical protein SPAB_04433 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194402187|gb|ACF62409.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194407386|gb|ACF67605.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194456095|gb|EDX44934.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|195632472|gb|EDX50956.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197214229|gb|ACH51626.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197244111|gb|EDY26731.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197938555|gb|ACH75888.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199604712|gb|EDZ03257.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204322071|gb|EDZ07269.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205274595|emb|CAR39645.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205325609|gb|EDZ13448.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205330694|gb|EDZ17458.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205333102|gb|EDZ19866.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205338892|gb|EDZ25656.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205344405|gb|EDZ31169.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350317|gb|EDZ36948.1| alternative sigma factor RpoH [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206710609|emb|CAR34967.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224469888|gb|ACN47718.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261248721|emb|CBG26559.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995798|gb|ACY90683.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301160107|emb|CBW19627.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312914591|dbj|BAJ38565.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320087978|emb|CBY97740.1| RNA polymerase sigma-32 factor Heat shock regulatory protein F33.4 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|321226618|gb|EFX51668.1| RNA polymerase sigma factor RpoH [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322614066|gb|EFY11002.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322617958|gb|EFY14851.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322625428|gb|EFY22254.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322629893|gb|EFY26666.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632218|gb|EFY28969.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322636431|gb|EFY33138.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322643092|gb|EFY39666.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322644713|gb|EFY41249.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322651265|gb|EFY47649.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322652822|gb|EFY49161.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322659124|gb|EFY55376.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322663174|gb|EFY59378.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668661|gb|EFY64814.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322674536|gb|EFY70629.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322678259|gb|EFY74320.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322682485|gb|EFY78506.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322684198|gb|EFY80204.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|322716555|gb|EFZ08126.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323131927|gb|ADX19357.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323192247|gb|EFZ77479.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323196326|gb|EFZ81478.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323201872|gb|EFZ86935.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323206415|gb|EFZ91376.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323212008|gb|EFZ96835.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323216913|gb|EGA01636.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323222313|gb|EGA06696.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323224327|gb|EGA08616.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323228255|gb|EGA12386.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323233477|gb|EGA17570.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237061|gb|EGA21128.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323243724|gb|EGA27740.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246034|gb|EGA30021.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323250810|gb|EGA34688.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255821|gb|EGA39571.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323261903|gb|EGA45470.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323267705|gb|EGA51187.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323268585|gb|EGA52052.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326625307|gb|EGE31652.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|326629958|gb|EGE36301.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] gi|332990419|gb|AEF09402.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 284 Score = 81.6 bits (200), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 141/288 (48%), Gaps = 46/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 + +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 186 SDDESDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQG------------L 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 DERSQDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|301155442|emb|CBW14908.1| RNA polymerase, sigma 70 (sigma D) factor [Haemophilus parainfluenzae T3T1] Length = 629 Score = 81.6 bits (200), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 51/155 (32%), Positives = 85/155 (54%), Gaps = 2/155 (1%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLS-NMGINVVDGDDLEDEEGSE 90 +++++L R +GY+T E+N LP D + E + + L + GI V+D DE Sbjct: 17 EQLMELGRTQGYLTYAEINDLLPEDLIDPEYYDKLLQTLQHDAGIPVLDEAPESDEMMLN 76 Query: 91 DSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGR 150 D++ + ++ L + R+TD PVRMY+REMG+++LL+RE EI+IAKRIE G Sbjct: 77 DTIPDEDAVEEATQILSNVESEIGRTTD-PVRMYMREMGTVDLLTREDEISIAKRIEEGI 135 Query: 151 AMMMASLCESPLTFQALIIWRDELNDGTTLLREII 185 + ++ P L+ D++ G L ++I Sbjct: 136 DEVQTAIAAYPEALTELLDNYDQVEAGNYRLADLI 170 >gi|296448000|ref|ZP_06889906.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] gi|296254510|gb|EFH01631.1| RNA polymerase, sigma 32 subunit, RpoH [Methylosinus trichosporium OB3b] Length = 289 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 119/244 (48%), Gaps = 25/244 (10%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A ++ A++RLVI++A ++ + GL DL+QEG++GL++AA +F +FSTYA W Sbjct: 40 VALHKLASAHMRLVIALAVRFRHYGLPVADLVQEGHVGLLEAAARFAPERDVRFSTYATW 99 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 W++ +I + +R K + RR+ K+ P + A + + Sbjct: 100 WIRASIQDYVLRNWSIVRGGTSSSQK--ALFFNLRRLRAKLAHAP---QTAAESGDAFDA 154 Query: 563 VRKVLKITKEPISL-ETPIGDEDTSHLGDFIEDKNAVS-----------PLDSAIQANLR 610 + + +++ + L + + D S IED +A S PL I + Sbjct: 155 IAGAIGVSRADVELMNSRLAGSDVSLNSQLIEDDSASSAERMDFLVDDRPLPDEIVEDRL 214 Query: 611 ETTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 ++ R L L+ RE R+++ R + TLE +G + +++ER+RQIE +A+ Sbjct: 215 DSDRRARWLADALKLLSERELRIVQERR--LSESLVTLESLGDRLGISKERVRQIENRAL 272 Query: 665 RKLK 668 KL+ Sbjct: 273 CKLR 276 >gi|89900482|ref|YP_522953.1| sigma 32 (RpoH) [Rhodoferax ferrireducens T118] gi|89345219|gb|ABD69422.1| sigma 32 (RpoH) [Rhodoferax ferrireducens T118] Length = 313 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 69/255 (27%), Positives = 122/255 (47%), Gaps = 38/255 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV+SV+++Y GL DLIQEGN+GLMKA ++FD G + +YA+ W Sbjct: 60 AAGKLVLSHLRLVVSVSRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDHGVRLVSYALHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL------- 556 +K I I +++ + K+ R M + K + ++ Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQRYKSDDAAADLGTHRDTLNEDQ 177 Query: 557 --AMPVEGVRKVLKITKEPI-SLETPI--------------GDEDTSHLGDFIEDKNAVS 599 AM +E L++ +E + +ET + GD+ + + ++ + Sbjct: 178 IDAMALE-----LRVKREEVMEMETRLSGGDVLLDPSPTDDGDDAFGPIAYLTDTRHEPT 232 Query: 600 PLDSAIQANL--RETTTRVLASLTPREERVLRMRFGIGMNTDH----TLEEVGKQFCVTR 653 + A Q +L + L +L R R++ R+ + +N D+ TL E+ + V+ Sbjct: 233 EMIEAHQRDLLASDGIATALEALDERSRRIVEERW-LKVNDDNSGGMTLHELAAVYGVSA 291 Query: 654 ERIRQIEAKAIRKLK 668 ERIRQIE A++K+K Sbjct: 292 ERIRQIEVAAMKKMK 306 >gi|54023854|ref|YP_118096.1| putative sigma factor [Nocardia farcinica IFM 10152] gi|54015362|dbj|BAD56732.1| putative sigma factor [Nocardia farcinica IFM 10152] Length = 273 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 61/244 (25%), Positives = 121/244 (49%), Gaps = 38/244 (15%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 ++ ++E++ L L ++A+++TNRG++F DL+Q +GL+ A ++FD G F +A+ Sbjct: 40 AVVREEILHRCLPLAHNIARRFTNRGVEFEDLLQIARLGLVHAVDRFDLEHGDSFLGFAV 99 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR-RMSNKIKREPTPEEIAKKLAMPV 560 + + R D +R+P M++ +H+++ A R+++++ R+PT E+A +L + + Sbjct: 100 PTIMGEVRRYFRDHGWAVRVPRRMKE-LHQLLGPATDRLTHQLGRQPTARELASELGVEL 158 Query: 561 EGVRKVLKITKEPISLET--------------PIGDE--DTSHLGDFIEDKNAVSPLDSA 604 V + L + + + E+ PI D +ED AV PL Sbjct: 159 TEVTQAL-VARNAFTTESLDGGERTGEEGGALPIADRLGAVEPCYGLLEDAMAVRPL--- 214 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +A+L RE +VL +RF + T E+G+ ++ ++ +I AK + Sbjct: 215 ------------IAALPERERQVLILRF----YDNKTQAEIGRLLGCSQMQVSRILAKTL 258 Query: 665 RKLK 668 L+ Sbjct: 259 TMLR 262 >gi|126172428|ref|YP_001048577.1| RNA polymerase factor sigma-32 [Shewanella baltica OS155] gi|153002659|ref|YP_001368340.1| RNA polymerase factor sigma-32 [Shewanella baltica OS185] gi|217975235|ref|YP_002359986.1| RNA polymerase factor sigma-32 [Shewanella baltica OS223] gi|304412289|ref|ZP_07393897.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS183] gi|307306073|ref|ZP_07585818.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica BA175] gi|125995633|gb|ABN59708.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS155] gi|151367277|gb|ABS10277.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS185] gi|217500370|gb|ACK48563.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS223] gi|304349324|gb|EFM13734.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS183] gi|306910946|gb|EFN41373.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica BA175] Length = 285 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 72/242 (29%), Positives = 126/242 (52%), Gaps = 30/242 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + + +R+ E T +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKAKKRLGWFSDAEVTM--VAENLGVSKA 169 Query: 562 GVRKVLKITKEPISLETP----IGDEDTSHLGDF-----IEDKNAVSPLDSAIQANLRET 612 V ++ + ++ + P D+D H DF +ED + S L I+ + E+ Sbjct: 170 DVTEM----ESRMAAQDPAFDLTNDQDEEH--DFAPVHYLEDHS--SDLAENIENDNWES 221 Query: 613 TT--RVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRK 666 R+L+++ +ER +LR R+ ++ D TL+E+ + + V+ ERIRQ+E A+ K Sbjct: 222 NAQGRLLSAIKTLDERSQHILRARW---LDDDKTTLQELAETYQVSAERIRQLEKNAMNK 278 Query: 667 LK 668 LK Sbjct: 279 LK 280 >gi|325674621|ref|ZP_08154308.1| DNA-directed RNA polymerase sigma subunit SigB [Rhodococcus equi ATCC 33707] gi|325554207|gb|EGD23882.1| DNA-directed RNA polymerase sigma subunit SigB [Rhodococcus equi ATCC 33707] Length = 262 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 57/235 (24%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + + +V +L L ++A+++++RG + DL Q +GL+ A ++FD G F Sbjct: 32 GDERGTALRDRIVAQSLPLARNIARRFSSRGEEMDDLYQVACVGLINAVDRFDPAQGSSF 91 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 + YA+ + + R D + R+P ++D V + +S ++ R PT E+A +L Sbjct: 92 AAYAVPTIMGEVRRYFRDHAWAARVPRRLKDLTLDVGKATEALSQRLGRSPTAHELATEL 151 Query: 557 AMPVEGVRKVLKITK--EPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + V + + + SL++P+G D +++ L D + A +D Q L Sbjct: 152 GTDPDSVMEAIAAAGAYQTHSLDSPVGRDGESATLADTL----ATDDVDLE-QTELHLAL 206 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L PRE+R++ MRF + T E+ ++ V++ +I ++ +K + +++ Sbjct: 207 QPLIDQLEPREKRIVVMRF----FEERTQTEIAREIGVSQVQISRLLSKILARIR 257 >gi|127514531|ref|YP_001095728.1| RNA polymerase factor sigma-32 [Shewanella loihica PV-4] gi|126639826|gb|ABO25469.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella loihica PV-4] Length = 285 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 69/234 (29%), Positives = 119/234 (50%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VAK Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVIHVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R A++ E +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNLRKAKKRLGWFSDEEVT-MVAENLGVSKSD 170 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET--TTRVL 617 V ++ + L + D+ ++ED + S + S ++ + E TR+L Sbjct: 171 VTEMESRMAAQDPAFDLASDNDDDQDYAPVHYLEDHS--SDIASQVENDNFEADNQTRLL 228 Query: 618 ASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A++ +ER +L+ R+ T TL+E+ + V+ ERIRQ+E A+ KLK Sbjct: 229 AAIKTLDERSQHILQARWLDEEKT--TLQELAATYQVSAERIRQLEKNAMNKLK 280 >gi|183598031|ref|ZP_02959524.1| hypothetical protein PROSTU_01387 [Providencia stuartii ATCC 25827] gi|188022810|gb|EDU60850.1| hypothetical protein PROSTU_01387 [Providencia stuartii ATCC 25827] Length = 292 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 68/238 (28%), Positives = 124/238 (52%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEIGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + ++I + K+ R+ ++ + + +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKIATTKSQR--KLFFNLRKNKKRLGWFNQDEVDMVAKELGVSTK 166 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGD------FIEDKNAVSPLDSAIQANLRET--T 613 VR++ D+D+ LG F++DK+ S +I+ + E+ T Sbjct: 167 DVREMESRMAAQDMAFDMSDDDDSGDLGQPIAPVLFLQDKS--SDFAGSIEEDNWESHAT 224 Query: 614 TRV---LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ L SL R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 225 DRLADALDSLDERSQDIIRARW-LDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLR 281 >gi|290473624|ref|YP_003466496.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus bovienii SS-2004] gi|289172929|emb|CBJ79700.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus bovienii SS-2004] Length = 285 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 58/234 (24%), Positives = 125/234 (53%), Gaps = 11/234 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVVHVARSYSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R A++ ++ + +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKAKQRLGWFNQDEV-DLVAKELGVTSKD 167 Query: 563 VRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRET-----TT 614 VR++ +++ + ++ + D+ D+ + + ++ S I+ + E + Sbjct: 168 VREMESRMSAQDMAFDMSSNDDSHDSQPVAPVLYLQDKASDFADGIEEDNWENHAADKLS 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 228 MAIEGLDERSQDIIRARW-LDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 280 >gi|257056691|ref|YP_003134523.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256586563|gb|ACU97696.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 266 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 58/219 (26%), Positives = 104/219 (47%), Gaps = 8/219 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E++ L L +A+++ RG DL+Q +GL+ A ++FD G +F +A+ + Sbjct: 45 REEIITRCLPLAEHIARRFVGRGEPRDDLVQVARLGLLNAIDRFDASRGTEFVAFAVPTI 104 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +++ + + + +++ ++ R PTP E+A +L + E V Sbjct: 105 MGEVRRHFRDSSWAVRVPRRLKELHLSLSQASSKLAQRLGRAPTPSELAAELGLSPEDVW 164 Query: 565 KVLKI--TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 L + +S++ DE T L + + + E+ +LASL Sbjct: 165 DGLLAGNAYQSVSMDAAYDDEGTLPLAETVGHDDV-----ELEHVEYHESLQPLLASLPE 219 Query: 623 REERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIE 660 RE RVL +RF M E VG Q V+R R +E Sbjct: 220 RERRVLILRFFGNMTQTQIAERVGISQMHVSRLLARTLE 258 >gi|91787153|ref|YP_548105.1| sigma 32 (RpoH) [Polaromonas sp. JS666] gi|91696378|gb|ABE43207.1| RNA polymerase, sigma 32 subunit, RpoH [Polaromonas sp. JS666] Length = 322 Score = 81.6 bits (200), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 68/244 (27%), Positives = 118/244 (48%), Gaps = 25/244 (10%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+S+++KY GL DLIQEGNIGLMKA ++FD + +YAM W+K Sbjct: 75 KLVLSHLRLVVSISRKYLGYGLPHGDLIQEGNIGLMKAVKRFDPEQNVRLVSYAMHWIKA 134 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK------------REPTPEEIAK 554 I I +++ + K+ R M K E + +AK Sbjct: 135 EIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKDDADVATHRDTLTEGQIDSMAK 192 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET- 612 L + E V ++ +++ + L+ D+ G +A + +++ R++ Sbjct: 193 TLNVKREEVIEMEQRMSGGDVLLDPSPSDDGEDAFGPIAYLADATQEPTALMESRQRDSL 252 Query: 613 ----TTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAI 664 + L L PR R++ R+ + +N D TL ++ ++ V+ ERIRQIE A+ Sbjct: 253 ASDGISAALQELDPRSRRIVEERW-LKVNDDGSGGMTLHDLADEYQVSAERIRQIEVSAM 311 Query: 665 RKLK 668 +K+K Sbjct: 312 KKMK 315 >gi|329937605|ref|ZP_08287124.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329303004|gb|EGG46892.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 292 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 60/258 (23%), Positives = 126/258 (48%), Gaps = 34/258 (13%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +F +S++ +G E A+ ++E N+ LV A ++ NRG D++Q G IGL+KA Sbjct: 40 QFFQRLSVLEEGTHEYQYARNTLIEMNMSLVRFAAGRFRNRGDDMEDIVQVGMIGLIKAI 99 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D + + +P +++ ++ + +S+++ R Sbjct: 100 DRFEISREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELAKAREELSSRLDR 159 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDT---SHLGDFI-------- 592 +PT E+A + +P + V ++ SL+ + ED + L DFI Sbjct: 160 DPTVAELATLMNLPEKDVVEAQIAANGYNSSSLDAALSGEDQDGEAVLSDFIGAEDEAMG 219 Query: 593 --EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 ED + ++PL +A L+ R+ R++ MRF + T ++G Q Sbjct: 220 LVEDFHTLAPL---------------VAELSERDRRIIHMRF----VEEATQADIGAQLG 260 Query: 651 VTRERIRQIEAKAIRKLK 668 ++ + ++ + I +L+ Sbjct: 261 CSQMHVSRLIKRIIEQLR 278 >gi|325678908|ref|ZP_08158506.1| putative RNA polymerase sigma-F factor [Ruminococcus albus 8] gi|324109412|gb|EGC03630.1| putative RNA polymerase sigma-F factor [Ruminococcus albus 8] Length = 217 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/212 (31%), Positives = 108/212 (50%), Gaps = 11/212 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ + E NL LV A ++ RG+++ DL G IGL+KA++ FD G KFSTYA+ Sbjct: 3 AESHLPEDNLGLVHLCANRFRGRGIEYDDLYGAGCIGLLKASKAFDSGRGVKFSTYAVPV 62 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D T+++ +++ ++ A+ ++K REPT EE+AK + PVE V Sbjct: 63 ILGEIKRLFRDGG-TVKVSRSLKELSLRLTGEAQVFAHKNGREPTVEELAKIVGTPVEDV 121 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 + L + ISL +GD++ D A +P D I L +VL L + Sbjct: 122 IEALNAAQPVISLT--VGDDENETQADL----PAPAP-DEDITDRL--ALRQVLTELDDK 172 Query: 624 EERVLRMRFGIGMNTDHTLEEVG-KQFCVTRE 654 + +++ +R+ GM +G Q V+R+ Sbjct: 173 DRQLIELRYFQGMTQSAAAAVLGMTQVQVSRK 204 >gi|37527948|ref|NP_931293.1| RNA polymerase factor sigma-32 [Photorhabdus luminescens subsp. laumondii TTO1] gi|36787384|emb|CAE16473.1| RNA polymerase sigma-32 factor [Photorhabdus luminescens subsp. laumondii TTO1] Length = 285 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 66/247 (26%), Positives = 122/247 (49%), Gaps = 37/247 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVVHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGDED---------------TSHLGDFIEDKN----AVSPL 601 VR++ +++ + ++ + D+ S D IE+ N A L Sbjct: 167 DVREMESRMSAQDMAFDMSADDDSQEGQPVAPVLYLQDKASDFADGIEEDNWENHAADKL 226 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 AI+ SL R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E Sbjct: 227 SVAIE------------SLDERSQDIIRCRW-LDDDNKSTLQELADKYGVSAERVRQLEK 273 Query: 662 KAIRKLK 668 A++KL+ Sbjct: 274 NAMKKLR 280 >gi|225026792|ref|ZP_03715984.1| hypothetical protein EUBHAL_01044 [Eubacterium hallii DSM 3353] gi|224955911|gb|EEG37120.1| hypothetical protein EUBHAL_01044 [Eubacterium hallii DSM 3353] Length = 245 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 113/239 (47%), Gaps = 24/239 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +VE N L+ SV K++ RG DL Q G+IGL+K E FD KFSTYA+ Sbjct: 18 AQSILVEENSGLIWSVVKRFQGRGYDKEDLFQIGSIGLLKCIENFDLERNVKFSTYAVPL 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +K+ R REPT +EIA L M + Sbjct: 78 IMGEIKRFLRDDG-IVKVSRSLKEASYKIKREKEHYQKLYNREPTLKEIAVTLDMDESDI 136 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT------R 615 ++ +E SL I + D HL D +E QA+L E T Sbjct: 137 LMAMESGQEVCSLHQVIYQSEGDEIHLEDKLEQ-----------QADLIEQTVDNIYVQE 185 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +L L +E +++ MR+ + T + K+ +++ ++ ++E K + KL+ + +K Sbjct: 186 LLKKLNEQERQIIHMRYF----QNQTQAAIAKKIGISQVQVSRMEKKILNKLRKNANTK 240 >gi|93005058|ref|YP_579495.1| RNA polymerase factor sigma-32 [Psychrobacter cryohalolentis K5] gi|92392736|gb|ABE74011.1| sigma 32 (RpoH) [Psychrobacter cryohalolentis K5] Length = 287 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/269 (26%), Positives = 125/269 (46%), Gaps = 24/269 (8%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N + I + T E H +G+ EA+ + +V ++LR VI +A+ Y+ GL Sbjct: 17 NTVHQIPILTPTQEQELAH--RYYDEGDVEAA---RLLVMSHLRFVIHIARSYSGYGLPQ 71 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 DLIQEGN+GLMKA ++FD G + ++A+ W+K I + +++ K H Sbjct: 72 ADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVAT---TKAH 128 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-----KITKEPISLETPIGDEDT 585 + + R K + T EE A +A + RK + ++T S E D+D Sbjct: 129 RKLFFNLRSLKKTNNQLTLEE-ADAIANDLNVTRKQVLEMESRLTSYDASFEAQSSDDDD 187 Query: 586 SHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA----SLTPREERVLRMRFGIGMNTD 639 F+ED + P + +++ E + L +L R ++ R+ + Sbjct: 188 GRYAPQLFLED--GIDPAEIVEESDWEENNSSALIAAMETLDDRSRDIVEQRWLSEQKS- 244 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL E+ + ++ ER+RQIE A+ K++ Sbjct: 245 -TLHELAAVYSISAERVRQIEKNAMDKIR 272 >gi|256784015|ref|ZP_05522446.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 266 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +VEA L + +A ++ +RG F DL Q +GL+KA +++D G F +YA+ + Sbjct: 37 RDRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFESYAVPTI 96 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P +++ ++V + +S I R PT EIA++ + E V Sbjct: 97 TGEIKRHFRDHMWTLHVPRRVQELRNRVRFAGQDLSQTIPGRRPTVAEIAERAELSEEDV 156 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R L+ T + E P G ED LGD + + LD+ + RE LA+ Sbjct: 157 RVGLEALESFTALSLDAELP-GSEDGYSLGDALGAPDPA--LDTVVD---REAVKDRLAA 210 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L PRE +L MRF M E++G Q V+R Sbjct: 211 LPPRERAILYMRFFDDMTQSRIAEQLGISQMHVSR 245 >gi|257054261|ref|YP_003132093.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] gi|256584133|gb|ACU95266.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora viridis DSM 43017] Length = 267 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 57/239 (23%), Positives = 110/239 (46%), Gaps = 36/239 (15%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V +L L +A++++ RG+ DL+Q +GL+ A ++FD G F ++A+ V Sbjct: 40 RDRLVTGHLPLAEHIAQRFSGRGVAKEDLVQVARVGLINAVDRFDPSRGSDFLSFAVPTV 99 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D IR+P +++ + + ++S ++ R PTP EIA L + +E V Sbjct: 100 MGEVRRHFRDTGWVIRVPRRLKELHLSINNASTQLSQRLGRAPTPSEIADHLGLTLEEVF 159 Query: 565 ---------------KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 +VL E ++L +G+ED + G +E+ + PL Sbjct: 160 EGLEAGNAYHSMSLDEVLSADTENLALGDTLGEEDAALAG--VENHETLQPL-------- 209 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L RE +L +RF M E +G +++ + ++ A+ ++KL+ Sbjct: 210 -------VKQLPERERTILALRFVHNMTQTQIAERIG----ISQMHVSRLLARTLKKLR 257 >gi|319935952|ref|ZP_08010376.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] gi|319809066|gb|EFW05562.1| RNA polymerase sigma factor [Coprobacillus sp. 29_1] Length = 241 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 120/236 (50%), Gaps = 15/236 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 VR G+ +A K+++V+ NL LV S+ ++ N DL Q G IGLMKA FD Sbjct: 13 VRSGDEQA---KEQVVKDNLGLVWSIVHRFKNSYYDKEDLFQIGCIGLMKAINHFDPSYN 69 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FSTYA+ + I R D TI++ +++ KV + + + EPT EE+A Sbjct: 70 VQFSTYAVPIIMGEIKRYFRDDG-TIKVSRSLKELNIKVTKAKEILQAENNEEPTVEEVA 128 Query: 554 KKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + L + V V + + + P SL PI ++D S + +ED+ +D + + Sbjct: 129 RYLEVDVHDVVEAIDSSYYPTSLSEPIYEKDGSTIS--MEDR----LIDKSDHMWFEKIA 182 Query: 614 TRV-LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L +E+ ++ MR+ + D+ E + ++ +++ ++ ++E K + KL+ Sbjct: 183 LEMEMEKLDEKEKMIIYMRYQL----DYNQEAIAQRLGISQVQVSRLEKKIVTKLR 234 >gi|56415467|ref|YP_152542.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197364396|ref|YP_002144033.1| RNA polymerase factor sigma-32 [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|56129724|gb|AAV79230.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|197095873|emb|CAR61447.1| RNA polymerase sigma-32 factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] Length = 284 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 141/288 (48%), Gaps = 46/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ +A+ Sbjct: 16 LESYIRAANAWPMLSADEERALAERLHY-----QGDLEAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 + +P++ + D+ +S+ D IED N A + L A+Q L Sbjct: 186 SDDESDSQPMAPVLYLQDK-SSNFADGIEDDNWEEQAANRLTDAMQG------------L 232 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 233 DERSQDIIRARW-LDEDNKSTLQELADRYGVSVERVRQLEKNAMKKLR 279 >gi|71064787|ref|YP_263514.1| RNA polymerase factor sigma-32 [Psychrobacter arcticus 273-4] gi|71037772|gb|AAZ18080.1| putative Sigma 32 (RpoH) [Psychrobacter arcticus 273-4] Length = 341 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 72/269 (26%), Positives = 125/269 (46%), Gaps = 24/269 (8%) Query: 411 NEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQF 470 N + I + T E H +G+ EA+ + +V ++LR VI +A+ Y+ GL Sbjct: 71 NTVHQIPILTPTQEQELAH--RYYDEGDVEAA---RLLVMSHLRFVIHIARSYSGYGLPQ 125 Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIH 530 DLIQEGN+GLMKA ++FD G + ++A+ W+K I + +++ K H Sbjct: 126 ADLIQEGNLGLMKAVKRFDPNKGVRLVSFAVHWIKAEIHEFVIRNWRIVKVAT---TKAH 182 Query: 531 KVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-----KITKEPISLETPIGDEDT 585 + + R K + T EE A +A + RK + ++T S E D+D Sbjct: 183 RKLFFNLRSLKKTNNQLTIEE-ADAIANDLNVTRKQVLEMESRLTSYDASFEAQSSDDDD 241 Query: 586 SHLGD--FIEDKNAVSPLDSAIQANLRETTTRVLA----SLTPREERVLRMRFGIGMNTD 639 F+ED + P + +++ E + L +L R ++ R+ + Sbjct: 242 GRYAPQLFLED--GIDPAEIVEESDWEENNSSALIAAMETLDDRSRDIVEQRWLSEQKS- 298 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL E+ + ++ ER+RQIE A+ K++ Sbjct: 299 -TLHELAAVYSISAERVRQIEKNAMDKIR 326 >gi|167507935|gb|ABZ81288.1| RpoD [Thalassospira sp. MCCC 1A01288] gi|167507939|gb|ABZ81290.1| RpoD [Thalassospira sp. MCCC 1A01318] gi|167507943|gb|ABZ81292.1| RpoD [Thalassospira sp. MCCC 1A01423] gi|167507947|gb|ABZ81294.1| RpoD [Thalassospira sp. MCCC 1A01449] Length = 266 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 51/157 (32%), Positives = 89/157 (56%), Gaps = 5/157 (3%) Query: 268 TLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN---AVNGQKDEKSSVKCKV--LKEKLV 322 +LS ME++L +V+ ++IA+ Y +L Q+ A+N + ++ + + LK+++V Sbjct: 110 SLSKMEEELTEQVLEKFEKIAKTYEKLHKAQEQRLAAMNKGETVPAATEKRYGKLKQEMV 169 Query: 323 KLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLAQSYGIKRDVFLERHQGRELDPH 382 L+ + LN RI+ L++ L ++ R++ EG+LLR A IKR F++++QG ELDP+ Sbjct: 170 DLMEDVHLNNFRIEELLDHLTGLNNRLLGLEGKLLRYADRCKIKRPDFVKQYQGNELDPN 229 Query: 383 WVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVE 419 W+ WK FV D I ++R I +S E Sbjct: 230 WMERVGALSGKGWKLFVERYPDEIAQLREGIGGVSAE 266 >gi|187935068|ref|YP_001885063.1| RNA polymerase sigma-D factor [Clostridium botulinum B str. Eklund 17B] gi|187723221|gb|ACD24442.1| RNA polymerase sigma-D factor [Clostridium botulinum B str. Eklund 17B] Length = 242 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 69/232 (29%), Positives = 115/232 (49%), Gaps = 15/232 (6%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 K+++V+ + LV +A + N+ +++ DL+ G IGLM A KF+ G KFS+YA Sbjct: 9 VKEQIVKEYIPLVKYIASRIMIGKNKYMEYEDLVSYGIIGLMDAISKFNPEKGMKFSSYA 68 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +K AI I + DK+++ + NK+ REP EIAK L + + Sbjct: 69 SIRIKGAIIDQIRKNRPITK---GAMDKLNRYNGAIEALQNKLLREPNILEIAKYLELSL 125 Query: 561 EGVRKVLKITKE--PISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 E V ++ +SLE I DE+ + LG IEDKN+ SP + E + Sbjct: 126 EEVSQIENYINHISMVSLENIIFSDDEEVNLLG-IIEDKNSPSPEGELEEKEKLEVLSDA 184 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L +E+ +L + + + TL+E+G V+ R+ Q+ A++I L+ Sbjct: 185 IKLLKEKEQLILNLYYYEKL----TLKEIGAILSVSESRVCQLHARSISNLR 232 >gi|154707560|ref|YP_001423635.1| RNA polymerase factor sigma-32 [Coxiella burnetii Dugway 5J108-111] gi|154356846|gb|ABS78308.1| RNA polymerase sigma-32 factor [Coxiella burnetii Dugway 5J108-111] Length = 288 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 118/236 (50%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + +++A+ W Sbjct: 51 AARKLVLSHLRFVVRIARGYSGYGLSQADLIQEGNIGLMKAVKRFDPQVGVRLASFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 ++ I I ++I + K+ R+ + K E +A++L + + Sbjct: 111 IRAEIHEFILKNWRIVKIATTKAQR--KLFFNLRKHAKKRGWFSDHEAFALAEELNVSTK 168 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLG---DFIEDK--NAVSPLDSAIQANLRETT 613 VR++ L E D T G ++EDK N L+ + A+ +E Sbjct: 169 DVRQMEERLNSYDEAFDGADEESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHR 228 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + SL R +L R+ + TL E+ Q+ V+ ERIRQ+E A++K++ Sbjct: 229 LHNAMQSLDDRSRDILYQRWLSEKKS--TLHELAAQYAVSAERIRQLEKNAMQKIR 282 >gi|312138386|ref|YP_004005722.1| sigma-70 factor [Rhodococcus equi 103S] gi|311887725|emb|CBH47037.1| putative sigma-70 factor [Rhodococcus equi 103S] Length = 262 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 57/235 (24%), Positives = 119/235 (50%), Gaps = 12/235 (5%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ + + +V +L L ++A+++++RG + DL Q +GL+ A ++FD G F Sbjct: 32 GDERGTALRDRIVAQSLPLARNIARRFSSRGEEMDDLYQVACVGLINAVDRFDPAQGSSF 91 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 + YA+ + + R D + R+P ++D V + +S ++ R PT E+A +L Sbjct: 92 AAYAVPTIMGEVRRYFRDHAWAARVPRRLKDLTLDVGKATEALSQRLGRSPTAHELATEL 151 Query: 557 AMPVEGVRKVLKITK--EPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 + V + + + SL++P+G D +++ L D + A +D Q L Sbjct: 152 GTDPDSVMEAIAAAGAYQTHSLDSPVGRDGESATLADTL----ATDDVDLE-QTELHLAL 206 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L PRE+R++ MRF + T E+ ++ V++ +I ++ +K + +++ Sbjct: 207 RPLIDQLEPREKRIVVMRF----FEERTQTEIAREIGVSQVQISRLLSKILARIR 257 >gi|21224822|ref|NP_630601.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|3559995|emb|CAA20617.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 266 Score = 81.3 bits (199), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +VEA L + +A ++ +RG F DL Q +GL+KA +++D G F +YA+ + Sbjct: 37 RDRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFESYAVPTI 96 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P +++ ++V + +S I R PT EIA++ + E V Sbjct: 97 TGEIKRHFRDHMWTLHVPRRVQELRNRVRFAGQDLSQTIPGRRPTVAEIAERAELSEEDV 156 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R L+ T + E P G ED LGD + + LD+ + RE LA+ Sbjct: 157 RVGLEALESFTALSLDAELP-GSEDGYSLGDALGAPDPA--LDTVVD---REAVKDRLAA 210 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L PRE +L MRF M E++G Q V+R Sbjct: 211 LPPRERAILYMRFFNDMTQSRIAEQLGISQMHVSR 245 >gi|322833177|ref|YP_004213204.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rahnella sp. Y9602] gi|321168378|gb|ADW74077.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Rahnella sp. Y9602] Length = 240 Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 57/201 (28%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERFDAMQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + K+ R P+ E+A+ L +P+E R++L T S + DE GD Sbjct: 100 VSQAMHSAEQKLGRPPSEGEVAQVLDIPIEEYRQILMDTN---SSQLFSYDEWREEHGDT 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL ++ NLR + +L RE+ VL + + +N L+E+G Sbjct: 157 AEALMEGHEEANPLHHLLEGNLRHRVMEAIDALPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLDVGESRVSQLHSQAIKRLR 233 >gi|309785782|ref|ZP_07680413.1| alternative sigma factor RpoH [Shigella dysenteriae 1617] gi|308926902|gb|EFP72378.1| alternative sigma factor RpoH [Shigella dysenteriae 1617] gi|315614730|gb|EFU95370.1| alternative sigma factor RpoH [Escherichia coli 3431] gi|323162701|gb|EFZ48540.1| alternative sigma factor RpoH [Escherichia coli E128010] gi|323164790|gb|EFZ50582.1| alternative sigma factor RpoH [Shigella sonnei 53G] gi|323179012|gb|EFZ64586.1| alternative sigma factor RpoH [Escherichia coli 1180] gi|323182926|gb|EFZ68327.1| alternative sigma factor RpoH [Escherichia coli 1357] gi|323188948|gb|EFZ74232.1| alternative sigma factor RpoH [Escherichia coli RN587/1] gi|327251097|gb|EGE62790.1| alternative sigma factor RpoH [Escherichia coli STEC_7v] Length = 257 Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 66/254 (25%), Positives = 124/254 (48%), Gaps = 41/254 (16%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ K ++ ++LR V+ +A+ Y GL DLIQEGNIGLMKA +F+ +G + Sbjct: 18 GDLEAA---KTLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRL 74 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + +++ R + +T +R+ + E +A+ Sbjct: 75 VSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNQDEVEMVAR 132 Query: 555 KLAMPVEGVRKV----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN-- 596 +L + + VR++ +P++ + D+ +S+ D IED N Sbjct: 133 ELGVTSKDVREMESRMAAQDMTFDLSSDDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWE 191 Query: 597 --AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 A + L A+Q L R + ++R R+ + + TL+E+ ++ V+ E Sbjct: 192 EQAANRLTDAMQG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVSAE 238 Query: 655 RIRQIEAKAIRKLK 668 R+RQ+E A++KL+ Sbjct: 239 RVRQLEKNAMKKLR 252 >gi|6175924|gb|AAF05338.1|AF182104_2 truncated RNA polymerase sigma subunit [Escherichia coli] Length = 147 Score = 81.3 bits (199), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/57 (57%), Positives = 48/57 (84%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYA 146 >gi|113972098|ref|YP_735891.1| RNA polymerase factor sigma-32 [Shewanella sp. MR-4] gi|114049328|ref|YP_739878.1| RNA polymerase factor sigma-32 [Shewanella sp. MR-7] gi|117922401|ref|YP_871593.1| RNA polymerase factor sigma-32 [Shewanella sp. ANA-3] gi|113886782|gb|ABI40834.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. MR-4] gi|113890770|gb|ABI44821.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. MR-7] gi|117614733|gb|ABK50187.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella sp. ANA-3] Length = 285 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 71/243 (29%), Positives = 121/243 (49%), Gaps = 32/243 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK--KLAMPVE 561 +K I + +++ + R++ I++ T ++AM E Sbjct: 112 IKAEIHEYVLKNWRIVKVA---------TTKAQRKLFFNIRKAKTRLGWFSDDEVAMVAE 162 Query: 562 --GVRKV--------LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 GV K + L + DE ++ED + S L I+ + E Sbjct: 163 NLGVSKADVTEMESRMAAQDPAFDLSSDNDDEQDFAPVHYLEDHS--SDLAENIENDNWE 220 Query: 612 TTT--RVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIR 665 + R+L+++ +ER +LR R+ ++ D TL+E+ + + V+ ERIRQ+E A+ Sbjct: 221 SNAQGRLLSAIKTLDERSQHILRARW---LDDDKTTLQELAETYQVSAERIRQLEKNAMN 277 Query: 666 KLK 668 KLK Sbjct: 278 KLK 280 >gi|319940794|ref|ZP_08015133.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] gi|319805676|gb|EFW02457.1| RNA polymerase sigma factor [Sutterella wadsworthensis 3_1_45B] Length = 281 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 72/244 (29%), Positives = 123/244 (50%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLVIS+A+ + GL + DLIQEGNIGLMKA ++D G + T+A+ W Sbjct: 37 AAQKLVLSHLRLVISIARGFLGYGLPYADLIQEGNIGLMKAIRRYDPDRGARLMTFAVHW 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I I +++ + K+ R++ + T +E A+++A+ ++ V Sbjct: 97 IRSEIQEYIIRNWRIVKLATTKNQR--KLFFNLRQLKEDSQAALTNQE-AQRIALTLD-V 152 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNA-VSPLD----------SAIQANLR-- 610 + KE + +E + ++TS G D + SP D + ++A R Sbjct: 153 K-----PKEVLDMEERMYGQETSIDGPADSDDDDRFSPSDWLTRTSDQPEAILEAEDRQH 207 Query: 611 ---ETTTRVLASLTPREERVLRMRF----GIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 E LA+L PR RV+ R+ G TL+ + + V+ ER+RQIE A Sbjct: 208 LEGEGLQTALAALDPRSRRVIEARYLTVDADGTAKPVTLQALAHELGVSAERVRQIEKLA 267 Query: 664 IRKL 667 I+K+ Sbjct: 268 IKKM 271 >gi|238063793|ref|ZP_04608502.1| RNA polymerase sigma factor [Micromonospora sp. ATCC 39149] gi|237885604|gb|EEP74432.1| RNA polymerase sigma factor [Micromonospora sp. ATCC 39149] Length = 294 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 111/223 (49%), Gaps = 12/223 (5%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +EA L L +A +Y+ RG DL Q +GL+KA +KFD G F+ YA+ + + Sbjct: 74 IEAWLPLANHLAHRYSGRGEPTDDLAQTAAVGLIKAIDKFDPSRGVDFAGYAIPTIIGEL 133 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R D++ IR+P +++ + + + R PT +IA L + E V + L+ Sbjct: 134 KRHFRDRTWDIRVPRRLQELRLAISDANSTLLQTLGRSPTVADIAAHLKLTEEEVLEGLE 193 Query: 569 ITK--EPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + +SL TP GD D + LGD + ++ L A LR LA+L RE+ Sbjct: 194 GARAYNAVSLSTPTGDGDRATELGDMLGGEDTEFEL-----AELRVALGPALATLDEREQ 248 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L +RF + T ++ Q V++ + ++ A+A+ KL+ Sbjct: 249 KILTLRF----YGNLTQSQIADQIGVSQMHVSRLLARALTKLR 287 >gi|146296669|ref|YP_001180440.1| FliA/WhiG family RNA polymerase sigma factor [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410245|gb|ABP67249.1| RNA polymerase, sigma subunit, RpoX/SigF [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 231 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 67/241 (27%), Positives = 120/241 (49%), Gaps = 17/241 (7%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 M+ K + A++E++E NL LV S+ KK+ +G++ DL Q G IGL+KA ++FD Sbjct: 1 MISKAKNGDKKARQELIENNLALVWSIVKKFVVKGIEADDLFQIGCIGLIKAVDRFDLSF 60 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I+I +++ +K+ R + REPT EI Sbjct: 61 NVRFSTYAVPMIIGEIKRYLRDDG-KIKISRKIKENQNKLKRFRDEFLFQNGREPTISEI 119 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPL--DSAIQAN 608 ++ + + + + + + SL I E+ L D D++ S L A++ Sbjct: 120 SEATGLSQDDILLCIDASLDVTSLNEVINQEEGKPITLMDIAADEDYSSRLLDIMALKEG 179 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR+ L RE ++ MR+ + T E+ K+ +++ + +IE KA+ ++K Sbjct: 180 LRK--------LKGRERYIIFMRYF----KNKTQSEIAKELNISQVHVSRIEKKALERIK 227 Query: 669 H 669 Sbjct: 228 R 228 >gi|54025575|ref|YP_119817.1| putative sigma factor [Nocardia farcinica IFM 10152] gi|54017083|dbj|BAD58453.1| putative sigma factor [Nocardia farcinica IFM 10152] Length = 315 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 64/251 (25%), Positives = 118/251 (47%), Gaps = 32/251 (12%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++ V G E + + E++ + L +A+K++ RG F DL Q +GL+ A ++FD Sbjct: 78 LAAVEPGTAEHAALRDELISRCVPLADHIARKFSGRGEPFDDLTQVARVGLVHAVDRFDP 137 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G F ++A+ + + R D + +R+P +++ ++ +S + R PT + Sbjct: 138 ARGSNFLSFAVPTIMGEVRRYFRDHTWAMRVPRRVKETHLRIGAAIDTLSQSLGRSPTAK 197 Query: 551 EIAKKLAM-PVEGVRKVLKITK-EPISLE-TPIGDEDTSHLGDF----------IEDKNA 597 EIA +L + P E + V+ +P S++ +G E + L D +E+ A Sbjct: 198 EIAAELRVDPDEVTQAVIAGNAYQPSSIDAAALGRESDASLLDTLGEEEAQFERVEEYVA 257 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + PL LA L RE R+L MRF M T ++ KQ +++ + Sbjct: 258 IRPL---------------LAGLPERERRILTMRFFESM----TQTQIAKQMGISQMHVS 298 Query: 658 QIEAKAIRKLK 668 +I AK + +L+ Sbjct: 299 RILAKTLARLR 309 >gi|312972274|ref|ZP_07786448.1| alternative sigma factor RpoH [Escherichia coli 1827-70] gi|310334651|gb|EFQ00856.1| alternative sigma factor RpoH [Escherichia coli 1827-70] Length = 257 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 66/254 (25%), Positives = 124/254 (48%), Gaps = 41/254 (16%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ K ++ ++LR V+ +A+ Y GL DLIQEGNIGLMKA +F+ +G + Sbjct: 18 GDLEAA---KTLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRL 74 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 ++A+ W+K I + +++ R + +T +R+ + E +A+ Sbjct: 75 VSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLG--WFNQDEVEMVAR 132 Query: 555 KLAMPVEGVRKV----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN-- 596 +L + + VR++ +P++ + D+ +S+ D IED N Sbjct: 133 ELGVTSKDVREMESRMAAQDMTFDLSSNDDSDSQPMAPVLYLQDK-SSNFADGIEDDNWE 191 Query: 597 --AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 A + L A+Q L R + ++R R+ + + TL+E+ ++ V+ E Sbjct: 192 EQAANRLTDAMQG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVSAE 238 Query: 655 RIRQIEAKAIRKLK 668 R+RQ+E A++KL+ Sbjct: 239 RVRQLEKNAMKKLR 252 >gi|302866675|ref|YP_003835312.1| RNA polymerase sigma-70 factor [Micromonospora aurantiaca ATCC 27029] gi|302569534|gb|ADL45736.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Micromonospora aurantiaca ATCC 27029] Length = 273 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 112/223 (50%), Gaps = 12/223 (5%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +EA L L +A +Y+ RG DL Q IGL+KA +KFD G F+ YA+ + + Sbjct: 53 IEAWLPLANHLAHRYSGRGEPNDDLAQTAAIGLIKAIDKFDPSRGVDFAGYAIPTIIGEL 112 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R D++ IR+P +++ + + + R PT +IA L + E V + L+ Sbjct: 113 KRHFRDRTWDIRVPRRLQELRLAISDANSTLLQTLGRSPTVADIAAHLKLTEEEVLEGLE 172 Query: 569 ITK--EPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + +SL TP GD E + LGD + ++ L A +R LA+L RE+ Sbjct: 173 GARAYNAVSLSTPTGDGERATELGDLLGGEDGEFEL-----AEMRVALGPALATLDQREQ 227 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L +RF + T ++ +Q V++ + ++ A+A+ KL+ Sbjct: 228 KILTLRF----YGNLTQSQIAEQIGVSQMHVSRLLARALTKLR 266 >gi|261342189|ref|ZP_05970047.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] gi|288315522|gb|EFC54460.1| RNA polymerase sigma factor [Enterobacter cancerogenus ATCC 35316] Length = 147 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 33/57 (57%), Positives = 48/57 (84%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 +++ M+E+NLRLV+ +A++Y NRGL LDLI+EGN+GL++A EKFD G++FSTYA Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYA 146 >gi|24376056|ref|NP_720099.1| RNA polymerase factor sigma-32 [Shewanella oneidensis MR-1] gi|24351072|gb|AAN57543.1|AE015890_4 RNA polymerase sigma-32 factor [Shewanella oneidensis MR-1] Length = 285 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 71/236 (30%), Positives = 123/236 (52%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTAR-RMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ + K+ +R A+ R+ E T +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKAKTRLGWFSDDEVTM--VAENLGVSKA 169 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT--RV 616 V ++ + L + DE ++ED + S L I+ + E+ R+ Sbjct: 170 DVTEMESRMAAQDPAFDLSSDNDDEHDFAPVHYLEDHS--SDLAENIENDNWESNAQGRL 227 Query: 617 LASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ +ER +LR R+ ++ D TL+E+ + + V+ ERIRQ+E A+ KLK Sbjct: 228 LSAIKTLDERSQHILRARW---LDDDKTTLQELAETYQVSAERIRQLEKNAMNKLK 280 >gi|332531759|ref|ZP_08407644.1| RNA polymerase sigma factor RpoH [Pseudoalteromonas haloplanktis ANT/505] gi|332038735|gb|EGI75177.1| RNA polymerase sigma factor RpoH [Pseudoalteromonas haloplanktis ANT/505] Length = 287 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 121/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V +AK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVAHIAKSYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + + +R+ + E + +A +L + + Sbjct: 112 IKAEIHEFVLKNWRIVKVATTKAQRKLFFNLRKNKKRLGWFNQAEVST--VASELGVSEK 169 Query: 562 GVRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLRETT-T 614 VR++ +++ + + + D D T ++ D A D Q +E T Sbjct: 170 EVREMESRMSGQDMGFDLTGDDNDDAPTSTYSPVQYLTD-GAADLADDVEQEQWKEQAHT 228 Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ ++L +ER + ++ D TL+E+ +++ V+ ER+RQ+E A++KL+ Sbjct: 229 RLFSALKTLDERSQDIVSARWLSDDKATLQELAQKYSVSAERVRQLEKTAMKKLQ 283 >gi|294629742|ref|ZP_06708302.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292833075|gb|EFF91424.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 305 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 64/253 (25%), Positives = 124/253 (49%), Gaps = 17/253 (6%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 +S S F + S+ +G E + + +VE NL LV A ++ +R D+IQ G IG Sbjct: 58 ALSKSLFERLESL-EEGTHEHAYVRNTLVELNLALVKFAASRFRSRSEPMEDIIQVGTIG 116 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L+KA ++F+ G +F T+AM + I R D S ++R+P +++ + + ++ Sbjct: 117 LIKAIDRFELSRGVEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELA 176 Query: 541 NKIKREPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKN 596 ++ R PT E+A+ L + VEG+ T + + P +E L D I + Sbjct: 177 QRLDRAPTVSELAEHLGLSAEEVVEGMAASNAYTASSLDAQ-PEENESEGALADRIGYE- 234 Query: 597 AVSPLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 D I+ E+ ++A L R+ ++L +RF M T E+G++ +++ Sbjct: 235 -----DHGIEGIEYVESLKPLIAELPSRDRKILSLRFVANM----TQSEIGEELGISQMH 285 Query: 656 IRQIEAKAIRKLK 668 + ++ ++ + +L+ Sbjct: 286 VSRLLSRTLVRLR 298 >gi|157149048|ref|YP_001456366.1| RNA polymerase factor sigma-32 [Citrobacter koseri ATCC BAA-895] gi|157086253|gb|ABV15931.1| hypothetical protein CKO_04887 [Citrobacter koseri ATCC BAA-895] Length = 284 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 74/284 (26%), Positives = 141/284 (49%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LESYIRAANAWPMLSADEERALAEKLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVTSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + +P++ + D+ TS+ D IE+ N D A AN T + L R Sbjct: 186 SDDESDSQPMAPVLYLQDK-TSNFADGIEEDNWE---DQA--AN---KLTHAMEGLDERS 236 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 237 QDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|56551645|ref|YP_162484.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis ZM4] gi|241761228|ref|ZP_04759316.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|260752767|ref|YP_003225660.1| RNA polymerase factor sigma-32 [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|59803027|sp|P50512|RP32_ZYMMO RecName: Full=RNA polymerase sigma-32 factor gi|56543219|gb|AAV89373.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ZM4] gi|241374135|gb|EER63632.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|258552130|gb|ACV75076.1| RNA polymerase, sigma 32 subunit, RpoH [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 302 Score = 80.9 bits (198), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGNIGLM+ +KFD G++ +TYA+WW Sbjct: 53 AASRLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE---IAKKL 556 +K +I I +++ K K+ RR+ + + + P+E IA L Sbjct: 113 IKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNL 170 Query: 557 AMPVEGVRKVLKITKEPI-----SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + E +V+ + + SL + ++ + D++ D+ PL E Sbjct: 171 GVSNE---EVVNMNRRMAMGGDSSLNITMREDGEGQMQDWLVDQ---EPLQDQQIEEEEE 224 Query: 612 TTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + R + L RE+ +L R + TLEE+ + + V+RER+RQIE +A Sbjct: 225 SLVRHKLLIEAMDKLNDREKHILTERR--LSDNPKTLEELSQVYGVSRERVRQIEVRAFD 282 Query: 666 KLK 668 KL+ Sbjct: 283 KLQ 285 >gi|315503089|ref|YP_004081976.1| RNA polymerase, sigma 28 subunit, sig b/f/g subfamily [Micromonospora sp. L5] gi|315409708|gb|ADU07825.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Micromonospora sp. L5] Length = 273 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 65/223 (29%), Positives = 112/223 (50%), Gaps = 12/223 (5%) Query: 449 VEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAI 508 +EA L L +A +Y+ RG DL Q IGL+KA +KFD G F+ YA+ + + Sbjct: 53 IEAWLPLANHLAHRYSGRGEPNDDLAQTAAIGLIKAIDKFDPSRGVDFAGYAIPTIIGEL 112 Query: 509 TRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK 568 R D++ IR+P +++ + + + R PT +IA L + E V + L+ Sbjct: 113 KRHFRDRTWDIRVPRRLQELRLAISDANSTLLQTLGRSPTVADIAAHLKLTEEEVLEGLE 172 Query: 569 ITK--EPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + +SL TP GD E + LGD + ++ L A +R LA+L RE+ Sbjct: 173 GARAYNAVSLSTPTGDGERATELGDLLGGEDGEFEL-----AEMRVALGPALATLDQREQ 227 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L +RF + T ++ +Q V++ + ++ A+A+ KL+ Sbjct: 228 KILTLRF----YGNLTQSQIAEQIGVSQMHVSRLLARALTKLR 266 >gi|160877394|ref|YP_001556710.1| RNA polymerase factor sigma-32 [Shewanella baltica OS195] gi|160862916|gb|ABX51450.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS195] gi|315269598|gb|ADT96451.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella baltica OS678] Length = 285 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 69/239 (28%), Positives = 122/239 (51%), Gaps = 24/239 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + + +R+ E T +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKAKKRLGWFSDAEVTM--VAENLGVSKA 169 Query: 562 GVRKVLKITKEPISLETP----IGDEDTSHLGDF-----IEDKNAVSPLDSAIQANLRET 612 V ++ + ++ + P D+D H DF +ED + S L I+ + E+ Sbjct: 170 DVTEM----ESRMAAQDPAFDLTNDQDEEH--DFAPVHYLEDHS--SDLAENIENDNWES 221 Query: 613 TT--RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+L+++ +ER + ++ D TL+E+ + + V+ ERIRQ+E A+ KLK Sbjct: 222 NAQGRLLSAIKTLDERSQHILHARWLDDDKTTLQELAETYQVSAERIRQLEKNAMNKLK 280 >gi|47122|emb|CAA48660.1| whiG-Stv [Streptomyces griseocarneus] Length = 278 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 60/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGIFGLIDAIEKFDPARAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + +E + V +SL + ED H G Sbjct: 132 VERAYATLEAELRRTPTEAEVAAEMGIALEELHSVFS----QLSLANVVALEDLLHAGDE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGERLSLMDTLEDTAADDPVEVAEDHELRRLLARAINTLPEREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G+ VT R+ QI K++ +L+ Sbjct: 244 LAEIGQVLGVTESRVSQIHTKSVLQLR 270 >gi|302385959|ref|YP_003821781.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] gi|302196587|gb|ADL04158.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Clostridium saccharolyticum WM1] Length = 240 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 118/230 (51%), Gaps = 16/230 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++V N LV S+ +++T RG + DL Q G+IGLMKA +KFD KFSTYA+ Sbjct: 21 ARDQLVTDNFGLVWSIVRRFTGRGYEAEDLFQIGSIGLMKAIDKFDLSYEVKFSTYAVPM 80 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ KV + ++ REPT EEIA ++ E V Sbjct: 81 ITGEIKRFLRDDGM-IKVSRSIKEMGLKVKNVREELIYRLGREPTVEEIAGEIGASKEEV 139 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANL--RETTTRVLAS 619 ++ E SL + DE++ L D IE+ +S+ Q L R +L + Sbjct: 140 AASIEAGAEVESLYRSVNKNDENSILLIDKIEE-------ESSAQEELLNRMVLRELLTA 192 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L+ ++ ++ R+ + T ++ + +++ ++ ++E K +++++ Sbjct: 193 LSDKDREIIIRRY----YYNETQSQIAAKLGISQVQVSRLEKKILKQMRE 238 >gi|167464139|ref|ZP_02329228.1| DNA-directed RNA polymerase sigma subunit D [Paenibacillus larvae subsp. larvae BRL-230010] gi|322382365|ref|ZP_08056272.1| RNA polymerase sigma factor SigD-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321153718|gb|EFX46093.1| RNA polymerase sigma factor SigD-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 262 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 68/244 (27%), Positives = 121/244 (49%), Gaps = 12/244 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTN---RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AK+ ++E L LV V+ + +N R + DL G +GLM A EKFD G +F TYA Sbjct: 26 AKQSLLEQYLPLVDYVSSRMSNGLPRNVAKEDLASFGVLGLMDAVEKFDHTRGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W + A+ + +P +R+K K+ +++ R T EI++ L + Sbjct: 86 SWRILGAVIDGLRQGDW---VPRSLREKAKKIEDAYQKLEQHYLRTVTDAEISEYLGVEE 142 Query: 561 EGVRKVLK-ITKEPI-SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 E R++L+ I I S++ PI +E++ + D+ A +P + L+ET R + Sbjct: 143 EEFRQMLQEINVTSICSVDDPIKEEESETRLSLLIDEKAKNPEYKVNEFYLKETLARAIE 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 LT +E+ V+ + + + +L E+ + ++ RI Q+ +KAI +L+ K++ Sbjct: 203 KLTEKEKIVVSLFYF----EELSLSEIAEVMSLSPSRISQLHSKAILRLRGTLNKYKIQL 258 Query: 679 FLDG 682 F D Sbjct: 259 FQDS 262 >gi|315444787|ref|YP_004077666.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315263090|gb|ADT99831.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 270 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 105/223 (47%), Gaps = 10/223 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ L L A+++ RG DL Q ++GL+ A ++FD G F YA+ + Sbjct: 35 IIAMTLPLAQHTARRFRGRGQSHDDLFQVASVGLVNAVKRFDPDSGSDFLAYAVPTIMGE 94 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + R D S +++P ++D ++ + ++ ++ R PTP E+A L + E V + Sbjct: 95 VRRYFRDCSWAVKVPRRLKDLNSQLAKARAELTQQLGRAPTPSEVAAHLGIDREEVVQAT 154 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA-SLTPREER 626 + +L T D + GDF+ + + D+ + A + T R L L PRE+ Sbjct: 155 IASSNYATLST---DSTSGPDGDFVALRETLGEPDARLDAVVDNETIRPLIEKLPPREQA 211 Query: 627 VLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLK 668 VL++RF M E +G Q V+R + AKA+ L+ Sbjct: 212 VLKLRFFDEMTQTQIAERMGYSQMHVSR-----LLAKALATLR 249 >gi|262195942|ref|YP_003267151.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] gi|262079289|gb|ACY15258.1| RNA polymerase, sigma 32 subunit, RpoH [Haliangium ochraceum DSM 14365] Length = 298 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 116/242 (47%), Gaps = 27/242 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V + LR V+ +A+KY G+ DL+ EGN+GL++A +F+ G +F TYA W Sbjct: 44 AADALVSSQLRSVLKIARKYRGYGIYLSDLVAEGNLGLLEAVNRFEPERGLRFFTYARHW 103 Query: 504 VKQAITR------SIADQSCTI---RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 V+ I SI D T ++ ++ + +++ T S++++R ++A Sbjct: 104 VRAFILAHVLKHWSIVDLGTTAQQSKMFFRLQSEHARLLTTLGDQSDQVER-----QLAD 158 Query: 555 KLAMPVEGVRKVL-KITKEPISLETPIGDEDTSHLGDFI-------EDKNAVSPLDSAIQ 606 E VR L ++ + SL+ P+ D + L D + E + A + L S + Sbjct: 159 TFKTSPEQVRANLQRLARRDASLDVPVVDGGITFL-DMLQADTTDQETQTAAAELSSVV- 216 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R + + +L RE ++ R TL +G+Q +TRER+RQ+EA + Sbjct: 217 ---RNAVSELWPTLDCRERLIVDERLLPADGDPRTLAALGRQLGLTRERVRQLEAGVKDR 273 Query: 667 LK 668 L+ Sbjct: 274 LR 275 >gi|289767896|ref|ZP_06527274.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289698095|gb|EFD65524.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 270 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +VEA L + +A ++ +RG F DL Q +GL+KA +++D G F +YA+ + Sbjct: 41 RDRIVEAWLPMAERLAGRFRSRGESFEDLRQVAALGLVKAVDRYDPERGNAFESYAVPTI 100 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P +++ ++V + +S I R PT EIA++ + E V Sbjct: 101 TGEIKRHFRDHMWTLHVPRRVQELRNRVRFAGQDLSQTIPGRRPTVAEIAERAELSEEDV 160 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R L+ T + E P G ED LGD + + LD+ + RE LA+ Sbjct: 161 RVGLEALESFTALSLDAELP-GSEDGYSLGDALGAPDPA--LDTVVD---REAVKDRLAA 214 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L PRE +L MRF M E++G Q V+R Sbjct: 215 LPPRERAILYMRFFDDMTQSRIAEQLGISQMHVSR 249 >gi|145224454|ref|YP_001135132.1| FliA/WhiG family RNA polymerase sigma factor [Mycobacterium gilvum PYR-GCK] gi|145216940|gb|ABP46344.1| RNA polymerase, sigma 37 subunit, RpsB/SigB [Mycobacterium gilvum PYR-GCK] Length = 270 Score = 80.9 bits (198), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 60/223 (26%), Positives = 105/223 (47%), Gaps = 10/223 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ L L A+++ RG DL Q ++GL+ A ++FD G F YA+ + Sbjct: 35 IIAMTLPLAQHTARRFRGRGQSHDDLFQVASVGLVNAVKRFDPDSGSDFLAYAVPTIMGE 94 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 + R D S +++P ++D ++ + ++ ++ R PTP E+A L + E V + Sbjct: 95 VRRYFRDCSWAVKVPRRLKDLNSQLAKARAELTQQLGRAPTPSEVAAHLGIDREEVVQAT 154 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA-SLTPREER 626 + +L T D + GDF+ + + D+ + A + T R L L PRE+ Sbjct: 155 IASSNYATLST---DSTSGPDGDFVALRETLGEPDARLDAVVDNETIRPLIEKLPPREQA 211 Query: 627 VLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLK 668 VL++RF M E +G Q V+R + AKA+ L+ Sbjct: 212 VLKLRFFDEMTQTQIAERMGYSQMHVSR-----LLAKALATLR 249 >gi|295696440|ref|YP_003589678.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] gi|295412042|gb|ADG06534.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Bacillus tusciae DSM 2912] Length = 256 Score = 80.9 bits (198), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 67/254 (26%), Positives = 121/254 (47%), Gaps = 17/254 (6%) Query: 417 SVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 S + ++ + R +++ + G+ A ++ +V N RLV SV +++ RG + DL Q Sbjct: 9 STKAKLTDQQVRELIAQSQSGDAGA---RETLVLFNQRLVWSVVQRFLGRGYEPEDLFQI 65 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 G IGLMKA +KFD KFSTYA+ + I R + D T+++ +++ + R Sbjct: 66 GCIGLMKAIDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSVKETARHIRRAR 124 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIED 594 ++ ++ R+P E+A++L M V + P S+ + D D L D I D Sbjct: 125 DELAKRLGRQPHINELAEELGMDPAEVVFTQDAMRAPASIHETVFENDGDPILLMDQIAD 184 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + D R T L L RE ++ +RF D T EV + +++ Sbjct: 185 EEQEKWFD-------RLALTDALNRLPERERLIVFLRF----FRDKTQSEVAEVLGISQV 233 Query: 655 RIRQIEAKAIRKLK 668 ++ ++E K + +++ Sbjct: 234 QVSRLEKKILNRIR 247 >gi|297203565|ref|ZP_06920962.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] gi|297148443|gb|EFH28990.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] Length = 265 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 65/216 (30%), Positives = 107/216 (49%), Gaps = 14/216 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++VEA L + +A ++ +RG F DL Q +GL+KA +++D LG+ F +YA+ + Sbjct: 38 RGQVVEAWLPMADRLAGRFRSRGESFDDLRQVAALGLVKAVDRYDPALGHAFESYAVPTI 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVE-- 561 I R D T+ +P ++D ++V ++ ++ I R PT EIA+ +M E Sbjct: 98 TGEIKRHFRDHMWTLHVPRRVQDLRNRVRIASQDLAQTIPGRRPTVAEIAEHASMSEEDV 157 Query: 562 --GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-RETTTRVLA 618 G+ + + + E P G ED L D A+ D A+ + RE+ LA Sbjct: 158 LVGLEALESFSALSLDAELP-GSEDGYSLAD------ALGSFDPALDTVVDRESVKPRLA 210 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L RE +L MRF M E++G Q V+R Sbjct: 211 ALPERERAILYMRFFGDMTQSRIAEQLGISQMHVSR 246 >gi|192362020|ref|YP_001983950.1| RNA polymerase factor sigma-32 [Cellvibrio japonicus Ueda107] gi|190688185|gb|ACE85863.1| alternative sigma factor RpoH [Cellvibrio japonicus Ueda107] Length = 286 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 116/234 (49%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 52 AARKLVMAHLRFVVHIARSYNGYGLPLGDLIQEGNVGLMKAVKRFDPDKGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R A++ + + E +A L + V+ Sbjct: 112 IKAEIHEFILRNWRIVKIATTKAQRKLFFNLRGAKKRLAWLSNDEA-EAVALDLGVDVKQ 170 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR---- 615 VR++ L D++ +++ED N P +AN E + Sbjct: 171 VREMEGRLASYDAGFDASDDDEDDNYVAPANYLED-NRYDPAARLEEANWEEASVNGLEM 229 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R +L+ R+ +N D TL ++ ++ V+ ERIRQ+E A+ K+K Sbjct: 230 AMEKLDDRSRVILQRRW---LNDDKATLHDLAAEYGVSAERIRQLEKNAMNKVK 280 >gi|188586278|ref|YP_001917823.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350965|gb|ACB85235.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 253 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 124/234 (52%), Gaps = 10/234 (4%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +KG+ EA +K ++E N+ LV SV K++ G++ DL Q G +GL+KA +KFD+ Sbjct: 24 QKGDREA---RKIIIEENINLVKSVVKRFVGSGIEEEDLTQLGLMGLIKAIDKFDYRKEV 80 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +FSTYA+ + I + D I++ ++++ ++ R ++ K++REPT E+A Sbjct: 81 RFSTYAVPLIIGEIKTFLRD-DHPIKVSRNLKELFNRSKEVKRWLTLKLRREPTISEVAD 139 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 +L + E + + +E ISL+ P+ DE + D + D+ I L T Sbjct: 140 ELEVSKEELATAEEANQELISLDKPVSDEHNHESEKALIDTIPDNSFDAKIHNEL--TIQ 197 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L L ++ R++ +R+ + + + +E G +++ ++ ++E + + L+ Sbjct: 198 ELLKKLDQKKRRLIVLRYFL----EKSQQETGVILGMSQVQVSRMERRILNNLQ 247 >gi|331088539|ref|ZP_08337452.1| hypothetical protein HMPREF1025_01035 [Lachnospiraceae bacterium 3_1_46FAA] gi|330407801|gb|EGG87295.1| hypothetical protein HMPREF1025_01035 [Lachnospiraceae bacterium 3_1_46FAA] Length = 239 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 46/158 (29%), Positives = 91/158 (57%), Gaps = 1/158 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++RK A++++V+ N+ LV V K++ RG + DL Q G+IGL+KA +KFD Sbjct: 5 IALIRKSHSGDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDL 64 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 KFSTYA+ + I R + D I++ +++ +K V+ R+ + + R+PT E Sbjct: 65 TYNVKFSTYAVPLISGEIKRFLRDDG-MIKVSRSLKEIAYKSVQARERLISSLGRDPTIE 123 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 E+++++ + E + + ++ E S+ P+ ++ S + Sbjct: 124 ELSEEVGVEREELVQAMEAGCEIESIYRPVHQKEGSEI 161 >gi|1143379|dbj|BAA09444.1| sigma-32 homolog [Zymomonas mobilis] Length = 302 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 70/243 (28%), Positives = 116/243 (47%), Gaps = 28/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV +A Y GL +LI EGNIGLM+ +KFD G++ +TYA+WW Sbjct: 53 AASRLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFDPERGFRLATYAIWW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPEE---IAKKL 556 +K +I I +++ K K+ RR+ + + + P+E IA L Sbjct: 113 IKASIQEYILRSWSLVKMGTTAAQK--KLFFNLRRLKSNMNAFEDGDLKPDEVDSIATNL 170 Query: 557 AMPVEGVRKVLKITKEPI-----SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 + E +V+ + + SL + ++ + D++ D+ PL E Sbjct: 171 GVSNE---EVVNMNRRMAMGGDSSLNITMREDGEGQMQDWLVDQ---EPLQDQQIEEEEE 224 Query: 612 TTTR------VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + R + L RE+ +L R + TLEE+ + + V+RER+RQIE +A Sbjct: 225 SLVRHKLLIEAMDRLNDREKHILTERR--LSDNPKTLEELSQVYGVSRERVRQIEVRAFD 282 Query: 666 KLK 668 KL+ Sbjct: 283 KLQ 285 >gi|92115102|ref|YP_575030.1| RNA polymerase factor sigma-32 [Chromohalobacter salexigens DSM 3043] gi|91798192|gb|ABE60331.1| RNA polymerase, sigma 32 subunit, RpoH [Chromohalobacter salexigens DSM 3043] Length = 288 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 71/248 (28%), Positives = 132/248 (53%), Gaps = 22/248 (8%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 + +G+ EA+ + +V ++LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++FD Sbjct: 42 LYEQGDLEAA---RRLVMSHLRFVVHIARSYSGYGLPQADLIQEGNVGLMKAVKRFDPTQ 98 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEE 551 G + ++A+ W+K I + ++I + K+ +R A++ + + + Sbjct: 99 GVRLVSFAVHWIKAEIHEYVLRNWRIVKIATTKAQRKLFFNLRGAKKRLAWLNNDEV-DA 157 Query: 552 IAKKLAMPVEGVRKV-LKITKEPISLE-TPIGDEDTSHL--GDFIEDKNAVSPLDSAIQ- 606 IAK L + + VR++ +++ + TP +ED + +++D+ D A Q Sbjct: 158 IAKDLDVKPQVVREMEGRLSAFDAGYDATPSEEEDQGYQAPAHYLDDER----FDPAAQL 213 Query: 607 --ANLRE-TTTRVLASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 A+ E +T R+ A+L +ER +L+ R+ + TL E+ + V+ ERIRQ+E Sbjct: 214 EAADWEEDSTHRLQAALGELDERSRDILQRRW--LAESKATLHELADVYGVSAERIRQLE 271 Query: 661 AKAIRKLK 668 A++K+K Sbjct: 272 KNAMKKIK 279 >gi|219856135|ref|YP_002473257.1| hypothetical protein CKR_2792 [Clostridium kluyveri NBRC 12016] gi|219569859|dbj|BAH07843.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 254 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 64/239 (26%), Positives = 120/239 (50%), Gaps = 11/239 (4%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ R+G+ EA ++VE NL LV +++KK+ NRG ++ D+ Q G +GLMKA FD Sbjct: 22 LIKCAREGDKEAL---NKLVELNLPLVSAISKKFLNRGYEYEDIFQIGCMGLMKAVNNFD 78 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ K+ ++ K+ REPT Sbjct: 79 ETYNVKFSTYAVPMILGEIKRFLRDDGM-IKVSRSIKNTAKKLHYDREALTKKLNREPTI 137 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+ + E + + T L I +D S + + DK + +P + ++ Sbjct: 138 EELAEYSGVKTEELLFATESTNSLQYLYDTIHQDDGSPV--LLIDKISENPKED-VEVID 194 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L +L + +++ +R+ D T +V K + + ++ +IE K ++ ++ Sbjct: 195 RIALKEALRNLDVKSRQIIMLRYF----KDKTQVQVAKMLGINQVQVSRIEKKVLKTMR 249 >gi|153814969|ref|ZP_01967637.1| hypothetical protein RUMTOR_01184 [Ruminococcus torques ATCC 27756] gi|145847537|gb|EDK24455.1| hypothetical protein RUMTOR_01184 [Ruminococcus torques ATCC 27756] Length = 243 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 46/158 (29%), Positives = 91/158 (57%), Gaps = 1/158 (0%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++RK A++++V+ N+ LV V K++ RG + DL Q G+IGL+KA +KFD Sbjct: 5 IALIRKSHSGDKAAREQLVKENVGLVHCVVKRFLERGAEREDLFQIGSIGLLKAIDKFDL 64 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 KFSTYA+ + I R + D I++ +++ +K V+ R+ + + R+PT E Sbjct: 65 TYNVKFSTYAVPLISGEIKRFLRDDG-MIKVSRSLKEIAYKSVQARERLISSLGRDPTIE 123 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHL 588 E+++++ + E + + ++ E S+ P+ ++ S + Sbjct: 124 ELSEEVGVEREELVQAMEAGCEIESIYRPVHQKEGSEI 161 >gi|186684907|ref|YP_001868103.1| RNA polymerase sigma factor SigF [Nostoc punctiforme PCC 73102] gi|186467359|gb|ACC83160.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Nostoc punctiforme PCC 73102] Length = 269 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 63/220 (28%), Positives = 108/220 (49%), Gaps = 8/220 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + ++V+ N LV A +TN+ + + DL+Q G +GL++A EKF+ G+ FS+YA+ Sbjct: 39 VRNKLVKLNFGLVRKEAHYWTNQCHETYDDLLQVGCLGLIRAIEKFELSKGHAFSSYALP 98 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVE 561 +++ I + D+ T+RIP + + +R K R+PT E+A L + P E Sbjct: 99 YIRGEIQHYLRDKGVTVRIPRKWLALQQQAIGVSRSWREKHNRQPTDTELAAALEISPNE 158 Query: 562 GVR-KVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 K+ I + P+SL+ PI G+E ++ LG+ + D + S A + LR + L Sbjct: 159 WQEIKLAWINRAPLSLDVPIQDGEEGSTCLGELVPDPHYRS-FQLAQEDQLR--LQQALV 215 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R VL F + E +G R+++ Sbjct: 216 QLEQRTRDVLECVFLQDLTQKQVAEHLGISVVTVSRRVKK 255 >gi|148244663|ref|YP_001219357.1| DNA-directed RNA polymerase sigma-32 factor [Candidatus Vesicomyosocius okutanii HA] gi|146326490|dbj|BAF61633.1| DNA-directed RNA polymerase sigma-32 factor [Candidatus Vesicomyosocius okutanii HA] Length = 277 Score = 80.5 bits (197), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 125/238 (52%), Gaps = 23/238 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V +++R V +A Y GL+ DL+QEG IGLMKA ++F+ + +++A++W Sbjct: 45 AARKLVLSHMRFVAFIAHSYKGYGLEQADLVQEGTIGLMKAVKRFNPHRNVRLASFAVYW 104 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ I I +++ R K+ + + N + E ++IAK L Sbjct: 105 IRAEIHEFIFKNWKIVKVATTKAQRKLFFKLKQAKAHIYNSLNEEQA-DKIAKDL----- 158 Query: 562 GVRK--VL----KITKEPISLETPIGDEDTSHLGD-FIEDKNAVSPLDSAIQANLRETT- 613 GVR+ VL ++ ++ E + DE+ SH + ++ ++N +P + + ++T Sbjct: 159 GVRRKDVLEMESRLQFSDVTFE--VFDEEDSHAPEQYLTNENIQTPEQLLLTDDSKKTQQ 216 Query: 614 ---TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L+SL R +L+ R+ T TL + ++ +++ER+RQ+E KA++KLK Sbjct: 217 QRLYKALSSLDERSLDILQSRYLKEEKT--TLYTLADKYSISKERVRQLETKAMQKLK 272 >gi|239941779|ref|ZP_04693716.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|239988239|ref|ZP_04708903.1| putative RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379] gi|291445225|ref|ZP_06584615.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] gi|291348172|gb|EFE75076.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 15998] Length = 329 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 60/240 (25%), Positives = 119/240 (49%), Gaps = 16/240 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ G Sbjct: 94 LEEGTHEYSYVRNTLVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFELSRG 153 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + +S ++ R PT E++ Sbjct: 154 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELSQQLDRAPTVAELS 213 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-N 608 ++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 214 ERLGITPDEVVEGMSASNAYTASSLDAK-PEEDDSEGALADRIGYE------DHGLEGIE 266 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++A+L R+ +L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 267 YVESLKPLIAALPARDRMILSLRFVSNM----TQSEIGEELNISQMHVSRLLSRTLTKLR 322 >gi|297196939|ref|ZP_06914336.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] gi|197715922|gb|EDY59956.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] Length = 281 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 60/253 (23%), Positives = 134/253 (52%), Gaps = 34/253 (13%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 ++++ +G E S A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA ++F+ Sbjct: 41 LAVLEEGTPEYSYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAIDRFE 100 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D + + +P +++ ++ R + +++ R PT Sbjct: 101 LTREVEFTSFAIPYIVGEIKRFFRDTTWAVHVPRRLQEARVQLARATEELRSRLGRTPTV 160 Query: 550 EEIAKKLAMPVEGVR--KVLKITKEPISLETPI-GDEDT-SHLGDFI----------EDK 595 +E+++ +++ E VR ++ + SL+ I G ED S L DFI ED Sbjct: 161 KELSELMSLSEEEVREARLASNSYNSSSLDAAISGSEDGESALADFIGAEDRALELVEDF 220 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +A++PL +A+L R+ +++ MRF + T ++G++ V++ Sbjct: 221 HALAPL---------------IAALDDRDRQIIHMRF----VEELTQAQIGERLGVSQMH 261 Query: 656 IRQIEAKAIRKLK 668 + ++ ++ + +L+ Sbjct: 262 VSRLLSRTLARLR 274 >gi|326203397|ref|ZP_08193262.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium papyrosolvens DSM 2782] gi|325986655|gb|EGD47486.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium papyrosolvens DSM 2782] Length = 249 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 111/227 (48%), Gaps = 13/227 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V L L ++KK+ NRG+ F D+ Q + L+KA E+F G KF ++A + Sbjct: 29 RNEIVSNYLSLAEYLSKKFLNRGVDFDDIYQVACLALIKAVERFSPEKGVKFISFATPTI 88 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+S TI+IP + + V + ++ K+ R P +EIA+ + + V+ V Sbjct: 89 LGEIKRFFRDKSTTIKIPRRIYESRQGVNKARDELTQKLSRVPRADEIAEYMGISVDTVL 148 Query: 565 KVLKITKEPI--SLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++L+ I SL+ I E+ S LGD + D+ +D+ ++ + L S Sbjct: 149 EILEAGSSSIVKSLDQSINQENDSELGDTLGYDEKTYEMIDN------KDFLEKALTSFN 202 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++ R+ M E +G V++ I ++E K + K + Sbjct: 203 DIEKEFIKYRYIQNMTQKQIAEILG----VSQMYISRMEKKILDKFR 245 >gi|326566649|gb|EGE16790.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 12P80B1] Length = 48 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 38/47 (80%), Positives = 43/47 (91%) Query: 636 MNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 M +DHTLEEVGKQF VTRERIRQIEAKA+RKL+HPSRS+ LRSFL+ Sbjct: 1 MPSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLEN 47 >gi|85710830|ref|ZP_01041891.1| RNA polymerase sigma factor [Idiomarina baltica OS145] gi|85695234|gb|EAQ33171.1| RNA polymerase sigma factor [Idiomarina baltica OS145] Length = 286 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 63/238 (26%), Positives = 123/238 (51%), Gaps = 19/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A KE++ ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 51 AAKELIMSHLRFVVHIARGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + +++ + K+ R+M ++ + E +AK+L + + Sbjct: 111 IKAEIHEYVLRNWRVVKVATTKAQR--KLFFNLRKMKKRLGWFNQDEVETVAKELGVSSK 168 Query: 562 GVRKV-LKITKEPISLETPIGDED-----TSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 V ++ +++ + E D+D T ++EDK S L I+ E T+ Sbjct: 169 EVMEMEARMSAHDQAFELSSDDDDSKEGSTYSPAMYLEDKR--SDLAEEIETEDYEAHTQ 226 Query: 616 -----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ L R + +++ R+ + TL ++ ++ V+ ER+RQ+E A++KL+ Sbjct: 227 KKLFSAMSELDERSQDIVQSRW--LSESKVTLHDLAAKYEVSAERVRQLEQNAMKKLR 282 >gi|133286|sp|P11539|RP32_CITFR RecName: Full=RNA polymerase sigma-32 factor; AltName: Full=Heat shock regulatory protein gi|40469|emb|CAA33083.1| unnamed protein product [Citrobacter freundii] Length = 284 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 72/284 (25%), Positives = 141/284 (49%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LESYIRAANAWPMLSADEERALAEKLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL+ DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLRQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLG--WFNQDEVEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + +P++ + D+ +S+ D IE+ N D A AN T + L R Sbjct: 186 SDDESDSQPMAPVLYLQDK-SSNFADGIEEDNWE---DQA--AN---KLTHAMEGLDERS 236 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 237 QDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|70733139|ref|YP_262912.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens Pf-5] gi|68347438|gb|AAY95044.1| transcription initiation factor sigma 32 [Pseudomonas fluorescens Pf-5] Length = 284 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 65/237 (27%), Positives = 121/237 (51%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQ---ANLRETTT- 614 VR++ ++T + ++ + +D S +++ED D A+Q A+ + +T Sbjct: 169 VREMESRLTGQDMAFDPAAEADDDSAFQSPANYLEDHR----YDPALQLEDADWSDNSTS 224 Query: 615 ---RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 225 NLHEALEVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|283780334|ref|YP_003371089.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] gi|283438787|gb|ADB17229.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] Length = 556 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 40/107 (37%), Positives = 64/107 (59%), Gaps = 8/107 (7%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 +R+++ S T + + E H+ EA K +V+ANLRLV+S+AK++ N Sbjct: 350 LRDKLDPASARTSV-MDEIEHLYE-------EAVAVKNSIVQANLRLVVSIAKRHVNGSE 401 Query: 469 QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 F L+ +GN+ L++AAEKFD+ G KFSTYA W + + R+I ++ Sbjct: 402 DFFGLVSDGNMSLIRAAEKFDFSRGNKFSTYASWAIMKNFARTIPEE 448 Score = 47.8 bits (112), Expect = 0.006, Method: Compositional matrix adjust. Identities = 24/55 (43%), Positives = 40/55 (72%), Gaps = 1/55 (1%) Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L L RE++++ RFG+ + + TL+EVG + VT+ER+RQIEA+A+ KL+ Sbjct: 489 KILEKLDEREQKIIISRFGLDHSHEPLTLKEVGHELGVTKERVRQIEARALNKLR 543 >gi|320010407|gb|ADW05257.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 326 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 61/241 (25%), Positives = 118/241 (48%), Gaps = 16/241 (6%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E + + +VE NL LV A ++ R D++Q G IGL+KA ++F+ G Sbjct: 89 LEEGTHEYAYVRNTLVELNLALVKFAASRFRTRSEPMEDIVQVGTIGLIKAIDRFELSRG 148 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + +S ++ R PT E+A Sbjct: 149 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELSQQLDRAPTVAELA 208 Query: 554 KKLAMP----VEGVRKVLKITKEPISLET-PIGDEDTSHLGDFI-EDKNAVSPLDSAIQA 607 +L + VEG+ T + + GD + L D + + N + ++ Sbjct: 209 DRLGLSRDEVVEGMAASNAYTASSLDAKPDDHGDGNEGALADRLGYEDNGLEGIEYI--- 265 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 E+ ++ASL R+ +L MRF M T E+G++ +++ + ++ ++ + KL Sbjct: 266 ---ESLKPLIASLPLRDRTILSMRFVSNM----TQSEIGEELGISQMHVSRLLSRTLVKL 318 Query: 668 K 668 + Sbjct: 319 R 319 >gi|91794849|ref|YP_564500.1| RNA polymerase factor sigma-32 [Shewanella denitrificans OS217] gi|91716851|gb|ABE56777.1| RNA polymerase sigma factor RpoH [Shewanella denitrificans OS217] Length = 284 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 121/234 (51%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYAGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + ++ +R+ E T +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQRKLFFNIRKSKKRLGWFSDAEVTM--VAENLGVSKA 169 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKN---AVSPLDSAIQANLRETTTR 615 V ++ ++ + + + ++D + ++ED + A ++ ++N + Sbjct: 170 DVTEMESRMAAQDPAFDIASDNDDETDFSPVHYLEDHSSDVAQQVENANWESNSQSRLFS 229 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L R + +L+ R+ ++ D TL+E+ + + V+ ERIRQ+E A+ KLK Sbjct: 230 AIKTLDERSQHILQARW---LDDDKTTLQELAETYQVSAERIRQLEKNAMNKLK 280 >gi|290475011|ref|YP_003467895.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus bovienii SS-2004] gi|289174328|emb|CBJ81122.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus bovienii SS-2004] Length = 240 Score = 80.5 bits (197), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 56/203 (27%), Positives = 104/203 (51%), Gaps = 18/203 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---- 587 V +T R++ ++ R + +E+AK+L + + R++L T + + D H Sbjct: 100 VTQTIRKLEQELGRPASEQEVAKELKINLIEYRQILLDTN-----NSQLFSYDEWHEIHG 154 Query: 588 --LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 IED++ +PL ++ +LR+ V+ SL RE+ VL + + +N L+E+ Sbjct: 155 ESCEPVIEDEHETNPLQQLLEGDLRQRVIDVIESLPEREKMVLTLYYQEELN----LKEI 210 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G V R+ Q+ ++AI++L+ Sbjct: 211 GAVLNVGESRVSQLHSQAIKRLR 233 >gi|260461453|ref|ZP_05809700.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] gi|259032523|gb|EEW33787.1| RNA polymerase, sigma 32 subunit, RpoH [Mesorhizobium opportunistum WSM2075] Length = 287 Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 118/231 (51%), Gaps = 18/231 (7%) Query: 451 ANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITR 510 A++RLVIS+A K+ + GL DLIQEG++GL++AA +F+ +FSTYA WW++ ++ Sbjct: 47 AHMRLVISMASKFRHYGLPLGDLIQEGHVGLLEAAARFEPERDVRFSTYATWWIRASMQD 106 Query: 511 SIADQSCTIRIPVHMRDK--IHKVVRTARRMSN---KIKREPTPEEIAKKLAMPVEGVRK 565 I +R K + R R++N + E E++ L + V Sbjct: 107 YILRNWSIVRGGTSSAQKALFFNLRRLRARLANGAEPLSNETLYREVSVALGVSEADVAM 166 Query: 566 V-LKITKEPISLETPIGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL------ 617 + +++ SL P+ D+ + DF+ + PL + ++ + R + Sbjct: 167 MDSRLSAPDSSLNVPLADDAGATERMDFLVSDD---PLPDEVVSDRIDVARRSVWLKAAL 223 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+L RE R++ R + TLE +G+ +++ER+RQIEA+A+ KLK Sbjct: 224 AALNARELRIIEERR--LSDEGATLEALGETLGISKERVRQIEARAMEKLK 272 >gi|118602568|ref|YP_903783.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|118567507|gb|ABL02312.1| RNA polymerase, sigma 32 subunit, RpoH [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 280 Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 124/241 (51%), Gaps = 29/241 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V +++R V +A Y GL+ DL+QEG IGLMKA ++F+ + +++A++W Sbjct: 45 AARKLVLSHMRFVAFIAHGYKGYGLEQADLVQEGTIGLMKAVKRFNPNRNVRLASFAVYW 104 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP------EEIAKKLA 557 ++ I I +++ + R++ K+K+ EE A K+A Sbjct: 105 IRAEIHEFIFKNWKIVKVA---------TTKAQRKLFFKLKQAKAHIYSSLNEEQADKIA 155 Query: 558 MPVEGVRK--VL----KITKEPISLETPIGDEDTSHLGDFIEDKNAVSP----LDSAIQA 607 + GVR+ VL ++ ++ E DED+ ++ ++N +P L + + Sbjct: 156 NDL-GVRRKDVLEMESRLQFNDVTFEVS-DDEDSLAPEQYLTNENVQTPEQLLLINDSKQ 213 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 N ++ + L+SL R +L+ R+ T TL + ++ +++ER+RQ+E KA++KL Sbjct: 214 NQQQQLYKALSSLDERSLDILQSRYLKEEKT--TLHTLADKYGISKERVRQLETKAMQKL 271 Query: 668 K 668 K Sbjct: 272 K 272 >gi|319795672|ref|YP_004157312.1| RNA polymerase, sigma 32 subunit, rpoh [Variovorax paradoxus EPS] gi|315598135|gb|ADU39201.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus EPS] Length = 313 Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/250 (26%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGALILSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP------------TPEE 551 +K I I +++ + K+ R M K + +P+E Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADSAASDNGTHRETLSPDE 177 Query: 552 I---AKKLAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + A +L + P E + +++ + L+ D+ G +A + +++ Sbjct: 178 VSQMATRLNVKPEEVLEMETRLSGGDVLLDPGPSDDGDEAFGPIAYLADATQEPTALLES 237 Query: 608 NLRETTTR-----VLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQ 658 R+ + L +L R R++ R+ + +N D TL ++ + V+ ERIRQ Sbjct: 238 QQRDRLSSDGIATALEALDARSRRIVEERW-LKVNDDGSGGMTLHDLAAVYGVSAERIRQ 296 Query: 659 IEAKAIRKLK 668 IE A++K+K Sbjct: 297 IEVAAMKKMK 306 >gi|302385749|ref|YP_003821571.1| sigma-70 region 3 domain protein [Clostridium saccharolyticum WM1] gi|302196377|gb|ADL03948.1| sigma-70 region 3 domain protein [Clostridium saccharolyticum WM1] Length = 203 Score = 80.5 bits (197), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 39/141 (27%), Positives = 80/141 (56%), Gaps = 2/141 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK--FSTYAM 501 AKK +VE NLR + A++Y RG+ DL+QE N+ LM A E+F + F ++ Sbjct: 38 AKKRLVEGNLRTALEYAREYDGRGVLITDLVQEANMALMMAVEEFSAMENGRLAFDSFTG 97 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +++A+T ++ +Q + + +++ + + ++ ++ ++ RE T EE+A K+ M VE Sbjct: 98 RKIREALTAAVEEQQSACQTGEELAARVNVLQKVSQALAGELGREATVEELADKMKMSVE 157 Query: 562 GVRKVLKITKEPISLETPIGD 582 ++ ++K+ + +S+ D Sbjct: 158 EIKGIMKMAMDAMSMNAETMD 178 >gi|332308280|ref|YP_004436131.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola agarilytica 4H-3-7+YE-5] gi|332175609|gb|AEE24863.1| RNA polymerase, sigma 32 subunit, RpoH [Glaciecola agarilytica 4H-3-7+YE-5] Length = 283 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/234 (24%), Positives = 120/234 (51%), Gaps = 12/234 (5%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 +A ++++ ++LR V+ +AK Y+ GL DLIQEGNIGLMKA +FD +G + ++A+ Sbjct: 50 LAARKLIMSHLRFVVHIAKSYSGYGLPQADLIQEGNIGLMKAVRRFDPTVGVRLVSFAVH 109 Query: 503 WVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W+K I + +++ R + + +R+ E +++A L + Sbjct: 110 WIKAEIHEFVLRNWRIVKVATTKAQRKLFFNLRKNKKRLGWFTHAE--VQKVASDLGVSE 167 Query: 561 EGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNA---VSPLDSAIQANLRETTT 614 + V ++ +++ + + D+++ F+EDK+ +++ A + Sbjct: 168 KEVLQMEARMSSHDQAFDLSADDDESGSFAPVQFLEDKSPDVETEVVNADWDATASQKLY 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L R + +++ R+ T TL+++ ++ V+ ER+RQIE A++KL+ Sbjct: 228 SAIKTLDERSQHIIQTRWLSDDKT--TLQDLADKYQVSAERVRQIEKNAMKKLQ 279 >gi|182438259|ref|YP_001825978.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326778910|ref|ZP_08238175.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178466775|dbj|BAG21295.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326659243|gb|EGE44089.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 323 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/250 (25%), Positives = 119/250 (47%), Gaps = 36/250 (14%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 + +G E S + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ G Sbjct: 88 LEEGTHEYSYVRNTLVELNLALVKFAAARFRSRSEPMEDIVQVGTIGLIKAIDRFELSRG 147 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM + I R D S ++R+P +++ + + +S ++ R PT E++ Sbjct: 148 VEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELSQQLDRAPTVAELS 207 Query: 554 KKLAMP----VEGVRKVLKITKEPI-----------SLETPIGDEDTSHLGDFIEDKNAV 598 ++L + VEG+ T + +L IG ED S G IE ++ Sbjct: 208 ERLGISPEEVVEGMSASNAYTASSLDAKPEEDDGEGALADRIGYEDHSLEG--IEYVESL 265 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 PL +A+L R+ +L +RF M T E+G++ +++ + + Sbjct: 266 KPL---------------IAALPARDRMILSLRFVSNM----TQSEIGEELNISQMHVSR 306 Query: 659 IEAKAIRKLK 668 + ++ + KL+ Sbjct: 307 LLSRTLTKLR 316 >gi|53802588|ref|YP_112675.1| RNA polymerase factor sigma-32 [Methylococcus capsulatus str. Bath] gi|53756349|gb|AAU90640.1| RNA polymerase sigma-32 factor [Methylococcus capsulatus str. Bath] Length = 286 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 117/238 (49%), Gaps = 18/238 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ANLR V +A+ Y GL DLIQEGNIGLMKA +++D +G + ++A+ W Sbjct: 49 AARRLVLANLRFVAYIARGYLGYGLPLADLIQEGNIGLMKAVKRYDPDVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP---EEIAKKLAMPV 560 ++ I I ++I + K+ R+M N++ TP +A +L + V Sbjct: 109 IRAEIHEFIIQNWRIVKIATTKAQR--KLFFNLRKMKNRLG-WLTPEEAAAVAAELGVDV 165 Query: 561 EGVRKVLKITKEP-ISLETPI---GDEDTSHLGDFIEDKNAVSPL----DSAIQANLRET 612 E V K+ P ++LE GD+ SH + P S + +E Sbjct: 166 EDVYKMENRLNNPDMALEAHGEDDGDDRESHAPIHYLQQEGGDPALLIEHSEWENRQQEK 225 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + L R ++ R+ ++ D TL ++ ++ V+ ERIRQ+E+ A++KL++ Sbjct: 226 LQEAIGQLDERSRDIVASRW---LSEDKLTLHDLAARYNVSAERIRQLESSAMKKLRN 280 >gi|239817346|ref|YP_002946256.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus S110] gi|239803923|gb|ACS20990.1| RNA polymerase, sigma 32 subunit, RpoH [Variovorax paradoxus S110] Length = 313 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/250 (26%), Positives = 119/250 (47%), Gaps = 28/250 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD G + +YAM W Sbjct: 60 AAGALILSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQGVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP------------TPEE 551 +K I I +++ + K+ R M K + +P+E Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGFKADSAAADNGTHRDTLSPDE 177 Query: 552 I---AKKLAM-PVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + A +L + P E + +++ + L+ D+ G +A + +++ Sbjct: 178 VSQMATRLNVKPEEVLEMETRLSGGDVLLDPGPSDDGDEAFGPIAYLADATQEPTALLES 237 Query: 608 NLRETTTR-----VLASLTPREERVLRMRFGIGMNTDH----TLEEVGKQFCVTRERIRQ 658 R+ + L +L R R++ R+ + +N D TL ++ + V+ ERIRQ Sbjct: 238 QQRDRLSSDGIATALEALDDRSRRIVEERW-LKVNDDGSGGMTLHDLAAVYGVSAERIRQ 296 Query: 659 IEAKAIRKLK 668 IE A++K+K Sbjct: 297 IEVAAMKKMK 306 >gi|153955768|ref|YP_001396533.1| sporulation sigma factor SigF [Clostridium kluyveri DSM 555] gi|146348626|gb|EDK35162.1| RNA polymerase sigma-F factor [Clostridium kluyveri DSM 555] Length = 251 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 64/239 (26%), Positives = 120/239 (50%), Gaps = 11/239 (4%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ R+G+ EA ++VE NL LV +++KK+ NRG ++ D+ Q G +GLMKA FD Sbjct: 19 LIKCAREGDKEAL---NKLVELNLPLVSAISKKFLNRGYEYEDIFQIGCMGLMKAVNNFD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ K+ ++ K+ REPT Sbjct: 76 ETYNVKFSTYAVPMILGEIKRFLRDDGM-IKVSRSIKNTAKKLHYDREALTKKLNREPTI 134 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 EE+A+ + E + + T L I +D S + + DK + +P + ++ Sbjct: 135 EELAEYSGVKTEELLFATESTNSLQYLYDTIHQDDGSPV--LLIDKISENPKED-VEVID 191 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L +L + +++ +R+ D T +V K + + ++ +IE K ++ ++ Sbjct: 192 RIALKEALRNLDVKSRQIIMLRYF----KDKTQVQVAKMLGINQVQVSRIEKKVLKTMR 246 >gi|284050443|ref|ZP_06380653.1| RNA polymerase sigma factor SigF [Arthrospira platensis str. Paraca] gi|291567732|dbj|BAI90004.1| group 3 RNA polymerase sigma factor SigF [Arthrospira platensis NIES-39] Length = 261 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/255 (25%), Positives = 124/255 (48%), Gaps = 20/255 (7%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 + N++KS S+E + E++H ++ + ++V+ N+ LV + N+ Sbjct: 5 VSNQLKSESLEL---LREYQH---------SPSNSIRNQLVQINIGLVRKEVHHWLNQCT 52 Query: 469 Q-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 + + DL+Q G IGL++A E+FD G+ FS++A+ +++ I + D+S ++R+P Sbjct: 53 ESYDDLLQVGCIGLIRAIERFDMSKGHAFSSFAIPYIRGEIQHYLRDKSPSVRVPRQWLT 112 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE--GVRKVLKITKEPISLETPIGDED- 584 + K + + K+ R+PT EIA L + VE K+ + +SL+ PI DE+ Sbjct: 113 LLRKATPCIQELQVKLGRKPTDVEIASALEISVEEWNQVKLASQNRSLLSLDAPIQDEEE 172 Query: 585 -TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 ++ LGD + D S A + +R + L L +VL F + T E Sbjct: 173 GSTSLGDLVPDTRYRS-FQLAQEDQIR--LQQALGHLEDGTRKVLEFVFLYDLTQKETAE 229 Query: 644 EVGKQFCVTRERIRQ 658 ++G R+++ Sbjct: 230 KLGISAVTVSRRVKR 244 >gi|197103189|ref|YP_002128567.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] gi|196480465|gb|ACG79992.1| RNA polymerase sigma 32 subunit(heat shock sigma factor) [Phenylobacterium zucineum HLK1] Length = 310 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/240 (27%), Positives = 116/240 (48%), Gaps = 22/240 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ ++LRL +A Y GL D+I E N+GL+ A KFD + STYA WW Sbjct: 52 AAHRLMTSHLRLAAKIACGYRGYGLPLEDMISEANVGLLHAIYKFDLERDCRLSTYAAWW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ A+ I +++ K ++ RR +++ P+ ++A+ Sbjct: 112 IRAALQDYILRHWSIVKLGTSATQK--RLFFGFRRARARVEACPSELLAGDSIAKMAELF 169 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 +P + + ++ +SL GDE + + D+NA P + +A+ R+ TR Sbjct: 170 HVPPGDITGMEARLGWRDLSLSALHGDEGEPDRLERLADENAQDPETALSEADERDYRTR 229 Query: 616 VLA-SLTP---REERVL---RMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +L+P RE R+ R+R + L E+ +++ V+ ERIRQIE +A K++ Sbjct: 230 LLTQALSPLGSREHRIFVARRLR-----DPPAPLAELAQEYGVSCERIRQIEMRAFEKVQ 284 >gi|300721688|ref|YP_003710964.1| sigma H (sigma 32) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297628181|emb|CBJ88736.1| sigma H (sigma 32) factor of RNA polymerase; transcription of heat shock and stress proteins [Xenorhabdus nematophila ATCC 19061] Length = 285 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 59/234 (25%), Positives = 123/234 (52%), Gaps = 11/234 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVVHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + +++ + K+ +R A++ ++ E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKAKQRLGWFNQDEI-ELVAKELGVTSKD 167 Query: 563 VRKV-LKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRET-----TT 614 VR++ +++ + ++ + D+ D+ + + ++ S I+ + E + Sbjct: 168 VREMESRMSAQDMAFDMSADDDNHDSQPVAPVLYLQDKASDFADGIEEDNWENHAADKLS 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L R + ++R R+ + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 228 VAMEGLDERSQDIIRARW-LDDENKTTLQELADKYGVSAERVRQLEKNAMKKLR 280 >gi|226359630|ref|YP_002777408.1| RNA polymerase sigma factor [Rhodococcus opacus B4] gi|226238115|dbj|BAH48463.1| RNA polymerase sigma factor [Rhodococcus opacus B4] Length = 265 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 121/233 (51%), Gaps = 14/233 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EAS + E++ L L +A+++ RG DL+Q +GL+KA ++FD G+ F +Y Sbjct: 37 EASALRDEIITRCLPLADHIARRFGGRGEAHEDLLQVARLGLVKAVDRFDPDRGFDFVSY 96 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+ + + R D ++R+P M++ + + +S ++ R P+ EIA +L + Sbjct: 97 AVPTIMGEVRRYFRDTGWSMRVPRRMQELHALIAKAVDELSQELGRSPSASEIAAELELD 156 Query: 560 VEGVRKVL--KITKEPISLETPIGDE-DTSHLGDFI-EDKNAVSPLDSAIQANLRETTTR 615 V V + L K + +S++ +GD+ D L + + E+ ++ ++S A++R Sbjct: 157 VREVSEGLLAKNAYQTLSMDAAMGDDPDDLPLAETLGEEDPELANVES--HASVRPA--- 211 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L P E RVL +RF M T E+ ++ V++ ++ +I A+ + L+ Sbjct: 212 -LEKLPPLERRVLMLRFFGSM----TQTEIAQRVGVSQMQVSRILARTLSGLR 259 >gi|209524790|ref|ZP_03273336.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Arthrospira maxima CS-328] gi|209494669|gb|EDZ94978.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Arthrospira maxima CS-328] Length = 255 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 66/255 (25%), Positives = 124/255 (48%), Gaps = 20/255 (7%) Query: 409 IRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL 468 + N++KS S+E + E++H ++ + ++V+ N+ LV + N+ Sbjct: 5 VSNQLKSESLEL---LREYQH---------SPSNSVRNQLVQINIGLVRKEVHHWLNQCT 52 Query: 469 Q-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 + + DL+Q G IGL++A E+FD G+ FS++A+ +++ I + D+S ++R+P Sbjct: 53 ESYDDLLQVGCIGLIRAIERFDMSKGHAFSSFAIPYIRGEIQHYLRDKSPSVRVPRQWLT 112 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE--GVRKVLKITKEPISLETPIGDED- 584 + K + + K+ R+PT EIA L + VE K+ + +SL+ PI DE+ Sbjct: 113 LLRKATPCIQDLQVKLGRKPTDAEIASALEISVEEWNQVKLASQNRSLLSLDAPIQDEEE 172 Query: 585 -TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 ++ LGD + D S A + +R + L L +VL F + T E Sbjct: 173 GSTSLGDLVPDTRYRS-FQLAQEDQIR--LQQALGHLEDGTRKVLEFVFLYDLTQKETAE 229 Query: 644 EVGKQFCVTRERIRQ 658 ++G R+++ Sbjct: 230 KLGISAVTVSRRVKR 244 >gi|84872788|gb|ABC67485.1| RpoH2 [Sinorhizobium sp. BL3] Length = 286 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 126/246 (51%), Gaps = 17/246 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ +++RLV+++A K+ + GL DL+QEG+IGL++AA +F+ +FSTYA WW Sbjct: 40 ARNKIAMSHMRLVVAMAAKFRSFGLPMGDLVQEGHIGLLEAAARFEPSREVRFSTYATWW 99 Query: 504 VKQAITRSIADQSCTIRIPVHMRDK--IHKVVRTARRMSN---KIKREPTPEEIAKKLAM 558 ++ ++ + +R K + R R++ ++ + EEIA L + Sbjct: 100 IRASMQDYVLRNWSIVRGGTSSAQKALFFNLRRLRARLAQGDRQLTSQAMHEEIAAALGV 159 Query: 559 PVEGVRKV-LKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + V+ + +++ SL+ P+ GD ++ DF+ +A P + + E R Sbjct: 160 SLADVQTMDARLSGNDASLQAPVGHGDAESGARLDFLPS-DAPLPDEQVSEMIDGERARR 218 Query: 616 VLAS----LTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 L S L+ RE +++R R ++ D TLEE+G +++ER+R ++ ++ Sbjct: 219 WLHSALRELSEREMKIIRARR---LSEDGATLEELGVALGISKERVRSKRGRSKSCVRRS 275 Query: 671 SRSKKL 676 R+ L Sbjct: 276 PRAPAL 281 >gi|262369666|ref|ZP_06062994.1| RNA polymerase factor sigma-32 [Acinetobacter johnsonii SH046] gi|262315734|gb|EEY96773.1| RNA polymerase factor sigma-32 [Acinetobacter johnsonii SH046] Length = 289 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/246 (28%), Positives = 122/246 (49%), Gaps = 36/246 (14%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKLLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRT------------ARRMSNKIKREPTPE 550 +K I + ++I + K+ +R+ A+ ++N + TPE Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLKEAQSIANDLN--VTPE 170 Query: 551 EIAKKLAMPVEGVRKVLKITKEPISLETPIGDED--TSHLGD--FIEDKNAVSPLDSAIQ 606 ++ + +EG ++T + E D+D ++H+ ++ED N P A + Sbjct: 171 QV-----LEMEG-----RLTAYDAAFEAQGDDDDEGSTHVAPALYLED-NRYDPARLAEE 219 Query: 607 ANLRETTTRVLA----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + E +T L L R +L+ R+ + TL E+ ++ V+ ERIRQ+E Sbjct: 220 EDYEEQSTNALHDAMEQLDDRSRNILQRRWLD--DEKSTLHELAAEYNVSAERIRQLEKN 277 Query: 663 AIRKLK 668 A+ K+K Sbjct: 278 AMEKIK 283 >gi|113867637|ref|YP_726126.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] gi|113526413|emb|CAJ92758.1| DNA-directed RNA polymerase sigma subunit (RpoD) [Ralstonia eutropha H16] Length = 656 Score = 80.1 bits (196), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/145 (34%), Positives = 79/145 (54%), Gaps = 14/145 (9%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L RQRGY+T +++ LP + + ME V+ + MG+ + D + L + Sbjct: 46 RALIQLGRQRGYLTHADISDHLPENFTDTAAMESIVSTFAEMGVKIYEQTPDAETLLLSD 105 Query: 88 G----SEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIA 143 G S+D D + + ++V DS T DPVRMY+REM S LL+R+ E+ IA Sbjct: 106 GPVVASDDQADEEAEVALATV------DSEFGRTTDPVRMYMREMSSATLLTRKQEVEIA 159 Query: 144 KRIEAGRAMMMASLCESPLTFQALI 168 KRIE G M+ ++ P T A++ Sbjct: 160 KRIEEGLNNMVHAISACPFTIAAIL 184 >gi|329295846|ref|ZP_08253182.1| RNA polymerase factor sigma-32 [Plautia stali symbiont] Length = 285 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/284 (23%), Positives = 139/284 (48%), Gaps = 37/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N ++ E +++E H +G+ +A+ K ++ ++LR V+ +A+ Sbjct: 16 LESYVRAANNWPVLTAEEEKALAERLHY-----QGDLDAA---KTLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + ++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKAA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +A++L + + V ++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVLEMESRMAAQDMTFDMS 185 Query: 580 IGD---------------EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 D + TS D IE+ N A+ + + + SL R Sbjct: 186 SDDDAGEGKPMAPVLYLQDKTSDFADGIEEDN--------WDAHAADKLSDAMLSLDERS 237 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ Q+ V+ ER+RQ+E A++KL+ Sbjct: 238 QHIIRARW-LDDDNKTTLQELADQYGVSAERVRQLEKNAMKKLR 280 >gi|295836278|ref|ZP_06823211.1| RNA polymerase sigma-27 factor [Streptomyces sp. SPB74] gi|197697357|gb|EDY44290.1| RNA polymerase sigma-27 factor [Streptomyces sp. SPB74] Length = 279 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/214 (30%), Positives = 104/214 (48%), Gaps = 18/214 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 76 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 132 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLE--TPIGDEDTSH 587 V R + K++R P+ E+A+++ + VE + V ++LE +G E Sbjct: 133 VERAYATLEAKLRRTPSEAEVAREMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGR 192 Query: 588 LG--DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 L D +ED +A +P++ A LR +R + SL RE+ V+ + + G+ TL E+ Sbjct: 193 LSIMDTLEDTDADNPVEVAEGRELRRLLSRAINSLPEREKTVVMLYYYEGL----TLAEI 248 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 G VT R+ QI K++ +L+ KL SF Sbjct: 249 GHVLGVTESRVSQIHTKSVLQLR-----AKLSSF 277 >gi|165922507|ref|ZP_02219678.1| alternative sigma factor RpoH [Coxiella burnetii RSA 334] gi|212211687|ref|YP_002302623.1| RNA polymerase factor sigma-32 [Coxiella burnetii CbuG_Q212] gi|165916712|gb|EDR35316.1| alternative sigma factor RpoH [Coxiella burnetii RSA 334] gi|212010097|gb|ACJ17478.1| RNA polymerase sigma-32 factor [Coxiella burnetii CbuG_Q212] Length = 288 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 117/236 (49%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AARKLVLSHLRFVVRIARGYSGYGLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 ++ I I ++I + K+ R+ + K E +A++L + + Sbjct: 111 IRAEIHEFILKNWRIVKIATTKAQR--KLFFNLRKHAKKRGWFSDHEAFALAEELNVSTK 168 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLG---DFIEDK--NAVSPLDSAIQANLRETT 613 VR++ L E D T G ++EDK N L+ + A+ +E Sbjct: 169 DVRQMEERLNSYDEAFDGADEESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHR 228 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + SL R +L R+ + TL E+ Q+ V+ ERIRQ+E A++K++ Sbjct: 229 LHNAMQSLDDRSRDILYQRWLSEKKS--TLHELAAQYAVSAERIRQLEKNAMQKIR 282 >gi|160933635|ref|ZP_02081023.1| hypothetical protein CLOLEP_02489 [Clostridium leptum DSM 753] gi|156867512|gb|EDO60884.1| hypothetical protein CLOLEP_02489 [Clostridium leptum DSM 753] Length = 217 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 58/229 (25%), Positives = 115/229 (50%), Gaps = 24/229 (10%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++ +E+N+ LV + AK++ RG+++ DL+Q G +GL+KA + FD G +FSTYA+ + Sbjct: 4 REQAIESNMGLVHACAKRFRGRGIEYDDLVQAGCLGLVKAVDHFDEGRGLQFSTYAVPVI 63 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D I++ +++ K R S + R+PT E+A++L + Sbjct: 64 LGEMRRLFRD-GGAIKVGRALKELSLKAARACNEFSLREGRQPTISELAEQLGVEPAEAS 122 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT-----TRVLAS 619 + L +++P+SL +++N +D +A + + +V+ Sbjct: 123 QALGASQQPLSLSA--------------DEENGGGQIDVPTEAPEEKISELIALKQVVGE 168 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PR+ ++ MRF T E +G +T+ ++ + E K +++LK Sbjct: 169 LDPRDRSLIVMRFFKSRTQTQTAEVLG----MTQVQVSRREKKILQELK 213 >gi|85058065|ref|YP_453767.1| RNA polymerase factor sigma-32 [Sodalis glossinidius str. 'morsitans'] gi|84778585|dbj|BAE73362.1| RNA polymerase sigma-32 factor RpoH [Sodalis glossinidius str. 'morsitans'] Length = 285 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 69/288 (23%), Positives = 142/288 (49%), Gaps = 45/288 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E +++E H +G+ EA+ K+++ ++LR V+ +A+ Sbjct: 16 LEAYVRAANAYPMLTAEEERALAERLHY-----QGDLEAA---KKLILSHLRFVVHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 R + +T +R+ + E E +AK+L + + VR++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVAKELGVTSKDVREMESRMAAQDMTFDPT 185 Query: 580 IGDE---------------DTSHLGDFIEDKN----AVSPLDSAIQANLRETTTRVLASL 620 DE +S D IE+ N A L +A++ L Sbjct: 186 PEDEAREGQPMAPMLYLQDKSSDFADGIEEDNWDDHAADKLSAALEG------------L 233 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++K++ Sbjct: 234 DERSQDIIRARW-LDDDNKSTLQELADRYGVSAERVRQLEKNAMKKMR 280 >gi|266620503|ref|ZP_06113438.1| RNA polymerase sigma-F factor [Clostridium hathewayi DSM 13479] gi|288867868|gb|EFD00167.1| RNA polymerase sigma-F factor [Clostridium hathewayi DSM 13479] Length = 237 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 70/258 (27%), Positives = 123/258 (47%), Gaps = 41/258 (15%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E ++ M +G+ EA + +V N+ L+ S+ +++T RG DL Q G+IGLMKA Sbjct: 3 ETMRLIEMAHEGDKEA---RDRLVTENMGLIWSIVRRFTGRGYDPEDLFQIGSIGLMKAI 59 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK- 544 +KFD KFSTYA+ + I R + D D + KV R+ + M ++K Sbjct: 60 DKFDMSFDVKFSTYAVPMITGEIKRFLRD------------DGMIKVSRSIKEMGTRVKC 107 Query: 545 ----------REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFI 592 REPT EEIA +L E V ++ E SL + DE++ L D I Sbjct: 108 VREALGFTLGREPTIEEIAGELGASKEEVAASIEAGAEVESLYRTVNKNDENSILLIDKI 167 Query: 593 EDKNAVSPLDSAIQANL--RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 E+ +S+ Q L R +L L+ ++ ++ R+ + T ++ Sbjct: 168 EE-------ESSAQEELLNRMVLRELLTGLSDKDREIIIRRY----YYNETQSQIASHLG 216 Query: 651 VTRERIRQIEAKAIRKLK 668 +++ ++ ++E K +++++ Sbjct: 217 ISQVQVSRLEKKILKQMR 234 >gi|78221650|ref|YP_383397.1| sigma 28 (flagella/sporulation) [Geobacter metallireducens GS-15] gi|78192905|gb|ABB30672.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Geobacter metallireducens GS-15] Length = 250 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 99/201 (49%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+ IGL+ AAE+FD G +F T+A ++ I + Q R +RDK K Sbjct: 50 DLMSAAVIGLITAAERFDPSRGVQFKTFAEQRIRGTIIDELRSQDWLTR---SLRDKFKK 106 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + R + +++ R PT EE+AK L + V+ +L+ +SL+ DED S G Sbjct: 107 LEREFVMLEHRLGRNPTSEEVAKSLEISVDDYHHMLEEIHLLSFVSLDESWEDEDGSPFG 166 Query: 590 --DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 D +EDK +P + + +T T + L +E V+ + +N L+E+G Sbjct: 167 LLDILEDKGVENPQSQLMARQMLDTLTEAIEGLPEKERLVITFYYYEELN----LKEIGA 222 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 ++ RI Q+ ++AI +L+ Sbjct: 223 VLDLSESRISQLHSQAIVRLR 243 >gi|153209360|ref|ZP_01947367.1| alternative sigma factor RpoH [Coxiella burnetii 'MSU Goat Q177'] gi|212217703|ref|YP_002304490.1| RNA polymerase factor sigma-32 [Coxiella burnetii CbuK_Q154] gi|120575393|gb|EAX32017.1| alternative sigma factor RpoH [Coxiella burnetii 'MSU Goat Q177'] gi|212011965|gb|ACJ19345.1| RNA polymerase sigma-32 factor [Coxiella burnetii CbuK_Q154] Length = 288 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/236 (28%), Positives = 117/236 (49%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AARKLVLSHLRFVVRIARGYSGYGLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 ++ I I ++I + K+ R+ + K E +A++L + + Sbjct: 111 IRAEIHEFILKNWRIVKIATTKAQR--KLFFNLRKHAKKRGWFSDHEAFALAEELNVSTK 168 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLG---DFIEDK--NAVSPLDSAIQANLRETT 613 VR++ L E D T G ++EDK N L+ + A+ +E Sbjct: 169 DVRQMEERLNSYDEAFDGADEESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHR 228 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + SL R +L R+ + TL E+ Q+ V+ ERIRQ+E A++K++ Sbjct: 229 LHNAMQSLDDRSRDILYQRWLSEKKS--TLHELAAQYAVSAERIRQLEKNAMQKIR 282 >gi|251795840|ref|YP_003010571.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus sp. JDR-2] gi|247543466|gb|ACT00485.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus sp. JDR-2] Length = 258 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/239 (27%), Positives = 125/239 (52%), Gaps = 15/239 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A+ A + E+ +R+ +S K NR + DL Q G + +++ +++D G F Y Sbjct: 27 DAATALLQHFESLVRMAVS--KISRNRPDLYEDLYQVGQMSMLRLFKQYDSDKGVPFEGY 84 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 AM V + + D+S I++P +M++K + + ++ K++R P +EIA L + Sbjct: 85 AMKSVIGQLKNYLRDKSWYIQVPRNMKEKGLLIQKAIDELTTKLERSPKMDEIAAYLGLS 144 Query: 560 VEGVRKVL--KITKEPISLETPIGDE-DTSHLGDFIED-KNAVSPLDSAIQANLRETTTR 615 VE +VL + + + +SL+TP+ E D++ +GD I D + S +D+ I + Sbjct: 145 VEETIEVLSSRESYQYVSLDTPLSSEGDSATIGDVISDHSDKYSHVDNQI------ALSD 198 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKHPSRS 673 +A L E +VL + + G + +++G Q V+R + R ++ +R+L HP +S Sbjct: 199 AMAQLKEEERKVLVLVYQHGQSQREIADQLGVSQMSVSRFQKRALD--KLRQLLHPPQS 255 >gi|238022360|ref|ZP_04602786.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147] gi|237866974|gb|EEP68016.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147] Length = 654 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 55/166 (33%), Positives = 87/166 (52%), Gaps = 8/166 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 +++I ++RGY+T E+N LP D +EQ+++ V M+ +GI V D D L + Sbjct: 32 RRLIIQGKERGYITYAEINDALPDDMSDAEQIDNIVNMIQGLGIQVTEEAPDADSLLMND 91 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 S D + A + Q DS T DPVRMY+REMG ++LL+RE EI IAK IE Sbjct: 92 NSTAITDEDAVAEAEAALSQA--DSEFGRTTDPVRMYMREMGQVDLLTREDEIKIAKEIE 149 Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGP 193 M+ ++ P + ++ +++ + E++ EA I P Sbjct: 150 NALKNMIQAISACPGSIGEILDLINQIKKDEIKVDEVV--EAIIDP 193 >gi|237728776|ref|ZP_04559257.1| RNA polymerase factor sigma-32 [Citrobacter sp. 30_2] gi|283835854|ref|ZP_06355595.1| alternative sigma factor RpoH [Citrobacter youngae ATCC 29220] gi|226909398|gb|EEH95316.1| RNA polymerase factor sigma-32 [Citrobacter sp. 30_2] gi|291068027|gb|EFE06136.1| alternative sigma factor RpoH [Citrobacter youngae ATCC 29220] Length = 284 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 73/284 (25%), Positives = 141/284 (49%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ N +S + +++E H +G+ EA+ K ++ ++LR V+ VA+ Sbjct: 16 LESYIRAANAWPMLSADEERALAEKLHY-----QGDLEAA---KTLILSHLRFVVHVARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-------------- 566 R + +T +R+ + E E +A++L + + VR++ Sbjct: 128 TTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVARELGVSSKDVREMESRMAAQDMTFDMS 185 Query: 567 --LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + +P++ + D+ +S+ D IE+ N D A AN T + L R Sbjct: 186 SDDESDSQPMAPVLYLQDK-SSNFADGIEEDNWE---DQA--AN---KLTHAMEGLDERS 236 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 237 QDIIRARW-LDEDNKSTLQELADRYGVSAERVRQLEKNAMKKLR 279 >gi|119485331|ref|ZP_01619659.1| sigma factor SigF [Lyngbya sp. PCC 8106] gi|119457087|gb|EAW38213.1| sigma factor SigF [Lyngbya sp. PCC 8106] Length = 259 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 119/234 (50%), Gaps = 9/234 (3%) Query: 431 VSMVRKGECEASI-AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKF 488 + ++R +C S + ++V+ N+ LV + N+ + + DL+Q G IGL++A E+F Sbjct: 14 LELLRDYQCSNSKELRNQLVQLNIGLVRKEVHHWVNQCTENYDDLLQVGCIGLIRAIERF 73 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G+ FS++A+ +++ I + D+S +R+P H + ++ A+ + K+KR+PT Sbjct: 74 DLSKGHAFSSFAIPYIRGEIQHYLRDKSLPLRVPRHWLTLQRQGMKLAQELQVKLKRQPT 133 Query: 549 PEEIAKKLAMP-VEGVR-KVLKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSA 604 EIA+ L + E + K+ + +SL+ P+ DE+ T+ LG+ + D N A Sbjct: 134 DTEIARGLNISETEWSQVKLAGYNRSLLSLDAPVQDENEGTTCLGELVPD-NRYRSFQLA 192 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 + +R + L+ L +VL F + T E +G R+++ Sbjct: 193 QEDQIR--LQQGLSKLEEGTRKVLEFVFLYDLTQKETAERLGISAVTVSRRVKK 244 >gi|261344963|ref|ZP_05972607.1| alternative sigma factor RpoH [Providencia rustigianii DSM 4541] gi|282567106|gb|EFB72641.1| alternative sigma factor RpoH [Providencia rustigianii DSM 4541] Length = 291 Score = 79.7 bits (195), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 68/286 (23%), Positives = 137/286 (47%), Gaps = 40/286 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N +S E ++E H G+ EA+ K+++ ++LR VI +A+ Sbjct: 16 IEAYIRAANTYPMLSAEEEKELAERLHY-----DGDLEAA---KQLILSHLRFVIHIARS 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-------------- 566 + K+ R+ ++ + + +A++L + + V ++ Sbjct: 128 TTKSQR--KLFFNLRKNKKRLGWFNQDEVDMVAQELGVSTKDVLEMESRMAAQDMAFDMS 185 Query: 567 ----LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 PI+ + D+ + G IED N +++ + + LASL Sbjct: 186 DDDDSGDFGGPIAPVLYLQDKSSDFAGS-IEDDN--------WESHATDRLSDALASLDE 236 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R + ++R R+ + ++ TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 237 RSQDIIRARW-LDDDSKTTLQELADKYGVSAERVRQLEKNAMKKLR 281 >gi|318075685|ref|ZP_07983017.1| RNA polymerase sigma factor WhiG [Streptomyces sp. SA3_actF] Length = 259 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 102/214 (47%), Gaps = 18/214 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 56 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 112 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLE--TPIGDEDTSH 587 V R + K+ R PT E+A ++ + VE + V ++LE +G E Sbjct: 113 VERAYATLEAKLHRTPTEVEVASEMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGR 172 Query: 588 LG--DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 L D +ED A +P++ A LR+ +R + SL RE+ V+ + + G+ TL E+ Sbjct: 173 LSIMDTLEDTGADNPVEVAEGRELRQLLSRAINSLPDREKTVVMLYYYEGL----TLAEI 228 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 G VT R+ QI K++ +L+ KL SF Sbjct: 229 GHVLGVTESRVSQIHTKSVLQLR-----AKLSSF 257 >gi|111017120|ref|YP_700092.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] gi|110816650|gb|ABG91934.1| sigma factor, sigma 70 type, group 3 [Rhodococcus jostii RHA1] Length = 265 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 120/233 (51%), Gaps = 14/233 (6%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EAS + E++ L L +A+++ RG DL+Q +GL+KA ++FD G+ F +Y Sbjct: 37 EASALRDEVITRCLPLADHIARRFGGRGEAHEDLLQVARLGLVKAVDRFDPDRGFDFVSY 96 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+ + + R D ++R+P M++ + + +S ++ R P+ EIA +L + Sbjct: 97 AVPTIMGEVRRYFRDTGWSMRVPRRMQELHALITKAVDELSQELGRSPSASEIAAQLELD 156 Query: 560 VEGVRKVL--KITKEPISLETPIGDE-DTSHLGDFI-EDKNAVSPLDSAIQANLRETTTR 615 V V + L K + +S++ +GD+ D L + + E+ ++ ++S A +R Sbjct: 157 VREVSEGLLAKNAYQTLSMDAAMGDDPDDLPLAETLGEEDPELANVES--HAAVRPA--- 211 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L P E RVL +RF M T E+ ++ V++ ++ +I A+ + L+ Sbjct: 212 -LQKLPPLERRVLMLRFFGSM----TQTEIAQRVGVSQMQVSRILARTLSGLR 259 >gi|226939286|ref|YP_002794357.1| RpoS [Laribacter hongkongensis HLHK9] gi|226714210|gb|ACO73348.1| RpoS [Laribacter hongkongensis HLHK9] Length = 170 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/161 (30%), Positives = 86/161 (53%) Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 +QS TIR+PVH+ +++ +R +R + ++I R+PT +EIA + P E VR+V+ + + Sbjct: 2 NQSRTIRLPVHVIKELNVYLRASRHLESQIGRDPTIDEIAHLVGKPPEEVRRVMSLNERM 61 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFG 633 SL+ P+ + +G+ I D+ P + L LT ++ V+ R+G Sbjct: 62 ASLDAPLDIDPMLTIGESIPDEQQEEPDIKLHGMQVNRYVQTWLKQLTDKQRLVIERRYG 121 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 + TLEE+ +TRER+RQI+ + + L+ R K Sbjct: 122 LNGYEICTLEELADSLSLTRERVRQIQIEGLESLRRILRRK 162 >gi|307546422|ref|YP_003898901.1| RNA polymerase factor sigma-32 [Halomonas elongata DSM 2581] gi|307218446|emb|CBV43716.1| RNA polymerase factor sigma-32 [Halomonas elongata DSM 2581] Length = 288 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/250 (28%), Positives = 131/250 (52%), Gaps = 32/250 (12%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ + +V ++LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++FD G + Sbjct: 45 EGDLEAA---RRLVMSHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFDPNQGVR 101 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRM-----SNKIKREPTP 549 ++A+ W+K I + +++ + K+ +R A++ SN++ Sbjct: 102 LVSFAVHWIKAEIHEFVLRNWRIVKVATTKAQRKLFFNLRGAKKRLAWLNSNEV------ 155 Query: 550 EEIAKKLAMPVEGVRKV-LKITKEPISLETPIGDEDTS------HLGDFIEDKNAVSPLD 602 E IAK L + E VR++ +++ + G+++ S H D A D Sbjct: 156 EAIAKDLDVKPEVVREMEGRLSAHDAGFDAAPGEDEESAYQAPVHYLDDASQDPATQLED 215 Query: 603 SAIQANLRETTTRVLASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQ 658 S + ++T R+ A+L+ +ER +L+ R+ ++ D TL ++ + V+ ERIRQ Sbjct: 216 SDWE---EDSTQRLQAALSELDERSRDILQRRW---LSDDKSTLHDLADVYGVSAERIRQ 269 Query: 659 IEAKAIRKLK 668 +E A++K++ Sbjct: 270 LEKNAMKKIR 279 >gi|254729575|ref|YP_003084257.1| RNAP sigma factor [Cyanophage PSS2] gi|254211727|gb|ACT65675.1| RNAP sigma factor [Cyanophage PSS2] gi|265524923|gb|ACY75815.1| predicted protein [Cyanophage PSS2] Length = 284 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/173 (34%), Positives = 90/173 (52%), Gaps = 16/173 (9%) Query: 435 RKGECEASIAKKEMVEANLRLVISVAKK-YTNRGL---QFLDLIQEGNIGLMKAAEKFDW 490 RKG+ A + +V+ NLRLV ++ KK Y R + L+++QEG IGL AA +FD Sbjct: 39 RKGQA----ALQRIVKGNLRLVAAIWKKRYLKRNIAPAHSLEILQEGAIGLNDAAMRFDP 94 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 GY+FST+A WW+ +++ D +R M K K V +M + K + + E Sbjct: 95 SSGYRFSTFASWWIIKSMKEYQRDSERLVRFKGDMHWKALKAV----KMLHTEKGQHSTE 150 Query: 551 EIAKKLAMPVE-GVRKVLKITK-EPISLETP--IGDEDTSHLGDFIEDKNAVS 599 EI K L MP + + + T+ P SL+ P + D S L +FI D + + Sbjct: 151 EIEKALKMPAKRAINLAMTFTQLHPKSLDVPNQLSGNDASPLHEFIADPSTTT 203 >gi|302544308|ref|ZP_07296650.1| RNA polymerase sigma-F factor [Streptomyces hygroscopicus ATCC 53653] gi|302461926|gb|EFL25019.1| RNA polymerase sigma-F factor [Streptomyces himastatinicus ATCC 53653] Length = 288 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 116/235 (49%), Gaps = 9/235 (3%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G + + ++E NL LV A+++ NR ++ D++Q G IGL+KA ++FD + Sbjct: 35 EGTHDYQYVRNTLIELNLSLVRYAARRFRNRSVEMEDVVQVGTIGLIKAIDRFDLSREVE 94 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D S + +P +++ + + + + R PT E+A+ Sbjct: 95 FTTFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRIDLAKANEELFQRFDRSPTTTELAEH 154 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDED-TSHLGDFIEDKNAVSPLDSAIQANLRET 612 L + + V L + SL+ P E T+ + + + V P ++ NL Sbjct: 155 LNLSEDEVLDGLVASNGYSTSSLDAPADPETGTTRVTTYADRIGEVDPAMEVVE-NLHAL 213 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 ++ L R+ R+L+MRFG M T E+G + V++ + ++ K++ +L Sbjct: 214 KP-LVEQLGERDRRILQMRFGEEM----TQSEIGAELGVSQMHVSRLLTKSLTRL 263 >gi|256393983|ref|YP_003115547.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] gi|256360209|gb|ACU73706.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] Length = 265 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 56/214 (26%), Positives = 106/214 (49%), Gaps = 13/214 (6%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 VA ++ RG DL Q +GL+KA + FD G F TYA + + R D + Sbjct: 53 VAARFRLRGETQADLEQVAYLGLVKAVDNFDPDYGATFLTYATPMIAGEVRRHFRDTTWH 112 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT--KEPISL 576 + +P ++ V R ++ ++ R P+ EI ++L + + V + + + SL Sbjct: 113 VHVPRRAQENALAVRAVERELTQQLGRAPSAAEIGRRLDLSADEVAEAYEASAAHHTASL 172 Query: 577 ETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 + P+ D D + LGD + D++ DS + RE +LA L+PR++R+L M+F Sbjct: 173 DVPVAMADGDGASLGDLLGDED--PGFDSVVD---REALKPLLAELSPRDKRILLMKFFR 227 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 M+ ++G + V++ ++ ++ ++ I L+ Sbjct: 228 NMSQ----AQIGAEIGVSQMQVSRLLSQIIGSLR 257 >gi|289422547|ref|ZP_06424390.1| RNA polymerase sigma-B factor [Peptostreptococcus anaerobius 653-L] gi|289157119|gb|EFD05741.1| RNA polymerase sigma-B factor [Peptostreptococcus anaerobius 653-L] Length = 257 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/228 (25%), Positives = 117/228 (51%), Gaps = 18/228 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E +L L +++KY N+G+ + D+ Q ++ L+ A +++D G++FS++A + Sbjct: 34 LIEKHLYLAKILSRKYMNKGVDYEDIFQVASLALIFAIDRYDVSKGFEFSSFATPTIVGE 93 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ T+R+P +++ K+ T + ++KR P P EIA+ L + +E V + + Sbjct: 94 IKKYFRDKVWTLRVPRRIQELSKKISNTKTLLEQELKRSPKPIEIAEYLEVDLEDVLEAM 153 Query: 568 KIT--KEPISLETPIGDEDTSH---LGDFI--EDKNAVSPLDSAIQANLRETTTRVLASL 620 + + +P+SL+TP +++ LGD I E+KN D ET L Sbjct: 154 EASYGYQPMSLDTPSNEDNEDKDITLGDKIGFEEKNFSQIEDMDFLDKFMET-------L 206 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E +++ RF + T + + +++ + ++E K + KLK Sbjct: 207 NELEVSIVKGRFF----ENKTQSVIAGELGISQMTVSRLEKKIVEKLK 250 >gi|326332872|ref|ZP_08199129.1| RNA polymerase sigma-F factor [Nocardioidaceae bacterium Broad-1] gi|325949230|gb|EGD41313.1| RNA polymerase sigma-F factor [Nocardioidaceae bacterium Broad-1] Length = 265 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 57/231 (24%), Positives = 117/231 (50%), Gaps = 9/231 (3%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 + E + A++E+V N+ LV A ++ RG DL+Q G +GL+ A +++D +FS Sbjct: 38 DAERTAAREELVHLNMALVEYCASQFYGRGEPHEDLVQVGVVGLLNAVDRYDLARDVEFS 97 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 TYA+ + I R D + +P +RD + +S ++ R PT ++A +L Sbjct: 98 TYAVPTILGEIKRYFRDSRWAVSVPRRLRDLQQNLRDATAELSQELGRSPTARDLATRLG 157 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + +E V + L+ + +L ++T+ + D + + LD +RE+ VL Sbjct: 158 VSLETVVEGLESSNAYAALSLDSESDETAPMLDSLTAHDL--RLDD---VEVRESIKPVL 212 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 SL+ E++VL ++F + T E+ + V++ ++ ++ +++ +L+ Sbjct: 213 DSLSAHEKQVLMLKF----FRNKTQTEIAGELGVSQMQVSRLLNRSLAQLR 259 >gi|257055039|ref|YP_003132871.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Saccharomonospora viridis DSM 43017] gi|256584911|gb|ACU96044.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Saccharomonospora viridis DSM 43017] Length = 295 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/205 (28%), Positives = 100/205 (48%), Gaps = 16/205 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G GL+ A EKFD G +F TYAM ++ AI + Q +P +R + + Sbjct: 90 DLIQSGIFGLVDAIEKFDPERGLRFETYAMQRIRGAILDDLRSQDW---VPRAVRSRARE 146 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPIG-----DE 583 + R R+ +++R PT E+A +L + + +R + L++T ++L+ +G Sbjct: 147 IERAHERLGARLRRTPTDAEVAAELGITLRELRDLYGQLRLTSV-LALDDLMGASKDNGN 205 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 T D + D AV P + + R +A L R+ V+ + + + TL Sbjct: 206 GTGSPADTLPDDGAVDPAAVLVDQDNRRQLAEAIAQLNERDRIVVSLYYFENL----TLA 261 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+GK VT R+ Q+ +A+ +L+ Sbjct: 262 EIGKVLGVTESRVSQLHTRAVLRLR 286 >gi|160895319|ref|ZP_02076090.1| hypothetical protein CLOL250_02878 [Clostridium sp. L2-50] gi|156863012|gb|EDO56443.1| hypothetical protein CLOL250_02878 [Clostridium sp. L2-50] Length = 225 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/213 (29%), Positives = 104/213 (48%), Gaps = 20/213 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK++++E NL LV SVA+++T RG DL Q G IGL+K +KF + KFSTYA+ Sbjct: 18 AKEKLIEQNLGLVWSVARRFTGRGYDIEDLFQIGCIGLIKCIDKFSFEYDVKFSTYAVPL 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I R + D S I++ +++ KV + +++ + EP EIA L+ + Sbjct: 78 IQGEIRRFLRD-SGAIKVSRSLKEMNMKVEQYRQKIKKEKGYEPEITEIAAALSFDAGDI 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + E SL+TP T I D +S L L L P Sbjct: 137 VMAMEASMEIESLDTPGVLSKTEEYSQDIVDHITLSQL---------------LDRLDPD 181 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 E+ ++R+R+ D T E GK +++ ++ Sbjct: 182 EQMLIRLRY----FEDRTQTETGKALGLSQVQV 210 >gi|150015700|ref|YP_001307954.1| sporulation sigma factor SigF [Clostridium beijerinckii NCIMB 8052] gi|149902165|gb|ABR32998.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Clostridium beijerinckii NCIMB 8052] Length = 251 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/243 (27%), Positives = 121/243 (49%), Gaps = 19/243 (7%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++++ R G+ +A ++E NL LV S++KK+ NRG + D+ Q G+IGL+KA FD Sbjct: 19 LLALARSGDTDAM---NTLIEMNLPLVSSISKKFLNRGYDYEDIFQIGSIGLVKAINNFD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ K+ ++ K+KR PT Sbjct: 76 LNYNVKFSTYAVPMIIGEIKRFLRDDGM-IKVSRNVKSLARKIHFQKEILTKKLKRSPTI 134 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQA 607 EE+A + E + ++ + L I +D + L D + +K SA Sbjct: 135 EELADYANVDKEEILFAIESSNSLQYLYDTIHQDDGAPVLLIDKLSEK-------SADDE 187 Query: 608 NLRETTT--RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 NL E L SL + ++++ +R+ D T +V K +++ ++ +IE K + Sbjct: 188 NLIEKIALKEALNSLDNKAKQIIMLRYF----KDKTQVQVAKMLGISQVQVSRIEKKVLA 243 Query: 666 KLK 668 +++ Sbjct: 244 EMR 246 >gi|15616654|ref|NP_239866.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219681412|ref|YP_002467797.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|219681968|ref|YP_002468352.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|257471086|ref|ZP_05635085.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|7994684|sp|O05385|RP32_BUCAI RecName: Full=RNA polymerase sigma-32 factor gi|25288470|pir||H84932 DNA-directed RNA polymerase (EC 2.7.7.6) sigma-32 factor [imported] - Buchnera sp. (strain APS) gi|1929472|gb|AAB51433.1| heat shock sigma factor 32 [Buchnera aphidicola] gi|10038717|dbj|BAB12752.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219621701|gb|ACL29857.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219624255|gb|ACL30410.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|311085774|gb|ADP65856.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086927|gb|ADP67007.1| RNA polymerase factor sigma-32 [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] Length = 284 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/235 (25%), Positives = 121/235 (51%), Gaps = 14/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K ++ ++LR VI +++ Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKTLILSHLRFVIHISRNYSGYGLLQSDLIQEGNIGLMKAVRRFNPEIGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ E + +A++L + Sbjct: 109 IKSEIHEYVLRNWRIVKVATTKSQRKLFFNLRKTKKRLG--WFNEEEIQIVARELGVSSR 166 Query: 562 GVRKV-LKITKEPISLE-TP--IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 VR++ +++ + ++ +P D T+ +++DK + + + Q N E L Sbjct: 167 DVREMESRMSAQDVAFNPSPEEHCDSKTNSSIQYLQDKTS-NFANGVEQDNWEEHAANKL 225 Query: 618 AS----LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +S L R ++ R+ + N +TL+ + + ++ ER+RQ+E A++KLK Sbjct: 226 SSALLRLDERSRHIIHARW-LDKNKKNTLQNIANNYGISAERVRQLEKNAMKKLK 279 >gi|254818833|ref|ZP_05223834.1| RNA polymerase sigma factor SigF [Mycobacterium intracellulare ATCC 13950] Length = 242 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 111/228 (48%), Gaps = 12/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V L L VA + RG DLIQ +GLM A +FD G F +A+ + Sbjct: 19 REYIVARCLPLADHVASHFARRGEGLEDLIQVARLGLMNAVNRFDPAKGPSFIGFAVPTM 78 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +R+ ++ R ++ ++ R P E+++ L +P E + Sbjct: 79 MGEVRRYFRDYSWGMRVPRRLRELHVQISRATADLAQQLGRAPNAGELSQMLEVPREEIV 138 Query: 565 KVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASL 620 + L + + SL+ P+G D+S + D +V +D I+ RE ++A+L Sbjct: 139 ECL-VAGDAYRLDSLDAPLG-ADSSGTPRSVAD--SVGDIDPQIEHITNREALRALVATL 194 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 PRE VLRMRF M E +G V++ ++ +I A +R L+ Sbjct: 195 PPRERDVLRMRFFESMTQSQIAERIG----VSQMQVSRILANTLRCLR 238 >gi|295095481|emb|CBK84571.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 229 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V ++ ++ R T E+A++L +PVE R++L T DE GD Sbjct: 90 VAHAMGQLEQELGRNATETEVAERLGIPVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE + +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDEHQQENPLHHLLEGNLRQRVMEAIEALPEREQLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|254455073|ref|ZP_05068509.1| RNA polymerase, sigma 32 subunit, RpoH [Octadecabacter antarcticus 238] gi|198263775|gb|EDY88046.1| RNA polymerase, sigma 32 subunit, RpoH [Octadecabacter antarcticus 238] Length = 249 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/206 (29%), Positives = 105/206 (50%), Gaps = 15/206 (7%) Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP--VHMRDKIHK 531 +Q NIGL+KAA++FD G++FSTYA WW++ I +++P R + Sbjct: 1 MQHANIGLLKAADRFDPDKGFRFSTYAAWWIRAEIQDYKLQGWSLVKLPNSAFGRKLFYN 60 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLA-----MPVEGVRKVLKITKEPISLETPIGDE-DT 585 + R R+ + E PE + ++A P + V ++ SL P+ D+ T Sbjct: 61 LKRVETRLV--AEGEVPPEHLVDRIATDLGVTPEQVVLMQQRLAAPDGSLNRPVSDDGGT 118 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRV---LASLTPREERVLRMRFGIGMNTDHTL 642 + L D +ED +A + + + + R T + L L+ RE+ ++ + + +T TL Sbjct: 119 AQLQDLLEDPDADVEKEVSARLDSRAFWTTLSFHLNRLSKREQEII-IEIYVS-DTPKTL 176 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLK 668 E+G+QF V+ ERIRQI A+ +L+ Sbjct: 177 YELGEQFSVSHERIRQIREAALTRLR 202 >gi|254439671|ref|ZP_05053165.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] gi|198255117|gb|EDY79431.1| RNA polymerase sigma factor, sigma-70 family [Octadecabacter antarcticus 307] Length = 235 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 64/224 (28%), Positives = 111/224 (49%), Gaps = 19/224 (8%) Query: 458 SVAKKYTNRGLQFL--DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQ 515 ++AK+++ GLQ DL+Q+ NIGLMKAA++FD GY+FSTY++WW++ I Sbjct: 4 TMAKRFSA-GLQAAEPDLVQQANIGLMKAADRFDPERGYRFSTYSVWWIRAEIQSYKLAS 62 Query: 516 SCTIRIP--VHMRDKIHKVVRTARRMSN--KIKREPTPEEIAKKLAMPVEGVRKV-LKIT 570 +R P R+ + K+ R +SN I R +AK L + ++ + + +++ Sbjct: 63 MSIVRRPNSADFRNAVGKLGRLDEAVSNDPTINRTDADALVAKALGVNLQRLNDLRQQVS 122 Query: 571 KEPISLETP-IGDEDTSHLGDFI-----EDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 SL P GD+ + + ED + + LD LR ++ SL RE Sbjct: 123 GTDYSLNLPSFGDDGEERMARLVDPASTEDADTMHRLDI---KKLRGLLVEIIGSLPDRE 179 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ M + + TL +G F ++ ER+RQ+ +L+ Sbjct: 180 RKII-MATQL-QDPPATLTALGIHFGISTERVRQLREMGFERLR 221 >gi|143615|gb|AAA22791.1| sporulation protein [Bacillus subtilis] Length = 195 Score = 79.7 bits (195), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 47/141 (33%), Positives = 78/141 (55%), Gaps = 1/141 (0%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E N+RLV SV +++ NRG + DL Q G IGL+K+ +KFD +FSTYA+ Sbjct: 33 ARDLLIEKNMRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKSVDKFDLTYDVRFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D T+++ +++ +K+ R +S + R PT +EIA L + E V Sbjct: 93 IIGEIQRFIRDDG-TVKVSRSLKELGNKIRRAKDELSKTLGRVPTVQEIADHLEIEAEDV 151 Query: 564 RKVLKITKEPISLETPIGDED 584 + + P S+ + + D Sbjct: 152 VLAQEAVRAPSSIHETVYEND 172 >gi|282866278|ref|ZP_06275324.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282558864|gb|EFB64420.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 318 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/238 (24%), Positives = 120/238 (50%), Gaps = 16/238 (6%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E + + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ G + Sbjct: 85 EGTHEYAYVRNTLVELNLALVKFAAARFRSRSEPMEDIVQVGTIGLIKAIDRFELSRGVE 144 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++R+P +++ + + ++ ++ R PT E+A++ Sbjct: 145 FPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQQLDRAPTVVELAER 204 Query: 556 LAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLR 610 L + VEG+ T + + P D++ L D + + N + ++ Sbjct: 205 LGITHEEVVEGMTASNAYTASSLDAK-PEDDDNEGALADRLGYEDNGLEGIEYI------ 257 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++ASL R+ +L +RF M T E+G++ +++ + ++ ++ + KL+ Sbjct: 258 ESLKPLIASLPLRDRTILSLRFVANM----TQSEIGEELGISQMHVSRLLSRTLVKLR 311 >gi|167745425|ref|ZP_02417552.1| hypothetical protein ANACAC_00116 [Anaerostipes caccae DSM 14662] gi|317473026|ref|ZP_07932327.1| RNA polymerase sigma-70 factor [Anaerostipes sp. 3_2_56FAA] gi|167655146|gb|EDR99275.1| hypothetical protein ANACAC_00116 [Anaerostipes caccae DSM 14662] gi|316899509|gb|EFV21522.1| RNA polymerase sigma-70 factor [Anaerostipes sp. 3_2_56FAA] Length = 241 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 62/247 (25%), Positives = 131/247 (53%), Gaps = 15/247 (6%) Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + E R ++ + ++G+ +A ++++V N+ L+ SV K++T RG + DL Q G+IGL+K Sbjct: 1 MDETRELLKLTKEGDQDA---REKIVLDNMGLIWSVVKRFTGRGHEPEDLFQIGSIGLLK 57 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A +KFD KFSTYA+ + I R + D I++ +++ ++V + + K Sbjct: 58 AVDKFDLSYDVKFSTYAVPMITGEIKRFLRDDGM-IKVSRSLKEIAYQVRQAGEAFAMKY 116 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK--NAVSPL 601 RE T +E++++ + + + L+ K+ S+ P D S + + DK + Sbjct: 117 NREATIDELSRETKIARDEIVVALEANKDVESIYQPSYQSDDSQV--LLVDKLPGEENES 174 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D+ I + E ++ +L+ E ++ MR+ G T +E+ K+ +++ ++ ++E Sbjct: 175 DTVINHVMLE---ELMDTLSGDERELITMRYFHG----KTQQEIAKKLSISQVQVSRMEK 227 Query: 662 KAIRKLK 668 K + +++ Sbjct: 228 KILLRMR 234 >gi|167622231|ref|YP_001672525.1| RNA polymerase factor sigma-32 [Shewanella halifaxensis HAW-EB4] gi|167352253|gb|ABZ74866.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella halifaxensis HAW-EB4] Length = 285 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 120/236 (50%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ E +A L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKAKKRLGWFSDSEVGMVADSLGVSKA 169 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE--TTTRV 616 V ++ + L + DE ++ED + S L S ++++ E R+ Sbjct: 170 DVTEMESRMAAQDPAFDLASDNDDEHDYAPMHYLEDHS--SDLASQVESDNWEQNNQARL 227 Query: 617 LASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ +ER +L+ R+ ++ D TL+++ + V+ ERIRQ+E A+ KLK Sbjct: 228 LSAIKTLDERSQHILKARW---LDEDKTTLQDLASTYQVSAERIRQLEKNAMSKLK 280 >gi|49476176|ref|YP_034217.1| RNA polymerase factor sigma-32 [Bartonella henselae str. Houston-1] gi|49238984|emb|CAF28284.1| RNA polymerase sigma-32 factor [Bartonella henselae str. Houston-1] Length = 303 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 117/243 (48%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ ++ + IA+KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLVQDDSALSKQDIFRSIAEKL 173 Query: 557 AMPVEGVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + V V + + D + + ++D SPL A+ + + Sbjct: 174 GVSVRDVETMDFRFSSSDNSLSVSVSENSDNPVAKMDALVDD----SPLPDALIEQVIDG 229 Query: 613 TTRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIR 665 R L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A++ Sbjct: 230 QRRTQWLYDALQILNERELEIIRFR---RLNEEGATLEVLGEKLGISKERVRQIEARALQ 286 Query: 666 KLK 668 KL+ Sbjct: 287 KLR 289 >gi|160897140|ref|YP_001562722.1| RNA polymerase sigma 32 subunit RpoH [Delftia acidovorans SPH-1] gi|160362724|gb|ABX34337.1| RNA polymerase, sigma 32 subunit, RpoH [Delftia acidovorans SPH-1] Length = 314 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/253 (27%), Positives = 120/253 (47%), Gaps = 33/253 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +V ++LRLV+S++++Y GL DLIQEGN+GLMKA ++FD + +YAM W Sbjct: 60 AAGRLVMSHLRLVVSISRQYLGYGLPHGDLIQEGNVGLMKAVKRFDPDQNVRLVSYAMHW 119 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL-----AM 558 +K I I +++ + K+ R M +K + E L + Sbjct: 120 IKAEIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGLKSDAAMAEDGAMLRDTLTSG 177 Query: 559 PVEGVRKVLKITKEPI-SLETPIGDEDT-----------------SHLGDFIEDKNAVSP 600 ++ V + L + +E + +ET + D ++L D + A+ Sbjct: 178 EIDAVAEKLNVKREEVMEMETRLAGGDVLLDPSPSDDGEQAFGPIAYLADGAHEPTAM-- 235 Query: 601 LDSAIQANL-RETTTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRER 655 ++S + +L + L SL R R++ R+ + +N D TL E+ + V+ ER Sbjct: 236 IESRQRDHLATDGIAMALDSLDDRSRRIVEERW-LKVNDDGSGGMTLHELAAVYGVSAER 294 Query: 656 IRQIEAKAIRKLK 668 IRQIE A++K+K Sbjct: 295 IRQIEVAAMKKMK 307 >gi|296101730|ref|YP_003611876.1| flagellar biosynthesis sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295056189|gb|ADF60927.1| flagellar biosynthesis sigma factor [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 239 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V ++ ++ R T E+A++L +PVE R++L T DE GD Sbjct: 100 VAHAMGQLEQELGRNATETEVAERLGIPVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE + +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDEHQQENPLHHLMEGNLRQRVMEAIEALPEREQLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|283785667|ref|YP_003365532.1| flagellar-specific Sigma F (Sigma 28) factor [Citrobacter rodentium ICC168] gi|282949121|emb|CBG88728.1| flagellar-specific Sigma F (Sigma 28) factor [Citrobacter rodentium ICC168] Length = 239 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 102/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L +PVE R++L T DE GD Sbjct: 100 VAQAMGQLEQELGRNATETEVAERLGIPVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL +++NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTEEHQQENPLQQLLESNLRQRVMDAIEALPEREQLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|149378434|ref|ZP_01896128.1| RNA polymerase sigma-32 factor RpoH [Marinobacter algicola DG893] gi|149357284|gb|EDM45812.1| RNA polymerase sigma-32 factor RpoH [Marinobacter algicola DG893] Length = 289 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 73/288 (25%), Positives = 141/288 (48%), Gaps = 41/288 (14%) Query: 400 ACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISV 459 ++S ++ + I +SVE ++E H G+ +A+ +E+V ++LR VI + Sbjct: 14 GANLESYIQAASRIPVLSVEEERKLAERLHY-----DGDVDAA---RELVLSHLRFVIHI 65 Query: 460 AKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 A+ Y GL DLIQEGN+GLMKA ++F+ G + ++A+ W+K I I + Sbjct: 66 ARSYAGYGLSQADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIV 125 Query: 520 RIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 ++ + K+ +R+ ++ + + +A L + VR+ +E Sbjct: 126 KVATTKAQRKLFFNLRSQKKRLAWLSHDEV-NAVASDLGVEPRVVRE----------MEG 174 Query: 579 PIGDEDTSHLGD--------------FIEDKNAVSPLDSAIQANLR-ETTTRVLASLTPR 623 + DT+ G ++EDK + +P Q++ ++ R++A+L Sbjct: 175 RLASHDTAFDGPQDDDDDNAYQAPAYYLEDKRS-NPATQLEQSDWTDDSNGRLMAALEQL 233 Query: 624 EER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +ER +LR R+ ++ TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 234 DERSQDILRERW--LSDSKSTLHELADRYGVSAERIRQLEKNAMKKIR 279 >gi|302522171|ref|ZP_07274513.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] gi|318056578|ref|ZP_07975301.1| RNA polymerase sigma factor WhiG [Streptomyces sp. SA3_actG] gi|302431066|gb|EFL02882.1| RNA polymerase sigma-G factor [Streptomyces sp. SPB78] Length = 279 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 102/214 (47%), Gaps = 18/214 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 76 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 132 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLE--TPIGDEDTSH 587 V R + K+ R PT E+A ++ + VE + V ++LE +G E Sbjct: 133 VERAYATLEAKLHRTPTEVEVASEMGVGVEDLHAVFSQLSLANVVALEELLSVGSEGGGR 192 Query: 588 LG--DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 L D +ED A +P++ A LR+ +R + SL RE+ V+ + + G+ TL E+ Sbjct: 193 LSIMDTLEDTGADNPVEVAEGRELRQLLSRAINSLPDREKTVVMLYYYEGL----TLAEI 248 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 G VT R+ QI K++ +L+ KL SF Sbjct: 249 GHVLGVTESRVSQIHTKSVLQLR-----AKLSSF 277 >gi|257062124|ref|YP_003140012.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 8802] gi|256592290|gb|ACV03177.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 8802] Length = 258 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/250 (24%), Positives = 121/250 (48%), Gaps = 13/250 (5%) Query: 415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQ-FLDL 473 S ++ + + R + + G + + +++E N LV A + N + + DL Sbjct: 2 STPIKENLKLDTLRLFLDYQKTGSIQL---RNQILELNFGLVRKEAYHWVNHCSESYEDL 58 Query: 474 IQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 +Q G++GL++A E+F+ G+ FS++A+ +++ I + D+ T+RIP + +V Sbjct: 59 LQVGSLGLIRAIERFNSEKGHAFSSFALPYIRGEIQHYLRDKGYTVRIPRRWLEIGQQVK 118 Query: 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPIGDED--TSHLG 589 + + R+PT EIA+ L +P++ +++ +EP+SL+ +G++ + L Sbjct: 119 SIKQDFRERFNRQPTDSEIAQILEIPLKEWQEIQLAFQNREPLSLDLKVGNDSDGQTSLA 178 Query: 590 DFIEDKNAVS-PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 D + D N S L Q L++ LA L R R+L F + T E++G Sbjct: 179 DLVPDPNYRSFQLSQEDQIRLQQG----LAQLEERTRRILEFVFLQDLTQRETAEQLGIS 234 Query: 649 FCVTRERIRQ 658 R+++ Sbjct: 235 VVTVSRRVKK 244 >gi|121603798|ref|YP_981127.1| RNA polymerase sigma-32 subunit RpoH [Polaromonas naphthalenivorans CJ2] gi|120592767|gb|ABM36206.1| RNA polymerase, sigma 32 subunit, RpoH [Polaromonas naphthalenivorans CJ2] Length = 322 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/244 (27%), Positives = 117/244 (47%), Gaps = 25/244 (10%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V ++LRLV+S+++KY GL DLIQEGNIGLMKA ++FD + +YAM W+K Sbjct: 75 KLVLSHLRLVVSISRKYLGYGLPHGDLIQEGNIGLMKAVKRFDPDQNVRLVSYAMHWIKA 134 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK------------REPTPEEIAK 554 I I +++ + K+ R M K E + +A+ Sbjct: 135 EIHEYILKNWRMVKVATTKAQR--KLFFNLRSMKQGYKDDADVATHRDTLTESQIDSMAR 192 Query: 555 KLAMPVEGVRKV-LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR--- 610 L + E V ++ +++ + L+ D+ G +A + +++ R Sbjct: 193 TLNVKREEVIEMEQRMSGGDVLLDPSPNDDGDDAFGPIAYLADAAQEPTALMESRERDDL 252 Query: 611 --ETTTRVLASLTPREERVLRMRFGIGMNTD----HTLEEVGKQFCVTRERIRQIEAKAI 664 + + L L PR R++ R+ + +N D TL ++ ++ V+ ERIRQIE A+ Sbjct: 253 MTDGLSTALQELDPRARRIVEERW-LNVNDDGSGGMTLHDLAAEYKVSAERIRQIEVAAM 311 Query: 665 RKLK 668 +K+K Sbjct: 312 KKMK 315 >gi|304320154|ref|YP_003853797.1| RNA polymerase sigma-70 factor family protein [Parvularcula bermudensis HTCC2503] gi|303299057|gb|ADM08656.1| RNA polymerase sigma-70 factor family protein [Parvularcula bermudensis HTCC2503] Length = 283 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 72/260 (27%), Positives = 120/260 (46%), Gaps = 23/260 (8%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +SI E R ++ + E ++ K + A++R+ +S A K+ GL DLIQEG IGL Sbjct: 22 LSIEEERSLMRRWVDDQDERALGK--LTRAHMRMAVSTAIKFRGYGLPLADLIQEGAIGL 79 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV-RTARRMS 540 ++AA++FD +F TYA WW++ ++ I +R+ HK + R+ Sbjct: 80 LEAAKRFDPDREVRFCTYAGWWIRASMQDYILRNWSIVRVGSK---SAHKTIFFNLSRIR 136 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRK------VLKITKEPISLETPIGDEDTSHLGDFIED 594 + I+ T A+ A V + ++ + SL + D+ D I D Sbjct: 137 SMIEDADTAPRTARIKAAERFNVSESDIEFMTSRLGRRDQSLNAMLTDDGDIERQDLIPD 196 Query: 595 KN------AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + A LD QA + + L +L+ RE ++ RF TL +G Sbjct: 197 EREGPDSLAEGTLD---QARRKSWIGKALKTLSNRERMIIEHRFFT--EEKMTLSRLGDD 251 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ER+RQIE +A+ KLK Sbjct: 252 LSLSKERVRQIEKQAMGKLK 271 >gi|188589224|ref|YP_001920224.1| RNA polymerase sigma-D factor [Clostridium botulinum E3 str. Alaska E43] gi|251778902|ref|ZP_04821822.1| RNA polymerase sigma-D factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188499505|gb|ACD52641.1| RNA polymerase sigma-D factor [Clostridium botulinum E3 str. Alaska E43] gi|243083217|gb|EES49107.1| RNA polymerase sigma-D factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 242 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 115/232 (49%), Gaps = 15/232 (6%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 K+++V+ + LV +A + N+ +++ DL+ G IGLM A KF+ G KFS+YA Sbjct: 9 VKEQIVKEYIPLVKYIASRIMIGKNKYMEYEDLVSYGIIGLMDAISKFNPDKGMKFSSYA 68 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +K AI I + DK+++ + NK+ REP EIA+ L + + Sbjct: 69 SIRIKGAIIDQIRKNRPITK---GAMDKLNRYNSAIESLQNKLLREPNILEIAQYLELSL 125 Query: 561 EGVRKVLKITKE--PISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + V ++ +SLE I DE+ + LG IEDKN+ SP + E + Sbjct: 126 QEVSQIENYINHISMVSLENIIFSDDEEVNLLG-IIEDKNSPSPEGELEEKEQLEVLSDA 184 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L +E+ +L + + + TL+E+G V+ R+ Q+ A++I L+ Sbjct: 185 IKLLKEKEQLILNLYYYEKL----TLKEIGSILSVSESRVCQLHARSISNLR 232 >gi|114776846|ref|ZP_01451889.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] gi|114552932|gb|EAU55363.1| RNA polymerase sigma factor [Mariprofundus ferrooxydans PV-1] Length = 274 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 116/232 (50%), Gaps = 13/232 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ANL V ++A++Y + GL +DLIQEG +GLM A ++FD G++ TYA WW Sbjct: 43 AARQLVVANLGGVAAIAREYRHFGLPEMDLIQEGTLGLMHAVKRFDPERGFRLMTYASWW 102 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR--EPTPEEIAKKLAMPV- 560 V+ AI I +++ + + +V ++ N I +++A + Sbjct: 103 VRAAIHDFILHSWSIVKLGTNKLQR--RVFAGLQKAKNAIAAFDGSRADDVAADFGITAG 160 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE----TTTRV 616 E + +SL+ DE + +E +A SP N E Sbjct: 161 EYQEAAGAFLQRDLSLDCAC-DEGGDAMVHNLESMDA-SPEQIVTDNNWSEHRQAGLYHA 218 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L++L R+ +L+ R + TL+++ ++F V+ ERIRQ+EA+A+++L+ Sbjct: 219 LSTLPERDRLILQRRH--LSDEPATLKDLSEEFGVSMERIRQLEARAMKQLR 268 >gi|323702739|ref|ZP_08114399.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] gi|323532256|gb|EGB22135.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Desulfotomaculum nigrificans DSM 574] Length = 232 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 70/247 (28%), Positives = 111/247 (44%), Gaps = 55/247 (22%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E + ++S +++G+ +A+ +VE NLRLV ++A K+ +RG+ DL Q G IGL Sbjct: 33 LSAEEEQELLSRLQQGD---QLARSVLVERNLRLVATIANKHKDRGIDKQDLFQVGVIGL 89 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA F+ KF+TYA ++ + R M Sbjct: 90 IKAVNTFNPARTNKFATYAGVCIENEM----------------------------RMMLR 121 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K K E +++ L EG P+ L+ + +D P+ Sbjct: 122 KNKDEYRCLSLSEPLDYDKEG---------NPLELQDTLMADDV--------------PV 158 Query: 602 DSAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 D + NL E + LTPRE V+ +RFG+ + T EVGKQ ++R I +IE Sbjct: 159 DEQVVHNLETERLGAAMQKLTPRERVVINLRFGLNGGRELTQREVGKQLNISRSFISRIE 218 Query: 661 AKAIRKL 667 +K+I KL Sbjct: 219 SKSISKL 225 >gi|77461555|ref|YP_351062.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens Pf0-1] gi|77385558|gb|ABA77071.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas fluorescens Pf0-1] Length = 284 Score = 79.3 bits (194), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 115/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A D+ N Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDADWSDNSNHNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALEVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|290956233|ref|YP_003487415.1| sigma factor [Streptomyces scabiei 87.22] gi|260645759|emb|CBG68850.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 262 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 67/215 (31%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++EA L + +A ++ +RG + DL Q ++GL+KA +++D LG F +YA+ + Sbjct: 36 RDRIIEAWLPMAERLAGRFRSRGESYEDLRQVASLGLVKAVDRYDPELGNAFESYAVPTI 95 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P ++D ++V + +S I R PT EIA+ M E V Sbjct: 96 TGEIKRHFRDHMWTLHVPRRVQDLRNRVRFATQDLSQTISGRRPTVAEIAEHANMSEEDV 155 Query: 564 RKVLK----ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R L+ T + E P G ED L D + +A LD+ + RE LA+ Sbjct: 156 RVGLEALESFTALSLDAELP-GSEDGYSLSDAL--GSADPALDTVVD---REAVKPRLAA 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L RE +L MRF M +E+G Q V+R Sbjct: 210 LPERERAILYMRFFGDMTQSRIADELGISQMHVSR 244 >gi|218249036|ref|YP_002374407.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 8801] gi|218169514|gb|ACK68251.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 8801] Length = 258 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/220 (26%), Positives = 111/220 (50%), Gaps = 10/220 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E N LV A + N + + DL+Q G++GL++A E+F+ G+ FS++A+ + Sbjct: 29 RNQILELNFGLVRKEAYHWVNHCSESYEDLLQVGSLGLIRAIERFNSEKGHAFSSFALPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ T+RIP + +V + + R+PT EIA+ L +P++ Sbjct: 89 IRGEIQHYLRDKGYTVRIPRRWLEIGQQVKSIKQDFRERFNRQPTDSEIAQILEIPLKEW 148 Query: 564 RKVLKI--TKEPISLETPIGDED--TSHLGDFIEDKNAVS-PLDSAIQANLRETTTRVLA 618 +++ +EP+SL+ +G++ + L D + D N S L Q L++ LA Sbjct: 149 QEIQLAFQNREPLSLDLKVGNDSDGQTSLADLVPDPNYRSFQLSQEDQIRLQQG----LA 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R+L F + T E++G R+++ Sbjct: 205 QLEERTRRILEFVFLQDLTQRETAEQLGISVVTVSRRVKK 244 >gi|119511848|ref|ZP_01630948.1| sigma factor SigF [Nodularia spumigena CCY9414] gi|119463490|gb|EAW44427.1| sigma factor SigF [Nodularia spumigena CCY9414] Length = 258 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 46/155 (29%), Positives = 87/155 (56%), Gaps = 5/155 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + ++V+ N LV A + N+ + + DL+Q G +GL++A EKF+ G+ FS++A+ + Sbjct: 29 RNKLVKLNFGLVRKEAHYWMNQCRENYDDLVQVGYLGLIRAIEKFEISKGHAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ T+RIP + + +R + K R+PT E+A LA+ + Sbjct: 89 IRGEIQHYLRDKGVTVRIPRRYLALQQQAIGVSRDLCEKYNRQPTDSELAAALAISLNEW 148 Query: 564 R--KVLKITKEPISLETPIGD--EDTSHLGDFIED 594 + K+ + + P+SL+ P+ D E T+ LG+ + D Sbjct: 149 QEIKLAWVNRSPLSLDVPVLDSEEGTTSLGELVPD 183 >gi|157963788|ref|YP_001503822.1| RNA polymerase factor sigma-32 [Shewanella pealeana ATCC 700345] gi|157848788|gb|ABV89287.1| RNA polymerase, sigma 32 subunit, RpoH [Shewanella pealeana ATCC 700345] Length = 285 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/236 (27%), Positives = 120/236 (50%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VAK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVVHVAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPDVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ E +A+ L + Sbjct: 112 IKAEIHEYVLKNWRIVKVATTKAQR--KLFFNLRKAKKRLGWFSDSEVGMVAESLGVSKA 169 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE--TTTRV 616 V ++ + L + DE ++ED + S L S ++ + E R+ Sbjct: 170 DVTEMESRMAAQDPAFDLASDNDDEQDYAPMHYLEDHS--SDLASQVENDNWEQNNQARL 227 Query: 617 LASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+++ +ER +L+ R+ ++ D TL+++ + V+ ERIRQ+E A+ KLK Sbjct: 228 LSAIKTLDERSQHILKARW---LDEDKTTLQDLAATYQVSAERIRQLEKNAMNKLK 280 >gi|212711019|ref|ZP_03319147.1| hypothetical protein PROVALCAL_02088 [Providencia alcalifaciens DSM 30120] gi|212686187|gb|EEB45715.1| hypothetical protein PROVALCAL_02088 [Providencia alcalifaciens DSM 30120] Length = 291 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/283 (23%), Positives = 132/283 (46%), Gaps = 34/283 (12%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E ++E H G+ EA+ K+++ ++LR VI +A+ Sbjct: 16 IEAYMRAANAYPMLTAEEEKELAERLHY-----DGDLEAA---KQLILSHLRFVIHIARS 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 V--HMRDKIHKVVRTARRMS-------NKIKRE---PTPEEIAKKLAMPVEGVRKVLKIT 570 R + + +R+ N + +E T + + + M + + + Sbjct: 128 TTKSQRKLFFNLRKNKKRLGWFNQDEVNMVAQELGVSTKDVLEMESRMAAQDMAFDMSDD 187 Query: 571 KEPISLETPIG-----DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + P+ + S + IED N +++ + LASL R + Sbjct: 188 DDSGDFGGPVAPVLYLQDKASDFANTIEDDN--------WESHATDRLADALASLDERSQ 239 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 240 DIIRARW-LDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLR 281 >gi|685227|dbj|BAA04283.1| sigma factor [Streptomyces setonii] Length = 259 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 60/247 (24%), Positives = 120/247 (48%), Gaps = 15/247 (6%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ NRG + D++Q G IGL+KA ++FD Sbjct: 14 LQVLEEGTHEYQYARNTLIEMNLSLVRFAANRFRNRGSGDMEDIVQVGTIGLIKAIDRFD 73 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D S + +P +++ + + ++ + R+PT Sbjct: 74 LSREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRVDLAKAKESLAGDLDRDPTV 133 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTS-HLGDFIEDKNAVSPLDSA 604 E+A+ L + EG+ T + + T + H G D + D A Sbjct: 134 RELAQDLGIEESEVTEGIVASNGYTAGSLDMPTDTAEAGPGQHSGRTFAD--VLGEPDPA 191 Query: 605 IQA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 ++ NL +L L RE R++ MRFG M T ++G + +++ + ++ ++ Sbjct: 192 METVENLHALAP-LLGELDERERRIIDMRFGQEM----TQAQIGAELGISQMHVSRLLSR 246 Query: 663 AIRKLKH 669 + KL++ Sbjct: 247 MLGKLRN 253 >gi|296105152|ref|YP_003615298.1| RNA polymerase factor sigma-32 [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295059611|gb|ADF64349.1| RNA polymerase factor sigma-32 [Enterobacter cloacae subsp. cloacae ATCC 13047] Length = 285 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 66/256 (25%), Positives = 127/256 (49%), Gaps = 42/256 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K+++ ++LR V+ +A+ Y GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KKLILSHLRFVVHIARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVA 158 Query: 554 KKLAMPVEGVRKV-----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN 596 ++L + + VR++ +P++ + D+ TS+ D IE+ N Sbjct: 159 RELGVSSKDVREMESRMAAQDMTFDMSSDDDASDSQPMAPVLYLQDK-TSNFADGIEEDN 217 Query: 597 ----AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 A + L A++ L R + ++R R+ + + TL+E+ ++ V+ Sbjct: 218 WEDQAANKLSYAMEG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVS 264 Query: 653 RERIRQIEAKAIRKLK 668 ER+RQ+E A++KL+ Sbjct: 265 AERVRQLEKNAMKKLR 280 >gi|153852719|ref|ZP_01994156.1| hypothetical protein DORLON_00138 [Dorea longicatena DSM 13814] gi|149754361|gb|EDM64292.1| hypothetical protein DORLON_00138 [Dorea longicatena DSM 13814] Length = 237 Score = 79.0 bits (193), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 62/241 (25%), Positives = 121/241 (50%), Gaps = 10/241 (4%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H +++++K A+ ++VE N LV + +++T RG + DL Q G IGL+KA +KF Sbjct: 3 HTIALIQKSHEGDEEARAQIVEENTGLVWCIVRRFTGRGTELEDLFQIGTIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K + + K+ REP+ Sbjct: 63 DLSYEVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELSYKGYQAQEVLGRKLGREPS 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 E+A+ L + E + + + SL P+ ++ G I V D A + Sbjct: 122 VTELAEYLDVSPEELTMAMDACTDVESLHRPVYKKE----GQEISLMEKVGKEDGAEERV 177 Query: 609 LRETTTRVLASLTPREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L + L + +EER ++ +R+ + T ++GK+ +++ ++ ++E K ++ L Sbjct: 178 LDHLLLKELLTSLDKEERKLIYLRY----FAEKTQTQIGKEMGISQVQVSRMEKKILKNL 233 Query: 668 K 668 + Sbjct: 234 R 234 >gi|320101986|ref|YP_004177577.1| RNA polymerase sigma-32 subunit RpoH [Isosphaera pallida ATCC 43644] gi|319749268|gb|ADV61028.1| RNA polymerase, sigma 32 subunit, RpoH [Isosphaera pallida ATCC 43644] Length = 565 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 33/77 (42%), Positives = 52/77 (67%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA K +++ ANLRLV+S+AK++ F DL+ +GN+ L++A EKFD+ G KFSTY Sbjct: 384 EALAVKNQIISANLRLVVSIAKRHVGPSNNFFDLVSDGNMSLIRAVEKFDFARGNKFSTY 443 Query: 500 AMWWVKQAITRSIADQS 516 A W + + R+I +++ Sbjct: 444 ASWAIMKNFARTIPEEN 460 Score = 61.2 bits (147), Expect = 5e-07, Method: Compositional matrix adjust. Identities = 29/71 (40%), Positives = 50/71 (70%) Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 Q +RE +L+ L PRE++++ RFGI + TLE++GK+ +T+ER+RQIEA+A + Sbjct: 491 QRRMREGVNGMLSKLEPREQKIIVSRFGINGAKEMTLEQLGKELGITKERVRQIEARAQQ 550 Query: 666 KLKHPSRSKKL 676 KL+ ++ +K+ Sbjct: 551 KLRKIAQEEKI 561 >gi|182440616|ref|YP_001828335.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|178469132|dbj|BAG23652.1| putative RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] Length = 290 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 62/249 (24%), Positives = 124/249 (49%), Gaps = 16/249 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAA 485 F + ++ +G A+ ++E NL LV AK++ NRG + D++Q G IGL+KA Sbjct: 44 FFERLQVLEEGTHAYQYARNTLIEMNLSLVHFAAKRFRNRGSGEMEDIVQVGTIGLIKAI 103 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D + + +P +++ + + ++ ++ R Sbjct: 104 DRFELSREVEFTSFAIPYIVGEIKRFFRDSTWAVHVPRRLQELRVTLAKAKEELAGRLDR 163 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +PT E+A L + VEG+ T SL+ PIG E S + I + L Sbjct: 164 DPTVGELAAHLGLTDEEVVEGLIASNGYTAG--SLDLPIGTEQNS--AETITYGDIKGDL 219 Query: 602 DSAIQA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 D AI+ NL +L L R+ ++ MRFG + T ++G++ +++ + ++ Sbjct: 220 DPAIELVENLHALAP-LLEGLGDRDREIVAMRFG----QELTQAQIGERLGISQMHVSRL 274 Query: 660 EAKAIRKLK 668 + + +L+ Sbjct: 275 LNRLLTQLR 283 >gi|283832678|ref|ZP_06352419.1| flagellar biosynthesis sigma factor FliA [Citrobacter youngae ATCC 29220] gi|291072353|gb|EFE10462.1| flagellar biosynthesis sigma factor FliA [Citrobacter youngae ATCC 29220] Length = 229 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 102/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++LA+PV+ R++L T DE GD Sbjct: 90 VAQAMGQLEQELGRNATETEVAERLAIPVQEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTEEHQQENPLQQLLEGNLRQRVMDAIEALPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|254498663|ref|ZP_05111381.1| RNA polymerase factor sigma-32 [Legionella drancourtii LLAP12] gi|254352111|gb|EET10928.1| RNA polymerase factor sigma-32 [Legionella drancourtii LLAP12] Length = 280 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 74/284 (26%), Positives = 137/284 (48%), Gaps = 27/284 (9%) Query: 397 NFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLV 456 N +D+ + N+I +++E I+ +E H +G+ EA+ + +V A+LR V Sbjct: 7 NLPVGSLDAYIHRVNQIPMLTMEEEIACAERFH-----SEGDIEAA---RRLVLAHLRYV 58 Query: 457 ISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQS 516 + VA+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W+K I + Sbjct: 59 VRVARGYLGYGLPLNDLIQEGNVGLMKAVKRFDPKMGVRLVSFAVHWIKAEIHEFVLRNW 118 Query: 517 CTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKVLKITKEPI 574 ++I + K+ R+M N++ E +AK L + + +VL + + Sbjct: 119 RIVKIATTKAQR--KLFFNLRQMKNRLGWFSNEEVAAVAKDLGVSTD---EVLVMEQRLN 173 Query: 575 SLETPIGDEDTSHLGDF----------IEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +++ P D DF + D A+ + RE L L R Sbjct: 174 AMDAPYDAPDADDNDDFHMAPERYLFNVNDDPALVLEKESTGDRGREQLLLALEQLDERS 233 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L+ R+ + TL ++ +++ ++ ER+RQ+E A++KL+ Sbjct: 234 QDILQQRW--LADDKLTLHDLAEKYAISAERVRQLEKNAMKKLR 275 >gi|256379368|ref|YP_003103028.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Actinosynnema mirum DSM 43827] gi|255923671|gb|ACU39182.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Actinosynnema mirum DSM 43827] Length = 268 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 57/227 (25%), Positives = 116/227 (51%), Gaps = 12/227 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V +L + +A+++ +RG DL+Q +GL+ A ++FD G F ++A+ + Sbjct: 46 RDELVTEHLPVARHIARRFGHRGEPHDDLVQVATVGLINAVDRFDPERGSDFLSFAVPTI 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + + D S ++R+P +++ + + R+S ++ R PTP E+A+ L + E V Sbjct: 106 MGEVRKYFRDSSWSVRMPRRLKELHLAINAGSARLSQELGRAPTPSELAQHLGLSREEVH 165 Query: 565 KVLKITKEPISL---ETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L S + + D+ + LG + +++ P AI+ RE+ +L L Sbjct: 166 EGLAAGNAYHSASLDDLLVADDSSISLGSTLGEED---PELEAIEQ--RESLHPLLEKLP 220 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE R++ MRF M ++VG +++ + ++ AK +R+L+ Sbjct: 221 ERERRIVVMRFFGNMTQTQIAQKVG----ISQMHVSRLLAKTLRQLR 263 >gi|29655194|ref|NP_820886.1| RNA polymerase factor sigma-32 [Coxiella burnetii RSA 493] gi|6716381|gb|AAF26609.1|AF120928_1 heat-shock sigma factor [Coxiella burnetii] gi|29542466|gb|AAO91400.1| RNA polymerase sigma-32 factor [Coxiella burnetii RSA 493] Length = 288 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 117/236 (49%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AARKLVLSHLRFVVRIARGYSGYGLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 ++ I I ++I + K+ R+ + K E +A++L + + Sbjct: 111 IRAEIHEFILKNWRIVKIATTKAQR--KLFFNLRKHAKKRGWFSDHEAFALAEELNVSTK 168 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLG---DFIEDK--NAVSPLDSAIQANLRETT 613 VR++ L E D T G ++EDK N L+ + A+ +E Sbjct: 169 DVRQMEERLNSYDEAFDGADEESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHR 228 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + S+ R +L R+ + TL E+ Q+ V+ ERIRQ+E A++K++ Sbjct: 229 LHNAMQSMDDRSRDILYQRWLSEKKS--TLHELAAQYAVSAERIRQLEKNAMQKIR 282 >gi|332708995|ref|ZP_08428965.1| RNA polymerase sigma factor, sigma-70 family [Lyngbya majuscula 3L] gi|332352184|gb|EGJ31754.1| RNA polymerase sigma factor, sigma-70 family [Lyngbya majuscula 3L] Length = 258 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 70/236 (29%), Positives = 118/236 (50%), Gaps = 15/236 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + ++V NL LV A + + + + DL+Q G IGL+ A E+FD G FS++A+ + Sbjct: 29 RNQLVALNLGLVRREAHHWVKQCNESYEDLLQVGCIGLIVAIERFDSTKGIAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ +IRIP K V + + + R+PT EEIA L + +E Sbjct: 89 IRGEIQHYLRDRGYSIRIPRRWLALRQKSVEITQNLRATLNRQPTEEEIAAALNISLEEW 148 Query: 564 RKVL--KITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +++ +EP+SL+TP+GD + + LG+ + D S A + +R + LA Sbjct: 149 QEITLAHQNREPLSLDTPVGDSEDRNTSLGELVPDPRYRS-FQLAQEDQIR--IQQALAH 205 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQF---CVTRERIRQIEAKAIRKLKHPSR 672 L R VL F D T +EV ++ VT R + +A++KL P++ Sbjct: 206 LEKRTREVLEFVFL----HDLTQKEVAQRLDISVVTVSRRVKKGLEALQKLMTPTQ 257 >gi|302558953|ref|ZP_07311295.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] gi|302476571|gb|EFL39664.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] Length = 282 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/247 (23%), Positives = 128/247 (51%), Gaps = 15/247 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 FR + +++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 39 FRRL-TVLEEGTHEYQYARNTLIEMNMSLVRYAAGRFRSRGPEEMEDIVQVGMIGLIKAI 97 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S ++ +P +++ ++ R + +++ R Sbjct: 98 DRFELSREVEFTSFAIPYIVGEIKRFFRDTSWSVHVPRRLQEARVQLARATEELRSRLGR 157 Query: 546 EPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPL 601 PT E+A+ +++ E V ++ SL+ IG E S L DFI ++A L Sbjct: 158 TPTVGELAQLMSLTEEEVNEARIASNGYNSASLDAAIGSEPDGESVLADFIGSEDAALEL 217 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A ++A L RE +++ RF + T E+G++ ++ + ++ + Sbjct: 218 VEDFHA-----LAPMIADLDERERKIVHWRF----VEELTQAEIGQRLGCSQMHVSRLLS 268 Query: 662 KAIRKLK 668 + +++L+ Sbjct: 269 RTLKRLR 275 >gi|253991200|ref|YP_003042556.1| RNA polymerase factor sigma-32 [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253782650|emb|CAQ85814.1| component of rna polymerase, sigma 32 factor [Photorhabdus asymbiotica] Length = 285 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 59/235 (25%), Positives = 122/235 (51%), Gaps = 13/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKKLILSHLRFVVHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + +T +R+ + E E +AK+L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVAKELGVTSK 166 Query: 562 GVRKV-LKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRET-----T 613 VR++ +++ + ++ + D ++ + + ++ S I+ + E Sbjct: 167 DVREMESRMSAQDMAFDMSADDDNQEGQSVAPVLYLQDKASDFAGGIEEDNWENHAADKL 226 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 227 SVAIEGLDERSQDIIRCRW-LDDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 280 >gi|84502385|ref|ZP_01000521.1| RNA polymerase sigma-70 factor family protein [Oceanicola batsensis HTCC2597] gi|84389197|gb|EAQ01994.1| RNA polymerase sigma-70 factor family protein [Oceanicola batsensis HTCC2597] Length = 249 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 109/225 (48%), Gaps = 32/225 (14%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++ ++ R S+A ++T+ + DL EG IGL++AA+ FD +FSTYA WWV Sbjct: 39 LLRSHARQAWSMAARWTDNPVHLEDLAAEGVIGLIRAADNFDLGQDVRFSTYAAWWVMNG 98 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 ++ + A +I V+ R +++ +E + M ++G+ Sbjct: 99 VSAAAA--------------RIRSVIDVPPRAVTEMRSGRLADEDNTVITMAMQGI---- 140 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA----SLTPR 623 ++L+ P+GD S L + ++P ++A +L + R++A L + Sbjct: 141 ------VALDAPVGDGTHSLLDALVSSD--LTPEETAAAESLHDVQRRLIAKAMSGLNAQ 192 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++R R + TLE++ +TR+R+RQ+E +A+ +L+ Sbjct: 193 EAEIIRRRRLQAV--PETLEDLADAMNMTRDRLRQVERRAMTRLR 235 >gi|118470482|ref|YP_886176.1| RNA polymerase sigma factor SigF [Mycobacterium smegmatis str. MC2 155] gi|25396413|dbj|BAC24795.1| alternative sigma factor SigF [Mycobacterium smegmatis] gi|118171769|gb|ABK72665.1| RNA polymerase sigma-F factor [Mycobacterium smegmatis str. MC2 155] Length = 250 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 68/256 (26%), Positives = 129/256 (50%), Gaps = 24/256 (9%) Query: 425 SEFRHIVSMVRK--GECEASIA----KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGN 478 SE+ ++ M R+ G E S + ++++VE L L +A+++ RG DL+Q Sbjct: 3 SEYADVLDMFRELAGTTEGSPSYVRQREKIVERCLPLADHIARRFDGRGEPREDLVQVAR 62 Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL+ A +FD G F ++A+ + + R D S ++++P +++ ++ Sbjct: 63 VGLVNAVNRFDVEAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGAATAE 122 Query: 539 MSNKIKREPTPEEIAKKLAMP----VEGVRKVLKITKEPISLET-PIGDEDTSHLGDFIE 593 +S ++ R PT E+A +L M VEG+ + + +S+++ GDE+ + D + Sbjct: 123 LSQRLGRAPTASELAHELDMDREEVVEGL--IAGSSYNTLSIDSGGGGDEEAPAIVDTLG 180 Query: 594 DKNAVSPLDSAI-QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D LD + Q + RE+ +LASL RE VL +RF M E VG ++ Sbjct: 181 D------LDMGLDQIDNRESLRPLLASLPERERTVLVLRFFESMTQTQIAERVG----IS 230 Query: 653 RERIRQIEAKAIRKLK 668 + + ++ AK++ +L+ Sbjct: 231 QMHVSRLLAKSLARLR 246 >gi|197287411|ref|YP_002153283.1| RNA polymerase factor sigma-32 [Proteus mirabilis HI4320] gi|227358346|ref|ZP_03842687.1| RNA polymerase sigma-32 factor [Proteus mirabilis ATCC 29906] gi|194684898|emb|CAR47059.1| RNA polymerase sigma-32 factor [Proteus mirabilis HI4320] gi|227161682|gb|EEI46719.1| RNA polymerase sigma-32 factor [Proteus mirabilis ATCC 29906] Length = 284 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 71/277 (25%), Positives = 142/277 (51%), Gaps = 24/277 (8%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E ++E H +G+ EA+ K ++ ++LR VI VA+ Sbjct: 16 IEAYIRAANSYPMLTAEEEKELAERLHY-----EGDLEAA---KTLILSHLRFVIHVARS 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETP 579 + K+ R+ ++ + E +AK+L + VR++ +++ + ++ + Sbjct: 128 TTKSQR--KLFFNLRKNKKRLGWFNQDEVELVAKELGVSESDVREMESRMSAQDMAFDMS 185 Query: 580 IGDEDTSHLGD---FIEDKNAVSPLDSAIQA-----NLRETTTRVLASLTPREERVLRMR 631 D D SH F+EDK+ S I+ + + T + +L R + ++R R Sbjct: 186 ADDSDDSHPVAPVLFLEDKS--SDFADGIEEDNWDNHAADRLTLAIKTLDERSQDIIRAR 243 Query: 632 FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 244 W-LEDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 279 >gi|154484272|ref|ZP_02026720.1| hypothetical protein EUBVEN_01984 [Eubacterium ventriosum ATCC 27560] gi|149734749|gb|EDM50666.1| hypothetical protein EUBVEN_01984 [Eubacterium ventriosum ATCC 27560] Length = 304 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 46/145 (31%), Positives = 84/145 (57%), Gaps = 4/145 (2%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + S++ K +VEANL LV +A+ + +G+ F DLIQEGN+GLM A + +G F ++ Sbjct: 130 DTSVSSK-IVEANLSLVAKIAESHRGKGVNFGDLIQEGNVGLMLAVSDYTESVG-DFHSF 187 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 ++ AI ++ Q + RI H+ DK++++ + +S K+ R P +E+AK + + Sbjct: 188 ISGRIEDAINNTVNVQINSDRIGQHLADKLNRLDEVTKNLSEKLGRVPELDELAKAMNIS 247 Query: 560 VEGVRKVLKITKEPISL--ETPIGD 582 + +LK + + +S+ +T I D Sbjct: 248 KDEASILLKTSLDTLSVNEDTQITD 272 >gi|288555973|ref|YP_003427908.1| sporulation sigma factor SigF [Bacillus pseudofirmus OF4] gi|288547133|gb|ADC51016.1| sporulation sigma factor SigF [Bacillus pseudofirmus OF4] Length = 256 Score = 79.0 bits (193), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 125/246 (50%), Gaps = 19/246 (7%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E + +++ ++G+ +A + +V N RLV SV +++ NRG + DL Q G IGL+K+ Sbjct: 20 EVKELIARSQEGDQQA---RDLIVNRNTRLVWSVVQRFMNRGYEADDLFQIGCIGLIKSV 76 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +KFD KFSTYA+ + I R + D T+++ +++ +K+ + ++ + R Sbjct: 77 DKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSIKELGNKIRKMKDELTKSLGR 135 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDS 603 PT EIA++L + E V + ++ S+ + D D L D I D+ D Sbjct: 136 VPTVNEIAEQLEITPEEVVFAGEASRSLTSIHETVYENDGDPITLLDQIADQTETKWFDK 195 Query: 604 -AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 A++ +R+ L RE ++ +R+ D T EV + +++ ++ ++E K Sbjct: 196 IALKEAIRD--------LDERERLIVFLRY----YKDQTQSEVATRLGISQVQVSRLEKK 243 Query: 663 AIRKLK 668 + ++K Sbjct: 244 ILEQMK 249 >gi|302392368|ref|YP_003828188.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetohalobium arabaticum DSM 5501] gi|302204445|gb|ADL13123.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetohalobium arabaticum DSM 5501] Length = 260 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 118/240 (49%), Gaps = 17/240 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AK+E++ + LV VA + +F DL G IGL+ A E+FD G KFSTYA Sbjct: 24 AKEELMLRFMPLVKYVANRVAINLPDKFEFEDLQNYGIIGLIDAIERFDHRRGMKFSTYA 83 Query: 501 MWWVKQAITRSIADQSCTIR-IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 + I SI DQ + +P +R K +V ++NK+ R PT EEI ++L + Sbjct: 84 I----SRIRGSIIDQLRRLDWVPTTIRRKAKQVAEINSELANKLGRLPTDEEIRQELDLD 139 Query: 560 VEGVRKVLKITKEP--ISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +++ P SL++ I D L + I D++A P + ++ Sbjct: 140 SDEYSQLMSEINIPQETSLDSFINSRQADGVTLIEVIADEDAARPEQTFRYEEIKRILGE 199 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSK 674 + L P+E +V+ + + G+N L E+G+ VT RI Q+ KAI +L+ + SR K Sbjct: 200 AIEKLKPQERKVVTLYYYEGLN----LTEIGEVLEVTTARISQLHTKAIYRLRGYLSRKK 255 >gi|331092383|ref|ZP_08341209.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 2_1_46FAA] gi|330401407|gb|EGG80993.1| RNA polymerase sigma-F factor [Lachnospiraceae bacterium 2_1_46FAA] Length = 237 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/240 (26%), Positives = 118/240 (49%), Gaps = 8/240 (3%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++++++ A+ ++VE N+ LV V K++ RG + DL Q G+IGL+KA +KF Sbjct: 3 HTIALIKRSHKGDEKARTQLVEENVGLVWCVVKRFYGRGTEPEDLFQIGSIGLLKAIDKF 62 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ +K M ++ REPT Sbjct: 63 DLSYDVKFSTYAVPMISGEIKRFLRDDGM-IKVSRSLKELAYKAYLAKEEMKERLNREPT 121 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EE+A+KL + E + L+ E SL PI +D + + ++ + I + Sbjct: 122 VEELAEKLEVEKEELALALESGGEVESLHKPIYQKDGNEI-QLMDKLEEKEEQEEKILNH 180 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + R+ ++ MR+ + T E+GK +++ ++ ++E K + L+ Sbjct: 181 MLLQQLLEQLKKEERQ--LIYMRY----FANKTQSEIGKTMGISQVQVSRLEKKILGYLR 234 >gi|302544852|ref|ZP_07297194.1| putative RNA polymerase sigma factor [Streptomyces hygroscopicus ATCC 53653] gi|302462470|gb|EFL25563.1| putative RNA polymerase sigma factor [Streptomyces himastatinicus ATCC 53653] Length = 315 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 70/288 (24%), Positives = 131/288 (45%), Gaps = 29/288 (10%) Query: 380 DPHWVSYA---------KDFPEGEWKNFVACEVDSILKIRNEIKSISVET-------GIS 423 DP W + A + P+ + + D + ++ + + S ET +S Sbjct: 11 DPSWSTRATVSSAHVPEQFVPDADAQALAGYSFDELTELSDLPEIPSFETVSPVDARALS 70 Query: 424 ISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMK 483 + F I ++ +G E + + +VE NL LV A ++ +R D++Q G IGL+K Sbjct: 71 KTLFERI-EVLEEGTHEYAYVRNTLVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIK 129 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A ++F+ G +F T+AM + I R D S ++R+P +++ + + ++ ++ Sbjct: 130 AIDRFEPGRGVEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRL 189 Query: 544 KREPTPEEIAKKL----AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 R PT E+A++L A VEG+ T + + P D+ L D I + Sbjct: 190 DRAPTVHELAQRLDITTAEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE---- 244 Query: 600 PLDSAIQA-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 D ++ E+ ++A L R++++L +RF M EE+G Sbjct: 245 --DHGLEGIEYVESLKPLIADLPARDKQILSLRFVANMTQSEIGEELG 290 >gi|261341953|ref|ZP_05969811.1| alternative sigma factor RpoH [Enterobacter cancerogenus ATCC 35316] gi|288315861|gb|EFC54799.1| alternative sigma factor RpoH [Enterobacter cancerogenus ATCC 35316] Length = 285 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 126/256 (49%), Gaps = 42/256 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K ++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KTLILSHLRFVVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVA 158 Query: 554 KKLAMPVEGVRKV-----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN 596 ++L + + VR++ +P++ + D+ TS+ D IE+ N Sbjct: 159 RELGVSSKDVREMESRMAAQDMTFDMSSDDDASDSQPMAPVLYLQDK-TSNFADGIEEDN 217 Query: 597 ----AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 A + L A++ L R + ++R R+ + + TL+E+ ++ V+ Sbjct: 218 WEDQAANKLSFAMEG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVS 264 Query: 653 RERIRQIEAKAIRKLK 668 ER+RQ+E A++KL+ Sbjct: 265 AERVRQLEKNAMKKLR 280 >gi|161829709|ref|YP_001597727.1| RNA polymerase factor sigma-32 [Coxiella burnetii RSA 331] gi|161761576|gb|ABX77218.1| alternative sigma factor RpoH [Coxiella burnetii RSA 331] Length = 288 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 117/236 (49%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 51 AARKLVLSHLRFVVRIARGYSGYGLSQADLIQEGNIGLMKAVKRFDPQVGVRLVSFAVHW 110 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVE 561 ++ I I ++I + K+ R+ + K E +A++L + + Sbjct: 111 IRAEIHEFILKNWRIVKIATTKAQR--KLFFNLRKHAKKRGWFSDHEAFALAEELNVSTK 168 Query: 562 GVRKV---LKITKEPISLETPIGDEDTSHLG---DFIEDK--NAVSPLDSAIQANLRETT 613 VR++ L E D T G ++EDK N L+ + A+ +E Sbjct: 169 DVRQMEERLNSYDEAFDGADEESDSGTPSWGAPAHYLEDKRYNPALQLERSNWADDQEHR 228 Query: 614 TR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + S+ R +L R+ + TL E+ Q+ V+ ERIRQ+E A++K++ Sbjct: 229 LHNAMQSMDDRSRDILYQRWLSEKKS--TLHELAAQYSVSAERIRQLEKNAMQKIR 282 >gi|329941096|ref|ZP_08290375.1| SigL-like sigma factor [Streptomyces griseoaurantiacus M045] gi|329299627|gb|EGG43526.1| SigL-like sigma factor [Streptomyces griseoaurantiacus M045] Length = 319 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/254 (24%), Positives = 122/254 (48%), Gaps = 19/254 (7%) Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 +S + F+ + S+ +G E + + +VE NL LV A ++ R D+IQ G IG Sbjct: 72 ALSKTLFQRLESL-EEGTYEHAYVRHTLVELNLALVKFAAARFRTRSEPMEDIIQVGTIG 130 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 L+KA ++F+ G +F T+AM + I R D S ++R+P +++ + + ++ Sbjct: 131 LIKAIDRFELSRGVEFPTFAMPTIIGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELA 190 Query: 541 NKIKREPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFI--ED 594 ++ R PT E+A +L + VEG+ T + + P D+ L D I ED Sbjct: 191 QQLDRAPTVTELADRLGLSNEEVVEGMVASNAYTASSLDAQ-PEEDDSEGALADRIGYED 249 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 E+ ++A L R+ ++L +RF M T E+G++ +++ Sbjct: 250 HELEG-------VEYVESLKPLIAGLPQRDRKILSLRFVANM----TQSEIGEELGISQM 298 Query: 655 RIRQIEAKAIRKLK 668 + ++ ++ + +L+ Sbjct: 299 HVSRLLSRTLVRLR 312 >gi|77359323|ref|YP_338898.1| RNA polymerase factor sigma-32 [Pseudoalteromonas haloplanktis TAC125] gi|76874234|emb|CAI85455.1| RNA polymerase sigma-32 factor (Heat shock regulatory protein F33.4) [Pseudoalteromonas haloplanktis TAC125] Length = 287 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 60/234 (25%), Positives = 122/234 (52%), Gaps = 11/234 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR V +AK Y+ GL DLIQEGNIGLMKA ++F+ +G + ++A+ W Sbjct: 52 AAKQLIMSHLRFVAHIAKGYSGYGLPQADLIQEGNIGLMKAVKRFNPEVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K I + +++ R + + +R+ + E + +A +L + + Sbjct: 112 IKAEIHEFVLKNWRIVKVATTKAQRKLFFNLRKNKKRLGWFNQAEVST--VASELGVSEK 169 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHLG-----DFIEDKNAVSPLDSAIQANLRETTTR 615 VR++ +++ + + + D+D++ ++ D A D Q ++ TR Sbjct: 170 EVREMESRMSGQDMGFDLTGDDDDSAPSSTYSPVQYLTDGTADLADDIEQQQWQEQSHTR 229 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++L +ER + + D TL+E+ +++ V+ ER+RQ+E A++KL+ Sbjct: 230 LFSALKTLDERSQDIVSARWLTDDKATLQELAEKYSVSAERVRQLEKTAMKKLQ 283 >gi|289207353|ref|YP_003459419.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. K90mix] gi|288942984|gb|ADC70683.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. K90mix] Length = 289 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 62/236 (26%), Positives = 115/236 (48%), Gaps = 15/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ NLR V+ VA+ Y GL DLIQEGN+GLMKA +FD G + ++A+ W Sbjct: 53 AARQLILHNLRFVVHVARGYQGYGLPLGDLIQEGNVGLMKAVRRFDPNQGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R+A++ + + +A+ L + Sbjct: 113 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKQRLGWMSNDEV-SAVARDLGVSEND 171 Query: 563 VRKV-LKITKEPISLE-TPIGDEDTSHLG--------DFIEDKNAVSPLDSAIQANLRET 612 V ++ +++ + S + P D++ ++L D +D V+ D + +E Sbjct: 172 VWEMERRLSSQDASFDPAPDSDDEHTYLAPAQRLSIEDMSDDPAQVAE-DEDWDRHYQER 230 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQIE AI++++ Sbjct: 231 LASTLGELDERSRDILARRY--MSEPKATLHELAAEYGVSAERIRQIENNAIKRIR 284 >gi|229593148|ref|YP_002875267.1| RNA polymerase factor sigma-32 [Pseudomonas fluorescens SBW25] gi|312963636|ref|ZP_07778117.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens WH6] gi|229365014|emb|CAY53168.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] gi|311282145|gb|EFQ60745.1| RNA polymerase sigma-32 factor [Pseudomonas fluorescens WH6] Length = 284 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 115/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A D+ N Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDADWSDNSNHNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALEVLDDRSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|133478|sp|P12254|RPSK_BACSU RecName: Full=RNA polymerase sigma-K factor; AltName: Full=Sigma-27; AltName: Full=Stage IV sporulation protein CB; Flags: Precursor Length = 294 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 66/237 (27%), Positives = 112/237 (47%), Gaps = 20/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+K E + G K +TYA Sbjct: 51 ARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKGIESYSAGKGTKLATYAARC 110 Query: 504 VKQ--AITRSIADQSCTIR-----IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 ++ IT+ IR + +H + H V + K P + ++ Sbjct: 111 IENEIVITKGGCIHPSLIRFNIYGVRIHNGNFFHDKVNNCFFI---FKSMPPLFVMNNEI 167 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSH---LGDFIEDKNAVSPLDSAIQANLR-ET 612 M + ++K TK+ +SL PIG + + L D ++ +N + IQ N+ E Sbjct: 168 LMHLRALKK----TKKDVSLHDPIGQDKEGNEISLIDVLKSEN--EDVIDTIQLNMELEK 221 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + + L RE+ V+ RFG+ + + T E+ K+ ++R + +IE +A+ K+ H Sbjct: 222 VKQYIDILDDREKEVIVGRFGLDLKKEKTQREIAKELGISRSYVSRIEKRALMKMFH 278 >gi|307131576|ref|YP_003883592.1| RNA polymerase sigma-28 (sigma F) factor [Dickeya dadantii 3937] gi|306529105|gb|ADM99035.1| RNA polymerase, sigma 28 (sigma F) factor [Dickeya dadantii 3937] Length = 240 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ + R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQAEQSLGRAPTEQEVAQTLNISLEEYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL+ + NLR+ + SL RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEEANPLNQLMDVNLRQRVMDAIESLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|297202660|ref|ZP_06920057.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] gi|197713235|gb|EDY57269.1| RNA polymerase sigma-G factor [Streptomyces sviceus ATCC 29083] Length = 280 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/218 (29%), Positives = 102/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDLDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A +L + V+ + V +SL + E+ H+G Sbjct: 134 VERAYATLEARLRRTPTEGEVAGELGIAVDDLHAVFS----QLSLANVVALEELLHVGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGDGLSFMDTLEDPAADNPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 278 >gi|312139980|ref|YP_004007316.1| sigma-70 factor sigf [Rhodococcus equi 103S] gi|311889319|emb|CBH48635.1| sigma-70 factor SigF [Rhodococcus equi 103S] Length = 259 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 114/229 (49%), Gaps = 15/229 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ ++ L L +A+++ RG F DL+Q +IGL+ A +++D G F +A+ + Sbjct: 36 RESIITRCLPLAQHIARRFDRRGEPFEDLVQVASIGLVNAVDRYDVERGSDFLAFAVPTI 95 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D +R+P +++ +V+T+ ++S ++ R PT E+A++L + VE V Sbjct: 96 MGEVRRHFRDTGWAVRVPRRLKELHLDLVKTSAQLSQRLGRSPTTREMAEELGIEVEEVA 155 Query: 565 KVLKITK--EPISLETPIGD-EDT-SHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS 619 + L+ + +S++ G DT S LGD + D DS I ET VL Sbjct: 156 QGLQAANGYQALSVDAAAGSGPDTGSTLGDLLGDN------DSDIAGVEDHETLRVVLEG 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE VL +RF + T ++ V++ + +I + + +L+ Sbjct: 210 LPERERTVLLLRF----FGNQTQSQIAAHVGVSQMHVSRILSDTLARLR 254 >gi|311279128|ref|YP_003941359.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Enterobacter cloacae SCF1] gi|308748323|gb|ADO48075.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Enterobacter cloacae SCF1] Length = 243 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 101/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + VE R++L T DE GD Sbjct: 100 VAQAMGQLEQELGRNATETEVAQRLGIAVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL +++NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTEENQQENPLHQLMESNLRQRVIEAIEALPEREQLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLDVGESRVSQLHSQAIKRLR 233 >gi|320012478|gb|ADW07328.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces flavogriseus ATCC 33331] Length = 290 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 117/242 (48%), Gaps = 19/242 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGY 494 +G E A+ ++E NL LV A ++ NRG + D++Q G IGL+KA ++FD Sbjct: 50 EGTPEHQYARNTLIEMNLSLVRFAAGRFRNRGSGDMEDIVQVGTIGLIKAIDRFDLAREV 109 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F+++A+ ++ I R D + + +P +++ + + ++ ++ R+PT +E+A Sbjct: 110 EFTSFAVPYIVGEIKRFFRDTTWAVHVPRRLQELRVDLAKAKEALAVELDRDPTVQELAG 169 Query: 555 KLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL---DSAIQA 607 L + EG+ T + + GD H G + L D A++ Sbjct: 170 YLDLEEEEITEGLVAANGYTAGSLEMPADAGD----HAGRTTAGRTYADVLGEPDPAMET 225 Query: 608 --NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 NL +L L RE R++ MRFG M T ++G + +++ + ++ ++ +R Sbjct: 226 VENLHALAP-LLGELDARERRIIDMRFGQEM----TQAQIGDELGISQMHVSRLLSRILR 280 Query: 666 KL 667 KL Sbjct: 281 KL 282 >gi|239928675|ref|ZP_04685628.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] gi|291436999|ref|ZP_06576389.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] gi|291339894|gb|EFE66850.1| RNA polymerase sigma factor WhiG [Streptomyces ghanaensis ATCC 14672] Length = 280 Score = 78.6 bits (192), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/218 (29%), Positives = 102/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGIFGLIDAIEKFDVDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A +L + VE + V +SL + E+ H+G Sbjct: 134 VERAYATLEARLRRTPSESEVAGELGIAVEELHAVFS----QLSLANVVALEELLHVGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGDRLSLMDTLEDTAADNPVEVAEDRELRRFLVRAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 278 >gi|307243397|ref|ZP_07525554.1| putative RNA polymerase sigma-B factor [Peptostreptococcus stomatis DSM 17678] gi|306493207|gb|EFM65203.1| putative RNA polymerase sigma-B factor [Peptostreptococcus stomatis DSM 17678] Length = 257 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/216 (26%), Positives = 109/216 (50%), Gaps = 19/216 (8%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E +L L +++KY N+G+ + DL Q ++ L+ A +++D G++FS++A + Sbjct: 34 LIEKHLYLAKILSRKYMNKGVDYEDLYQVASLALIYAIDRYDISKGFEFSSFATPTIVGE 93 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ T+R+P +++ K+ + +++R PTP EIA L + E V + + Sbjct: 94 IKKYFRDKVWTLRVPRRIQELSKKISNAKVYLEQELRRSPTPSEIAGYLDITEEEVLEAM 153 Query: 568 KIT--KEPISLETPIGDEDTSH---LGDFI--EDKNA--VSPLDSAIQANLRETTTRVLA 618 + + +P+SL+TP D+ LGD + E+KN + +D + Sbjct: 154 EASYGYQPVSLDTPSNDDSEDKDMTLGDRVGTEEKNFRHIEEMD---------FINHFMK 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 +L E +++R RF EE+G Q V+R Sbjct: 205 TLNELEVQIIRGRFFDNKTQSVIAEELGISQMTVSR 240 >gi|240851254|ref|YP_002972657.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] gi|240268377|gb|ACS51965.1| RNA polymerase sigma-32 factor [Bartonella grahamii as4aup] Length = 303 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 65/243 (26%), Positives = 117/243 (48%), Gaps = 27/243 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ ++ + IA+KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLIQDDSALSKQDIFRTIAEKL 173 Query: 557 AMPVEGVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + V V + + D + + ++D SPL A+ + + Sbjct: 174 GVSVRDVETMDFRFSSSDNSLSVSVSENSDNPIAKMDVLVDD----SPLPDALIEQVIDG 229 Query: 613 TTRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIR 665 R L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A++ Sbjct: 230 QRRTQWLYDALQILNERELEIIRFR---RLNEEGATLEVLGEKLGISKERVRQIEARALQ 286 Query: 666 KLK 668 KL+ Sbjct: 287 KLR 289 >gi|145225367|ref|YP_001136045.1| RNA polymerase sigma factor SigF [Mycobacterium gilvum PYR-GCK] gi|145217853|gb|ABP47257.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium gilvum PYR-GCK] Length = 262 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 114/246 (46%), Gaps = 14/246 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G + +VE L L +A+++ RG DL+Q +GL+ A Sbjct: 23 FRELAEL-EEGSAAFQRQRDRIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVI 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G F ++A+ + + R D S ++++P +++ ++ +S ++ R Sbjct: 82 RFDVTAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGAATAELSQRLGRA 141 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 PTP E+A +L M VEG+ I G+ED + D + D + LD Sbjct: 142 PTPSELAAELEMDRDEVVEGLVAGSSYNTLSIDSGGGSGNEDAPAIADTLGDVDLT--LD 199 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 Q RE +LA+L RE VL +RF M E VG +++ + ++ AK Sbjct: 200 ---QIENREALRPLLAALPERERTVLVLRFFESMTQTQIAERVG----ISQMHVSRLLAK 252 Query: 663 AIRKLK 668 ++ +L+ Sbjct: 253 SLTRLR 258 >gi|188589198|ref|YP_001920238.1| sporulation sigma factor SigF [Clostridium botulinum E3 str. Alaska E43] gi|251778416|ref|ZP_04821336.1| RNA polymerase sigma-F factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|188499479|gb|ACD52615.1| RNA polymerase sigma-F factor [Clostridium botulinum E3 str. Alaska E43] gi|243082731|gb|EES48621.1| RNA polymerase sigma-F factor [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 251 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 67/246 (27%), Positives = 119/246 (48%), Gaps = 23/246 (9%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 ++ + + G+ EA ++E NL LV S++KK+ NRG + D+ Q G+IGL+KA F Sbjct: 18 QLLPLAKDGDTEAM---NRLIEMNLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNF 74 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ ++ T ++ K+ R PT Sbjct: 75 DLSYNVKFSTYAVPMIIGEIKRFLRDDGM-IKVSRNVKSLAKRIHFTKEELTKKLNRSPT 133 Query: 549 PEEIAKKLAMPVEGVRK--VLKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLD 602 EE+A+ GV K ++ + SL+ DT H D + DK + D Sbjct: 134 IEELAE-----YSGVDKEEIIFAIESATSLQYLY---DTIHQDDGAPVLLIDKLSEKGED 185 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 N + L SL + +++ +R+ D T +V K +++ ++ +IE K Sbjct: 186 DIGMIN-KIALKEALRSLDEKARQIIVLRYF----KDKTQVQVAKLLGISQVQVSRIEKK 240 Query: 663 AIRKLK 668 + K++ Sbjct: 241 VLLKMR 246 >gi|313637835|gb|EFS03172.1| RNA polymerase sigma factor RpoD [Listeria seeligeri FSL S4-171] Length = 56 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 38/55 (69%), Positives = 46/55 (83%) Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLD 681 VLR+RFG+ TLEEVG+ F VTRERIRQIEAKA+RKL+HPSRSK+L+ FL+ Sbjct: 2 VLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 56 >gi|282864142|ref|ZP_06273199.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561220|gb|EFB66765.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 290 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 56/245 (22%), Positives = 118/245 (48%), Gaps = 13/245 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFD 489 + ++ +G E A+ ++E NL LV A ++ +RG + D++Q G +GL+KA ++FD Sbjct: 45 LQLLDEGTPEHQYARNTLIEMNLSLVRFAAGRFRSRGSGDMEDIVQVGTVGLIKAIDRFD 104 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D + ++ +P +++ + R ++ + R+PT Sbjct: 105 LAREVEFTSFAVPYIVGEIKRFFRDTTWSVHVPRRLQELRVDLARAKETLAVGLDRDPTV 164 Query: 550 EEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDS 603 +E+A L + +G+ T + + GD G F + P Sbjct: 165 QELAAHLGLDEQEVTDGIVAANGYTAGSLDMPAEAGDPAGRATGGRTFADVLGEPDPAME 224 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 ++ NL +L L RE R++ MRFG + T ++G + +++ + ++ + Sbjct: 225 TVE-NLHALAP-LLEDLDARERRIIEMRFG----QELTQAQIGDELGISQMHVSRLLGRT 278 Query: 664 IRKLK 668 +RKL+ Sbjct: 279 LRKLR 283 >gi|296120653|ref|YP_003628431.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] gi|296012993|gb|ADG66232.1| RNA polymerase sigma factor, sigma-70 family [Planctomyces limnophilus DSM 3776] Length = 558 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 32/75 (42%), Positives = 52/75 (69%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 K ++ +NLRLV+S+AKK+++ F ++I +GN+ L+KA EKFD+ G+KFSTYA W + Sbjct: 380 KNFLIRSNLRLVVSIAKKHSHPTANFFEMISDGNMSLIKAIEKFDYTRGFKFSTYASWAI 439 Query: 505 KQAITRSIADQSCTI 519 + RSI ++ + Sbjct: 440 MKNFARSIPAENTRL 454 Score = 50.8 bits (120), Expect = 8e-04, Method: Compositional matrix adjust. Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 1/76 (1%) Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIE 660 D + RE +L L RE ++ R+G+ TLE+VG + VT+ERIRQIE Sbjct: 478 DEIVNYRQREALMGILGQLELRERDIIMHRYGLETGQQPQTLEQVGHRLGVTKERIRQIE 537 Query: 661 AKAIRKLKHPSRSKKL 676 A+A++KLK + ++L Sbjct: 538 ARALKKLKRIATDERL 553 >gi|291300290|ref|YP_003511568.1| Sig B/F/G subfamily RNA polymerase sigma-28 subunit [Stackebrandtia nassauensis DSM 44728] gi|290569510|gb|ADD42475.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Stackebrandtia nassauensis DSM 44728] Length = 267 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/212 (27%), Positives = 100/212 (47%), Gaps = 8/212 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +V+ L L +A+++ +RG DL Q +GL+ A + F G F+ +A+ + Sbjct: 46 RNTVVQRALPLADRLARRFEHRGQPLEDLTQVARLGLINAVDNFKCGRGGGFTHFAVPSI 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D+ +R+P +++ ++ +S ++ R PT E+ A+ L+MPVE VR Sbjct: 106 LGELKRHFRDKGWLVRVPRRLQETRLAFNEASKDLSQRLGRSPTLEDYAEYLSMPVEQVR 165 Query: 565 KVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + E +SL TP E + L D + + + A R + LTP Sbjct: 166 AGINCVGAYEGVSLHTPAHRESSEELIDSLGGSDP-----AMASAEARMLLRPAIKELTP 220 Query: 623 REERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE R+L +RF ++ EVG Q V+R Sbjct: 221 RECRILSLRFVDDLHQSEIAREVGLSQMHVSR 252 >gi|328880412|emb|CCA53651.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 283 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 57/258 (22%), Positives = 128/258 (49%), Gaps = 34/258 (13%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 F ++++ +G E A+ ++E N+ LV A ++ +RG + D++Q G IGL+KA + Sbjct: 39 FFQELTVLEEGTHEYQYARNTLIEMNMSLVRYAAGRFRHRGDEMEDIVQVGMIGLIKAID 98 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +F+ +F+T+A+ ++ I R D S + +P +++ ++ + +S ++ R Sbjct: 99 RFELSREVEFTTFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVELAKATEELSTRLGRT 158 Query: 547 PTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDED---TSHLGDFI--------- 592 PT +E+A+ +++ E V ++ SL+ + E+ + L DFI Sbjct: 159 PTSKELAELMSLTEEEVNEARLASNGYHSSSLDAALSGENEDSEASLADFIGSEDPAMEL 218 Query: 593 -EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 ED +A++PL +A L R+ +++ +RF + T ++G++ Sbjct: 219 VEDFHALAPL---------------IAELDERDRQIIHLRF----VEELTQAQIGERLGC 259 Query: 652 TRERIRQIEAKAIRKLKH 669 ++ + ++ ++ I+ L+ Sbjct: 260 SQMHVSRLLSRTIKSLRQ 277 >gi|300722632|ref|YP_003711922.1| sigma F (sigma 28) factor of RNA polymerase [Xenorhabdus nematophila ATCC 19061] gi|297629139|emb|CBJ89735.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Xenorhabdus nematophila ATCC 19061] Length = 240 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 104/203 (51%), Gaps = 18/203 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERFDSMQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---- 587 V +T R++ ++ R + +E+AK+L + + R++L T + + D H Sbjct: 100 VTQTIRKLEQELGRPASEQEVAKELKINLIEYRQILLDTN-----NSQLFSYDEWHEIHG 154 Query: 588 --LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 IE+++ +PL ++ +LR+ ++ SL RE+ VL + + +N L+E+ Sbjct: 155 ESCEPVIEEEHETNPLQQLLEGDLRQRVINIIESLPEREKMVLTLYYQEELN----LKEI 210 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G V R+ Q+ ++AI++L+ Sbjct: 211 GAVLNVGESRVSQLHSQAIKRLR 233 >gi|326781290|ref|ZP_08240555.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|326661623|gb|EGE46469.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 290 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 61/249 (24%), Positives = 124/249 (49%), Gaps = 16/249 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAA 485 F + ++ +G A+ ++E NL LV AK++ NRG + D++Q G IGL+KA Sbjct: 44 FFERLQVLEEGTHAYQYARNTLIEMNLSLVHFAAKRFRNRGSGEMEDIVQVGTIGLIKAI 103 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D + + +P +++ + + ++ ++ R Sbjct: 104 DRFELSREVEFTSFAIPYIVGEIKRFFRDSTWAVHVPRRLQELRVTLAKAKEELAGRLDR 163 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 +PT E+A L + +EG+ T SL+ PIG E S + I + L Sbjct: 164 DPTVGELAAHLGLTDEEVIEGLIASNGYTAG--SLDLPIGTEQNS--AETITYGDIKGDL 219 Query: 602 DSAIQA--NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 D AI+ NL +L L R+ ++ MRFG + T ++G++ +++ + ++ Sbjct: 220 DPAIELVENLHALAP-LLEGLGDRDREIVAMRFG----QELTQAQIGERLGISQMHVSRL 274 Query: 660 EAKAIRKLK 668 + + +L+ Sbjct: 275 LNRLLTQLR 283 >gi|325674546|ref|ZP_08154234.1| RNA polymerase sigma-F factor [Rhodococcus equi ATCC 33707] gi|325554806|gb|EGD24480.1| RNA polymerase sigma-F factor [Rhodococcus equi ATCC 33707] Length = 259 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 61/229 (26%), Positives = 114/229 (49%), Gaps = 15/229 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ ++ L L +A+++ RG F DL+Q +IGL+ A +++D G F +A+ + Sbjct: 36 RESIITRCLPLAEHIARRFDRRGEPFEDLVQVASIGLVNAVDRYDVERGSDFLAFAVPTI 95 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D +R+P +++ +V+T+ ++S ++ R PT E+A++L + VE V Sbjct: 96 MGEVRRHFRDTGWAVRVPRRLKELHLDLVKTSAQLSQRLGRSPTTREMAEELGIEVEEVA 155 Query: 565 KVLKITK--EPISLETPIGD-EDT-SHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS 619 + L+ + +S++ G DT S LGD + D DS I ET VL Sbjct: 156 QGLQAANGYQALSVDAAAGSGPDTGSTLGDLLGDN------DSDIAGVEDHETLRVVLEG 209 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE VL +RF + T ++ V++ + +I + + +L+ Sbjct: 210 LPERERTVLLLRF----FGNQTQSQIAAHVGVSQMHVSRILSDTLARLR 254 >gi|282861385|ref|ZP_06270450.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces sp. ACTE] gi|282564043|gb|EFB69580.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces sp. ACTE] Length = 278 Score = 78.6 bits (192), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDLERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + +E + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPTEAEVAAEMGIALEELHSVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADNPVEIAEDRELRRMLARAINTLPEREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|331091330|ref|ZP_08340170.1| hypothetical protein HMPREF9477_00813 [Lachnospiraceae bacterium 2_1_46FAA] gi|330404491|gb|EGG84035.1| hypothetical protein HMPREF9477_00813 [Lachnospiraceae bacterium 2_1_46FAA] Length = 206 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 68/250 (27%), Positives = 112/250 (44%), Gaps = 58/250 (23%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 ++ SE R+ + +G+ EA K ++E NLRLV + KKY + DL+ G IGL Sbjct: 8 LTASEERYYLQKYTEGDLEA---KHILIERNLRLVAHIVKKYQHLDEDPEDLLSIGTIGL 64 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA F+ G + +TYA AR + N Sbjct: 65 IKAVSTFNLEKGNRLATYA-----------------------------------ARCIEN 89 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDE---DTSHLGDFIEDKNAV 598 +I M + G +K T + +SL PIG + + L D IE Sbjct: 90 EI-------------LMMLRGKKK----TSKEVSLYEPIGTDREGNEIQLFDVIESDEED 132 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 +P A++ +++ +V + L+PRE VL+MR+G+ ++T E+ +Q ++R + + Sbjct: 133 APSKVALKDDIKMLYEKVSSELSPRERLVLKMRYGLYEGEEYTQREIARQLGISRSYVSR 192 Query: 659 IEAKAIRKLK 668 IE AI KL+ Sbjct: 193 IEKSAIEKLR 202 >gi|5327289|emb|CAB46360.1| FliA, sigma 28 [Xenorhabdus nematophila] gi|139522465|gb|ABO77651.1| FliA [Xenorhabdus nematophila] Length = 230 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 54/203 (26%), Positives = 104/203 (51%), Gaps = 18/203 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + P +R + Sbjct: 33 DLLQAGGIGLLNAVERFDSMQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---- 587 V +T R++ ++ R + +E+AK+L + + R++L T + + D H Sbjct: 90 VTQTIRKLEQELGRPASEQEVAKELKINLIEYRQILLDTN-----NSQLFSYDEWHEIHG 144 Query: 588 --LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 IE+++ +PL ++ +LR+ ++ SL RE+ VL + + +N L+E+ Sbjct: 145 ESCEPVIEEEHETNPLQQLLEGDLRQRVINIIESLPEREKMVLTLYYQEELN----LKEI 200 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G V R+ Q+ ++AI++L+ Sbjct: 201 GAVLNVGESRVSQLHSQAIKRLR 223 >gi|302537203|ref|ZP_07289545.1| RNA polymerase sigma-G factor [Streptomyces sp. C] gi|302446098|gb|EFL17914.1| RNA polymerase sigma-G factor [Streptomyces sp. C] Length = 278 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 60/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + VE + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPTEGEVAGEMGIAVEELHTVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|284992377|ref|YP_003410931.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geodermatophilus obscurus DSM 43160] gi|284065622|gb|ADB76560.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geodermatophilus obscurus DSM 43160] Length = 266 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 102/201 (50%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+ G GL+ A ++ KF +YAM ++ AI I + T IP +R K + Sbjct: 66 DLVSYGTFGLIDAITRYQPSREVKFESYAMARIRGAI---IDELRSTDWIPRSVRMKARQ 122 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDED--TSH 587 RT + ++++R P+ EE+A ++ M VE VRK L ++L+ + D++ Sbjct: 123 FERTVALLESRLQRSPSEEEVAAEMDMDVEDVRKFLGQLSLVNVVALDELLSDDEGGAPR 182 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L D ++D +A+ P A + R+ R + L RE+ V+ + + G+ TL ++G+ Sbjct: 183 LVDTLQDTSALDPQAMAEHSEARQLLARAVEQLPEREKVVVSLYYFEGL----TLADIGR 238 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 VT RI Q+ KA+ L+ Sbjct: 239 VLGVTESRICQLHTKAVLHLR 259 >gi|167036147|ref|YP_001671378.1| RNA polymerase factor sigma-32 [Pseudomonas putida GB-1] gi|166862635|gb|ABZ01043.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida GB-1] Length = 284 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSASNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDERSRDILYQRW--LAEEKATLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|17231345|ref|NP_487893.1| RNA polymerase sigma factor SigF [Nostoc sp. PCC 7120] gi|17132987|dbj|BAB75552.1| group 3 sigma 37-type sigma factor [Nostoc sp. PCC 7120] Length = 258 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/231 (25%), Positives = 112/231 (48%), Gaps = 12/231 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + ++V+ NL LV A + N+ + + DL+Q G +GL++A E+F+ G+ FS++A+ Sbjct: 28 VRNQLVKLNLGLVRKEAHYWMNQCRENYDDLVQVGCLGLIRAIERFEIAKGHAFSSFAIP 87 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +++ I + D+ T+RIP + + +R + + R+PT E+A L + + Sbjct: 88 YIRGEIQHYLRDKGVTVRIPRRYLAIQQRAIGVSRSLREQYNRQPTDSELATALEISPDE 147 Query: 563 VR--KVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + K+ + + P+SL+ P+ G+E + LG+ + D + S A + +R + L Sbjct: 148 WQEIKLAWVNRAPLSLDVPVQDGEEGATSLGELVPDHHYRS-FQLAQEDQIR--LQQALF 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L R VL F + E +G R++ K + LKH Sbjct: 205 QLEQRTREVLECVFLQDLTQKQVAEHLGISVVTVSRRVK----KGLDLLKH 251 >gi|237731968|ref|ZP_04562449.1| flagellar biosynthesis sigma factor [Citrobacter sp. 30_2] gi|226907507|gb|EEH93425.1| flagellar biosynthesis sigma factor [Citrobacter sp. 30_2] Length = 239 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 101/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A +LA+PV+ R++L T DE GD Sbjct: 100 VAQAMGQLEQELGRNATETEVAARLAIPVQEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTEEHQQENPLQQLLEGNLRQRVMDAIEALPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|195940831|ref|ZP_03086213.1| RNA polymerase factor sigma-32 [Escherichia coli O157:H7 str. EC4024] gi|1710645|sp|P50508|RP32_ENTCL RecName: Full=RNA polymerase sigma-32 factor gi|1143326|dbj|BAA09440.1| sigma-32 homolog [Enterobacter cloacae] gi|295097059|emb|CBK86149.1| RNA polymerase, sigma 32 subunit, RpoH [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 285 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 126/256 (49%), Gaps = 42/256 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ EA+ K ++ ++LR V+ VA+ Y GL DLIQEGNIGLMKA +F+ +G + Sbjct: 44 QGDLEAA---KTLILSHLRFVVHVARNYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVR 100 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 ++A+ W+K I + +++ R + +T +R+ + E E +A Sbjct: 101 LVSFAVHWIKAEIHEYVLRNWRIVKVATTKAQRKLFFNLRKTKQRLGWFNQDE--VEMVA 158 Query: 554 KKLAMPVEGVRKV-----------------LKITKEPISLETPIGDEDTSHLGDFIEDKN 596 ++L + + VR++ +P++ + D+ TS+ D IE+ N Sbjct: 159 RELGVSSKDVREMESRMAAQDMTFDMSADDDASDSQPMAPVLYLQDK-TSNFADGIEEDN 217 Query: 597 ----AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 A + L A++ L R + ++R R+ + + TL+E+ ++ V+ Sbjct: 218 WEDQAANKLTFAMEG------------LDERSQDIIRARW-LDEDNKSTLQELADRYGVS 264 Query: 653 RERIRQIEAKAIRKLK 668 ER+RQ+E A++KL+ Sbjct: 265 AERVRQLEKNAMKKLR 280 >gi|148550183|ref|YP_001270285.1| RNA polymerase factor sigma-32 [Pseudomonas putida F1] gi|148514241|gb|ABQ81101.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida F1] Length = 284 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDERSRDILYQRWLAEEKA--TLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|26991784|ref|NP_747209.1| RNA polymerase factor sigma-32 [Pseudomonas putida KT2440] gi|8885996|gb|AAF80334.1|AF157048_1 heat shock sigma factor RpoH [Pseudomonas putida] gi|24986895|gb|AAN70673.1|AE016711_1 RNA polymerase sigma-32 factor [Pseudomonas putida KT2440] Length = 284 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDERSRDILYQRWLAEEKA--TLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|302532223|ref|ZP_07284565.1| RNA polymerase sigma-F factor [Streptomyces sp. C] gi|302441118|gb|EFL12934.1| RNA polymerase sigma-F factor [Streptomyces sp. C] Length = 307 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 65/258 (25%), Positives = 121/258 (46%), Gaps = 46/258 (17%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNR----GLQFLDLIQEGNIGLMKAAEKFDWC 491 +G E A+ ++E NL LV A+++ R GL D+IQ G IGL+KA ++FD Sbjct: 65 EGTREYQYARNTLIEMNLSLVHYAARRFRARVSGGGLDMDDVIQVGTIGLIKAIDRFDLD 124 Query: 492 LGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE 551 +FST A+ ++ I R D + + +P +++ ++ + ++ + R PT +E Sbjct: 125 REVEFSTLALPYITGEIKRHFRDTTWAVHVPRRLQELRSELAKAQESLTEALHRAPTVKE 184 Query: 552 IAKKLAMPVEGVRKVL--------------------KITKEPI-SLETPIGDEDTSHLGD 590 +A+ L + E V L + T P +L +G+ D + + Sbjct: 185 VAQHLGLSEEEVIDGLVAANGYTSGSLDTADEAEEARGTGRPARALAEKLGESDPAM--E 242 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 ED + ++PL LRE L PRE +L MRFG + T E+G + Sbjct: 243 LFEDFHTLAPL-------LRE--------LQPRERLILSMRFG----QEKTQAEIGAELH 283 Query: 651 VTRERIRQIEAKAIRKLK 668 +++ ++ ++ ++ + +L+ Sbjct: 284 ISQMQVSRLLSRTLARLR 301 >gi|317492397|ref|ZP_07950826.1| FliA/WhiG family RNA polymerase sigma factor [Enterobacteriaceae bacterium 9_2_54FAA] gi|316919736|gb|EFV41066.1| FliA/WhiG family RNA polymerase sigma factor [Enterobacteriaceae bacterium 9_2_54FAA] Length = 240 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 64/243 (26%), Positives = 116/243 (47%), Gaps = 45/243 (18%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + + E + +RL SV + DL+Q G IGL+ A E++D G F+TYA Sbjct: 21 APLVRHEALRLQVRLPASV---------ELDDLLQAGGIGLLHAVERYDAMQGTAFTTYA 71 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 + ++ A+ + + +P +R +V +R ++ R PT EIA++L MP+ Sbjct: 72 VQRIRGAMLDELRSRDW---VPRSVRRNAREVSAAMQRAEQRLHRAPTETEIAQELDMPL 128 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHL----------GD-----FIEDKNAVSPLDSAI 605 +++L D +TSHL GD F + ++A +PL + Sbjct: 129 VEYQQILL-------------DTNTSHLFSYDEWREEHGDSAEPVFQQHEDA-NPLKQLL 174 Query: 606 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + +LR+ + +L RE+ VL + + +N L+E+G V R+ Q+ ++AI+ Sbjct: 175 EGDLRQRVIAAIEALPEREKLVLTLYYQEELN----LKEIGAVLEVGESRVSQLHSQAIK 230 Query: 666 KLK 668 +L+ Sbjct: 231 RLR 233 >gi|325275633|ref|ZP_08141532.1| RNA polymerase factor sigma-32 [Pseudomonas sp. TJI-51] gi|313501084|gb|ADR62450.1| RpoH [Pseudomonas putida BIRD-1] gi|324099220|gb|EGB97167.1| RNA polymerase factor sigma-32 [Pseudomonas sp. TJI-51] Length = 284 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDERSRDILYQRWLAEEKA--TLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|161502922|ref|YP_001570034.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160864269|gb|ABX20892.1| hypothetical protein SARI_00981 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 229 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 102/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L +PVE R++L T DE GD Sbjct: 90 VAQAMGQLEQELGRNATETEVAERLGIPVEEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++++LR+ + SL RE+ VL + + +N L+E+G Sbjct: 147 IELVTEEHQKENPLHQLLESDLRQRVMGAIESLPEREQLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|218289600|ref|ZP_03493820.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] gi|218240250|gb|EED07433.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Alicyclobacillus acidocaldarius LAA1] Length = 222 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 53/183 (28%), Positives = 92/183 (50%), Gaps = 6/183 (3%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E R ++ G+ EA ++ ++ N RLV +V +++ RG + DL Q G IGL Sbjct: 19 LSDEEVRELLERSHNGDAEA---RERLIVHNQRLVWAVVQRFLGRGYEAEDLFQIGCIGL 75 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 MKA +KFD KFSTYA+ + I R + D S T+++ +++ ++ R++ Sbjct: 76 MKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDS-TVKVSRSLKETAKQIRHVRDRLAK 134 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 ++ R+P EIA+ + M + + + P S+ + D D +L D I D+ Sbjct: 135 ELGRQPHITEIAEAMGMEPSEIVFAQEALRAPASIHETVYENDGDPIYLMDQIADEETEG 194 Query: 600 PLD 602 D Sbjct: 195 KFD 197 >gi|22298280|ref|NP_681527.1| RNA polymerase sigma factor SigF [Thermosynechococcus elongatus BP-1] gi|22294459|dbj|BAC08289.1| group 3 RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1] Length = 261 Score = 78.2 bits (191), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 51/164 (31%), Positives = 88/164 (53%), Gaps = 13/164 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-----FLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +VE N+ LV +K +R +Q F DL+Q G +GL++A E+FD G FS++ Sbjct: 30 RNRLVELNIGLV----RKEAHRWVQCTQESFDDLMQVGTLGLIRAIERFDPTKGVAFSSF 85 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+ +++ I + D+S IR+P + + R + + +++R PT EIA+ L +P Sbjct: 86 AIPYIRGEIQHYLRDKSPQIRLPRRWQTLQSQGKRVIQELRQQLERPPTDSEIAQALDVP 145 Query: 560 VE--GVRKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS 599 +E K P+SL+ P G+E++ LGD + D+ S Sbjct: 146 LEEWQAAKFASYHTTPVSLDAPTFEGEEESVALGDILPDQRYQS 189 >gi|329940311|ref|ZP_08289592.1| putative RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] gi|329300372|gb|EGG44269.1| putative RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045] Length = 270 Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 70/237 (29%), Positives = 114/237 (48%), Gaps = 14/237 (5%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + ++FR + ++ E +A + +VEA L + +A ++ NRG + DL Q +GL+ Sbjct: 18 TAADFRRLAALPDGPERDA--LRSRVVEAWLPMAERLAGRFRNRGESYEDLRQVAALGLV 75 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA ++++ LG F +YA+ V I R D T+ +P ++D ++V + +S Sbjct: 76 KAVDRYEPDLGNAFESYAVPTVTGEIKRHFRDHMWTLHVPRRVQDLRNRVRFATQDLSQT 135 Query: 543 IK-REPTPEEIAKKLAMPVEGVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 I R PT EIA + E V+ + T + E P G ED L D + +A Sbjct: 136 ISGRRPTVAEIAAHAHLSEEDVKAGQEALESFTALSLDAELP-GSEDGYSLSDAL--GSA 192 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 LD+ + RE+ LA+L RE +L MRF M E++G Q V+R Sbjct: 193 DPALDTVVD---RESVKPRLAALPERERAILYMRFFGDMTQSRIAEQLGISQMHVSR 246 >gi|290962991|ref|YP_003494173.1| sigma factor [Streptomyces scabiei 87.22] gi|260652517|emb|CBG75650.1| sigma factor [Streptomyces scabiei 87.22] Length = 283 Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 62/243 (25%), Positives = 120/243 (49%), Gaps = 31/243 (12%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAA 485 F ++++ +G E A+ ++E N+ LV A ++ +RG + D++Q G IGL+KA Sbjct: 39 FFEQLTVLEEGTREYQYARNTLIEMNISLVRYAAGRFRSRGADEMEDIVQVGMIGLIKAI 98 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+T+A+ ++ I R D S + +P +++ ++ R +S+++ R Sbjct: 99 DRFELSREVEFTTFAVPYIVGEIRRFFRDTSWAVHVPRRLKEARVELARATDELSSRLGR 158 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPIGDEDT--SHLGDFI--------- 592 PT +E+A+ + + + V ++ SL+ IG ++T + L DFI Sbjct: 159 SPTVKELAELMNLSEDEVIEARLAANGYNSSSLDAAIGGDETGEAALADFIGSEDAGMEL 218 Query: 593 -EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFC 650 ED +A++PL L+ L R+ R++ MRF + E +G Q Sbjct: 219 VEDFHALAPL---------------LSELGDRDRRIIHMRFVEELTQAQIAEHLGCSQMH 263 Query: 651 VTR 653 V+R Sbjct: 264 VSR 266 >gi|170719544|ref|YP_001747232.1| RNA polymerase factor sigma-32 [Pseudomonas putida W619] gi|169757547|gb|ACA70863.1| RNA polymerase, sigma 32 subunit, RpoH [Pseudomonas putida W619] Length = 284 Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDERSRDILYQRWLAEEKA--TLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|312877562|ref|ZP_07737521.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] gi|311795637|gb|EFR12007.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Caldicellulosiruptor lactoaceticus 6A] Length = 240 Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 119/239 (49%), Gaps = 12/239 (5%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++ K + +A+++++E+NL LV SV KK+ +G++ DL Q G IGL+KA ++F Sbjct: 9 LISKAKNGDKLARQQLIESNLALVWSVVKKFAAKGVELDDLFQIGCIGLIKAVDRFAPSF 68 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FSTYA+ + I R + D I++ +++ K+ + + + REPT EI Sbjct: 69 NLRFSTYAVPMIIGEIKRYLRDDG-KIKVSRKIKENQSKIKKLRNQFVSSNGREPTISEI 127 Query: 553 AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS--HLGDFIEDKNAVSPLDSAIQANLR 610 ++ + + + + + E SL + E+ L D D+ S + A L+ Sbjct: 128 SQLTGLSSDEILLCMDASSEVASLNEVVNQEEGKPITLMDIASDEEDYSTKLLDLMA-LK 186 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E L L RE ++ MR+ + T E+ K+ +++ + +IE +A+ ++K Sbjct: 187 EG----LKKLKGRERYIIFMRYF----KNKTQSEIAKELNISQVHVSRIEKRALERIKR 237 >gi|75908065|ref|YP_322361.1| RNA polymerase sigma factor SigF [Anabaena variabilis ATCC 29413] gi|75701790|gb|ABA21466.1| Sigma 32 (RpoH) [Anabaena variabilis ATCC 29413] Length = 258 Score = 78.2 bits (191), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 59/231 (25%), Positives = 112/231 (48%), Gaps = 12/231 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + ++V+ NL LV A + N+ + + DL+Q G +GL++A E+F+ G+ FS++A+ Sbjct: 28 VRNQLVKLNLGLVRKEAHYWMNQCRENYDDLVQVGCLGLIRAIERFEIAKGHAFSSFAIP 87 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +++ I + D+ T+RIP + + +R + + R+PT E+A L + + Sbjct: 88 YIRGEIQHYLRDKGVTVRIPRRYLAIQQRAIGVSRSLREQYNRQPTDSELATALDISPDE 147 Query: 563 VR--KVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + K+ + + P+SL+ P+ G+E + LG+ + D + S A + +R + L Sbjct: 148 WQEIKLAWVNRAPLSLDVPVQDGEEGATSLGELVPDHHYRS-FQLAQEDQIR--LQQALF 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L R VL F + E +G R++ K + LKH Sbjct: 205 QLEQRTREVLECVFLQDLTQKQVAEHLGISVVTVSRRVK----KGLDLLKH 251 >gi|307330561|ref|ZP_07609702.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306883810|gb|EFN14855.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 315 Score = 77.8 bits (190), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 108/221 (48%), Gaps = 12/221 (5%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 + ++ +G E + + +VE NL LV A ++ +R D++Q G IGL+KA ++F+ Sbjct: 77 LEVLEEGTHEYAYVRNTLVELNLALVKFAASRFRSRSEPMEDIVQVGTIGLIKAIDRFET 136 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +F T+AM + I R D S ++R+P +++ + + ++ ++ R PT Sbjct: 137 GRGVEFPTFAMPTIVGEIKRFFRDTSWSVRVPRRLQELRLDLAKAGDELAQRLDRAPTVS 196 Query: 551 EIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 E+A++L + VEG+ T + + P D+ L D I + D ++ Sbjct: 197 ELAQRLDISQSEVVEGMAASNAYTASSLDAQ-PEEDDSEGALADRIGYE------DHGLE 249 Query: 607 A-NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 E+ ++A L+ R+ ++L +RF M EE+G Sbjct: 250 GIEYVESLKPLIADLSARDRKILSLRFVANMTQSEIGEELG 290 >gi|163869170|ref|YP_001610422.1| RNA polymerase factor sigma-32 [Bartonella tribocorum CIP 105476] gi|161018869|emb|CAK02427.1| RNA polymerase sigma-32 factor [Bartonella tribocorum CIP 105476] Length = 303 Score = 77.8 bits (190), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 68/242 (28%), Positives = 122/242 (50%), Gaps = 25/242 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + DL+QEG +GL++AA +F+ +FSTYA WW Sbjct: 56 AMHQIAAAHMRLVIAIANRFKRFKMPLGDLVQEGYVGLLEAAARFEPDREVRFSTYATWW 115 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP-------EEIAKKL 556 ++ +I I +R K + RR+ K+ ++ + IA+KL Sbjct: 116 IRASIQDYILRNWSIVRGGTSSSQK--ALFFNLRRLRAKLVQDDSALSKQDIFRTIAEKL 173 Query: 557 AMPVEGVRKV-LKITKEPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETT 613 + V V + + + SL + + S + D + D+ SPL A+ + + Sbjct: 174 GVSVRDVETMDFRFSSSDNSLSVSVSENSDSPVAKMDVLVDE---SPLPDALIEQVIDGQ 230 Query: 614 TRV------LASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRK 666 R L L RE ++R R +N + TLE +G++ +++ER+RQIEA+A++K Sbjct: 231 RRTQWLYDALQILNERELEIIRFR---RLNEEGATLEVLGEKLGISKERVRQIEARALQK 287 Query: 667 LK 668 L+ Sbjct: 288 LR 289 >gi|54024680|ref|YP_118922.1| putative sigma factor [Nocardia farcinica IFM 10152] gi|54016188|dbj|BAD57558.1| putative sigma factor [Nocardia farcinica IFM 10152] Length = 261 Score = 77.8 bits (190), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 61/255 (23%), Positives = 113/255 (44%), Gaps = 38/255 (14%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++ + G+ + + E+++ L L +A+++ RG F DL+Q +GL++AA++FD Sbjct: 22 IAALDPGDPRRTALRAEVIDRALPLAEHIARRFAGRGESFDDLLQVARLGLVQAADRFDV 81 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G F +A+ + + R D + +R+P ++ + T +S ++ R P Sbjct: 82 GRGSSFLAFAVPTIMGEVRRHFRDNTWAVRVPRRTKEIQGSIGATVEELSQRLGRMPRAR 141 Query: 551 EIAKKLAMPVEGVRKVLKITKE-----------------PISLETPIGDEDTSHLGDFIE 593 EIA +L + V V + L P+ L +G E+ S +F++ Sbjct: 142 EIAAELGIDVVEVTQALIAGNAYQSSSLDSTAGDDGENTPLPLSESLGAEEPSF--EFVD 199 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 D AV PL +A L RE +VL MRF G T ++ V++ Sbjct: 200 DYLAVRPL---------------IAELPERERQVLVMRFFEG----KTQTQIADVLGVSQ 240 Query: 654 ERIRQIEAKAIRKLK 668 + +I +K + L+ Sbjct: 241 MHVSRILSKTLHALR 255 >gi|330812379|ref|YP_004356841.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|327380487|gb|AEA71837.1| RNA polymerase sigma factor [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 284 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 115/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A D+ N Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDADWSDNSNTNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALEVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|297559507|ref|YP_003678481.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296843955|gb|ADH65975.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 285 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 58/247 (23%), Positives = 114/247 (46%), Gaps = 11/247 (4%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 E ++ + +G+ +A+ ++ ++ L+ +A++Y RG DL Q +GL KA Sbjct: 35 ELLSVLVRLGEGDPQANGLRERVMVLYQPLINKIARRYGGRGEPLEDLKQTAMVGLAKAV 94 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 +D G F +Y + V I R D + +R+P ++ K+ R + R Sbjct: 95 RGYDPARGKPFISYLLPTVTGEIKRHFRDHTWAVRVPRRHQENRVKLRRVTSEFQQRHAR 154 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAV--SPL 601 PT E+A + +P V ++ ++++ +SL+ P + G +ED + L Sbjct: 155 TPTIAELAHDMGLPEAEVSELTQVSESYRSLSLDAPDSSDSEGQEGTRLEDHLGCEDAAL 214 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 D ++ RE+ LA L RE +LR+RF DHT E+ + ++ + ++ + Sbjct: 215 DRVVE---RESLKPALARLPAREREILRLRF----FGDHTQSEIADRLGYSQMHVSRLLS 267 Query: 662 KAIRKLK 668 + +L+ Sbjct: 268 GVLEQLR 274 >gi|29829172|ref|NP_823806.1| RNA polymerase sigma factor WhiG [Streptomyces avermitilis MA-4680] gi|29606278|dbj|BAC70341.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 280 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 102/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDIGREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + V+ + V +SL + E+ H+G Sbjct: 134 VERAYATLEARLRRTPTEGEVATEMGIAVDELHSVFS----QLSLANVVALEELLHVGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGDRLSLMDTLEDTAADNPVEVAEDRELRRFLARAINTLPDREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 278 >gi|311900244|dbj|BAJ32652.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 310 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 57/246 (23%), Positives = 120/246 (48%), Gaps = 32/246 (13%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E S + ++E NL LV +++ + + DL+Q G++GL+KA ++FD LG + Sbjct: 77 EGTREFSYVRTTLIELNLTLVRFAIRRFGHSKEPYEDLLQVGSVGLIKAIDRFDPSLGVE 136 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+TYA+ + I R D + ++ +P +++ + + ++ + REPT ++A+ Sbjct: 137 FTTYAVPTIIGEIRRHFRDTTWSVHVPRRLQELRLDLAKAQDALAQTLDREPTVADLAEY 196 Query: 556 LAMP----VEGVRKVLKITKEPISLETPI---GDEDTSHLG------DFIEDKNAVSPLD 602 L++ +EG+ T + L +P G + LG +E+ A+ PL Sbjct: 197 LSISEEEVIEGLAAANAHTAGSLDLTSPGEGDGQQPAERLGRVDGRFALVENLVALKPL- 255 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 +A L R+ ++L MRF + D T ++G + +++ + ++ ++ Sbjct: 256 --------------IAQLPERDRQILAMRF----SEDLTQSQIGARLGLSQMHVSRLLSR 297 Query: 663 AIRKLK 668 + +L+ Sbjct: 298 TLARLR 303 >gi|297560171|ref|YP_003679145.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296844619|gb|ADH66639.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 313 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 54/218 (24%), Positives = 103/218 (47%), Gaps = 11/218 (5%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 L+ +A++Y RG DL Q +GL+KA +D G F +Y + V I R D Sbjct: 92 LINKIARRYGGRGEPLEDLKQTAMVGLVKAVRGYDPARGKPFISYLLPTVTGEIKRHFRD 151 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--E 572 + +R+P ++ K+ R R PT E+++++ +P V +++++++ Sbjct: 152 HTWAVRVPRRHQENRVKLRRVTGEFQQAHARTPTVHELSEEMGLPEAEVGELIQVSESYR 211 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAV--SPLDSAIQANLRETTTRVLASLTPREERVLRM 630 +SL+ P + G +ED + LD ++ RE+ LA L RE +LR+ Sbjct: 212 SLSLDAPDSSDSEGQEGTRLEDHLGCEDAALDRVVE---RESLKPALARLPAREREILRL 268 Query: 631 RFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RF DHT E+ + ++ + ++ + + +L+ Sbjct: 269 RF----FGDHTQSEIADRLGYSQMHVSRLLSGVLEQLR 302 >gi|152967736|ref|YP_001363520.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] gi|151362253|gb|ABS05256.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Kineococcus radiotolerans SRS30216] Length = 326 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 61/220 (27%), Positives = 101/220 (45%), Gaps = 28/220 (12%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E+ +L L +A ++ RG DL+Q IGL+KA ++FD G F YA+ + Sbjct: 106 REELTRRHLPLADHLAARFLGRGEPQDDLVQVATIGLLKALDRFDPSRGVPFGAYAVPTM 165 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+ +R+P +++ + +++++ R PT E+A++ E V Sbjct: 166 LGEIKRHFRDRGWAMRVPRRIQEAGRALGDAREALTHELGRAPTVAELAERTGYDPEDVV 225 Query: 565 KVLKI----------TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 VL+ T P SL +G +D + +E++ A+ PL Sbjct: 226 DVLESANAYSTLPLDTGSPTSLVASLGADDDAL--QNVENREALRPL------------- 270 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 LA L RE R+L +RF GM+ EVG Q V+R Sbjct: 271 --LAGLPARERRILALRFVRGMSQSQIAAEVGISQMHVSR 308 >gi|297196321|ref|ZP_06913719.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197722899|gb|EDY66807.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 307 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 65/251 (25%), Positives = 121/251 (48%), Gaps = 32/251 (12%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 ++++ +G E S + +VE NL LV A ++ NR D+IQ G IGL+KA +FD Sbjct: 62 LAVLEEGTPEYSYVRNTLVELNLSLVKFAALRFANRAEPMEDIIQVGTIGLIKAINRFDL 121 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 +F+++A+ V I R D S ++R+P +++ + + + ++ R PT Sbjct: 122 EREVEFASFALPTVIGEIKRFFRDSSWSVRVPRRLQELRIDLAKALDVLEQRLGRRPTTA 181 Query: 551 EIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSH-----LG------DFIEDKNA 597 E+A L + E V + + + SL+ + DED S+ LG D I+ A Sbjct: 182 ELAAYLGVSEEEVVEGERASNGYTAQSLDATVNDEDASNAVNRRLGIDDPAFDIIDSLEA 241 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + PL +A+L R+ +L +RF + T E+G++ +++ + Sbjct: 242 LKPL---------------IATLDERDRLILSLRF----REELTQSEIGERLGISQMHVS 282 Query: 658 QIEAKAIRKLK 668 ++ A+ + KL+ Sbjct: 283 RLLARILEKLR 293 >gi|315445714|ref|YP_004078593.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] gi|315264017|gb|ADU00759.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp. Spyr1] Length = 262 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 114/246 (46%), Gaps = 14/246 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G + +VE L L +A+++ RG DL+Q +GL+ A Sbjct: 23 FRELAEL-EEGSAAFQRQRDRIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVI 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G F ++A+ + + R D S ++++P +++ ++ +S ++ R Sbjct: 82 RFDVNAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGAATAELSQRLGRA 141 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 PTP E+A +L M VEG+ I G+ED + D + D + LD Sbjct: 142 PTPSELAAELEMDRDEVVEGLVAGSSYNTLSIDSGGGSGNEDAPAIADTLGDVDLT--LD 199 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 Q RE +LA+L RE VL +RF M E VG +++ + ++ AK Sbjct: 200 ---QIENREALRPLLAALPERERTVLVLRFFESMTQTQIAERVG----ISQMHVSRLLAK 252 Query: 663 AIRKLK 668 ++ +L+ Sbjct: 253 SLTRLR 258 >gi|300856558|ref|YP_003781542.1| RNA polymerase sigma-F factor [Clostridium ljungdahlii DSM 13528] gi|300436673|gb|ADK16440.1| RNA polymerase sigma-F factor [Clostridium ljungdahlii DSM 13528] Length = 251 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 126/246 (51%), Gaps = 25/246 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ +KG+ +A ++VE NL LV S++KK+ NRG ++ D+ Q G +GLMKA F+ Sbjct: 19 LIKYAKKGDKDAL---NKLVELNLPLVASISKKFLNRGYEYEDIFQIGCMGLMKAVNNFN 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ +++ K+ ++ K+ REPT Sbjct: 76 EEYNVKFSTYAVPMILGEIKRFLRDDGM-IKVSRSVKNTAKKIHYDREALTKKLNREPTI 134 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSP---LD 602 +E+A+ + VE +++ T+ SL+ DT H D + DK + +P ++ Sbjct: 135 QELAEYSGVEVE---ELIFATESASSLQYLY---DTIHQDDGSPVLLIDKISENPKEDVE 188 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + L+E L +L + +++ +R+ D T +V K + + ++ +IE K Sbjct: 189 MVDKIALKEA----LNNLDVKSRQIIMLRYF----KDKTQVQVAKMLGINQVQVSRIEKK 240 Query: 663 AIRKLK 668 ++ ++ Sbjct: 241 VLKTMR 246 >gi|154499842|ref|ZP_02037880.1| hypothetical protein BACCAP_03499 [Bacteroides capillosus ATCC 29799] gi|150271440|gb|EDM98697.1| hypothetical protein BACCAP_03499 [Bacteroides capillosus ATCC 29799] Length = 235 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 118/241 (48%), Gaps = 18/241 (7%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ R+G+ +A M+E N L+ S+ ++Y RG+ DL Q G +G +KA FD Sbjct: 8 LLEAARQGDNDAC---ARMMEENSGLIWSIVRRYYGRGVDPEDLYQLGCMGFLKAVRGFD 64 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTAR-RMSNKIKREPT 548 G +FSTYA+ + I R + D +++ ++++ +RTAR R+ + REPT Sbjct: 65 PAFGCQFSTYAVPKIAGEIRRFLRDDG-AVKVSRGLKERAGS-IRTARDRLQADLGREPT 122 Query: 549 PEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 E+A++ + E + + SL+ GD G +E ++ I Sbjct: 123 LSELAEETGLEPEEIAAAEEANAPVASLQMETGD------GFTLESVLGTEGMEEGIVE- 175 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++SL RE +V+ +R+ G+ D T +G V++ +I ++E KA+ L+ Sbjct: 176 -REALRSAVSSLPDRERQVIVLRYFRGLTQDRTARIMG----VSQVQISRVEKKAMEYLR 230 Query: 669 H 669 Sbjct: 231 R 231 >gi|71737989|ref|YP_276878.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. phaseolicola 1448A] gi|257482996|ref|ZP_05637037.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289624653|ref|ZP_06457607.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648492|ref|ZP_06479835.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. 2250] gi|289672442|ref|ZP_06493332.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae FF5] gi|298485264|ref|ZP_07003357.1| RNA polymerase sigma factor RpoH [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|302187226|ref|ZP_07263899.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae 642] gi|71558542|gb|AAZ37753.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. phaseolicola 1448A] gi|298160252|gb|EFI01280.1| RNA polymerase sigma factor RpoH [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320326376|gb|EFW82429.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. B076] gi|320331634|gb|EFW87572.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. race 4] gi|330871135|gb|EGH05844.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330872356|gb|EGH06505.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. glycinea str. race 4] gi|330891333|gb|EGH23994.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. mori str. 301020] gi|330898959|gb|EGH30378.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. japonica str. M301072PT] gi|330954977|gb|EGH55237.1| RNA polymerase factor sigma-32 [Pseudomonas syringae Cit 7] gi|330982560|gb|EGH80663.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aptata str. DSM 50252] gi|330985905|gb|EGH84008.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. lachrymans str. M301315] gi|331011765|gb|EGH91821.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 284 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 116/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A DS N + Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDSDWTDNSTANLHQ 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALDVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|148266118|ref|YP_001232824.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter uraniireducens Rf4] gi|146399618|gb|ABQ28251.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Geobacter uraniireducens Rf4] Length = 251 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 96/201 (47%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL IGL+ AAE+FD G F T+A ++ I + Q R +RDK + Sbjct: 50 DLRSAAVIGLISAAERFDPSRGVMFKTFAEQRIRGTIMDELRSQDWLTR---SLRDKFKR 106 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + R + ++ R PT EE+A + + +EG +L+ +SL+ DED S LG Sbjct: 107 LEREFSCLEQRLGRNPTSEEVAAAMGLELEGYFHLLEEIHFLSFVSLDDAWMDEDGSPLG 166 Query: 590 --DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 D +EDK SP + I E + L +E V+ + + +N L+E+G Sbjct: 167 LLDVLEDKGVESPQNQLIARQTVENLAEAIDGLPEKERIVITLYYYEELN----LKEIGS 222 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 +T RI Q+ ++A+ +L+ Sbjct: 223 VLSLTESRISQLHSQALLRLR 243 >gi|242238998|ref|YP_002987179.1| flagellar biosynthesis sigma factor [Dickeya dadantii Ech703] gi|242131055|gb|ACS85357.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dickeya dadantii Ech703] Length = 240 Score = 77.8 bits (190), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 96/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V R+ + R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAHAMRQAEQLLGRAPTEQEVAQSLNISLEEYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL + NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEEANPLHQLMDVNLRQRVMEAIENLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|134102478|ref|YP_001108139.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] gi|133915101|emb|CAM05214.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 311 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 105/201 (52%), Gaps = 12/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G GL+ A EKF+ G KF TYAM ++ AI + Q +P +R + Sbjct: 112 DLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGAILDDLRAQDW---VPRSVRSRARD 168 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPIG-DEDTSH 587 V R R+ K++R + E+A++L + V+ +R++ L++T ++L+ IG + TS Sbjct: 169 VERALERLEAKLQRTASDAELAEELELSVDELRELFAQLQMTS-VVALDDLIGAGQTTSS 227 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L + + D A P+ + + + R + L+ R+ V+ + + + TL E+GK Sbjct: 228 LAETLPDDRAEDPVATLVDRDSRRQLAEAVERLSDRDRIVVTLYYFENL----TLAEIGK 283 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 VT R+ Q+ +A+ +L+ Sbjct: 284 VLGVTESRVCQLHTRAVLRLR 304 >gi|153440|gb|AAC36891.1| minor sigma-like factor [Streptomyces aureofaciens] gi|743686|prf||2013252A RNA polymerase:SUBUNIT=sigma factor Length = 278 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 60/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + VE + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPTEGEVAGEMGIGVEELHTVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDHAADDPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|329936708|ref|ZP_08286415.1| RNA polymerase sigma factor WhiG [Streptomyces griseoaurantiacus M045] gi|329303938|gb|EGG47821.1| RNA polymerase sigma factor WhiG [Streptomyces griseoaurantiacus M045] Length = 279 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 59/206 (28%), Positives = 99/206 (48%), Gaps = 20/206 (9%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EK+D KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKYDIGREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A +L + V+ + V +SL + E+ H+G Sbjct: 134 VERAYTTLEARLRRTPTESEVAAELGIRVDDLHAVFS----QLSLANVVALEEILHIGGE 189 Query: 590 -------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 D +ED +A +P++ A LR R + +L RE+ V+ + + G+ TL Sbjct: 190 GGGLSLMDTLEDTSADNPVEVAEDRELRRFLARAINTLPEREKTVVTLYYFEGL----TL 245 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLK 668 E+G VT R+ QI K++ +L+ Sbjct: 246 AEIGNVLGVTESRVSQIHTKSVLQLR 271 >gi|294815383|ref|ZP_06774026.1| RNA polymerase sigma factor whiG [Streptomyces clavuligerus ATCC 27064] gi|294327982|gb|EFG09625.1| RNA polymerase sigma factor whiG [Streptomyces clavuligerus ATCC 27064] Length = 278 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A+++ + VE + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPSEGEVAEEMGIAVEELHAVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADDPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|268590799|ref|ZP_06125020.1| alternative sigma factor RpoH [Providencia rettgeri DSM 1131] gi|291313578|gb|EFE54031.1| alternative sigma factor RpoH [Providencia rettgeri DSM 1131] Length = 292 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 120/236 (50%), Gaps = 14/236 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K+++ ++LR VI VA+ Y GL DLIQEGNIGLMKA +F+ +G + ++A+ W Sbjct: 49 AAKQLILSHLRFVIHVARSYAGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVE 561 +K I + +++ + K+ R+ ++ + + +A++L + + Sbjct: 109 IKAEIHEYVLRNWRIVKVATTKSQR--KLFFNLRKNKKRLGWFNQDEVDMVAQELGVSTK 166 Query: 562 GVRKVLKITKEPISLETPIGDEDTSHLGD------FIEDKN---AVSPLDSAIQANLRET 612 VR++ D+D+S G +++DK A S D +++ + Sbjct: 167 DVREMESRMAAQDMAFDMSDDDDSSDFGGPVAPVLYLQDKASDFAGSIEDDNWESHATDR 226 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L SL R + ++R R+ + + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 227 LADALDSLDERSQDIIRARW-LDDDNKTTLQELADKYGVSAERVRQLEKNAMKKLR 281 >gi|54022121|ref|YP_116363.1| putative sigma factor [Nocardia farcinica IFM 10152] gi|54013629|dbj|BAD54999.1| putative sigma factor [Nocardia farcinica IFM 10152] Length = 266 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 52/212 (24%), Positives = 106/212 (50%), Gaps = 5/212 (2%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E++E L L +A+K++ RG F DL+Q +G++ A ++FD G F +A+ + Sbjct: 41 REELIERCLPLAEHIARKFSGRGENFEDLLQIARVGMVAAVDRFDPTQGAPFLGFAVPTI 100 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D + ++R+P +++ + ++ ++ R P E+A++L + + V Sbjct: 101 MGEVRRHFRDHTWSVRVPRRLKELQATLNPAIETLTQRLGRMPKARELAEELGVDIAEVT 160 Query: 565 KVL--KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + L + + S++ GD+ S + A P ++ L ++A+L Sbjct: 161 QALVARNAYQTSSIDGSSGDDGESSAPALADTLGAEDPEFGTVENYL--AVKPLIAALPE 218 Query: 623 REERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE+RVL MRF M+ + +++G Q V+R Sbjct: 219 REQRVLVMRFFHSMSQEQIAQQIGCSQMQVSR 250 >gi|294631664|ref|ZP_06710224.1| RNA polymerase sigma factor WhiG [Streptomyces sp. e14] gi|292834997|gb|EFF93346.1| RNA polymerase sigma factor WhiG [Streptomyces sp. e14] Length = 280 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 63/218 (28%), Positives = 102/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDIDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + V+ + V +SL + E+ H+G Sbjct: 134 VERAYATLEARLRRTPTETEVAGEMGIAVDELHAVFS----QLSLANVVALEELLHVGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 DGDGLSFMDTLEDTAADNPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 278 >gi|239926901|ref|ZP_04683854.1| RNA polymerase sigma factor sig8 [Streptomyces ghanaensis ATCC 14672] gi|291435248|ref|ZP_06574638.1| HasL [Streptomyces ghanaensis ATCC 14672] gi|291338143|gb|EFE65099.1| HasL [Streptomyces ghanaensis ATCC 14672] Length = 281 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 58/247 (23%), Positives = 127/247 (51%), Gaps = 15/247 (6%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 FR + +++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 38 FRQL-AVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 96 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ + R D S ++ +P +++ ++ R + ++ R Sbjct: 97 DRFELSREVEFTSFAIPYIVGEMKRFFRDTSWSVHVPRRLQEARVQLARATEELRTRLGR 156 Query: 546 EPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPL 601 PT E+A+ +++ E V ++ SL+ IG E S L DFI ++A L Sbjct: 157 TPTTRELAQLMSLTEEEVNEARIAANGYNSASLDAAIGSEPDGESVLADFIGSEDAALEL 216 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A ++A L RE +++ RF + T E+G++ ++ + ++ + Sbjct: 217 VEDFHA-----LAPMIAELDERERKIIHWRF----VEELTQAEIGERLGCSQMHVSRLIS 267 Query: 662 KAIRKLK 668 + +++L+ Sbjct: 268 RILKRLR 274 >gi|66047972|ref|YP_237813.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. syringae B728a] gi|237802354|ref|ZP_04590815.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. oryzae str. 1_6] gi|63258679|gb|AAY39775.1| Sigma-70 region 2:Sigma-70 region 4 [Pseudomonas syringae pv. syringae B728a] gi|330957082|gb|EGH57342.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. maculicola str. ES4326] gi|330970950|gb|EGH71016.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. aceris str. M302273PT] gi|331025211|gb|EGI05267.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. oryzae str. 1_6] Length = 284 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 116/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A DS N + Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDSDWTDNSTANLHQ 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALDVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|302554440|ref|ZP_07306782.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] gi|302472058|gb|EFL35151.1| RNA polymerase sigma-G factor [Streptomyces viridochromogenes DSM 40736] Length = 280 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 64/218 (29%), Positives = 101/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDIDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + VE + V +SL + E+ H G Sbjct: 134 VERAYATLEARLRRTPTEGEVAAEMGIGVEELHAVFS----QLSLANVVALEELLHAGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGDGLSVMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 278 >gi|255526140|ref|ZP_05393061.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium carboxidivorans P7] gi|296187150|ref|ZP_06855547.1| RNA polymerase sigma-F factor [Clostridium carboxidivorans P7] gi|255510189|gb|EET86508.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium carboxidivorans P7] gi|296048185|gb|EFG87622.1| RNA polymerase sigma-F factor [Clostridium carboxidivorans P7] Length = 251 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 60/225 (26%), Positives = 114/225 (50%), Gaps = 8/225 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++E NL LV +++KK+ NRG ++ D+ Q G +GL+KA FD KFSTYA+ Sbjct: 30 ALNKLIEVNLPLVSAISKKFLNRGYEYEDIFQIGCMGLVKAVNNFDEKYNVKFSTYAVPM 89 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D I++ +++ K+ ++ +I REPT EE+++ + VE + Sbjct: 90 ILGEIKRFIRDDGM-IKVSRSVKNTAKKLHYAKEALTKQISREPTIEELSEYSGIGVEDI 148 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + L I +D + + I+ + S DS I R L +L + Sbjct: 149 IFAMESSNSLQYLYDTIHQDDGAPVL-LIDKLSESSDRDSEIVD--RIALKEALKNLDVK 205 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ +R+ D T +V K +++ ++ +IE K ++ ++ Sbjct: 206 SRQIIMLRYF----KDKTQIQVAKMLGISQVQVSRIEKKVLKVMR 246 >gi|205352349|ref|YP_002226150.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205272130|emb|CAR36983.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326627399|gb|EGE33742.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 239 Score = 77.4 bits (189), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ K+ R T E+A++L +PV R++L T DE GD Sbjct: 100 VAQAMGQLEQKLGRNATETEVAERLGIPVAEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ +LR+ + SL RE+ VL + + +N L+E+G Sbjct: 157 IELVTEEHQQENPLHQLLEGDLRQRVMDAIESLPEREQLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|87121174|ref|ZP_01077065.1| sigma factor RpoH [Marinomonas sp. MED121] gi|86163666|gb|EAQ64940.1| sigma factor RpoH [Marinomonas sp. MED121] Length = 291 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 64/251 (25%), Positives = 121/251 (48%), Gaps = 36/251 (14%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ +++V ++LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ +G + Sbjct: 46 GDLEAA---RQLVMSHLRFVVHIAKSYSGYGLNQGDLIQEGNVGLMKAVKRFNPEVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I I +++ + K+ +R+A++ + + E +A Sbjct: 103 VSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKMFFNLRSAKKTLSWFSNDEV-ESVAGD 161 Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHL--------------GDFIEDKNAVSPL 601 L + E VR+ +E + DT+ +++ED + P Sbjct: 162 LGVSPEVVRQ----------MEGRMSSSDTTFDASSDDDDDSAYQAPANYLED-HRYDPA 210 Query: 602 DSAIQANLRETTTR----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 N E + R ++ L R +L R+ ++ TL ++ ++ V+ ERIR Sbjct: 211 SLTENGNWEEDSNRRLQEAMSELDERSRNILVQRW--LSDSKSTLHDLADEYGVSAERIR 268 Query: 658 QIEAKAIRKLK 668 Q+E A+ K++ Sbjct: 269 QLEKNAMAKIR 279 >gi|330944706|gb|EGH46637.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. pisi str. 1704B] Length = 284 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 63/233 (27%), Positives = 116/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ ++T ++ + +D S +++ED A DS N + Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHRYDPARQLEDSDWTDNSPANLHQ 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 ALDVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|206208346|gb|ACI06117.1| RNA polymerase sigma subunit [Parvibaculum sp. P31] Length = 269 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 35/50 (70%), Positives = 42/50 (84%), Gaps = 1/50 (2%) Query: 148 AGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACI-GPESK 196 AGR M+A LCESPLTFQA+IIWRDELN+G LLR+IIDL+A GP++K Sbjct: 1 AGRETMIAGLCESPLTFQAIIIWRDELNEGKILLRDIIDLDATYAGPDAK 50 >gi|116514965|ref|YP_802594.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116256819|gb|ABJ90501.1| RNA polymerase sigma-32 factor [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 291 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 62/239 (25%), Positives = 120/239 (50%), Gaps = 22/239 (9%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 K ++ +NLR VI VAK Y+ GL DLIQEGNIGLMKA +F+ + + ++A+ W+K Sbjct: 54 KLLILSNLRFVIHVAKNYSGYGLPQADLIQEGNIGLMKAIRRFNPNINVRLVSFAVHWIK 113 Query: 506 QAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I + ++I + K+ +R +++ R + ++++L + + V+ Sbjct: 114 SEIHEYVLRNWRIVKIATTKAQRKLFFNLRKSKKRLGWFNRHEI-DTVSQELGVSTQEVK 172 Query: 565 KV-LKITKEPISLETPIGDEDTSHLGDF---------IEDKNAVSPL-----DSAIQANL 609 ++ +++ + I+ + D SHL +EDK + + + A+ A Sbjct: 173 EMEARMSAQDITFDLSAKD---SHLDSITNNLRTSFHLEDKKSNFSIKIEKDNWALHAT- 228 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R +++++ R+ TL+ + + + ++ ER+RQ+E A++KLK Sbjct: 229 -NKLTNALLILDKRSQQIIKRRWLDDDKPKITLQAIARDYGISAERVRQLEKNAMKKLK 286 >gi|317055657|ref|YP_004104124.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Ruminococcus albus 7] gi|315447926|gb|ADU21490.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ruminococcus albus 7] Length = 218 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 61/205 (29%), Positives = 101/205 (49%), Gaps = 11/205 (5%) Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 E NL LV A ++ RG+++ DL G +GL+KA+ FD G KFSTYA+ + I Sbjct: 10 EDNLGLVHLCANRFRGRGIEYDDLYGAGCMGLVKASRAFDASRGVKFSTYAVPVILGEIK 69 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R D T+++ +++ K+ R ++ ++K REPT E++ + V + L Sbjct: 70 RLFRD-GGTVKVSRSLKELSLKITRASQTFAHKNGREPTVSELSDITGADPDDVIEALNA 128 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 ++ +SL IGDED D P D I L +VL+ L+ + +++ Sbjct: 129 SQPTVSLT--IGDEDGESQTDL-----PTEPPDEDITDRL--ALRQVLSELSADDRKLID 179 Query: 630 MRFGIGMNTDHTLEEVG-KQFCVTR 653 +R+ GM E++G Q V+R Sbjct: 180 LRYFKGMTQTAAAEKLGMTQVQVSR 204 >gi|307153354|ref|YP_003888738.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Cyanothece sp. PCC 7822] gi|306983582|gb|ADN15463.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7822] Length = 258 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 57/219 (26%), Positives = 108/219 (49%), Gaps = 8/219 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNR-GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E N LV A + ++ + DL+Q G +GL++A E+F+ G+ FS++A+ + Sbjct: 29 RNQILELNFGLVRREAYHWVSQCNENYEDLLQVGCLGLIRAIERFETGKGHAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ ++RIP D + + R ++ R+P+ EEIA+ L + + Sbjct: 89 IRGEIQHYLRDKGYSVRIPRRWLDLGRQAMTIRRDFQTRLNRQPSDEEIAEILEISAKEW 148 Query: 564 R--KVLKITKEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + K+ +EP+SL+ I +D + LGD + D S + + R + LA Sbjct: 149 QEIKLAFQNREPLSLDVSINHDDDGQTSLGDLVPDPKYRS---FQLSEDDRIRLQQALAQ 205 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R RVL F + T E++G R+++ Sbjct: 206 LEERTRRVLEFVFLYDLTQRETAEQLGISVVTVSRRVKK 244 >gi|258546170|ref|ZP_05706404.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Cardiobacterium hominis ATCC 15826] gi|258518595|gb|EEV87454.1| deoxyuridine 5`-triphosphate nucleotidohydrolase [Cardiobacterium hominis ATCC 15826] Length = 287 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 64/233 (27%), Positives = 123/233 (52%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + ++ +L+ V+ +A+ +T GL DLIQEGN+GLMKA ++F+ G + ++A+ W Sbjct: 53 AAQTLIVHHLKFVVHIARGFTGYGLPLGDLIQEGNVGLMKAVKRFEPQRGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I ++I + K+ +R+ ++ N + E + IA +L + + Sbjct: 113 IKSEIHEYIIRNWRMVKIATTKAQRKLFFNLRSMKKSLNWLN-EAEAKAIADELNVSTKD 171 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANLRETTTRVLA- 618 V ++ +I + I+ E DED H ++ D +++ P + A R LA Sbjct: 172 VFEMESRIHGQDIAFELNDDDEDNDHFSPSQWLAD-DSIDPAEHTEHAEHENLMQRKLAK 230 Query: 619 ---SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR +++ R+ + ++ TL+ + ++ V+ ERIRQIE +A+ +L+ Sbjct: 231 GLQALDPRSRAIVQARW-LNEDSKATLQTLASEYNVSAERIRQIEQQAMHQLR 282 >gi|187934214|ref|YP_001885077.1| sporulation sigma factor SigF [Clostridium botulinum B str. Eklund 17B] gi|187722367|gb|ACD23588.1| RNA polymerase sigma-F factor [Clostridium botulinum B str. Eklund 17B] Length = 251 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 42/125 (33%), Positives = 70/125 (56%), Gaps = 4/125 (3%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 ++ + + G+ EA ++E NL LV S++KK+ NRG + D+ Q G+IGL+KA F Sbjct: 18 QLLPLAKDGDNEAM---NRLIEMNLPLVASISKKFLNRGYDYEDIFQIGSIGLVKAINNF 74 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D KFSTYA+ + I R + D I++ +++ ++ T ++ K+ R PT Sbjct: 75 DLSYNVKFSTYAVPMIIGEIKRFLRDDGM-IKVSRNVKSLAKRIHFTKEELTKKLNRSPT 133 Query: 549 PEEIA 553 EE+A Sbjct: 134 IEELA 138 >gi|291004131|ref|ZP_06562104.1| putative RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338] Length = 328 Score = 77.4 bits (189), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 59/201 (29%), Positives = 105/201 (52%), Gaps = 12/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G GL+ A EKF+ G KF TYAM ++ AI + Q +P +R + Sbjct: 129 DLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGAILDDLRAQDW---VPRSVRSRARD 185 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPIG-DEDTSH 587 V R R+ K++R + E+A++L + V+ +R++ L++T ++L+ IG + TS Sbjct: 186 VERALERLEAKLQRTASDAELAEELELSVDELRELFAQLQMTS-VVALDDLIGAGQTTSS 244 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 L + + D A P+ + + + R + L+ R+ V+ + + + TL E+GK Sbjct: 245 LAETLPDDRAEDPVATLVDRDSRRQLAEAVERLSDRDRIVVTLYYFENL----TLAEIGK 300 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 VT R+ Q+ +A+ +L+ Sbjct: 301 VLGVTESRVCQLHTRAVLRLR 321 >gi|300787087|ref|YP_003767378.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] gi|299796601|gb|ADJ46976.1| RNA polymerase sigma factor [Amycolatopsis mediterranei U32] Length = 263 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 105/225 (46%), Gaps = 29/225 (12%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + + ++V L L +A +++ RG DL+Q IGL+ A ++FD G+ F ++A+ Sbjct: 37 VVRSKLVTELLPLAEHIATRFSGRGEPREDLVQVARIGLINAVDRFDPARGHDFLSFAVP 96 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 + + R D ++R+P +++ + + + +S ++ R PTP E+A+ L + V+ Sbjct: 97 TIMGEVRRHFRDTGWSVRVPRRLKELHLSLSQGSAVLSQRLGRAPTPTELAEHLNLDVDE 156 Query: 563 VRKVLKI--TKEPISLETPIGDE-----------DTSHLGDFIEDKNAVSPLDSAIQANL 609 VR+ L + +S++ P+ D+ + H +E+ A+ PL Sbjct: 157 VREGLLAGNAYQALSVDKPVHDDAEALSLADTMGEPDHEMAMVENHEALQPL-------- 208 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L L RE +L MRF G+ + VG Q V+R Sbjct: 209 -------LQELPKRERAILVMRFFGGLTQTQIADRVGISQMHVSR 246 >gi|328882855|emb|CCA56094.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 296 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 61/251 (24%), Positives = 116/251 (46%), Gaps = 39/251 (15%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G + + + +VE NL LV A ++ R D++Q G IGL+KA ++F+ G + Sbjct: 60 EGTHDHAYVRNTLVELNLALVRFAAARFGTRSEPMEDIVQVGTIGLIKAIDRFELTRGVE 119 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM + I R D S ++ +P +++ + R ++ ++ R PT E+A++ Sbjct: 120 FPTFAMPTIIGEIKRFFRDTSWSVHVPRRLQELRLDLARAGDTLAQRLDRAPTVAELAEE 179 Query: 556 LAMP----VEGVRKVLKITKEPI--------------SLETPIGDEDTSHLGDFIEDKNA 597 L + VEG+ T + +L +G ED G IE + Sbjct: 180 LGIAPEEVVEGMAASNAYTASSLDAQPDEEEGGGGEATLADRLGYEDHGLTG--IEYIAS 237 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 + P+ +ASL RE ++L +RF G+ T E+G + +++ + Sbjct: 238 LKPM---------------IASLPARERQILSLRFVSGL----TQSEIGTELGISQMHVS 278 Query: 658 QIEAKAIRKLK 668 ++ A+ + +L+ Sbjct: 279 RLLARTLARLR 289 >gi|28211847|ref|NP_782791.1| sporulation sigma factor SigF [Clostridium tetani E88] gi|28204289|gb|AAO36728.1| RNA polymerase sigma-F factor [Clostridium tetani E88] Length = 255 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 113/232 (48%), Gaps = 22/232 (9%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++VE NL LV +++KK+ NRG + D+ Q G +GL+KA FD KFSTYA+ Sbjct: 33 ATDKLVELNLPLVSAISKKFLNRGYDYEDIYQIGCMGLVKAINNFDSSYNVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D I++ ++ K+ + K+ REP+ EE+++ + +E + Sbjct: 93 IMGEIKRFIRDDGI-IKVSRSLKIMARKLYYHRETLCKKLGREPSIEELSEYTGLEIEEI 151 Query: 564 RKVLKITKEPISLETPIGDEDTSHLG-------DFIEDKNAVSPLDSAIQANLRETTTRV 616 ++ + L I +D + + ++ ED + ++ L L+E Sbjct: 152 VYAMESSSNLQYLHDVIHQDDGAPIMLIDKISENYSEDSDIINKL------ALKEA---- 201 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L + +++ +R+ D T EV K +++ ++ +IE + ++ +K Sbjct: 202 LGKLDAKSRQIIMLRYF----KDKTQIEVAKMLGISQVQVSRIEKRVLKTMK 249 >gi|311030102|ref|ZP_07708192.1| RNA polymerase sigma factor SigD [Bacillus sp. m3-13] Length = 254 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 57/193 (29%), Positives = 98/193 (50%), Gaps = 10/193 (5%) Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 +GL A EKFD KF TYA + ++ +I + + +P +R+K ++ T Sbjct: 62 VGLFDAIEKFDPSRDLKFDTYASFRIRGSIIDGLRKEDW---LPRSVREKAKRIESTLEN 118 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISL-ETPIGDEDTSHLGDFIEDK 595 + K+ R T EE+A L MP E V V+ +S+ E P +++ SH ++D+ Sbjct: 119 LEQKLMRNATLEEVAAHLDMPEEEVSTVMHEVFYSNILSMDEMPKENDEQSHGAYVLKDE 178 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 +SP + I++ L + + +LT E+ V+ + + + TL E+G+ +T R Sbjct: 179 KVISPEEELIKSELIQLLGEQIENLTENEQIVISLFY----KEELTLTEIGQVLGLTTSR 234 Query: 656 IRQIEAKAIRKLK 668 I QI +KAI KL+ Sbjct: 235 ISQIHSKAIFKLR 247 >gi|262376306|ref|ZP_06069536.1| alternative sigma factor RpoH [Acinetobacter lwoffii SH145] gi|262308907|gb|EEY90040.1| alternative sigma factor RpoH [Acinetobacter lwoffii SH145] Length = 289 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 115/235 (48%), Gaps = 14/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPNMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I + ++I + K+ +R+ ++ S K+ + IA L + E Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLAEA-QSIANDLNVTPEQ 171 Query: 563 VRKV---LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRETTTRVL 617 V ++ L + DE ++H+ ++ED N P + E +T L Sbjct: 172 VLEMEGRLTAYDAAFDASSDDDDEGSTHVAPALYLED-NRYDPARLIENEDYEEQSTSAL 230 Query: 618 A----SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L+ R+ + TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 231 HEAMDQLDDRSRNILQRRWLD--DEKSTLHELAAEYNVSAERIRQLEKNAMEKIK 283 >gi|104779584|ref|YP_606082.1| RNA polymerase factor sigma-32 [Pseudomonas entomophila L48] gi|95108571|emb|CAK13265.1| sigma H (sigma 32) factor of RNA polymerase RpoH [Pseudomonas entomophila L48] Length = 284 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 115/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED A+ D+ N Sbjct: 169 VREMESRLSGQDMAFDPASEADDDSAFQSPAHYLEDHRYDPALQLEDADWSDNSSSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL E+ +++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGLDDRSRDILYQRWLAEEKA--TLHELAEKYSVSAERIRQLEKNAMNKVK 279 >gi|239944630|ref|ZP_04696567.1| RNA polymerase sigma factor WhiG [Streptomyces roseosporus NRRL 15998] gi|239991094|ref|ZP_04711758.1| RNA polymerase sigma factor WhiG [Streptomyces roseosporus NRRL 11379] Length = 247 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 44 DFVSSGVFGLIDAIEKFDIERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 100 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + + +R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 101 VERAYATLEAQFRRTPSEAEVASEMGIALEELHAVFS----QLSLANVVALEELLHVGGE 156 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 157 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEGL----T 212 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 213 LAEIGNVLGVTESRVSQIHTKSVLQLR 239 >gi|28867660|ref|NP_790279.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213967796|ref|ZP_03395943.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato T1] gi|301382433|ref|ZP_07230851.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato Max13] gi|302061175|ref|ZP_07252716.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato K40] gi|302132032|ref|ZP_07258022.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. tomato NCPPB 1108] gi|28850895|gb|AAO53974.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato str. DC3000] gi|213927572|gb|EEB61120.1| RNA polymerase sigma-32 factor [Pseudomonas syringae pv. tomato T1] gi|330965442|gb|EGH65702.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. actinidiae str. M302091] gi|331014973|gb|EGH95029.1| RNA polymerase factor sigma-32 [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 284 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 118/234 (50%), Gaps = 13/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTT---- 614 VR++ ++T ++ + +D S +++ED P A+ + +T Sbjct: 169 VREMESRLTGHDMAFDPAAEADDDSAFQSPANYLEDHR-YDPARQLEDADWTDNSTANLH 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L R +L R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 228 QALDVLDERSRDILYQRWLAEEKA--TLHDLAQKYNVSAERIRQLEKSAMNKLK 279 >gi|297616717|ref|YP_003701876.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] gi|297144554|gb|ADI01311.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Syntrophothermus lipocalidus DSM 12680] Length = 248 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 58/226 (25%), Positives = 111/226 (49%), Gaps = 10/226 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + ++NL LV +++ N F DL Q G IGL+KA +FD+ G KFSTYA+ Sbjct: 26 AEEAVFQSNLGLVYMALERFKNTPYDFEDLFQIGAIGLLKAIARFDFGYGVKFSTYAVPM 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + + R + D +++ +++ ++V + + +EPT EIA++L + + V Sbjct: 86 IIGELKRYLRDDGI-LKVQRSIKEIYYRVKSAQDDLRREFGKEPTIGEIAERLGLELNDV 144 Query: 564 RKVLKITKEPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 ++ + P + + GDE L + + D + L+E R L P Sbjct: 145 VMAVEACQPPTYIYNLLPGDEKEQPLPLISKVSDREGTEDLLEKVALKEAVMR----LDP 200 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE V+ RF D T + + +++ ++ ++E +A++KL+ Sbjct: 201 REREVIVRRF----FKDETQSAIAEDLGISQVQVSRLEKRALKKLR 242 >gi|254519896|ref|ZP_05131952.1| sporulation sigma factor SigF [Clostridium sp. 7_2_43FAA] gi|226913645|gb|EEH98846.1| sporulation sigma factor SigF [Clostridium sp. 7_2_43FAA] Length = 251 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 114/232 (49%), Gaps = 20/232 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++E NL LV S++KK+ NRG + D+ Q G+IGL+KA FD KFSTYA+ Sbjct: 30 AMNKVIEMNLPLVSSISKKFLNRGYDYEDIFQIGSIGLVKAINNFDDKFNVKFSTYAVPM 89 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R I D I++ +++ K+ +++ K+ REPT EE+++ GV Sbjct: 90 IIGEIKRFIRDDGI-IKVSRNVKSLARKLHFDKEQLTKKLDREPTIEELSQ-----FSGV 143 Query: 564 RK--VLKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTRVL 617 K +L + S++ DT H D + DK + D + N R L Sbjct: 144 DKEEILFAIESSASMQYLY---DTIHQDDGAPVLLIDKLSEKGEDDSDMIN-RIALKEAL 199 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 SL + +++ +R+ D T +V K +++ ++ +IE K + +K Sbjct: 200 RSLDSKARQIIMLRYF----KDKTQVQVAKMLGISQVQVSRIEKKVLVLMKQ 247 >gi|153876074|ref|ZP_02003579.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] gi|152067462|gb|EDN66421.1| RNA polymerase sigma-32 factor [Beggiatoa sp. PS] Length = 242 Score = 77.0 bits (188), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 120/234 (51%), Gaps = 17/234 (7%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 K++V ++LR V+ +A Y GL DLIQEGNIGLMKA ++F+ +G + ++A+ W++ Sbjct: 8 KKLVISHLRFVLYIAHGYRGYGLPLADLIQEGNIGLMKAVKRFNPNVGVRLVSFAVHWIR 67 Query: 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGV 563 I I +++ + K+ R M ++ E ++A+ L + + V Sbjct: 68 AEIHEFILRNWRIVKVVTTKAQR--KLFFNLRSMKKRLGWLSQAEVDKVAQDLGVSSKDV 125 Query: 564 RKVLK-ITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQ----ANLRETTTR 615 ++ K ++ + ++ + P+ +D + ++ED N P Q A+ + Sbjct: 126 LEMEKRLSMQDVAFDAPVDSDDDDEVFAPAAYLED-NRYDPAALVEQDEWEAHGHKQLLH 184 Query: 616 VLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R + +L+ R+ ++ D TL+E+ + V+ ERIRQIE+ A++KLK Sbjct: 185 AFKKLDVRSQDILQQRW---LSEDKATLQELANHYKVSAERIRQIESNALKKLK 235 >gi|148381038|ref|YP_001255579.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 3502] gi|153933259|ref|YP_001385409.1| sporulation sigma factor SigF [Clostridium botulinum A str. ATCC 19397] gi|153935896|ref|YP_001388816.1| sporulation sigma factor SigF [Clostridium botulinum A str. Hall] gi|153939970|ref|YP_001392365.1| sporulation sigma factor SigF [Clostridium botulinum F str. Langeland] gi|170754271|ref|YP_001782722.1| sporulation sigma factor SigF [Clostridium botulinum B1 str. Okra] gi|226950516|ref|YP_002805607.1| RNA polymerase sigma-F factor [Clostridium botulinum A2 str. Kyoto] gi|148290522|emb|CAL84650.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 3502] gi|152929303|gb|ABS34803.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. ATCC 19397] gi|152931810|gb|ABS37309.1| RNA polymerase sigma-F factor [Clostridium botulinum A str. Hall] gi|152935866|gb|ABS41364.1| RNA polymerase sigma-F factor [Clostridium botulinum F str. Langeland] gi|169119483|gb|ACA43319.1| RNA polymerase sigma-F factor [Clostridium botulinum B1 str. Okra] gi|226844449|gb|ACO87115.1| RNA polymerase sigma-F factor [Clostridium botulinum A2 str. Kyoto] gi|295320356|gb|ADG00734.1| RNA polymerase sigma-F factor [Clostridium botulinum F str. 230613] gi|322807388|emb|CBZ04962.1| RNA polymerase sporulation specific sigma factor SigF [Clostridium botulinum H04402 065] Length = 251 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/222 (26%), Positives = 113/222 (50%), Gaps = 8/222 (3%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++VE NL LV +++KK+ NRG ++ D+ Q G IGL+KA F+ KFSTYA+ + Sbjct: 33 KLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTYAVPMIMG 92 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R + D I++ ++ K+ ++ ++ REPT EE+++ V+ + Sbjct: 93 EIKRFLRDDGI-IKVSRSIKTAAKKLHYDKEKLCKELNREPTIEELSQFSGYTVDEILMA 151 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + + P L I +D + + I+ + + D+ I N+ L +L + + Sbjct: 152 TESSSSPQYLYDVIHQDDGAPVL-LIDKISENTEEDNKIVDNI--ALKEALKNLDIKSRQ 208 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +R+ D T EV KQ +++ ++ +IE K ++ +K Sbjct: 209 IIILRYF----KDKTQIEVAKQLGISQVQVSRIEKKVLKLMK 246 >gi|302535451|ref|ZP_07287793.1| RNA polymerase sigma-E factor [Streptomyces sp. C] gi|302444346|gb|EFL16162.1| RNA polymerase sigma-E factor [Streptomyces sp. C] Length = 288 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 60/257 (23%), Positives = 118/257 (45%), Gaps = 38/257 (14%) Query: 429 HIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKF 488 H ++ + +G + S + +VE NL LV A+++ R D++Q G IGL+KA +F Sbjct: 46 HRLAELDEGTADYSYVRNTLVELNLSLVKYAARRFRGRSEPMEDIVQVGTIGLIKAINRF 105 Query: 489 DWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPT 548 D G +F+T+AM + I R D S +++P +++ + + + REPT Sbjct: 106 DPERGVEFTTFAMPTISGEIKRFFRDTSWAVKVPRRLQELRIDSAKAHDALEQDLGREPT 165 Query: 549 PEEIAKKLAMPVEGVRKVLKIT-----------------KEPISLETPIGDEDTSHLGDF 591 E+A++L + E + K ++P + +G+E+ ++ D Sbjct: 166 DTEMARELDVTPEEFSEGRKAASAYSARSLDAPVQEDSERDPAAERASLGEEEPAY--DR 223 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 IE ++ P+ LA L RE +L +RFG + T E+G + + Sbjct: 224 IECLESLKPM---------------LAVLPERERELLSLRFG----QELTQSEIGARLGL 264 Query: 652 TRERIRQIEAKAIRKLK 668 ++ + ++ + + +L+ Sbjct: 265 SQMHVSRLLNRTLTRLR 281 >gi|254482649|ref|ZP_05095887.1| alternative sigma factor RpoH [marine gamma proteobacterium HTCC2148] gi|214037008|gb|EEB77677.1| alternative sigma factor RpoH [marine gamma proteobacterium HTCC2148] Length = 284 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/235 (26%), Positives = 124/235 (52%), Gaps = 15/235 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +E+V ++LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++FD G + ++A+ W Sbjct: 50 AARELVMSHLRFVVHIARSYSGYGLAEADLIQEGNVGLMKAIKRFDPEKGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R+ ++ + + + + +A+ L + V+ Sbjct: 110 IKAEMHEYILRNWRIVKVATTKAQRKLFFNLRSKKKSLSWLSADEA-KAVAEDLGVDVKE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGD---FIEDKNAVSPLDSAIQANLRETTT---- 614 V ++ ++T ++ + +D ++ED ++ P + + + ++ + Sbjct: 169 VHRMEGRLTSRDLAYDMSTDSDDDDAWQAPQYYLEDHSS-DPAQTVEEGDWKQNSQAQLH 227 Query: 615 RVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R +L R+ + D TL E+ Q+ V+ ERIRQ+EA A++KLK Sbjct: 228 SALADLDERSRNILAQRW---LAEDKSTLHELADQYGVSAERIRQLEANAMKKLK 279 >gi|187778269|ref|ZP_02994742.1| hypothetical protein CLOSPO_01861 [Clostridium sporogenes ATCC 15579] gi|187771894|gb|EDU35696.1| hypothetical protein CLOSPO_01861 [Clostridium sporogenes ATCC 15579] Length = 251 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/222 (26%), Positives = 113/222 (50%), Gaps = 8/222 (3%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++VE NL LV +++KK+ NRG ++ D+ Q G IGL+KA F+ KFSTYA+ + Sbjct: 33 KLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTYAVPMIMG 92 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R + D I++ ++ K+ ++ ++ REPT EE+++ V+ + Sbjct: 93 EIKRFLRDDGI-IKVSRSIKTAAKKLHYDKEKLCKELNREPTIEELSQFSGYTVDEILMA 151 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + + P L I +D + + I+ + + D+ I N+ L +L + + Sbjct: 152 TESSSSPQYLYDVIHQDDGAPVL-LIDKISENTEEDNKIIDNI--ALKEALKNLDIKSRQ 208 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +R+ D T EV KQ +++ ++ +IE K ++ +K Sbjct: 209 IIILRYF----KDKTQIEVAKQLGISQVQVSRIEKKVLKLMK 246 >gi|157161393|ref|YP_001458711.1| flagellar biosynthesis sigma factor [Escherichia coli HS] gi|157067073|gb|ABV06328.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli HS] Length = 239 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 VV+ ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VVQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|220927856|ref|YP_002504765.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium cellulolyticum H10] gi|219998184|gb|ACL74785.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Clostridium cellulolyticum H10] Length = 249 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 58/227 (25%), Positives = 113/227 (49%), Gaps = 13/227 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V L L ++KK+ NRG+ F D+ Q + L+ A E+F G KF ++A + Sbjct: 29 RNEIVSNYLSLAEYLSKKFLNRGVDFDDIYQVACLALINAVERFSPDKGVKFISFATPTI 88 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D+S TI+IP + + V + ++ K+ R P +EIA+ + +PVE V Sbjct: 89 LGEIKRFFRDKSTTIKIPRRIYESRQGVNKARDELTQKLSRVPRADEIAEYMGIPVETVL 148 Query: 565 KVLKITKEPI--SLETPIGDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++++ I SL+ I ++ + LGD + D+ +D+ ++ +VL S Sbjct: 149 EIIEAGSSTIVKSLDQTINQDNDAELGDTLGYDEKTYEMIDN------KDFLEKVLISFN 202 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + + R+ + T +++ + V++ + ++E K + K + Sbjct: 203 DVERQFVTYRYI----QNKTQKQIAEILGVSQMYVSRMERKILDKFR 245 >gi|168179581|ref|ZP_02614245.1| RNA polymerase sigma-F factor [Clostridium botulinum NCTC 2916] gi|168181777|ref|ZP_02616441.1| RNA polymerase sigma-F factor [Clostridium botulinum Bf] gi|170761116|ref|YP_001788407.1| sporulation sigma factor SigF [Clostridium botulinum A3 str. Loch Maree] gi|237796543|ref|YP_002864095.1| sporulation sigma factor SigF [Clostridium botulinum Ba4 str. 657] gi|169408105|gb|ACA56516.1| RNA polymerase sigma-F factor [Clostridium botulinum A3 str. Loch Maree] gi|182669805|gb|EDT81781.1| RNA polymerase sigma-F factor [Clostridium botulinum NCTC 2916] gi|182675139|gb|EDT87100.1| RNA polymerase sigma-F factor [Clostridium botulinum Bf] gi|229260985|gb|ACQ52018.1| RNA polymerase sigma-F factor [Clostridium botulinum Ba4 str. 657] Length = 251 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/222 (26%), Positives = 113/222 (50%), Gaps = 8/222 (3%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++VE NL LV +++KK+ NRG ++ D+ Q G IGL+KA F+ KFSTYA+ + Sbjct: 33 KLVEVNLPLVSAISKKFLNRGYEYDDIFQIGCIGLVKAINNFETKYNVKFSTYAVPMIMG 92 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R + D I++ ++ K+ ++ ++ REPT EE+++ V+ + Sbjct: 93 EIKRFLRDDGI-IKVSRSIKTAAKKLHYDKEKLCKELNREPTIEELSQFSGYTVDEILMA 151 Query: 567 LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREER 626 + + P L I +D + + I+ + + D+ I N+ L +L + + Sbjct: 152 TESSSSPQYLYDVIHQDDGAPVL-LIDKISENTEEDNKIIDNI--ALKEALKNLDIKSRQ 208 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ +R+ D T EV KQ +++ ++ +IE K ++ +K Sbjct: 209 IIILRYF----KDKTQIEVAKQLGISQVQVSRIEKKVLKLMK 246 >gi|309775720|ref|ZP_07670717.1| RNA polymerase sigma-F factor [Erysipelotrichaceae bacterium 3_1_53] gi|308916525|gb|EFP62268.1| RNA polymerase sigma-F factor [Erysipelotrichaceae bacterium 3_1_53] Length = 241 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 114/228 (50%), Gaps = 15/228 (6%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ +R G+ EA K V+ N LV S+ ++++ + + DL Q G +GLMKA FD Sbjct: 10 LIERIRLGDEEA---KSCFVQQNSALVYSIIRRFSRQRISNEDLFQIGCVGLMKALNNFD 66 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R D +IRI +++ ++V+T + K+ EPT Sbjct: 67 TSYEVKFSTYAVPIIMGEIKRFFRDDG-SIRISRSLKEGYLQMVKTKEMLLQKLNHEPTY 125 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK-NAVSPLDSAIQAN 608 +EIA + + V V + + SL+ I + D S + +EDK + D ++ + Sbjct: 126 QEIADAMELDVADVILAFEANQFIYSLDETIYENDGSPI--LLEDKVSNKKEEDVVMKVS 183 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 LR+ + L RE+ +L R+ + M E++ K+ +++ ++ Sbjct: 184 LRDEIQK----LDQREQLLLHYRYDLSMKQ----EDIAKKLNISQVQV 223 >gi|213583576|ref|ZP_03365402.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 201 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 5 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 61 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L +PV R++L T DE GD Sbjct: 62 VAQAMGQLEQELGRNATETEVAERLGIPVAEYRQMLLDTNNSQLFSY---DEWREEHGDS 118 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ +LR+ + SL RE+ VL + + +N L+E+G Sbjct: 119 IELVTEEHQQENPLHQLLEGDLRQRVMDAIESLPEREQLVLTLYYQEELN----LKEIGA 174 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 175 VLEVGESRVSQLHSQAIKRLR 195 >gi|82776398|ref|YP_402747.1| flagellar biosynthesis sigma factor [Shigella dysenteriae Sd197] gi|81240546|gb|ABB61256.1| alternative sigma factor 28 [Shigella dysenteriae Sd197] Length = 239 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQCIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDYQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 + V R+ Q+ ++AI++L+ Sbjct: 213 ELEVGESRVSQLHSQAIKRLR 233 >gi|300114350|ref|YP_003760925.1| RNA polymerase sigma 32 subunit RpoH [Nitrosococcus watsonii C-113] gi|299540287|gb|ADJ28604.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosococcus watsonii C-113] Length = 287 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 116/238 (48%), Gaps = 21/238 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR VI +A+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 53 AARQLVLSHLRFVIRIARGYNGYGLPLADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R+A++ + R+ E+A+ L + Sbjct: 113 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKKRLGWLNRKEV-NEVAQDLGI---S 168 Query: 563 VRKVLKITKEPISLETPIGDEDT-----------SHLGDFIEDKNAVSPLDSAIQANLRE 611 ++V+++ S +TP +T ++L D D ++ Q N Sbjct: 169 PKQVMEMEARLSSQDTPFDGTNTEESENSLPAPMAYLADPSAD--PAQKMELLDQENYYG 226 Query: 612 TTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R L L R ++ R+ TL E+ ++ ++ ERIRQ+E AI+K++ Sbjct: 227 QRLRQALEVLDLRSRTIINRRW--LQENKSTLHELAAEYQISAERIRQLENNAIKKMR 282 >gi|119475401|ref|ZP_01615754.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] gi|119451604|gb|EAW32837.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143] Length = 282 Score = 77.0 bits (188), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 120/230 (52%), Gaps = 10/230 (4%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 +E+V A+LR V+ +A+ Y GL DLIQEGNIGLMKA ++F+ G + ++A+ WVK Sbjct: 51 RELVMAHLRFVVHIARSYNGYGLPLADLIQEGNIGLMKAVKRFNPEKGVRLVSFAVHWVK 110 Query: 506 QAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + I +++ + K+ +R A++ + E IA+ L + V+ VR Sbjct: 111 AEMHEYILRNWRIVKVATTKAQRKLFFNLRGAKKKLAWLN-EKEAHAIAEDLNVDVKEVR 169 Query: 565 KV-LKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPL---DSAIQANLRETTTRVLA 618 ++ ++T + + DED + ++ED +A + D+ + N + L Sbjct: 170 RMESRLTASDLGFDAGADDEDDGFVAPAHYLEDHSANPAMLLEDADWEQNSNQHLQLALE 229 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +++ R+ ++ TL ++ ++ V+ ER+RQ+E A++K++ Sbjct: 230 QLDERSRDIIQARW--LSDSKSTLHDLAGKYGVSAERVRQLEKNAMKKVR 277 >gi|322834883|ref|YP_004214910.1| RNA polymerase, sigma 32 subunit, RpoH [Rahnella sp. Y9602] gi|321170084|gb|ADW75783.1| RNA polymerase, sigma 32 subunit, RpoH [Rahnella sp. Y9602] Length = 285 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 66/275 (24%), Positives = 139/275 (50%), Gaps = 19/275 (6%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 +++ ++ N ++ E +++E H G+ EA+ KE++ ++LR V +A+ Sbjct: 16 LEAYVRAANAYPMLTAEEERALAERLHY-----NGDLEAA---KELILSHLRFVAHIARN 67 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGNIGLMKA +F+ +G + ++A+ W+K I + +++ Sbjct: 68 YSGYGLPQADLIQEGNIGLMKAVRRFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 127 Query: 523 -VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI 580 + K+ +R ++ + E +A++L + + V ++ ++ + ++ + Sbjct: 128 TTKAQRKLFFNLRKNKQRLGWFSHDEV-EHVARELGVTSKDVLEMESRMAAQDMTFDPTP 186 Query: 581 GDE--DTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLAS----LTPREERVLRMRFG 633 DE D + + + ++ S I+ N + T L+S L R + ++R R+ Sbjct: 187 DDEPRDGAAMAPMLYLQDKSSDFAETIEEDNWDQDATDKLSSAMEGLDERSQDIIRARW- 245 Query: 634 IGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + TL+E+ ++ V+ ER+RQ+E A++KL+ Sbjct: 246 LDDENKSTLQELADKYGVSAERVRQLEKNAMKKLR 280 >gi|323487067|ref|ZP_08092375.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323694575|ref|ZP_08108741.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] gi|323399568|gb|EGA91958.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163] gi|323501343|gb|EGB17239.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673] Length = 237 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 61/226 (26%), Positives = 117/226 (51%), Gaps = 8/226 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +V N+ LV S+ +++T RG + DL Q G+IGL+KA +KFD +FSTYA+ Sbjct: 18 ARERLVMDNVGLVWSIVRRFTGRGCETEDLFQIGSIGLIKAIDKFDTSYDVRFSTYAVPM 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ +++ KV +S + REPT EEI++ L + E V Sbjct: 78 ITGEIKRFLRDDG-MIKVSRSIKELGFKVSAVRESLSGSLGREPTLEEISEALEVSKEEV 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L+ + SL P G + + L + DK A ++ + + R +L SL + Sbjct: 137 AASLEAGCQVESLYAPSGSGEDNTLS--LIDKVAEEKEENEMLLD-RMVLGELLKSLEKK 193 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + ++ R+ + T ++ + +++ ++ ++E K +R+++ Sbjct: 194 QREIIVRRY----FYNQTQTQIAEILGISQVQVSRMERKILREMRE 235 >gi|164686436|ref|ZP_02210464.1| hypothetical protein CLOBAR_00001 [Clostridium bartlettii DSM 16795] gi|164604447|gb|EDQ97912.1| hypothetical protein CLOBAR_00001 [Clostridium bartlettii DSM 16795] Length = 256 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/227 (25%), Positives = 116/227 (51%), Gaps = 16/227 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E NL LV +AKKY N+G++F DL Q G++ L+ A E++D GY+FS++A + Sbjct: 35 LIERNLYLVSILAKKYINKGVEFEDLYQVGSLALIYAIERYDISKGYEFSSFATPTIIGE 94 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ T+R+P +++ KV + + K++P EIA+ + E V + L Sbjct: 95 IKKYFRDKVWTMRVPRRVQELNKKVNEAKLLLEQQNKKKPKVNEIAEYIGCREEEVLEAL 154 Query: 568 KIT--KEPISLETPIGDE----DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + +P+SL++P+ + + S + +N S ++ ++ + + L Sbjct: 155 EASYGYQPVSLDSPVNSDSEEAEISLIDKIGSQENNFSDIE------YKDFIEKFTSKLN 208 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E + RF + T + K+ +++ I +IE K ++KL+ Sbjct: 209 ELERNIFEGRFF----KEKTQSALAKELDISQMTISRIERKVVQKLR 251 >gi|5821404|dbj|BAA83808.1| sigma factor 32 [Pseudomonas putida] Length = 284 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 61/233 (26%), Positives = 113/233 (48%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVMAHLRFVVHIARSYAGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + + +A+ L + Sbjct: 110 IKAEIPEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKN---AVSPLDSAIQANLRETTTR 615 VR++ +++ + ++ + +D S ++ED AV D+ N Sbjct: 169 VREMESRLSGQDMAFDPAAEADDDSAFQSPAHYLEDHRYDPAVQLEDADWSDNSTSNLHE 228 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +L R+ TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 229 ALQGWNERSRDILYQRW--LAEEKATLHELADKYSVSAERIRQLEKNAMNKVK 279 >gi|309789348|ref|ZP_07683938.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae 1617] gi|308922742|gb|EFP68259.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae 1617] Length = 229 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQCIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDYQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 + V R+ Q+ ++AI++L+ Sbjct: 203 ELEVGESRVSQLHSQAIKRLR 223 >gi|297154338|gb|ADI04050.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1] Length = 268 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 111/234 (47%), Gaps = 12/234 (5%) Query: 425 SEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKA 484 +EF I + + EA ++++VEA + + +A +Y NRG DL Q +GL+KA Sbjct: 24 AEFERIAELPDGPQKEA--LRQQVVEAWIPMADRLAGQYRNRGESLEDLRQVAALGLVKA 81 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI- 543 ++D G F ++A+ V I R D + +P +++ ++V R +S+ + Sbjct: 82 VNRYDPGRGSAFESFAVPTVVGEIKRHFRDHLWALHVPRRVQELRNRVRTAHRELSHSLD 141 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPI-GDEDTSHLGDFIEDKNAVSP 600 R P EEIA + + E VR + + P+SL+ P+ G +D L D + ++ Sbjct: 142 DRAPDVEEIADRTGLSEEDVRTGVAALDSFAPLSLDAPLTGTDDGYALRDTLGEQEPA-- 199 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 D + RE L L RE R+L MRF M E++G Q V+R Sbjct: 200 YDRVVD---REAVRSGLCRLPERERRILYMRFFCDMTQSRIAEQLGISQMHVSR 250 >gi|218133795|ref|ZP_03462599.1| hypothetical protein BACPEC_01684 [Bacteroides pectinophilus ATCC 43243] gi|217991170|gb|EEC57176.1| hypothetical protein BACPEC_01684 [Bacteroides pectinophilus ATCC 43243] Length = 256 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/257 (24%), Positives = 128/257 (49%), Gaps = 19/257 (7%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S + + ++ +G+ EA + +V N+ L+ S+ K++T RG + DL Q G+IGL+ Sbjct: 4 SYNHTKELIEQAHRGDKEA---RNRLVTENMGLIWSIVKRFTGRGHELEDLFQIGSIGLI 60 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +KFD +FSTYA+ + + R + D I++ +++ + KV R ++ + Sbjct: 61 KAIDKFDTSYDVRFSTYAVPMITGEVKRFLRDDGM-IKVSRSLKEIVVKVQRAREQLQKE 119 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNA--- 597 + EP+ E IA+ + +P E + L+ E S+ I D + L D + D+ + Sbjct: 120 MGEEPSMEMIARAIDVPEEDIVMALEAGSEIESIYKTIYQSDGNEITLIDRVADRGSSGA 179 Query: 598 -VSP----LDSAIQANLRETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 + P D + + + +L L E+ ++ +R+ D T +V K+ + Sbjct: 180 GIVPECEWTDYEKEQLINHMVLKQILDELPENEKNLILLRY----FRDQTQTQVAKEMGI 235 Query: 652 TRERIRQIEAKAIRKLK 668 ++ ++ +IE + + +L+ Sbjct: 236 SQVQVSRIEKRILLRLR 252 >gi|220909315|ref|YP_002484626.1| RNA polymerase sigma factor SigF [Cyanothece sp. PCC 7425] gi|219865926|gb|ACL46265.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Cyanothece sp. PCC 7425] Length = 262 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 44/156 (28%), Positives = 91/156 (58%), Gaps = 5/156 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +V+ NL LV A ++ + + + DL+Q G++GL++A E+FD G+ FS++AM + Sbjct: 33 RNRLVQMNLGLVRKEAHRWLSYSTETYEDLVQVGSLGLIRAIERFDITKGHAFSSFAMPY 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+S +RIP + + A+ + ++ R PT +E+A L + ++ Sbjct: 93 IRGEIQHYLRDKSPQVRIPRRWQVLQKQASLVAQELREQLHRVPTDDEMALALGIGLQEW 152 Query: 564 R--KVLKITKEPISLETPIGDED--TSHLGDFIEDK 595 + K+ + P+SL+ P+G++D ++ LG+ + D+ Sbjct: 153 QQVKLSSYNRSPLSLDAPVGEDDFGSTCLGEMVPDQ 188 >gi|160946612|ref|ZP_02093815.1| hypothetical protein PEPMIC_00570 [Parvimonas micra ATCC 33270] gi|158446996|gb|EDP23991.1| hypothetical protein PEPMIC_00570 [Parvimonas micra ATCC 33270] Length = 254 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 60/229 (26%), Positives = 122/229 (53%), Gaps = 17/229 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++E NL + +AKKY NRG+ + DL Q ++GL+ A +++D G++FS++AM + Sbjct: 31 KLIEKNLYMAEILAKKYVNRGIDYDDLFQVASLGLIYAIDRYDISKGFEFSSFAMPTIVG 90 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I R D+ IR+P +++ KV ++ ++ R PT ++IA + + E V ++ Sbjct: 91 EIKRYFRDKGWVIRVPRRIQENSKKVNNAKYHLTQELGRTPTIKDIADYVELSEEEVLEI 150 Query: 567 LKITK--EPISLETPIGDEDT----SHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLAS 619 ++ +K P SL+ + D+ ++L D + E+ +D+ Q +R+T L Sbjct: 151 MEASKVYTPQSLDQSFENSDSEDKDTNLIDIVGEEDKEFDFIDN--QDFIRKT----LDK 204 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT E++++ R+ T + K+ +++ + ++E KA+ K + Sbjct: 205 LTEVEKQIILGRYF----EQKTQVALAKELNISQMTVSRLEKKALAKFR 249 >gi|220931546|ref|YP_002508454.1| sporulation sigma factor SigF [Halothermothrix orenii H 168] gi|219992856|gb|ACL69459.1| sporulation sigma factor SigF [Halothermothrix orenii H 168] Length = 257 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 73/260 (28%), Positives = 127/260 (48%), Gaps = 35/260 (13%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E RH ++K + A ++VE NLRLV+ V ++ + G DL Q G IGL Sbjct: 14 LSEEETRH---YIKKAQNNDQKALDKLVEHNLRLVLKVINRFKSSGYDPQDLFQIGVIGL 70 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDK-IHKVVRTARRMS 540 +KA + FD G KFSTY A++R I + I +H+RD I KV R+ ++++ Sbjct: 71 IKAIKNFDLDRGVKFSTY-------AVSRIIGE------IRLHIRDDGIIKVSRSLKKIA 117 Query: 541 NKIKR-----------EPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG 589 N +++ P+ E++KK E + + L+ K P S+ + ++D S L Sbjct: 118 NDVRKKEEELKKKNNCSPSILELSKKTGYSKEEIVQALEANKAPTSIYETVYEDDGSEL- 176 Query: 590 DFIEDKNAVSPLDSAIQANLRET-TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ++ D A D + + +L L R +++ +R+ D T +EV + Sbjct: 177 -YVVDNLANESKDEEKIPDFNKILLVDLLKKLDERSRKIIYLRYF----EDKTQQEVADE 231 Query: 649 FCVTRERIRQIEAKAIRKLK 668 V++ +I ++E K + KL+ Sbjct: 232 IGVSQVQISRLEKKILHKLR 251 >gi|326443735|ref|ZP_08218469.1| RNA polymerase sigma factor WhiG [Streptomyces clavuligerus ATCC 27064] Length = 258 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 55 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 111 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A+++ + VE + V +SL + E+ H+G Sbjct: 112 VERAYATLEAQLRRTPSEGEVAEEMGIAVEELHAVFS----QLSLANVVALEELLHVGGE 167 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 168 GGDRLSLMDTLEDTAADDPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYEGL----T 223 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 224 LAEIGNVLGVTESRVSQIHTKSVLQLR 250 >gi|146344240|ref|YP_001202096.1| putative RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] gi|146188052|emb|CAM96382.1| putative RNA polymerase sigma-32 factor [Pseudomonas fluorescens SBW25] Length = 291 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 75/278 (26%), Positives = 130/278 (46%), Gaps = 39/278 (14%) Query: 401 CEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVA 460 +D+ L + + I ++S E +SE +V + +A+ +E+V + LR V+ +A Sbjct: 20 SNLDAYLTVIHSIPNMSAEEERRLSE-----RLVEHNDMDAA---RELVTSQLRFVVHIA 71 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 + Y+ GL DLIQEGNIGL+KA ++F+ + T+ + W++ I I +R Sbjct: 72 RSYSGYGLPLSDLIQEGNIGLIKAVKRFNPAAQVRLITFGVHWIRAEINEFIIRNGRMVR 131 Query: 521 IP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 + + K+ +R R N + + T IA L + V V++ +ET Sbjct: 132 LATTKAQRKLFFNLRKQPRSRNWLTADET-RHIADTLNVSVLDVKE----------METR 180 Query: 580 IGDEDTSH--LGDFIEDKNAVSP--------LDSAIQ----ANLRETTTRVLASLTPREE 625 + DTS D ++ ++P D A Q A+ +T + A+L +E Sbjct: 181 MAGNDTSFDPAADADDESAYITPSHQIGDHRYDPAYQYETEADAGTSTDDLHAALNNLDE 240 Query: 626 R---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 R +L RF + TL ++ ++ V+ ERIRQIE Sbjct: 241 RSRDILAQRF--LSESKATLNDLASKYNVSAERIRQIE 276 >gi|30250410|ref|NP_842480.1| RNA polymerase sigma-70 factor family protein [Nitrosomonas europaea ATCC 19718] gi|30181205|emb|CAD86403.1| Sigma-70 factor family [Nitrosomonas europaea ATCC 19718] Length = 236 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/209 (26%), Positives = 104/209 (49%), Gaps = 10/209 (4%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRD 527 +Q DLIQ G IGL+ A +++ G +F +YA ++ +I + + +P +R Sbjct: 36 VQVDDLIQAGMIGLLDAINRYEGSYGRQFESYAAQRIRGSILDELREADW---LPRSLRR 92 Query: 528 KIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT--KEPISLETPIGDEDT 585 K+ ++ R + ++ P+ +EIA ++ +P+ +++L+ + I E DE+ Sbjct: 93 KMRQIETAMRALEQRLGYPPSEQEIANEMNLPLVEYQEMLQEAGGGQLIYYEDFQEDEE- 151 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 H D + + PLD ++ NLRE + L +E+ V+ M + MN L E+ Sbjct: 152 DHFLDRLRGDQSNEPLDRLLEKNLRELLVAAIEKLPAKEKLVMGMYYEQEMN----LREI 207 Query: 646 GKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 GK V+ R+ Q+ +AI +L+ R K Sbjct: 208 GKVLGVSESRVCQLHTQAISRLRTHLRDK 236 >gi|320008281|gb|ADW03131.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces flavogriseus ATCC 33331] Length = 278 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPSEAEVASEMGVALEELHAVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADDPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|149188340|ref|ZP_01866634.1| RNA polymerase sigma factor [Vibrio shilonii AK1] gi|148837929|gb|EDL54872.1| RNA polymerase sigma factor [Vibrio shilonii AK1] Length = 285 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 115/239 (48%), Gaps = 30/239 (12%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 ++V +LR V+ +AK + GL +D+IQ GNIGL+KA +KF+ LG++ ++A+ W+K Sbjct: 52 KLVLPHLRYVVYIAKGFAGYGLPLVDMIQSGNIGLLKAVKKFNPELGFRLVSFAVHWIKS 111 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 IT I ++I ++ R++ +K+ +E + E + Sbjct: 112 EITDFIIKNWSIVKIA---------TTKSQRKLFFNLKKYKQSQEWMSE--SEAENLASK 160 Query: 567 LKITKEPI-SLETPIGDEDTSHLGDFIEDKNAV---------SPLDSAIQANLRETTTRV 616 LK++K+ + S++ + D+ ED++ V LD AI+ ++ + Sbjct: 161 LKVSKKDVLSMDGRLSARDSYIDPKIGEDEDQVISTGEVFAEPQLDVAIEYETQDWDRHI 220 Query: 617 -------LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA L R ++ R+ + TL E+ ++ V+ ER+RQIE + KLK Sbjct: 221 NDELNAGLAKLDARSRDIIVSRWLLSEKV--TLNELAERHRVSAERVRQIELMTLEKLK 277 >gi|94312634|ref|YP_585843.1| RNA polymerase sigma 28 (sigma F) factor [Cupriavidus metallidurans CH34] gi|93356486|gb|ABF10574.1| RNA polymerase sigma 28 (sigma F) factor [Cupriavidus metallidurans CH34] Length = 238 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/224 (28%), Positives = 110/224 (49%), Gaps = 14/224 (6%) Query: 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 R+ + +A K +Q DLIQ G IGL+ AA++++ G +F TYA ++ A+ + Sbjct: 23 RIALQLAAKLPA-SVQIDDLIQAGMIGLLDAAKRYEDNHGARFETYASQRIRGAMLDEVR 81 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 R +R K+ RT R++ K+ R P E+AK+L M +E +++L Sbjct: 82 ANDWQSR---SLRQFTRKIERTQRQLEQKLGRSPIDSEVAKELEMGLEEYQELLNEVHGC 138 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVS----PLDSAIQANLRETTTRVLASLTPREERVLR 629 L D + S DF++ V+ PL +++ +R+ R + L RE+ VL Sbjct: 139 QLLHYE--DFERSGEEDFLDRHLGVTDEANPLTVLMESGMRDALIRAIEKLPEREKLVLS 196 Query: 630 MRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 + + +N L E+G VT R+ QI ++AI +L++ R Sbjct: 197 LCYDQELN----LREIGAVLEVTESRVCQIRSQAITRLRNQLRG 236 >gi|226313041|ref|YP_002772935.1| RNA polymerase sigma-D factor [Brevibacillus brevis NBRC 100599] gi|226095989|dbj|BAH44431.1| RNA polymerase sigma-D factor [Brevibacillus brevis NBRC 100599] Length = 262 Score = 76.6 bits (187), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/201 (27%), Positives = 100/201 (49%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G GL+ A KFD G +F TYAMW ++ A+ + + IP +RDK K Sbjct: 58 DLISYGRFGLLDALAKFDHTRGLQFETYAMWRIRGAMIDGLRENDW---IPRTVRDKAKK 114 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + + ++ R PT +E++ L + + +++V T +S++ +GDED Sbjct: 115 IEEAYTTLEQQMLRMPTDQEVSDYLGISKKELQQVFLETSLASMVSIDEAVGDEDEQKTA 174 Query: 590 --DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +I D+ P + A ++L+E V+ L +E V+ + + M TL E+ + Sbjct: 175 RHSYIIDELTPRPDNVAEVSSLKEVLVTVIDKLPEKERLVISLFYFEEM----TLSEIAE 230 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 ++ RI Q+ +KA+ +L+ Sbjct: 231 IMSLSPSRISQLHSKALFRLR 251 >gi|188592109|ref|YP_001796707.1| RNA polymerase sigma factor for flagellar operon; sigma-70 factor family; sigma-f factor; sigma-27; sigma-28 [Cupriavidus taiwanensis LMG 19424] gi|170938483|emb|CAP63470.1| RNA polymerase sigma factor for flagellar operon; sigma-70 factor family; Sigma-F factor; Sigma-27; Sigma-28 [Cupriavidus taiwanensis LMG 19424] Length = 238 Score = 76.3 bits (186), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 68/243 (27%), Positives = 116/243 (47%), Gaps = 20/243 (8%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 + + + ++V+A+ LV +A + R +Q DLIQ G IGL+ AA++++ G +F Sbjct: 5 QGKLEQADVVKAHAPLVRRIALQLAARLPASVQIDDLIQAGMIGLLDAAKRYEDTHGARF 64 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 TYA ++ A+ + R +R ++ RT R + K+ R P E+A+ + Sbjct: 65 ETYASQRIRGAMLDEVRANDWQSR---SLRQFTRRIERTQRNLEQKLGRTPIDSEVAEAM 121 Query: 557 AMPVEGVRKVLKITKEPISLETP----IGDEDT--SHLGDFIEDKNAVSPLDSAIQANLR 610 MP++ + +L L G+ED HLG +D N PL +++ +R Sbjct: 122 EMPLDEYQLLLNEVYGCQLLHYEDFERSGEEDFLDRHLGGS-DDGN---PLTVLMESGMR 177 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E R + L RE+ VL + + +N L E+G VT R+ QI +AI +L+ Sbjct: 178 EALVRAIERLPEREKLVLSLCYDQELN----LREIGAVLDVTESRVCQIRGQAINRLRTQ 233 Query: 671 SRS 673 R Sbjct: 234 LRG 236 >gi|261855188|ref|YP_003262471.1| RNA polymerase, sigma 32 subunit, RpoH [Halothiobacillus neapolitanus c2] gi|261835657|gb|ACX95424.1| RNA polymerase, sigma 32 subunit, RpoH [Halothiobacillus neapolitanus c2] Length = 291 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 114/235 (48%), Gaps = 14/235 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LR V+ +A+ Y GL DLIQEGNIGLMKA ++F+ + T+A+ W Sbjct: 53 AAQKLIMSHLRFVVHIARGYRGYGLPLADLIQEGNIGLMKAVKRFEPEQKVRLVTFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMP-V 560 ++ I I ++I + K+ R+M + + E IA +L +P Sbjct: 113 IRAEIHEYILKNWRIVKIATTKAQR--KLFFKMRQMKSGLGWLTADETRAIAAELNVPER 170 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIE----DKNAVSPLDSAIQANLRE---TT 613 E V ++ I+++ P+ D + G E D++ VS D Q + + Sbjct: 171 EVVTMESRLYSHDIAIDAPVYDSEQEGSGPSYEQILVDQHQVSVEDMTAQRDEDDRVTAM 230 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 T L L R +L R+ TL+ + ++ V+ ER+RQIE A++KL+ Sbjct: 231 THALHDLDARSRDILERRW--LQEPKATLQTLADEYQVSAERVRQIENAALKKLR 283 >gi|328885347|emb|CCA58586.1| RNA polymerase sigma factor for flagellar operon [Streptomyces venezuelae ATCC 10712] Length = 258 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 55 DFVSSGVFGLIDAIEKFDVERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 111 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 112 VERAYATLEAQLRRTPSETEVAAEMDISLEDLHAVFS----QLSLANVVALEELLHVGGE 167 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 168 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 223 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 224 LAEIGHVLGVTESRVSQIHTKSVLQLR 250 >gi|297191780|ref|ZP_06909178.1| sporulation sigma factor [Streptomyces pristinaespiralis ATCC 25486] gi|197721703|gb|EDY65611.1| sporulation sigma factor [Streptomyces pristinaespiralis ATCC 25486] Length = 278 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + V+ + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQLRRTPSESEVAAEMGITVDELHSVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGERLSLMDTLEDTAADNPVEVAEGRELRRLLARAINTLPDREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|270262372|ref|ZP_06190644.1| RNA polymerase sigma factor for flagellar operon [Serratia odorifera 4Rx13] gi|270044248|gb|EFA17340.1| RNA polymerase sigma factor for flagellar operon [Serratia odorifera 4Rx13] Length = 240 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 50/198 (25%), Positives = 99/198 (50%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRHARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + R++ ++ R + E+A+ L +P++ R++L T E+ + Sbjct: 100 VAQVMRQLEQRLGRPASEVEVAQTLNIPLDEYRQILLDTNNSQLFSYDEWREEHGESAEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEEANPLHHLLEGNLRQRVIDAIDALPEREKMVLTLYYQEELN----LKEIGAVLD 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|197303735|ref|ZP_03168772.1| hypothetical protein RUMLAC_02464 [Ruminococcus lactaris ATCC 29176] gi|197297255|gb|EDY31818.1| hypothetical protein RUMLAC_02464 [Ruminococcus lactaris ATCC 29176] Length = 265 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 70/266 (26%), Positives = 119/266 (44%), Gaps = 61/266 (22%) Query: 409 IRNEIKSISVET---GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 I N ++ +S++T ++ E ++ +G+ EA K ++E NLRLV + +KY N Sbjct: 51 ISNVLRGVSLKTFPNPLTPDEEKYYFQKYTEGDLEA---KHILIERNLRLVAHIVRKYQN 107 Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHM 525 G + DLI G IGL+KA FD G + + YA +R + ++ I +++ Sbjct: 108 LGEEMEDLISIGTIGLIKAVISFDPEKGNRLAAYA--------SRCVENE-----ILMYL 154 Query: 526 RDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG---D 582 R AR+ K ISL PIG D Sbjct: 155 R---------ARKKGGK------------------------------EISLYEPIGTDRD 175 Query: 583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 + L D IE + P ++ N+++ +V + L+PRE VL+MR+G+ ++T Sbjct: 176 GNEIRLYDIIETTDTDVPEKLYLKENIQKLYEKVESELSPRERLVLKMRYGLYNGEEYTQ 235 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ ++R + +IE A+ KL+ Sbjct: 236 REIASLLGISRSYVSRIEKSAVEKLR 261 >gi|20151058|pdb|1KU3|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment, Region 4 gi|20151059|pdb|1KU7|A Chain A, Crystal Structure Of Thermus Aquatics Rna Polymerase Sigmaa Subunit Region 4 Bound To-35 Element Dna gi|20151062|pdb|1KU7|D Chain D, Crystal Structure Of Thermus Aquatics Rna Polymerase Sigmaa Subunit Region 4 Bound To-35 Element Dna Length = 73 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 42/72 (58%), Positives = 52/72 (72%), Gaps = 1/72 (1%) Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-H 669 E + L+ L+ RE VL+MR G+ +HTLEEVG F VTRERIRQIE KA+RKLK H Sbjct: 2 EELEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYH 61 Query: 670 PSRSKKLRSFLD 681 SR++KLR FL+ Sbjct: 62 ESRTRKLRDFLE 73 >gi|261340320|ref|ZP_05968178.1| flagellar biosynthesis sigma factor FliA [Enterobacter cancerogenus ATCC 35316] gi|288317411|gb|EFC56349.1| flagellar biosynthesis sigma factor FliA [Enterobacter cancerogenus ATCC 35316] Length = 229 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V ++ ++ R T E+A++L + VE R++L T DE GD Sbjct: 90 VAHAMGQLEQELGRNATETEVAERLGIAVEDYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE + +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDEHQQENPLHHLMEGNLRQRVMEAIEALPEREQLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|311696378|gb|ADP99251.1| RNA polymerase, sigma 32 subunit, RpoH [marine bacterium HP15] Length = 286 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 72/287 (25%), Positives = 141/287 (49%), Gaps = 45/287 (15%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++S ++ + I ++V+ ++E H +G+ EA+ +++V ++LR VI +A+ Sbjct: 17 LESYIQAASRIPVLTVDEERELAERLHY-----EGDVEAA---RQLVMSHLRFVIHIARS 68 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ GL DLIQEGN+GLMKA ++F+ G + ++A+ W+K I I +++ Sbjct: 69 YSGYGLAQADLIQEGNVGLMKAVKRFNPEYGVRLVSFAVHWIKAEIHEFILRNWRIVKVA 128 Query: 523 VHMRDKIHKVVRTARRMSNKIKREPTPE--EIAKKLAMPVEGVRKVLKITKEPISLETPI 580 + K+ R K+ E +A+ L + VR+ +E + Sbjct: 129 TTKAQR--KLFFNLRSQKKKLAWLSHDELNAVAEDLGVEPRVVRE----------MEGRL 176 Query: 581 GDEDTSHLGD--------------FIED--KNAVSPLDSAIQANLRETTTRVLASLTPRE 624 +DT+ G ++ED N + L++A ++ ++ R++ +L + Sbjct: 177 ASQDTAFDGPQDDDDDNAYQAPAYYLEDARSNPATQLENADWSD--DSNGRLMQALGQLD 234 Query: 625 ER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ER +LR R+ + TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 235 ERSQDILRERW--LSESKSTLHELADRYGVSAERIRQLEKNAMKKIR 279 >gi|3929539|gb|AAC79983.1| HasR [Streptomyces ambofaciens] gi|117164812|emb|CAJ88361.1| putative sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 281 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/247 (23%), Positives = 129/247 (52%), Gaps = 14/247 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 F +S++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 37 FFQQLSVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 96 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S + +P +++ ++ R + +++ R Sbjct: 97 DRFELTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVQLARATEELRSRLGR 156 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPI-GDEDT-SHLGDFIEDKNAVSPL 601 PT +E+++ +++P + V ++ SL+ I G ED S L DFI +A L Sbjct: 157 NPTTKELSELMSLPEDEVVEARLAANGYNSASLDAAISGSEDGESALADFIGADDATLAL 216 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A ++A L R+ +++ RF + T +++G++ V++ + ++ + Sbjct: 217 VDDFHA-----LAPMIAELDERDRQIIHWRF----VEELTQKDIGERLGVSQMHVSRLIS 267 Query: 662 KAIRKLK 668 + + +L+ Sbjct: 268 RLLARLR 274 >gi|331696957|ref|YP_004333196.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326951646|gb|AEA25343.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 288 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 53/209 (25%), Positives = 103/209 (49%), Gaps = 18/209 (8%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V +L +V +A+++ RG DL Q G +GL+ A ++FD G F +YA+ + Sbjct: 67 RERLVTGHLPVVRHIARRFAGRGEPVDDLEQAGTVGLINAVDRFDPARGVDFLSYAVPTI 126 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV- 563 + R D++ ++R+P +++ + ++ ++ R P P EIA ++ V+ V Sbjct: 127 TGEVRRHFRDRTWSMRVPRRLKELQSSINSAVGGLAQELGRAPRPSEIADRIGRDVDEVI 186 Query: 564 -----RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVL 617 R+V + T SL+ + D D + + ++ D+ ++ + R+T +L Sbjct: 187 EGLEARQVYRST----SLDELVADSDA-----MLSETLGIA--DAELEKVDYRQTLAPLL 235 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVG 646 L RE +L +RF GM +EVG Sbjct: 236 DELPTRERTILVLRFFAGMTQTQIADEVG 264 >gi|323144379|ref|ZP_08078987.1| alternative sigma factor RpoH [Succinatimonas hippei YIT 12066] gi|322415832|gb|EFY06558.1| alternative sigma factor RpoH [Succinatimonas hippei YIT 12066] Length = 295 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/240 (27%), Positives = 124/240 (51%), Gaps = 24/240 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LRLV+S+A+ Y GL DLIQEGNIGLMKA + FD +G + + +A+ W Sbjct: 53 AARKLVLSHLRLVVSIARGYLGYGLPISDLIQEGNIGLMKAVKHFDPDVGGRLAAFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMS-------NKIKRE--PTPEEI 552 +K I + +++ R K+ + +R+ NK+ + + +++ Sbjct: 113 IKAEIHDYVIKNWRVVKVATTKAQRKLFFKLRQNKQRLGWFSDSERNKVADDLGVSADDV 172 Query: 553 AK---KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL 609 A+ +LA G + S +P +++L D E+ N + ++ N Sbjct: 173 AEMETRLAGQDIGFDADSDDDSDKGSSFSP-----SAYLED--ENSNFANTFENIDYENY 225 Query: 610 RETTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ R L SL R +++ R+ + N TL+E+ ++ V+ ER+RQIE +A++K+K Sbjct: 226 ELSSLRKALDSLDERSRYIVQRRW-LDENK-ATLQELSEKLNVSIERVRQIENQALKKIK 283 >gi|50120672|ref|YP_049839.1| flagellar biosynthesis sigma factor [Pectobacterium atrosepticum SCRI1043] gi|49611198|emb|CAG74644.1| RNA polymerase sigma factor for flagellar operon [Pectobacterium atrosepticum SCRI1043] Length = 240 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ ++ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGSMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ ++ R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQTEQQLGRTPTEQEVAQTLNITLEDYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL ++ NLR + +L RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEDANPLHQLMEGNLRHRVMDAIENLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|46241492|gb|AAS82949.1| chloroplast RPOD [Chlamydomonas reinhardtii] Length = 182 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 47/120 (39%), Positives = 70/120 (58%), Gaps = 6/120 (5%) Query: 552 IAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA---N 608 +AK +PV V+ +++ + SL+TPIG + LG ++D + + + Sbjct: 28 LAKAAGLPVTRVQMLMETARSAASLDTPIGG---NELGPTVKDSVEDEREAADEEFGSDS 84 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LR +L L RE RV+R+RFG+ + TLEE+G+ VTRERIRQIEAKA+RKL+ Sbjct: 85 LRNDMEAMLLELPEREARVVRLRFGLDDGKEWTLEEIGEALNVTRERIRQIEAKALRKLR 144 >gi|217958581|ref|YP_002337129.1| RNA polymerase sigma factor SigB [Bacillus cereus AH187] gi|217065197|gb|ACJ79447.1| RNA polymerase sigma-B factor [Bacillus cereus AH187] Length = 257 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 123/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ ++++++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENASDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|41407572|ref|NP_960408.1| RNA polymerase sigma factor SigF [Mycobacterium avium subsp. paratuberculosis K-10] gi|41395925|gb|AAS03791.1| SigF_1 [Mycobacterium avium subsp. paratuberculosis K-10] Length = 269 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 108/228 (47%), Gaps = 12/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V L L VA + RG DL+Q +GLM A +FD G F +A+ + Sbjct: 46 RERIVARCLPLADHVASHFARRGEGLDDLVQVARLGLMNAVNRFDPAKGPSFIGFAVPTM 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +R+ ++ RT ++ ++ R P E+++ L +P E + Sbjct: 106 MGEVRRYFRDYSWGMRVPRRLRELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV 165 Query: 565 KVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L + + SL+ P G D+S + D +V +D I+ RVL + Sbjct: 166 ECL-VAGDAYRLDSLDAPQG-ADSSGTPRSVAD--SVGDIDPQIEHITNREALRVLVATL 221 Query: 622 PREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P ER VLRMRF M E +G V++ ++ +I A +R L+ Sbjct: 222 PHREREVLRMRFFESMTQSQIAERIG----VSQMQVSRILANTLRCLR 265 >gi|271500098|ref|YP_003333123.1| FliA/WhiG subfamily RNA polymerase sigma-28 subunit [Dickeya dadantii Ech586] gi|270343653|gb|ACZ76418.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Dickeya dadantii Ech586] Length = 240 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ + R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQAEQSLGRAPTEQEVAQTLNISLEEYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL+ + NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEDANPLNLLMDVNLRQRVMDAIENLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|158340157|ref|YP_001521327.1| sigma-28 subunit [Acaryochloris marina MBIC11017] gi|158310398|gb|ABW32013.1| sigma-28 subunit [Acaryochloris marina MBIC11017] Length = 421 Score = 76.3 bits (186), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 65/226 (28%), Positives = 114/226 (50%), Gaps = 21/226 (9%) Query: 448 MVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 + N RLV A +Y RGL + DL+ GN GL +A EKFD G KFS+YA+ ++ Sbjct: 40 FIRKNQRLVFKEANRY--RGLDDWNDLVTAGNWGLARAIEKFDVSKGCKFSSYAVKVIRT 97 Query: 507 AITRSIADQ-SCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK 565 I + + DQ + I H++D + + ++++ +++R+PT EE++++ + Sbjct: 98 EIQQFLNDQRGLSKEIAKHLKD----IKQASQKLEWELERQPTLEELSERTGYSQRIITS 153 Query: 566 VLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 L + E SL P+G+ + D +E + + D A + +E +A L R Sbjct: 154 TLDRARVVETSSLNIPVGENLKAEQIDLVEGDDDL--WDYAENIDEKE----YIAQLPER 207 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++R R H+ +G+ F ++ ERIRQ+ +A+ LKH Sbjct: 208 YNVIVRAR-----RDGHSYRAIGRMFGLSGERIRQLFKEALAYLKH 248 >gi|295109465|emb|CBL23418.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Ruminococcus obeum A2-162] Length = 238 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/227 (27%), Positives = 112/227 (49%), Gaps = 12/227 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ + N L+ AK++ RG+ DL Q G+IGL+KA +KFD KFSTYA+ Sbjct: 19 ARERLFHENTGLIYCAAKRFLGRGVDMEDLFQIGSIGLLKAVDKFDTSYDVKFSTYAVPM 78 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +++ R + + REPT E+A+ + M E + Sbjct: 79 IIGEIKRFLRDDGI-LKVSRSVKENQYRIGRKREELEKTLGREPTLGELAESVQMLPEEL 137 Query: 564 RKVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + + S+ I G+ + L D I +K + D + E +L SL Sbjct: 138 AMTMDAANDVESIYQIIYQGEGNELRLLDKIPEKENLH--DRLLNKIFLE---ELLRSLN 192 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E ++L MR+ + T EV +F V++ +I ++E K + +L+ Sbjct: 193 AEERKLLYMRY----FREMTQTEVADEFGVSQVQISRMEKKILNRLR 235 >gi|222094730|ref|YP_002528790.1| RNA polymerase sigma factor sigb [Bacillus cereus Q1] gi|221238788|gb|ACM11498.1| RNA polymerase sigma-B factor [Bacillus cereus Q1] Length = 257 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 123/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ ++++++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENASDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|161613481|ref|YP_001587446.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|167993526|ref|ZP_02574620.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168234127|ref|ZP_02659185.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168244804|ref|ZP_02669736.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168259759|ref|ZP_02681732.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168822997|ref|ZP_02834997.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194445382|ref|YP_002041220.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194450090|ref|YP_002046006.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194471287|ref|ZP_03077271.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197251137|ref|YP_002146068.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197362055|ref|YP_002141692.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198242943|ref|YP_002215131.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200390898|ref|ZP_03217509.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|213053507|ref|ZP_03346385.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213650343|ref|ZP_03380396.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213855803|ref|ZP_03384043.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|238912471|ref|ZP_04656308.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289824078|ref|ZP_06543676.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|56127386|gb|AAV76892.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|161362845|gb|ABX66613.1| hypothetical protein SPAB_01198 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|194404045|gb|ACF64267.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194408394|gb|ACF68613.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194457651|gb|EDX46490.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|197093532|emb|CAR58994.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197214840|gb|ACH52237.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197937459|gb|ACH74792.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199603343|gb|EDZ01889.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|205328422|gb|EDZ15186.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205331884|gb|EDZ18648.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205336383|gb|EDZ23147.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205340661|gb|EDZ27425.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205350810|gb|EDZ37441.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|312912946|dbj|BAJ36920.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|321224599|gb|EFX49662.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322616949|gb|EFY13857.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322618189|gb|EFY15081.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322625859|gb|EFY22678.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322626311|gb|EFY23121.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632726|gb|EFY29471.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322639068|gb|EFY35761.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322640509|gb|EFY37162.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322647255|gb|EFY43754.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322649897|gb|EFY46318.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322655505|gb|EFY51813.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322660283|gb|EFY56521.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662964|gb|EFY59171.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322668149|gb|EFY64308.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322674091|gb|EFY70185.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675556|gb|EFY71630.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322683032|gb|EFY79048.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322686726|gb|EFY82704.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323195385|gb|EFZ80565.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323199276|gb|EFZ84371.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323204441|gb|EFZ89447.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323207531|gb|EFZ92479.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323211856|gb|EFZ96687.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323217516|gb|EGA02235.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323219591|gb|EGA04075.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323223594|gb|EGA07909.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323231538|gb|EGA15651.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323235981|gb|EGA20060.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323240551|gb|EGA24594.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323245443|gb|EGA29443.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323253976|gb|EGA37800.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323255497|gb|EGA39258.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323262094|gb|EGA45657.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323266217|gb|EGA49707.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323270674|gb|EGA54115.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326622879|gb|EGE29224.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 229 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L +PV R++L T DE GD Sbjct: 90 VAQAMGQLEQELGRNATETEVAERLGIPVAEYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ +LR+ + SL RE+ VL + + +N L+E+G Sbjct: 147 IELVTEEHQQENPLHQLLEGDLRQRVMDAIESLPEREQLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|319399556|gb|EFV87811.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis FRI909] Length = 256 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 124/243 (51%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S+A+ ++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSLAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ AI+KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAIKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|299143454|ref|ZP_07036534.1| RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298517939|gb|EFI41678.1| RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 260 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 119/227 (52%), Gaps = 16/227 (7%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E +L + ++KKY+ RG+ + D+ Q +IGL+ A +++D+ GY+FS++A + Sbjct: 37 LIEEHLYIAEILSKKYSGRGIDYDDIFQVASIGLIYAIDRYDFEKGYEFSSFATPTIIGE 96 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ TIR+P +++ K+ +++ +++R PT E+IA L E V + + Sbjct: 97 IKKYFRDKGWTIRVPRRIQELSKKINNAKTQLTQELQRIPTVEDIADYLETTPEEVIEAM 156 Query: 568 KITK--EPISLETPI---GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLT 621 + +K P SL+ GD+ +L D + E++ ++ +++ R ++ L Sbjct: 157 EASKVYTPQSLDVTYDTNGDDKELNLADLVGENEKYFEKIE------MKDFLERAMSELN 210 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E +L R+ T + ++ +++ I +IE K ++K++ Sbjct: 211 DMERTILIERYF----EKKTQVAIAEKLDISQMTISRIEKKVLKKMR 253 >gi|289754806|ref|ZP_06514184.1| predicted protein [Mycobacterium tuberculosis EAS054] gi|289695393|gb|EFD62822.1| predicted protein [Mycobacterium tuberculosis EAS054] Length = 84 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 36/66 (54%), Positives = 50/66 (75%) Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 VL +L+ RE V+R+RFG+ TL+E+G+ + VTRERIRQIE+K + KL+HPSRS+ Sbjct: 19 VLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQV 78 Query: 676 LRSFLD 681 LR +LD Sbjct: 79 LRDYLD 84 >gi|291448094|ref|ZP_06587484.1| sporulation sigma factor [Streptomyces roseosporus NRRL 15998] gi|1655819|gb|AAB41960.1| sporulation sigma factor [Streptomyces filamentosus] gi|291351041|gb|EFE77945.1| sporulation sigma factor [Streptomyces roseosporus NRRL 15998] Length = 278 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + + +R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQFRRTPSEAEVASEMGIALEELHAVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|16760902|ref|NP_456519.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16765294|ref|NP_460909.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29141406|ref|NP_804748.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62180530|ref|YP_216947.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|161936245|ref|YP_150204.2| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|194736051|ref|YP_002114988.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195873263|ref|ZP_02696436.2| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197263158|ref|ZP_03163232.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197301170|ref|ZP_02664251.2| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|204931059|ref|ZP_03221885.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205357293|ref|ZP_02346566.2| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|207856530|ref|YP_002243181.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224583543|ref|YP_002637341.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|289810757|ref|ZP_06541386.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhi str. AG3] gi|61224055|sp|P0A2E8|FLIA_SALTY RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|61224057|sp|P0A2E9|FLIA_SALTI RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|25331353|pir||AF0750 RNA polymerase sigma transcription factor for flagellar operon fliA [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|556579|dbj|BAA00389.1| sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium] gi|4115509|dbj|BAA36397.1| FliA [Salmonella enterica subsp. enterica serovar Typhimurium] gi|16420491|gb|AAL20868.1| sigma F (sigma 28) factor of RNA polymerase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503199|emb|CAD05705.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhi] gi|29137033|gb|AAO68597.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62128163|gb|AAX65866.1| sigma F (sigma 28) factor of RNA polymerase, transcription of late flagellar genes (class 3a and 3b operons) [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|194711553|gb|ACF90774.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195634506|gb|EDX52858.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197241413|gb|EDY24033.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197288040|gb|EDY27427.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|204320103|gb|EDZ05308.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205322652|gb|EDZ10491.1| RNA polymerase sigma factor for flagellar operon [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|206708333|emb|CAR32636.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224468070|gb|ACN45900.1| flagellar biosynthesis sigma factor FliA [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261247122|emb|CBG24945.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267993942|gb|ACY88827.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301158470|emb|CBW17980.1| RNA polymerase sigma transcription factor for flagellar operon [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|320085426|emb|CBY95207.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|322715006|gb|EFZ06577.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323130234|gb|ADX17664.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323250213|gb|EGA34105.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|332988845|gb|AEF07828.1| flagellar biosynthesis sigma factor [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 239 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L +PV R++L T DE GD Sbjct: 100 VAQAMGQLEQELGRNATETEVAERLGIPVAEYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 I----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I E+ +PL ++ +LR+ + SL RE+ VL + + +N L+E+G Sbjct: 157 IELVTEEHQQENPLHQLLEGDLRQRVMDAIESLPEREQLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|313887713|ref|ZP_07821395.1| putative RNA polymerase sigma-B factor [Peptoniphilus harei ACS-146-V-Sch2b] gi|312846322|gb|EFR33701.1| putative RNA polymerase sigma-B factor [Peptoniphilus harei ACS-146-V-Sch2b] Length = 261 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 47/149 (31%), Positives = 82/149 (55%), Gaps = 4/149 (2%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E +L + ++KKYT RG+ + D+ Q +IGL+ A E++D G++FS++A + Sbjct: 37 LIEEHLYIAEILSKKYTGRGIDYDDIYQVASIGLIYAIERYDPEKGFEFSSFATPTIIGE 96 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D TIR+P +++ K+ +S K ++ PT +EIA+ L E V + + Sbjct: 97 IKKYFRDNGWTIRVPRRIQELSKKISNATVSLSQKYQKTPTIDEIAEYLDSTPEEVMEAM 156 Query: 568 KITK--EPISLETPI--GDEDTSHLGDFI 592 + +K P SL+ GDE +L D I Sbjct: 157 EASKVYTPQSLDVTYESGDESEVNLSDLI 185 >gi|77165402|ref|YP_343927.1| RpoH [Nitrosococcus oceani ATCC 19707] gi|254433859|ref|ZP_05047367.1| alternative sigma factor RpoH [Nitrosococcus oceani AFC27] gi|76883716|gb|ABA58397.1| RNA polymerase, sigma 32 subunit, RpoH [Nitrosococcus oceani ATCC 19707] gi|207090192|gb|EDZ67463.1| alternative sigma factor RpoH [Nitrosococcus oceani AFC27] Length = 287 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 112/243 (46%), Gaps = 31/243 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR VI +A+ Y GL DLIQEGNIGLMKA ++FD G + ++A+ W Sbjct: 53 AARQLVLSHLRFVIRIARGYNGYGLPLADLIQEGNIGLMKAVKRFDPEQGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R+A++ + R+ +E+A+ L + Sbjct: 113 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKKRLGWLNRKEV-DEVAQDLGVS--- 168 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------------- 608 K+ + +E + +D G E+ P A A+ Sbjct: 169 -------PKQVMEMEARLSSQDAPFDGSNAEESENGIPAPMAYLADPSADPAQKMELLDQ 221 Query: 609 ---LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 + + L L R ++ R+ TL E+ ++ ++ ERIRQ+E AI+ Sbjct: 222 ENYYGQRLQQALEVLDLRSRTIINRRW--LQENKSTLHELAAEYQISAERIRQLENNAIK 279 Query: 666 KLK 668 K++ Sbjct: 280 KMR 282 >gi|182435659|ref|YP_001823378.1| RNA polymerase sigma factor WhiG [Streptomyces griseus subsp. griseus NBRC 13350] gi|326776293|ref|ZP_08235558.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces cf. griseus XylebKG-1] gi|178464175|dbj|BAG18695.1| putative RNA polymerase sigma factor WhiG [Streptomyces griseus subsp. griseus NBRC 13350] gi|326656626|gb|EGE41472.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Streptomyces cf. griseus XylebKG-1] Length = 278 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + + +R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 132 VERAYATLEAQFRRTPSEAEVASEMGIALEELHAVFS----QLSLANVVALEELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPDREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|254775435|ref|ZP_05216951.1| RNA polymerase sigma factor SigF [Mycobacterium avium subsp. avium ATCC 25291] Length = 242 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 108/228 (47%), Gaps = 12/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V L L VA + RG DL+Q +GLM A +FD G F +A+ + Sbjct: 19 RERIVARCLPLADHVASHFARRGEGLDDLVQVARLGLMNAVNRFDPAKGPSFIGFAVPTM 78 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +R+ ++ RT ++ ++ R P E+++ L +P E + Sbjct: 79 MGEVRRYFRDYSWGMRVPRRLRELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV 138 Query: 565 KVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L + + SL+ P G D+S + D +V +D I+ RVL + Sbjct: 139 ECL-VAGDAYRLDSLDAPQG-ADSSGTPRSVAD--SVGDIDPQIEHITNREALRVLVATL 194 Query: 622 PREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P ER VLRMRF M E +G V++ ++ +I A +R L+ Sbjct: 195 PHREREVLRMRFFESMTQSQIAERIG----VSQMQVSRILANTLRCLR 238 >gi|118465934|ref|YP_882149.1| RNA polymerase sigma factor SigF [Mycobacterium avium 104] gi|118167221|gb|ABK68118.1| RNA polymerase sigma-F factor [Mycobacterium avium 104] Length = 269 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 108/228 (47%), Gaps = 12/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ +V L L VA + RG DL+Q +GLM A +FD G F +A+ + Sbjct: 46 RERIVARCLPLADHVASHFARRGEGLDDLVQVARLGLMNAVNRFDPAKGPSFIGFAVPTM 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D S +R+P +R+ ++ RT ++ ++ R P E+++ L +P E + Sbjct: 106 MGEVRRYFRDYSWGMRVPRRLRELHVQISRTTADLAQQLGRAPNAGELSQVLEVPREEIV 165 Query: 565 KVLKITKEPI---SLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 + L + + SL+ P G D+S + D +V +D I+ RVL + Sbjct: 166 ECL-VAGDAYRLDSLDAPQG-ADSSGTPRSVAD--SVGDIDPQIEHITNREALRVLVATL 221 Query: 622 PREER-VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 P ER VLRMRF M E +G V++ ++ +I A +R L+ Sbjct: 222 PHREREVLRMRFFESMTQSQIAERIG----VSQMQVSRILANTLRCLR 265 >gi|308205773|gb|ADO19206.1| RNA polymerase sigma factor [Nostoc flagelliforme str. Sunitezuoqi] Length = 124 Score = 75.9 bits (185), Expect = 2e-11, Method: Composition-based stats. Identities = 39/61 (63%), Positives = 46/61 (75%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 + +AK M+ ANLRLV++VAKKY L+FLDLIQEG IGL KA EKF+ GYKFSTY Sbjct: 41 QGQLAKHLMITANLRLVVAVAKKYRWSNLEFLDLIQEGAIGLQKAVEKFEPNRGYKFSTY 100 Query: 500 A 500 A Sbjct: 101 A 101 >gi|73539441|ref|YP_299808.1| sigma-70 region 4 [Ralstonia eutropha JMP134] gi|72122778|gb|AAZ64964.1| Sigma-70 region 4 [Ralstonia eutropha JMP134] Length = 238 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 69/244 (28%), Positives = 114/244 (46%), Gaps = 18/244 (7%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G+ E + K + R+ + +A K +Q DLIQ G IGL+ AA++++ G + Sbjct: 5 QGKLEQADVVKTHAQLVRRIALQLAAKLPA-SVQIDDLIQAGMIGLLDAAKRYEDTHGAR 63 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F TYA ++ A+ + R +R ++ RT R + K+ R P E+A++ Sbjct: 64 FETYASQRIRGAMLDEVRANDWQSR---SLRQFTRRIERTQRGLEQKLGRAPLDSEVAQE 120 Query: 556 LAMPVEGVRKVLKITKEPISLETP----IGDEDT--SHLGDFIEDKNAVSPLDSAIQANL 609 L MP++ + +L L G+ED HLG ED N PL ++ + Sbjct: 121 LEMPLDEYQTLLNEVYGCQLLHYEDFERSGEEDFLDRHLGGS-EDGN---PLTQLMENGM 176 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 R R + L RE+ VL + + +N L E+G VT R+ QI +AI +L++ Sbjct: 177 RAALIRAIERLPEREKLVLSLCYDQELN----LREIGAVLDVTESRVCQIRGQAITRLRN 232 Query: 670 PSRS 673 R Sbjct: 233 QLRG 236 >gi|255319457|ref|ZP_05360671.1| alternative sigma factor RpoH [Acinetobacter radioresistens SK82] gi|262378519|ref|ZP_06071676.1| alternative sigma factor RpoH [Acinetobacter radioresistens SH164] gi|255303397|gb|EET82600.1| alternative sigma factor RpoH [Acinetobacter radioresistens SK82] gi|262299804|gb|EEY87716.1| alternative sigma factor RpoH [Acinetobacter radioresistens SH164] Length = 289 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/245 (26%), Positives = 114/245 (46%), Gaps = 34/245 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR V+ +A+ Y GL DLIQEGN+GLMKA ++FD +G + ++A+ W Sbjct: 53 AAKMLVMSHLRFVVHIARSYAGYGLPQGDLIQEGNLGLMKAVKRFDPSMGVRLVSFAVHW 112 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREP----------TPEEI 552 +K I + ++I + K+ +R+ ++ S K+ E TPE++ Sbjct: 113 IKAEIHEYVIRNWRIVKIATTKAQRKLFFNLRSLKKSSKKLTLEEARSIANDLNVTPEQV 172 Query: 553 --------AKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSA 604 A A +G + L D + L +ED++ +SA Sbjct: 173 LEMEGRLTAYDAAFEAQGDDDDDSSSHVAPVLYLEDSRYDPARL---VEDEDWEEQSNSA 229 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKA 663 + + L R +L+ R+ ++ D TL E+ ++ V+ ERIRQ+E A Sbjct: 230 LH--------NAMDQLDDRSRNILQRRW---LDDDKSTLHELAAEYNVSAERIRQLEKNA 278 Query: 664 IRKLK 668 + K+K Sbjct: 279 MEKIK 283 >gi|307330048|ref|ZP_07609199.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306884309|gb|EFN15344.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 277 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 99/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 74 DFVSSGVFGLIDAIEKFDPERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 130 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + +E + V +SL + E+ H+G Sbjct: 131 VERAYATLEAQLRRTPSEAEVAAEMDISIEELHGVFS----QLSLANVVALEELLHVGGE 186 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 187 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 242 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G+ VT R+ QI K++ +L+ Sbjct: 243 LAEIGQVLGVTESRVSQIHTKSVLQLR 269 >gi|254382042|ref|ZP_04997404.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] gi|194340949|gb|EDX21915.1| RNA polymerase sigma subunit [Streptomyces sp. Mg1] Length = 278 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 75 DFVSSGVFGLIDAIEKFDIDRSIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 131 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R PT E+A ++ + VE + V +SL + ++ H+G Sbjct: 132 VERAYATLEAQLRRTPTECEVADEMGIAVEELHTVFS----QLSLANVVALDELLHVGGE 187 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 188 GGDRLSLMDTLEDTAADNPVEVAEGRELRRLLARAINTLPEREKTVVTLYYYEGL----T 243 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 244 LAEIGNVLGVTESRVSQIHTKSVLQLR 270 >gi|88858433|ref|ZP_01133075.1| RNA polymerase sigma factor [Pseudoalteromonas tunicata D2] gi|88820050|gb|EAR29863.1| RNA polymerase sigma factor [Pseudoalteromonas tunicata D2] Length = 288 Score = 75.9 bits (185), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/244 (27%), Positives = 118/244 (48%), Gaps = 29/244 (11%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++++ ++LR V +AK Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 52 AARQLIMSHLRFVAHIAKGYSGYGLPQADLIQEGNIGLMKAVKRFDPTVGVRLVSFAVHW 111 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEE---IAKKLAMPV 560 +K I + +++ K + + R + K PEE +A +L + Sbjct: 112 IKAEIHEYVLKNWRIVKVAT---TKAQRKLFFNLRKNKKRLGWFNPEEVSTVANELGVTE 168 Query: 561 EGVRK----------VLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 + VR+ V +T + + +L D N+V D + Sbjct: 169 KDVREMEARMSSQDMVFDLTTDDDDSTSATQYSPVQYLTD-----NSVDLADKIEEEQWE 223 Query: 611 ETT----TRVLASLTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIR 665 E T L SL R + +++ R+ ++ D TL+++ ++ V+ ER+RQ+E A++ Sbjct: 224 EQTHNRLFHALKSLDERSQDIVQTRW---LSDDKATLQDLAVKYDVSAERVRQLEKTAMK 280 Query: 666 KLKH 669 KL+H Sbjct: 281 KLQH 284 >gi|328880278|emb|CCA53517.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 290 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 55/230 (23%), Positives = 115/230 (50%), Gaps = 15/230 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++E N+ LV+ A ++ RG + D++Q G IGL+KA ++FD +F+T+A+ ++ Sbjct: 60 RNTLIEMNMSLVVYAAGRFRARGDEMEDIVQVGMIGLIKAIDRFDLSREVEFATFAVPYI 119 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV- 563 I R D + + +P +++ ++ + +S+++ R P E+A + + E V Sbjct: 120 VGEIKRFFRDSTWAVHVPRRLQEARVELAKATDELSSRLGRAPRVAELAPAMDLSEEQVV 179 Query: 564 -RKVLKITKEPISLETPI--GD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 +V SL+ + GD +D + L D I ++ L T ++ Sbjct: 180 EAQVAANGYHSTSLDAAVAGGDSEDDDAALADLIGQEDPAIELFEDFH-----TLAPLVE 234 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L PR+ +L +RF + T E+G++ V++ + ++ A+ I +L+ Sbjct: 235 ALGPRDRLLLHLRF----VEELTQSEIGERLGVSQMHVSRLLARNIERLR 280 >gi|239929464|ref|ZP_04686417.1| RNA polymerase sigma factor sig8 [Streptomyces ghanaensis ATCC 14672] Length = 245 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 108/211 (51%), Gaps = 11/211 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 FR + +++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 35 FRQL-AVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 93 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ + R D S ++ +P +++ ++ R + ++ R Sbjct: 94 DRFELSREVEFTSFAIPYIVGEMKRFFRDTSWSVHVPRRLQEARVQLARATEELRTRLGR 153 Query: 546 EPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPL 601 PT E+A+ +++ E V ++ SL+ IG E S L DFI ++A L Sbjct: 154 TPTTRELAQLMSLTEEEVNEARIAANGYNSASLDAAIGSEPDGESVLADFIGSEDAALEL 213 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRF 632 A ++A L RE +++ RF Sbjct: 214 VEDFHA-----LAPMIAELDERERKIIHWRF 239 >gi|318060086|ref|ZP_07978809.1| sigma factor [Streptomyces sp. SA3_actG] gi|318076269|ref|ZP_07983601.1| sigma factor [Streptomyces sp. SA3_actF] Length = 286 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 123/249 (49%), Gaps = 35/249 (14%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E A+ ++E N+ LV A+++ +RG D++Q G IGL+KA ++F+ + Sbjct: 50 EGTREFQDARNTLIEMNMSLVRFAARRFRSRGDDMEDVVQVGTIGLIKAIDRFELSREVE 109 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D + + +P +++ ++ + +S ++ R P E+A Sbjct: 110 FTTFAVPYIVGEIKRFFRDTTWAVHVPRRLQEARVELAKANEELSTRLGRAPKVSELAAL 169 Query: 556 LAMPVEGV--RKVLKITKEPISLETPIGDEDT----SHLGDFI----------EDKNAVS 599 +++ + V ++ SL+ IG ED+ + L DFI ED +A++ Sbjct: 170 MSLSEQQVVEAQIAANGYSSSSLDATIGGEDSGEGEAALSDFIGAEDPGMELVEDLHALA 229 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PL LA L PR+ ++L +RFG + T ++G++ V++ + ++ Sbjct: 230 PL---------------LAGLEPRDRQILELRFG----QELTQAQIGERLGVSQMHVSRL 270 Query: 660 EAKAIRKLK 668 + + L+ Sbjct: 271 LNRTLGTLR 279 >gi|45643442|gb|AAC79984.2| HasL [Streptomyces ambofaciens] gi|126347729|emb|CAJ89446.1| putative sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 281 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/257 (22%), Positives = 132/257 (51%), Gaps = 34/257 (13%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 F +S++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 37 FFQQLSVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 96 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S + +P +++ ++ R + +++ R Sbjct: 97 DRFELTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVQLARATEELRSRLGR 156 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPI-GDEDT-SHLGDFI--------- 592 PT +E+++ +++P + V ++ SL+ I G ED S L DFI Sbjct: 157 NPTTKELSELMSLPEDEVVEARLAANGYNSASLDAAISGSEDGESALADFIGAEDTALAL 216 Query: 593 -EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 ED +A++P+ +A L R+ +++ RF + T +++G++ V Sbjct: 217 VEDFHALAPM---------------IAELDERDRQIIHWRF----VEELTQKDIGERLGV 257 Query: 652 TRERIRQIEAKAIRKLK 668 ++ + ++ ++ + +L+ Sbjct: 258 SQMHVSRLISRLLARLR 274 >gi|303242484|ref|ZP_07328964.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] gi|302589952|gb|EFL59720.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Acetivibrio cellulolyticus CD2] Length = 252 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/157 (29%), Positives = 79/157 (50%), Gaps = 14/157 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + E+V L L ++KK+ NRG+ + D+ Q +I L+KA E+FD G KF+++A Sbjct: 30 VRNEIVSKYLYLAEIISKKFVNRGIDYEDIYQVASIALIKAVERFDPDKGVKFASFATPT 89 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R D++ IRIP + + KV ++ ++ R P +EIAK L + E V Sbjct: 90 LIGEIKRFFRDKASVIRIPRRIYEVYQKVSHARESLTQELSRPPRIDEIAKYLNISEETV 149 Query: 564 RKVLK--------------ITKEPISLETPIGDEDTS 586 ++++ T + + L IG+ED + Sbjct: 150 MEIIESNNAHNLQSFDQNVYTDDDLELHETIGEEDAT 186 >gi|296501716|ref|YP_003663416.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis BMB171] gi|296322768|gb|ADH05696.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis BMB171] Length = 257 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 122/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIADFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIANHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|257469127|ref|ZP_05633221.1| RNA polymerase sigma factor RpoD [Fusobacterium ulcerans ATCC 49185] Length = 157 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 48/150 (32%), Positives = 85/150 (56%), Gaps = 8/150 (5%) Query: 522 PVHMRDKIHKVVRTARRMSNKIKRE---PTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 P + D ++KV R + +++K E P+ EEIA +L + + V+ ++ ++P+SL T Sbjct: 1 PSYKYDLLNKV---NRYVMSRLKDEGNYPSVEEIAAELNIEADKVQDIIMDFQDPMSLST 57 Query: 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 IGD+ +L D + + S + R+ ++ L RE+ +L++R+G+ Sbjct: 58 QIGDD--IYLEDTLAQQEDFSMEEEIFNEMGRKQVRDMVNQLEEREKEILKLRYGLDGYE 115 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 HTLEE+G +TRER+RQIE K ++KL+ Sbjct: 116 IHTLEEIGNTLNITRERVRQIEKKTLQKLR 145 >gi|153487|gb|AAA26829.1| sigma factor (whiG) (put. alt.) (gtg start codon); putative [Streptomyces coelicolor] Length = 258 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 55 DFVSSGVFGLIDAIEKFDVDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 111 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + VE + V +SL + E+ H G Sbjct: 112 VERAYATLEARLRRTPSESEVAVEMGIAVEDLHAVFS----QLSLANVVALEELLHAGGE 167 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 168 GGGRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 223 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 224 LAEIGNVLGVTESRVSQIHTKSVLQLR 250 >gi|256267|gb|AAC60414.1| RpoD1 [Synechococcus] Length = 48 Score = 75.5 bits (184), Expect = 3e-11, Method: Composition-based stats. Identities = 35/47 (74%), Positives = 42/47 (89%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 DLIQEG++GL++AAEKFD GYKFSTYA WW++QAITR+IADQS T Sbjct: 2 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRT 48 >gi|47564960|ref|ZP_00236004.1| sigma-B [Bacillus cereus G9241] gi|47558333|gb|EAL16657.1| sigma-B [Bacillus cereus G9241] Length = 257 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 122/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|331663420|ref|ZP_08364330.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA143] gi|331059219|gb|EGI31196.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA143] Length = 239 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGS 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|298243403|ref|ZP_06967210.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ktedonobacter racemifer DSM 44963] gi|297556457|gb|EFH90321.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Ktedonobacter racemifer DSM 44963] Length = 294 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 53/202 (26%), Positives = 107/202 (52%), Gaps = 12/202 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G IGL+ A +++D G +F +A ++ A+ I + R V +I + Sbjct: 53 DLIGYGMIGLINAIDRYDLSRGVRFEAFATPRIRGAVIDQIRQLNWLPRSSV---SRIRQ 109 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-KITKEPISLETPIG----DEDTS 586 + RT + ++ R T E AK L + VE R++L +++ +SL+ P+G +++++ Sbjct: 110 IERTHAELEQQLGRPATEAEAAKALDVSVERYRQMLTEMSVSVLSLDAPMGSSIQEDESA 169 Query: 587 HLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG 646 LGD +ED++ P ++ L ++ + L L PRE+ +L + + + T++E+ Sbjct: 170 SLGDMLEDESQQDPGEAVEHEELIQSLSAALQHLPPREQLLLSLYY----KEELTMKEIS 225 Query: 647 KQFCVTRERIRQIEAKAIRKLK 668 + V+ R+ Q+ +A+ +L+ Sbjct: 226 RIMNVSESRVCQLRMQALVRLR 247 >gi|302558130|ref|ZP_07310472.1| RNA polymerase sigma factor WhiG [Streptomyces griseoflavus Tu4000] gi|302475748|gb|EFL38841.1| RNA polymerase sigma factor WhiG [Streptomyces griseoflavus Tu4000] Length = 280 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDVDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A +L + V+ + V +SL + E+ H+G Sbjct: 134 VERAYATLEARLRRTPSESEVAGELGIAVDELHAVFS----QLSLANVVALEELLHVGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 SGDRLSLMDTLEDTAADDPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR 272 >gi|218513990|ref|ZP_03510830.1| RNA polymerase factor sigma-32 [Rhizobium etli 8C-3] Length = 217 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/160 (31%), Positives = 82/160 (51%), Gaps = 11/160 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL +++ EGN+GLM+A +KFD G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVVSEGNVGLMQAVKKFDPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR----EPTPE---EIAKKL 556 +K +I I +++ K ++ RR+ +I+ + PE EIA KL Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRRLKGRIQAIDDGDLKPEHVSEIATKL 166 Query: 557 AMPVEGVRKVLKITKEPISLETPI--GDEDTSHLGDFIED 594 + E V + + SL PI + D+ D++ D Sbjct: 167 NVSEEEVISMNRRLSGDASLNAPIKAAEGDSGQWQDWLVD 206 >gi|333028638|ref|ZP_08456702.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] gi|332748490|gb|EGJ78931.1| putative RNA polymerase sigma factor [Streptomyces sp. Tu6071] Length = 310 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 123/249 (49%), Gaps = 35/249 (14%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E A+ ++E N+ LV A+++ +RG D++Q G IGL+KA ++F+ + Sbjct: 74 EGTREFQDARNTLIEMNMSLVRFAARRFRSRGDDMEDVVQVGTIGLIKAIDRFELSREVE 133 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D + + +P +++ ++ + +S ++ R P E+A Sbjct: 134 FTTFAVPYIVGEIKRFFRDTTWAVHVPRRLQEARVELAKANEELSTRLGRAPKVSELAAL 193 Query: 556 LAMPVEGV--RKVLKITKEPISLETPIGDEDT----SHLGDFI----------EDKNAVS 599 +++ + V ++ SL+ IG ED+ + L DFI ED +A++ Sbjct: 194 MSLSEQQVVEAQIAANGYSSSSLDATIGGEDSGEGEAALSDFIGAEDPGMELVEDLHALA 253 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PL LA L PR+ ++L +RFG + T ++G++ V++ + ++ Sbjct: 254 PL---------------LAGLEPRDRQILELRFG----QELTQAQIGERLGVSQMHVSRL 294 Query: 660 EAKAIRKLK 668 + + L+ Sbjct: 295 LNRTLGTLR 303 >gi|262164053|ref|ZP_06031792.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223] gi|262027581|gb|EEY46247.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223] Length = 595 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/118 (38%), Positives = 73/118 (61%), Gaps = 3/118 (2%) Query: 53 LPPDEVSSEQMEDTVAMLSNMGINVVDG--DDLEDEEGSEDSLDLASSASNSSVFLQKRK 110 +P + V SEQ+ED + M+++MGI VV+ D + + ++ +A ++ L + Sbjct: 1 MPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSDDTTITDEDAAEAAAAALSSVE 60 Query: 111 DSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALI 168 R+TD PVRMY+REMG++ELL+REGEI IAKRIE G + +++ E P T ++ Sbjct: 61 SEIGRTTD-PVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQSAVAEYPGTIPYIL 117 >gi|290957086|ref|YP_003488268.1| sporulation-specific sigma factor WhiG [Streptomyces scabiei 87.22] gi|260646612|emb|CBG69709.1| sporulation-specific sigma factor WhiG [Streptomyces scabiei 87.22] Length = 258 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 62/218 (28%), Positives = 101/218 (46%), Gaps = 26/218 (11%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 55 DFVSSGVFGLIDAIEKFDIDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 111 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + ++++R P+ E+A ++ + V+ + V +SL + E+ H G Sbjct: 112 VERAYATLESRLRRTPSEGEVAAEMGIAVDELHAVFS----QLSLANVVALEELLHAGGE 167 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 168 GGDRLSLMDTLEDTAADDPVEVAEDRELRRFLARAINTLPEREKTVVTLYYYEGL----T 223 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 L E+G VT R+ QI K++ +L+ KL SF Sbjct: 224 LAEIGNVLGVTESRVSQIHTKSVLQLR-----AKLASF 256 >gi|158333719|ref|YP_001514891.1| RNA polymerase sigma factor SigF [Acaryochloris marina MBIC11017] gi|158303960|gb|ABW25577.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017] Length = 264 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 56/208 (26%), Positives = 107/208 (51%), Gaps = 10/208 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +V+ NL LV A ++ + F DL+Q G++GL++A E+FD G+ FS++A+ + Sbjct: 29 RNRLVQMNLGLVRREAHRWVGHSTESFDDLMQVGSLGLIRAIERFDPFKGHAFSSFAVPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+S +RIP + + + R M ++++R+PT E+A L + + Sbjct: 89 IRGEIQHYLRDKSPQVRIPRKWHELQRQAINVTREMRDELQRQPTDVEVAAALDICQKEW 148 Query: 564 R--KVLKITKEPISLETPI--GDEDTSHLGDFIEDKNAVS-PLDSAIQANLRETTTRVLA 618 + K+ + +SL+ P+ ++++ LG+ + D++ S L Q LR+ L+ Sbjct: 149 QEVKLASCNRSVLSLDAPVHNSEQESMSLGELLPDRHYHSFQLAQEDQIRLRQA----LS 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVG 646 L R VL F + T E +G Sbjct: 205 KLEKRTSDVLEFVFFHDLTQKETAEVLG 232 >gi|302542195|ref|ZP_07294537.1| RNA polymerase sigma factor WhiG [Streptomyces hygroscopicus ATCC 53653] gi|302459813|gb|EFL22906.1| RNA polymerase sigma factor WhiG [Streptomyces himastatinicus ATCC 53653] Length = 277 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 74 DFVSSGVFGLIDAIEKFDPERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 130 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + ++R PT E+A ++ + V+ + V +SL + E+ H+G Sbjct: 131 VERAYATLEAALRRTPTEVEVAAEMDISVDELHGVFS----QLSLANVVALEELLHVGGE 186 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 187 GGDRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 242 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G+ VT R+ QI K++ +L+ Sbjct: 243 LAEIGQVLGVTESRVSQIHTKSVLQLR 269 >gi|242241477|ref|ZP_04795922.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis W23144] gi|242235020|gb|EES37331.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis W23144] Length = 256 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 124/243 (51%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S+A+ ++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSLAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ A++KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAVKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|294673112|ref|YP_003573728.1| sigma factor [Prevotella ruminicola 23] gi|294471705|gb|ADE81094.1| putative sigma factor [Prevotella ruminicola 23] Length = 238 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/235 (28%), Positives = 109/235 (46%), Gaps = 46/235 (19%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+++M+++NL+LV+S+A Y + DLIQ GNIGL+KA +F+ LGY+F YA Sbjct: 46 AEEQMIKSNLKLVVSIANSYRPM-MSMEDLIQNGNIGLIKAVREFNPELGYRFVFYASMM 104 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +++ I I + S VH D + + + L +P G Sbjct: 105 IRKYIIMGIRNDSGI----VHSSDYEQAFISS------------------ESLDVPGSG- 141 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 G +DTS + D + S LDS + A+L+ V L+P Sbjct: 142 -----------------GYKDTSKADMLVGDMDVESDLDS-LSADLKRAMCSV---LSPC 180 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRS 678 ++ G+G +T E +GK+ + + R+R+I ++I L++ R KKL S Sbjct: 181 AVDIVCKVMGLGCTPMYT-ESIGKELNMPKSRVRKIYQESIGILQNNERVKKLLS 234 >gi|331653330|ref|ZP_08354335.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M718] gi|323174562|gb|EFZ60183.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli LT-68] gi|331049428|gb|EGI21500.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M718] Length = 239 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|91211141|ref|YP_541127.1| flagellar biosynthesis sigma factor [Escherichia coli UTI89] gi|117624064|ref|YP_852977.1| flagellar biosynthesis sigma factor [Escherichia coli APEC O1] gi|218558780|ref|YP_002391693.1| flagellar biosynthesis sigma factor [Escherichia coli S88] gi|237705878|ref|ZP_04536359.1| flagellar biosynthesis sigma factor FliA [Escherichia sp. 3_2_53FAA] gi|91072715|gb|ABE07596.1| flagellar biosynthesis; alternative sigma factor 28; regulation of flagellar operons [Escherichia coli UTI89] gi|115513188|gb|ABJ01263.1| flagellar biosynthesis sigma factor FliA [Escherichia coli APEC O1] gi|218365549|emb|CAR03276.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli S88] gi|226900635|gb|EEH86894.1| flagellar biosynthesis sigma factor FliA [Escherichia sp. 3_2_53FAA] gi|294492788|gb|ADE91544.1| flagellar operon sigma factor FliA [Escherichia coli IHE3034] gi|323952417|gb|EGB48290.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H252] gi|323956319|gb|EGB52062.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H263] Length = 239 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMETIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|294811026|ref|ZP_06769669.1| Putative RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|326439632|ref|ZP_08214366.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] gi|294323625|gb|EFG05268.1| Putative RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064] Length = 277 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 63/226 (27%), Positives = 109/226 (48%), Gaps = 18/226 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E+V A L + +A+++ +RG DL Q +GL+KA +++D G F+++A+ + Sbjct: 51 RQELVNAWLPMSERLARRFRDRGESLEDLRQVAALGLVKAVDRYDPARGCAFASFAVPTI 110 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAM-PV-- 560 + R D T+ +P ++D+ ++V + ++ + R PT EIA++ + P Sbjct: 111 TGEVKRHFRDHMWTLHVPRRVQDQRNRVRAAQQELAQTVTGRAPTEAEIAERAGLTPAQT 170 Query: 561 -EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 EG+ + + E P GD D + D + + LD I RE L Sbjct: 171 REGLAAIGSYRTLSLDAEAP-GDGDGCTMADALGGPDPA--LDVVID---REAVRPRLRE 224 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR------ERIRQ 658 L RE R+L MRF GM E++G Q V+R +R+RQ Sbjct: 225 LPERERRILYMRFFRGMTQSRIAEDLGISQMHVSRLISHSCDRLRQ 270 >gi|167768028|ref|ZP_02440081.1| hypothetical protein CLOSS21_02571 [Clostridium sp. SS2/1] gi|317498378|ref|ZP_07956673.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] gi|167710357|gb|EDS20936.1| hypothetical protein CLOSS21_02571 [Clostridium sp. SS2/1] gi|291561028|emb|CBL39828.1| Sigma-70 region 3./Sigma-70 region 2 [butyrate-producing bacterium SSC/2] gi|316894272|gb|EFV16459.1| sigma-70 region 2 [Lachnospiraceae bacterium 5_1_63FAA] Length = 256 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 46/144 (31%), Positives = 84/144 (58%), Gaps = 6/144 (4%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +V KG+ EA ++E+ L ++ +A+ +T +G+ F DL+QEGNIGL++A + Sbjct: 111 LVEKGDGEA------VIESFLPQILEIARTHTGKGVLFGDLVQEGNIGLLEAMAIYQGKD 164 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 F +A V+ +I +IA Q + + M K +++ + +S ++ REP EE+ Sbjct: 165 AEGFLAHAKSAVEDSILDAIAIQRGSDSVGEAMAIKANRLDDASTFLSKELGREPKIEEL 224 Query: 553 AKKLAMPVEGVRKVLKITKEPISL 576 AK L+M E V++V+KI+ + +S+ Sbjct: 225 AKYLSMTEEEVKEVMKISLDALSV 248 >gi|15802357|ref|NP_288383.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 EDL933] gi|15831915|ref|NP_310688.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. Sakai] gi|26248189|ref|NP_754229.1| flagellar biosynthesis sigma factor [Escherichia coli CFT073] gi|49176170|ref|NP_416432.3| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. MG1655] gi|74311731|ref|YP_310150.1| flagellar biosynthesis sigma factor [Shigella sonnei Ss046] gi|89108757|ref|AP_002537.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. W3110] gi|110642027|ref|YP_669757.1| flagellar biosynthesis sigma factor [Escherichia coli 536] gi|157158016|ref|YP_001463226.1| flagellar biosynthesis sigma factor [Escherichia coli E24377A] gi|170019740|ref|YP_001724694.1| flagellar biosynthesis sigma factor [Escherichia coli ATCC 8739] gi|170081570|ref|YP_001730890.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. DH10B] gi|170684004|ref|YP_001743321.1| flagellar biosynthesis sigma factor [Escherichia coli SMS-3-5] gi|187776391|ref|ZP_02802353.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4196] gi|188025223|ref|ZP_02776870.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4113] gi|189010650|ref|ZP_02808323.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4076] gi|189402557|ref|ZP_02783240.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4401] gi|189403603|ref|ZP_02796533.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4486] gi|189404441|ref|ZP_02789463.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4501] gi|189405427|ref|ZP_02815329.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC869] gi|189406256|ref|ZP_02827273.2| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC508] gi|191168296|ref|ZP_03030089.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B7A] gi|191173335|ref|ZP_03034865.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli F11] gi|193066383|ref|ZP_03047431.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E22] gi|193071158|ref|ZP_03052082.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E110019] gi|194429934|ref|ZP_03062444.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B171] gi|194439580|ref|ZP_03071653.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 101-1] gi|208810387|ref|ZP_03252263.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4206] gi|209399914|ref|YP_002271036.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4115] gi|209919344|ref|YP_002293428.1| flagellar biosynthesis sigma factor [Escherichia coli SE11] gi|215487127|ref|YP_002329558.1| flagellar biosynthesis sigma factor [Escherichia coli O127:H6 str. E2348/69] gi|218554506|ref|YP_002387419.1| flagellar biosynthesis sigma factor [Escherichia coli IAI1] gi|218689915|ref|YP_002398127.1| flagellar biosynthesis sigma factor [Escherichia coli ED1a] gi|218695529|ref|YP_002403196.1| flagellar biosynthesis sigma factor [Escherichia coli 55989] gi|218699514|ref|YP_002407143.1| flagellar biosynthesis sigma factor [Escherichia coli IAI39] gi|218705417|ref|YP_002412936.1| flagellar biosynthesis sigma factor [Escherichia coli UMN026] gi|238901131|ref|YP_002926927.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli BW2952] gi|253773125|ref|YP_003035956.1| flagellar biosynthesis sigma factor [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254793572|ref|YP_003078409.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. TW14359] gi|260844326|ref|YP_003222104.1| RNA polymerase, sigma 28 factor [Escherichia coli O103:H2 str. 12009] gi|260855902|ref|YP_003229793.1| RNA polymerase, sigma 28 factor [Escherichia coli O26:H11 str. 11368] gi|260868514|ref|YP_003234916.1| RNA polymerase, sigma 28 factor [Escherichia coli O111:H- str. 11128] gi|291283099|ref|YP_003499917.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O55:H7 str. CB9615] gi|293405408|ref|ZP_06649400.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1412] gi|293410281|ref|ZP_06653857.1| conserved hypothetical protein [Escherichia coli B354] gi|293446304|ref|ZP_06662726.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B088] gi|298381052|ref|ZP_06990651.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1302] gi|307314171|ref|ZP_07593781.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Escherichia coli W] gi|312967123|ref|ZP_07781341.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 2362-75] gi|312973866|ref|ZP_07788038.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1827-70] gi|331642544|ref|ZP_08343679.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H736] gi|331668616|ref|ZP_08369464.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA271] gi|331673440|ref|ZP_08374208.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA280] gi|331677807|ref|ZP_08378482.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H591] gi|331683474|ref|ZP_08384075.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H299] gi|332278907|ref|ZP_08391320.1| transcription initiation factor alternative sigma factor 28 [Shigella sp. D9] gi|84028136|sp|P0AEM8|FLIA_ECO57 RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|84028137|sp|P0AEM7|FLIA_ECOL6 RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|84028138|sp|P0AEM6|FLIA_ECOLI RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|12516023|gb|AAG56937.1|AE005415_2 flagellar biosynthesis; alternative sigma factor 28; regulation of flagellar operons [Escherichia coli O157:H7 str. EDL933] gi|26108593|gb|AAN80796.1|AE016762_49 RNA polymerase sigma factor for flagellar operon [Escherichia coli CFT073] gi|556180|gb|AAC37011.1| sigma factor 28 [Escherichia coli] gi|687650|gb|AAC43543.1| sigma F [Escherichia coli] gi|1736581|dbj|BAA15742.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K12 substr. W3110] gi|1788231|gb|AAC74989.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. MG1655] gi|13362129|dbj|BAB36084.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli O157:H7 str. Sakai] gi|73855208|gb|AAZ87915.1| alternative sigma factor 28 [Shigella sonnei Ss046] gi|110343619|gb|ABG69856.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 536] gi|157080046|gb|ABV19754.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E24377A] gi|169754668|gb|ACA77367.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli ATCC 8739] gi|169889405|gb|ACB03112.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli str. K-12 substr. DH10B] gi|170521722|gb|ACB19900.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SMS-3-5] gi|187767374|gb|EDU31218.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4196] gi|188014157|gb|EDU52279.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4113] gi|188999325|gb|EDU68311.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4076] gi|189354876|gb|EDU73295.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4401] gi|189359713|gb|EDU78132.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4486] gi|189365564|gb|EDU83980.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4501] gi|189370194|gb|EDU88610.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC869] gi|189375693|gb|EDU94109.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC508] gi|190901668|gb|EDV61424.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B7A] gi|190906452|gb|EDV66061.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli F11] gi|192925968|gb|EDV80614.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E22] gi|192955553|gb|EDV86032.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E110019] gi|194412023|gb|EDX28335.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B171] gi|194421489|gb|EDX37503.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 101-1] gi|208724903|gb|EDZ74610.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4206] gi|209161314|gb|ACI38747.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4115] gi|209748392|gb|ACI72503.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209748394|gb|ACI72504.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209748396|gb|ACI72505.1| transcription initiation factor alternative sigma factor 28 [Escherichia coli] gi|209912603|dbj|BAG77677.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SE11] gi|215265199|emb|CAS09588.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O127:H6 str. E2348/69] gi|218352261|emb|CAU98017.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli 55989] gi|218361274|emb|CAQ98858.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli IAI1] gi|218369500|emb|CAR17267.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli IAI39] gi|218427479|emb|CAR08375.2| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli ED1a] gi|218432514|emb|CAR13407.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli UMN026] gi|222033663|emb|CAP76404.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli LF82] gi|238863498|gb|ACR65496.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli BW2952] gi|253324169|gb|ACT28771.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254592972|gb|ACT72333.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O157:H7 str. TW14359] gi|257754551|dbj|BAI26053.1| RNA polymerase, sigma 28 factor [Escherichia coli O26:H11 str. 11368] gi|257759473|dbj|BAI30970.1| RNA polymerase, sigma 28 factor [Escherichia coli O103:H2 str. 12009] gi|257764870|dbj|BAI36365.1| RNA polymerase, sigma 28 factor [Escherichia coli O111:H- str. 11128] gi|260448961|gb|ACX39383.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli DH1] gi|284921835|emb|CBG34908.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 042] gi|290762972|gb|ADD56933.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O55:H7 str. CB9615] gi|291323134|gb|EFE62562.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B088] gi|291427616|gb|EFF00643.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1412] gi|291470749|gb|EFF13233.1| conserved hypothetical protein [Escherichia coli B354] gi|298278494|gb|EFI20008.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli FVEC1302] gi|306906140|gb|EFN36658.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Escherichia coli W] gi|307553936|gb|ADN46711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli ABU 83972] gi|309702217|emb|CBJ01534.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli ETEC H10407] gi|310332461|gb|EFP99696.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1827-70] gi|312288587|gb|EFR16489.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 2362-75] gi|315061222|gb|ADT75549.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli W] gi|315617855|gb|EFU98453.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 3431] gi|320191897|gb|EFW66544.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC1212] gi|320194366|gb|EFW68997.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli WV_060327] gi|320198616|gb|EFW73216.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli EC4100B] gi|323158594|gb|EFZ44608.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli E128010] gi|323165278|gb|EFZ51066.1| RNA polymerase sigma factor for flagellar operon [Shigella sonnei 53G] gi|323180827|gb|EFZ66367.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1180] gi|323186802|gb|EFZ72122.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli RN587/1] gi|323378201|gb|ADX50469.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Escherichia coli KO11] gi|323937197|gb|EGB33477.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E1520] gi|323940415|gb|EGB36606.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E482] gi|323948197|gb|EGB44185.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H120] gi|323961971|gb|EGB57570.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli H489] gi|323968339|gb|EGB63746.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli M863] gi|323972715|gb|EGB67916.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli TA007] gi|323977897|gb|EGB72983.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli TW10509] gi|324118976|gb|EGC12865.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia coli E1167] gi|326342331|gb|EGD66112.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. 1044] gi|326344837|gb|EGD68584.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. 1125] gi|327253053|gb|EGE64707.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli STEC_7v] gi|331039342|gb|EGI11562.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H736] gi|331063810|gb|EGI35721.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA271] gi|331069638|gb|EGI41025.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA280] gi|331074267|gb|EGI45587.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H591] gi|331079689|gb|EGI50886.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli H299] gi|332089656|gb|EGI94758.1| RNA polymerase sigma factor for flagellar operon [Shigella boydii 5216-82] gi|332101259|gb|EGJ04605.1| transcription initiation factor alternative sigma factor 28 [Shigella sp. D9] gi|332343648|gb|AEE56982.1| RNA polymerase sigma factor for flagellar operon protein [Escherichia coli UMNK88] gi|332756073|gb|EGJ86426.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri 4343-70] gi|333003239|gb|EGK22785.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-218] gi|333004180|gb|EGK23712.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-272] gi|333017792|gb|EGK37099.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri K-227] Length = 239 Score = 75.5 bits (184), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|21223976|ref|NP_629755.1| RNA polymerase sigma factor WhiG [Streptomyces coelicolor A3(2)] gi|256784937|ref|ZP_05523368.1| RNA polymerase sigma factor WhiG [Streptomyces lividans TK24] gi|289768830|ref|ZP_06528208.1| RNA polymerase sigma factor whiG [Streptomyces lividans TK24] gi|133480|sp|P17211|RPSW_STRCO RecName: Full=RNA polymerase sigma factor whiG gi|153486|gb|AAA26828.1| sigma factor (whiG) (put. alt.); putative [Streptomyces coelicolor] gi|3192014|emb|CAA19413.1| RNA polymerase sigma factor WhiG [Streptomyces coelicolor A3(2)] gi|289699029|gb|EFD66458.1| RNA polymerase sigma factor whiG [Streptomyces lividans TK24] Length = 280 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDVDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + VE + V +SL + E+ H G Sbjct: 134 VERAYATLEARLRRTPSESEVAVEMGIAVEDLHAVFS----QLSLANVVALEELLHAGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGGRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR 272 >gi|302517710|ref|ZP_07270052.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] gi|302426605|gb|EFK98420.1| RNA polymerase sigma-B factor [Streptomyces sp. SPB78] Length = 286 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 123/249 (49%), Gaps = 35/249 (14%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E A+ ++E N+ LV A+++ +RG D++Q G IGL+KA ++F+ + Sbjct: 50 EGTREFQDARNTLIEMNMSLVRFAARRFRSRGDDMEDVVQVGTIGLIKAIDRFELSREVE 109 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D + + +P +++ ++ + +S ++ R P E+A Sbjct: 110 FTTFAVPYIVGEIKRFFRDTTWAVHVPRRLQEARVELAKANEELSTRLGRAPKVSELAAL 169 Query: 556 LAMPVEGV--RKVLKITKEPISLETPIGDEDT----SHLGDFI----------EDKNAVS 599 +++ + V ++ SL+ IG ED+ + L DFI ED +A++ Sbjct: 170 MSLSEQQVVEAQIAANGYSSSSLDATIGGEDSGEGEAALSDFIGAEDPGMELVEDLHALA 229 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PL LA L PR+ ++L +RFG + T ++G++ V++ + ++ Sbjct: 230 PL---------------LADLEPRDRQILELRFG----QELTQAQIGERLGVSQMHVSRL 270 Query: 660 EAKAIRKLK 668 + + L+ Sbjct: 271 LNRTLGTLR 279 >gi|254380542|ref|ZP_04995908.1| sigma factor [Streptomyces sp. Mg1] gi|194339453|gb|EDX20419.1| sigma factor [Streptomyces sp. Mg1] Length = 304 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 63/256 (24%), Positives = 124/256 (48%), Gaps = 24/256 (9%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR----GLQFLDLIQEGNIGLM 482 FR + ++ +G E + ++E +L LV A+++ R GL D+IQ G IGL+ Sbjct: 53 FRRLRTL-EEGTREYQYTRNTLIEMSLSLVQFAARRFRARVLGGGLDMDDIIQVGTIGLI 111 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA ++FD +FST A+ ++ I R D + ++ +P +++ ++ + +++ Sbjct: 112 KAIDRFDPEREVEFSTLALPYIVGEIKRHFRDTTWSVHVPRRLQELRSELAKAQEALTDV 171 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPI--SLETPIGDEDTS--------HLGDFI 592 + R PT +E+A+ L + E V L SL+ G+ +TS L D + Sbjct: 172 LGRAPTVKEVAEHLELTEEQVIDGLVAANGYTSGSLDAAAGESETSPSTGRSTRPLADLV 231 Query: 593 EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 D + L + T +L L R+ +L+MRFG D T E+G + ++ Sbjct: 232 GDVDPAMELFEDLH-----TLAPLLRQLDERDRLILQMRFG----QDRTQAEIGSELGIS 282 Query: 653 RERIRQIEAKAIRKLK 668 + ++ ++ ++ + +L+ Sbjct: 283 QMQVSRLLSRTLARLR 298 >gi|333003010|gb|EGK22564.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri VA-6] Length = 239 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|114332399|ref|YP_748621.1| RNA polymerase, sigma 28 subunit [Nitrosomonas eutropha C91] gi|114309413|gb|ABI60656.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Nitrosomonas eutropha C91] Length = 236 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 63/239 (26%), Positives = 113/239 (47%), Gaps = 13/239 (5%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 +I K + V LV +A R +Q DLIQ G IGL+ A +++ G +F Sbjct: 6 GTIDKDQFVIEFTPLVKRIAYHMMARLPASVQVDDLIQAGMIGLLDAINRYEGSYGRQFE 65 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 +YA ++ ++ + + +P +R K+ ++ R + ++ P+ +EIA +L Sbjct: 66 SYAAQRIRGSMLDELREADW---LPRSLRRKMRQIETAMRTLEQRLGCPPSEQEIADELN 122 Query: 558 MPVEGVRKVLKIT--KEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 +P+ +++L+ + I E DE+ H D + + PLD ++ NLRE Sbjct: 123 LPLAEYQEMLQEAGGGQLIYYEDFQVDEE-DHFLDHLCNDQGNEPLDQLLEKNLRELLVA 181 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 + L +E+ V+ M + MN L E+G V+ RI Q+ +AI +L+ R K Sbjct: 182 AIEKLPAKEKLVMGMYYEQEMN----LREIGDVLGVSESRICQLHTQAISRLRTRLRDK 236 >gi|301029374|ref|ZP_07192470.1| flagellar biosynthesis sigma factor [Escherichia coli MS 196-1] gi|299877729|gb|EFI85940.1| flagellar biosynthesis sigma factor [Escherichia coli MS 196-1] Length = 239 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNSTETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|30019159|ref|NP_830790.1| RNA polymerase sigma factor SigB [Bacillus cereus ATCC 14579] gi|29894702|gb|AAP07991.1| RNA polymerase sigma-B factor [Bacillus cereus ATCC 14579] Length = 258 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 60/252 (23%), Positives = 122/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 19 LIADFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 76 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 77 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPRI 136 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 137 IEIANHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 186 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 187 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 242 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 243 KRQAISKLKQAA 254 >gi|320647130|gb|EFX15963.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H- str. 493-89] gi|320652413|gb|EFX20711.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H- str. H 2687] Length = 228 Score = 75.1 bits (183), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|110805895|ref|YP_689415.1| flagellar biosynthesis sigma factor [Shigella flexneri 5 str. 8401] gi|195939226|ref|ZP_03084608.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. EC4024] gi|208816591|ref|ZP_03257711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4045] gi|208820391|ref|ZP_03260711.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4042] gi|217328583|ref|ZP_03444664.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. TW14588] gi|227885651|ref|ZP_04003456.1| flagellar biosynthesis sigma factor [Escherichia coli 83972] gi|256017880|ref|ZP_05431745.1| flagellar biosynthesis sigma factor [Shigella sp. D9] gi|256022420|ref|ZP_05436285.1| flagellar biosynthesis sigma factor [Escherichia sp. 4_1_40B] gi|261227583|ref|ZP_05941864.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia coli O157:H7 str. FRIK2000] gi|261255813|ref|ZP_05948346.1| RNA polymerase, sigma 28 factor [Escherichia coli O157:H7 str. FRIK966] gi|300818654|ref|ZP_07098862.1| flagellar biosynthesis sigma factor [Escherichia coli MS 107-1] gi|300822306|ref|ZP_07102447.1| flagellar biosynthesis sigma factor [Escherichia coli MS 119-7] gi|300899176|ref|ZP_07117454.1| flagellar biosynthesis sigma factor [Escherichia coli MS 198-1] gi|300904809|ref|ZP_07122636.1| flagellar biosynthesis sigma factor [Escherichia coli MS 84-1] gi|300917364|ref|ZP_07134033.1| flagellar biosynthesis sigma factor [Escherichia coli MS 115-1] gi|300925015|ref|ZP_07140938.1| flagellar biosynthesis sigma factor [Escherichia coli MS 182-1] gi|300951546|ref|ZP_07165380.1| flagellar biosynthesis sigma factor [Escherichia coli MS 116-1] gi|300956562|ref|ZP_07168843.1| flagellar biosynthesis sigma factor [Escherichia coli MS 175-1] gi|300982291|ref|ZP_07176001.1| flagellar biosynthesis sigma factor [Escherichia coli MS 200-1] gi|300993927|ref|ZP_07180602.1| flagellar biosynthesis sigma factor [Escherichia coli MS 45-1] gi|301018228|ref|ZP_07182743.1| flagellar biosynthesis sigma factor [Escherichia coli MS 69-1] gi|301050723|ref|ZP_07197582.1| flagellar biosynthesis sigma factor [Escherichia coli MS 185-1] gi|301305263|ref|ZP_07211360.1| flagellar biosynthesis sigma factor [Escherichia coli MS 124-1] gi|301327712|ref|ZP_07220918.1| flagellar biosynthesis sigma factor [Escherichia coli MS 78-1] gi|301645559|ref|ZP_07245489.1| flagellar biosynthesis sigma factor [Escherichia coli MS 146-1] gi|306814254|ref|ZP_07448420.1| flagellar biosynthesis sigma factor [Escherichia coli NC101] gi|307138589|ref|ZP_07497945.1| flagellar biosynthesis sigma factor [Escherichia coli H736] gi|309795968|ref|ZP_07690381.1| flagellar biosynthesis sigma factor [Escherichia coli MS 145-7] gi|110615443|gb|ABF04110.1| flagellar biosynthesis sigma factor FliA [Shigella flexneri 5 str. 8401] gi|208730934|gb|EDZ79623.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4045] gi|208740514|gb|EDZ88196.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. EC4042] gi|217317930|gb|EEC26357.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli O157:H7 str. TW14588] gi|227837224|gb|EEJ47690.1| flagellar biosynthesis sigma factor [Escherichia coli 83972] gi|300297591|gb|EFJ53976.1| flagellar biosynthesis sigma factor [Escherichia coli MS 185-1] gi|300307268|gb|EFJ61788.1| flagellar biosynthesis sigma factor [Escherichia coli MS 200-1] gi|300316625|gb|EFJ66409.1| flagellar biosynthesis sigma factor [Escherichia coli MS 175-1] gi|300357213|gb|EFJ73083.1| flagellar biosynthesis sigma factor [Escherichia coli MS 198-1] gi|300399815|gb|EFJ83353.1| flagellar biosynthesis sigma factor [Escherichia coli MS 69-1] gi|300403277|gb|EFJ86815.1| flagellar biosynthesis sigma factor [Escherichia coli MS 84-1] gi|300406428|gb|EFJ89966.1| flagellar biosynthesis sigma factor [Escherichia coli MS 45-1] gi|300415410|gb|EFJ98720.1| flagellar biosynthesis sigma factor [Escherichia coli MS 115-1] gi|300418834|gb|EFK02145.1| flagellar biosynthesis sigma factor [Escherichia coli MS 182-1] gi|300449221|gb|EFK12841.1| flagellar biosynthesis sigma factor [Escherichia coli MS 116-1] gi|300525189|gb|EFK46258.1| flagellar biosynthesis sigma factor [Escherichia coli MS 119-7] gi|300528826|gb|EFK49888.1| flagellar biosynthesis sigma factor [Escherichia coli MS 107-1] gi|300839469|gb|EFK67229.1| flagellar biosynthesis sigma factor [Escherichia coli MS 124-1] gi|300845756|gb|EFK73516.1| flagellar biosynthesis sigma factor [Escherichia coli MS 78-1] gi|301076168|gb|EFK90974.1| flagellar biosynthesis sigma factor [Escherichia coli MS 146-1] gi|305852413|gb|EFM52864.1| flagellar biosynthesis sigma factor [Escherichia coli NC101] gi|308120418|gb|EFO57680.1| flagellar biosynthesis sigma factor [Escherichia coli MS 145-7] gi|312946514|gb|ADR27341.1| flagellar biosynthesis sigma factor [Escherichia coli O83:H1 str. NRG 857C] gi|315136559|dbj|BAJ43718.1| RNA polymerase sigma factor [Escherichia coli DH1] gi|315257247|gb|EFU37215.1| flagellar biosynthesis sigma factor [Escherichia coli MS 85-1] gi|315290288|gb|EFU49666.1| flagellar biosynthesis sigma factor [Escherichia coli MS 153-1] gi|315296505|gb|EFU55802.1| flagellar biosynthesis sigma factor [Escherichia coli MS 16-3] gi|320641770|gb|EFX11158.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. G5101] gi|320658015|gb|EFX25777.1| flagellar biosynthesis sigma factor [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320658587|gb|EFX26281.1| flagellar biosynthesis sigma factor [Escherichia coli O55:H7 str. USDA 5905] gi|320668485|gb|EFX35312.1| flagellar biosynthesis sigma factor [Escherichia coli O157:H7 str. LSU-61] gi|323152745|gb|EFZ39017.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli EPECa14] gi|323186302|gb|EFZ71652.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 1357] gi|324007273|gb|EGB76492.1| flagellar biosynthesis sigma factor [Escherichia coli MS 57-2] gi|324013514|gb|EGB82733.1| flagellar biosynthesis sigma factor [Escherichia coli MS 60-1] gi|324017957|gb|EGB87176.1| flagellar biosynthesis sigma factor [Escherichia coli MS 117-3] Length = 229 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|300854227|ref|YP_003779211.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium ljungdahlii DSM 13528] gi|300434342|gb|ADK14109.1| RNA polymerase sigma factor for flagellar operon FliA [Clostridium ljungdahlii DSM 13528] Length = 241 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 66/231 (28%), Positives = 115/231 (49%), Gaps = 15/231 (6%) Query: 445 KKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 K+E+V+ L LV +A + + +++ DL+ G +GL+ A KFD G KFSTYA Sbjct: 10 KEELVKKYLPLVKYIASRVIIGKTKYIEYEDLVSYGMLGLIDAINKFDKDRGMKFSTYAS 69 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K ++ + S I DK++K + K+ REP+ EEIA +L MP++ Sbjct: 70 IRIKGSMIDELRRNSP---ISKGAMDKLNKYNAAMDSLRTKLGREPSSEEIANELGMPLK 126 Query: 562 GVRKVLKITK--EPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + ++ +SLE I D+D +G +ED + SP S + + E + L Sbjct: 127 KMMEIENYINYISIVSLEDLIFSEDDDIPLMGT-VEDTKSPSPEKSLEKKEMLEYLAKAL 185 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ V+ + + + TL+E+G V+ R+ Q+ ++AI L+ Sbjct: 186 DLLNEKDNLVITLYYYEKL----TLKEIGHILNVSESRVCQLHSRAILHLR 232 >gi|302557289|ref|ZP_07309631.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] gi|302474907|gb|EFL38000.1| RNA polymerase sigma-F factor [Streptomyces griseoflavus Tu4000] Length = 269 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 71/238 (29%), Positives = 113/238 (47%), Gaps = 16/238 (6%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 + + FR + ++ E EA + E+VEA L + +A ++ +RG F DL Q +GL+ Sbjct: 22 TAAAFRRLTALPACPEREA--LRDEIVEAWLPMADRLAGRFRSRGESFDDLRQVAALGLV 79 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA +++D LG F +YA+ + I R D T+ +P +++ ++V ++ +S Sbjct: 80 KAVDRYDSELGNAFESYAVPTITGEIKRHFRDHMWTLHVPRRVQELRNRVRYASQDLSGT 139 Query: 543 IK-REPTPEEIAKKLAMPVEGVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNA 597 R PT EIA+ + E VR + + + E P G +D LGD + A Sbjct: 140 TPGRRPTVTEIAEHAHLSEEDVRTGQEALESFSALSLDAELP-GSDDGYSLGDAL---GA 195 Query: 598 VSP-LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 P LD+ + RE LA L RE +L MRF EE+G Q V+R Sbjct: 196 PDPALDTVVD---REAVKERLAELPERERAILYMRFFDDRTQSSIAEELGISQMHVSR 250 >gi|58699726|ref|ZP_00374383.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] gi|58533758|gb|EAL58100.1| heat shock sigma factor RpoH [Wolbachia endosymbiont of Drosophila ananassae] Length = 216 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 31/75 (41%), Positives = 52/75 (69%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ ++L LV+ +A K+ N GL +DL+ EGN+GLM A +KF+ LG++FSTYA+WW++ Sbjct: 48 KLITSHLNLVVKIAMKFKNYGLLLMDLVMEGNMGLMHAVKKFNPDLGFRFSTYAVWWIEA 107 Query: 507 AITRSIADQSCTIRI 521 +I I ++I Sbjct: 108 SIKDFILKSWSFVKI 122 >gi|300935898|ref|ZP_07150854.1| flagellar biosynthesis sigma factor [Escherichia coli MS 21-1] gi|300458917|gb|EFK22410.1| flagellar biosynthesis sigma factor [Escherichia coli MS 21-1] gi|307626601|gb|ADN70905.1| flagellar biosynthesis sigma factor [Escherichia coli UM146] gi|315286624|gb|EFU46057.1| flagellar biosynthesis sigma factor [Escherichia coli MS 110-3] Length = 229 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDHQRENPLQQLLDSNLRQRVMETIETLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|119944398|ref|YP_942078.1| RNA polymerase sigma-32 factor RpoH [Psychromonas ingrahamii 37] gi|119863002|gb|ABM02479.1| RNA polymerase sigma-32 factor RpoH [Psychromonas ingrahamii 37] Length = 283 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 117/242 (48%), Gaps = 30/242 (12%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR V+ +AK Y GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 49 AAKKLVMSHLRFVVYIAKSYAGYGLAQADLIQEGNIGLMKAVKRFDPSVGVRLVSFAVHW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K I + ++I + K+ RR ++ E V V Sbjct: 109 IKAEIHEYVIRNWRMVKIATTKAQR--KLFFNLRRAKKRLGWFSHDE---------VATV 157 Query: 564 RKVLKI-TKEPISLETPIGDEDTSHLG-------------DFIEDKNAVSPLDSAIQANL 609 + L + TK+ + +E+ + +D S ++EDK+A A + Sbjct: 158 AENLNVSTKDVLEMESRLNAQDQSFDLSDSDDDESGFAPVQYLEDKSADVFQVVATENTQ 217 Query: 610 RETTTRVLASLTPREER---VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 T ++ ++L+ +ER ++ R+ TL ++ ++ ++ ERIRQ+E A++K Sbjct: 218 LHTKNKLYSALSTLDERSQDIVSSRW--LSEPKATLHDLAARYGISAERIRQLEENAMKK 275 Query: 667 LK 668 L+ Sbjct: 276 LQ 277 >gi|218778853|ref|YP_002430171.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfatibacillum alkenivorans AK-01] gi|218760237|gb|ACL02703.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Desulfatibacillum alkenivorans AK-01] Length = 252 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 58/213 (27%), Positives = 111/213 (52%), Gaps = 16/213 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL+ A +K+D G KF TYA + ++ A+ + +P +R K+ + Sbjct: 48 DLISAGIMGLLDALDKYDEGRGVKFRTYAEFRIRGAMLDELRAMDW---VPRSVRKKVQE 104 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + + R+ + R EEIA +L + ++ + +L E +SL+ P+ D + G Sbjct: 105 IEQAVNRVEKRESRPADAEEIANELGVDMDTYQNMLSKAGGIELVSLDEPLWSNDNTKDG 164 Query: 590 -----DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEE 644 D +ED NA +P + + ++ + ++SLTP+E+++L + + + TL+E Sbjct: 165 RRTHVDLLED-NA-NPDRDLMDSEFKKILAQSISSLTPKEQQILSLYY----QDELTLKE 218 Query: 645 VGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 VG+ +T RI QI + + KL+ ++++ R Sbjct: 219 VGEVMGLTESRICQIHTQCMIKLRSKLKTQEAR 251 >gi|297582861|ref|YP_003698641.1| LuxR family transcriptional regulator [Bacillus selenitireducens MLS10] gi|297141318|gb|ADH98075.1| transcriptional regulator, LuxR family [Bacillus selenitireducens MLS10] Length = 268 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 56/234 (23%), Positives = 124/234 (52%), Gaps = 22/234 (9%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV ++A+K++ DL+Q G IGL+ A +FD G F ++A+ + I R I D Sbjct: 48 LVHALARKFSRGQRHDEDLVQVGMIGLLAALRRFDPSFGRSFESFAVPTIVGEIKRFIRD 107 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--E 572 ++ ++ +P +++ K+ ++ +++R P EEIA L + E + + +++ K + Sbjct: 108 KTWSVHVPRRIKELGPKIKSAVENLTTELQRSPQVEEIADYLEVSEEEILETMEMGKSYQ 167 Query: 573 PISLETPIGDEDTSHLGDFIEDKNAVSPLD--SAIQANLRETTTRVLAS-----LTPREE 625 +S++ I +D + +AV+ LD ++++ +T ++L LT RE+ Sbjct: 168 ALSVDRSIEADD---------EGSAVTLLDLVGSVESGYEQTDQQLLLEKAFQVLTDREK 218 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 ++L++ + M+ +E G+Q +++ + +++ +A++KLK R + +F Sbjct: 219 QILQLTYFENMSQ----KETGEQLGISQMHVSRLQRRALQKLKDSIRIEATEAF 268 >gi|86605313|ref|YP_474076.1| RNA polymerase sigma factor SigF [Synechococcus sp. JA-3-3Ab] gi|86553855|gb|ABC98813.1| RNA polymerase sigma factor, group 3 [Synechococcus sp. JA-3-3Ab] Length = 299 Score = 75.1 bits (183), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 61/207 (29%), Positives = 105/207 (50%), Gaps = 9/207 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +VE NL LV A + N+ + + DL+Q G IGL++A E+FD G FS++AM + Sbjct: 71 RNRLVEINLGLVRKEAHHWRNQCDEGYDDLVQVGCIGLIQAIERFDISRGLAFSSFAMPY 130 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+S TIRIP + + R+ ++ R P+ E+ + L + + Sbjct: 131 IRGEIQHYLRDKSPTIRIPRRWATLQRQAKKVIARLRQELGRSPSEAEVREALQLTEQEW 190 Query: 564 RKVLKITKEP---ISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R+ L++ ++ +SL+ P+ +ED+ LGD I D+ S A + +R LA Sbjct: 191 RE-LELAQQNSLLLSLDAPVQVEEDSVALGDTIPDQRYRS-FQLAEEDRIR--LQNALAK 246 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG 646 L R ++L F + T E +G Sbjct: 247 LEERTRQILEFVFFYDLTQKETAERLG 273 >gi|290962881|ref|YP_003494063.1| sigma factor [Streptomyces scabiei 87.22] gi|260652407|emb|CBG75540.1| putative sigma factor [Streptomyces scabiei 87.22] Length = 275 Score = 74.7 bits (182), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 57/259 (22%), Positives = 126/259 (48%), Gaps = 35/259 (13%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +F ++++ +G + ++E NL LV A ++ R D++Q G IGL+KA Sbjct: 27 QFFDRLAVLDEGTHTYQYVRNTLIEMNLSLVRYAASRFRGREDSLEDIVQVGTIGLIKAI 86 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+T+A+ ++ I R D S + +P +++ ++ R + +++ R Sbjct: 87 DRFELSREVEFTTFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVELARATDELQSRLGR 146 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPI----GDEDTSHLGDFI------- 592 PT E+++ +++ E V + K + SL+ + GD+ + LGD I Sbjct: 147 MPTTRELSELMSLSEEEVIEARKASNGYNTSSLDAALTSDGGDDGDAVLGDLIGEEDHAL 206 Query: 593 ---EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 ED ++++PL +A L RE R++ +RF + T ++ ++ Sbjct: 207 QLVEDFHSLAPL---------------IAQLDDRERRIIHLRF----VEEWTQSQIAEEL 247 Query: 650 CVTRERIRQIEAKAIRKLK 668 V++ + ++ ++ I++L+ Sbjct: 248 GVSQMHVSRLISRIIKRLR 266 >gi|40787125|gb|AAR90090.1| WhiG-like protein [Streptomyces ambofaciens] Length = 280 Score = 74.7 bits (182), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 59/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 77 DFVSSGVFGLIDAIEKFDVDREIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARN 133 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLG-- 589 V R + +++R P+ E+A ++ + VE + V +SL + E+ H G Sbjct: 134 VERAYTTLEARLRRTPSESEVAVEMGIAVEDLHAVFS----QLSLANVVALEELLHAGGE 189 Query: 590 --------DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 190 GGGRLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 245 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G VT R+ QI K++ +L+ Sbjct: 246 LAEIGNVLGVTESRVSQIHTKSVLQLR 272 >gi|76664996|emb|CAJ17940.1| DNA-directed RNA polymerase sigma subunit [Candidatus Phytoplasma solani] Length = 110 Score = 74.7 bits (182), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 31/51 (60%), Positives = 43/51 (84%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +A +AK +VE+N RLV+S+AK+Y RG+ FLDLIQEGN+GLM+A +KFD+ Sbjct: 58 QAQLAKDSLVESNYRLVVSIAKRYIGRGILFLDLIQEGNMGLMRAVDKFDY 108 >gi|146312155|ref|YP_001177229.1| flagellar biosynthesis sigma factor [Enterobacter sp. 638] gi|145319031|gb|ABP61178.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Enterobacter sp. 638] Length = 239 Score = 74.7 bits (182), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 50/198 (25%), Positives = 99/198 (50%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V ++ ++ R T E+A++L + V+ R++L T E+ + Sbjct: 100 VAHAIGQLEQELGRNATETEVAERLGIAVQDYRQMLLDTNNSQLFSYDEWREEHGDSVEL 159 Query: 592 IEDKNAV-SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + D+N +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 VTDENQHENPLHQLLEGNLRQRVMDAIEALPEREQLVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|163816725|ref|ZP_02208088.1| hypothetical protein COPEUT_02915 [Coprococcus eutactus ATCC 27759] gi|158447982|gb|EDP24977.1| hypothetical protein COPEUT_02915 [Coprococcus eutactus ATCC 27759] Length = 224 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 61/232 (26%), Positives = 117/232 (50%), Gaps = 32/232 (13%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ N+ LV+SVAK+Y RG + DLIQ G IGL+KA ++FD FSTY++ Sbjct: 18 ARDRLITENMGLVVSVAKRYIGRGQELEDLIQIGLIGLIKAVDRFDLEYDVMFSTYSVPL 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVEG 562 ++ I R + D +R+ +++ ++ + + REPT +EI K+ P E Sbjct: 78 IQGEIRRFLRDDGL-VRVSRNLKTIHYRAEKYRQEYQRTNGREPTVDEICAKIGSDPEEL 136 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLGDFI----EDKNAVSPLDSAIQANLRETTTRVLA 618 V +++E+ + + +G+ E++ V L ++L Sbjct: 137 V----------MAMESAVDISNIEEMGELQTSRREEERVVEKL----------YVKQLLD 176 Query: 619 SLTPREERVLRMR-FGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 +L RE++++ +R FG + T E+G+ +++ ++ ++E K +R+LK Sbjct: 177 TLPEREKKLITLRYFG-----EKTQGEIGRILGMSQVQVSRLEKKILRELKR 223 >gi|300864899|ref|ZP_07109744.1| RNA polymerase sigma factor SigF [Oscillatoria sp. PCC 6506] gi|300337103|emb|CBN54894.1| RNA polymerase sigma factor SigF [Oscillatoria sp. PCC 6506] Length = 292 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 57/221 (25%), Positives = 109/221 (49%), Gaps = 10/221 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW 502 + E+V+ N+ LV + ++ + + DL+Q G+IGL++A E+FD G FS++A+ Sbjct: 65 VRNELVKLNIGLVRKEVHHWLHQCTESYDDLLQVGSIGLIRAIERFDMSKGNAFSSFAIP 124 Query: 503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +++ I + D+S ++R+P H + + + ++ R PT E+A L + V G Sbjct: 125 YIRGEIQHYLRDKSPSVRVPRHWLTLERQSSSIVKDLQVRLNRHPTDIEVATALNISV-G 183 Query: 563 VRKVLKIT---KEPISLETPIGDED--TSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 + +K+ + P+SL+ P+ DE+ + LG+ + D N A + +R + L Sbjct: 184 EWQEIKLACRNRSPLSLDAPLQDEEEGATCLGELVPD-NRYRSFQLAQEDRIR--LQQAL 240 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 A L R +L F + T E +G R+++ Sbjct: 241 AKLEERTREILEFVFLYDLTQKETAERLGISAVTVSRRVKK 281 >gi|29830728|ref|NP_825362.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29607841|dbj|BAC71897.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 309 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 60/241 (24%), Positives = 114/241 (47%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +R G E S + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G Sbjct: 75 LRPGSPEHSRVRGALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRG 134 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM V I R D T+ +P + + +V ++ R PT EIA Sbjct: 135 VQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIA 194 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++L + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 195 ERLRITEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RD 249 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ +L+ + Sbjct: 250 LVRHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFARLRSAN 305 Query: 672 R 672 R Sbjct: 306 R 306 >gi|42543555|pdb|1RIO|H Chain H, Structure Of Bacteriophage Lambda Ci-Ntd In Complex With Sigma-Region4 Of Thermus Aquaticus Bound To Dna Length = 73 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 41/72 (56%), Positives = 52/72 (72%), Gaps = 1/72 (1%) Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK-H 669 E + L+ L+ RE VL++R G+ +HTLEEVG F VTRERIRQIE KA+RKLK H Sbjct: 2 EELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYH 61 Query: 670 PSRSKKLRSFLD 681 SR++KLR FL+ Sbjct: 62 ESRTRKLRDFLE 73 >gi|119718035|ref|YP_925000.1| sigma-70 region 2 domain-containing protein [Nocardioides sp. JS614] gi|119538696|gb|ABL83313.1| sigma-70 region 2 domain protein [Nocardioides sp. JS614] Length = 257 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 55/227 (24%), Positives = 109/227 (48%), Gaps = 17/227 (7%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 +++ N+ + + +++ RG+ DL Q +GL+KA + FD G+ F ++A+ ++ Sbjct: 34 QLIRLNMAVAVDATRRFRGRGIATDDLEQVAYVGLVKAVKGFDPDRGHDFLSFAIPTIRG 93 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV 566 + R D T+R P +++ K++ + ++ R P P EIA+ L + + V + Sbjct: 94 EVRRHFRDLGWTVRPPRSIQEAQTKIIACEGELYQQLGRAPRPSEIAEHLGLDRDLVVEA 153 Query: 567 LKITK--EPISLETPIGDEDTSHLG---DFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 L + P SL+ P + D +G F ++ V A R VLA L+ Sbjct: 154 LGASGCFAPASLDAPAHEGDDDPIGRRLGFTDEGFDV--------AEARAVLAPVLAKLS 205 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE ++ MRF G T ++G+ VT+ ++ ++ + + +L+ Sbjct: 206 KRERIIVEMRFFRGC----TQAQIGEAIGVTQMQVSRLLTRLMARLR 248 >gi|220936149|ref|YP_002515048.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. HL-EbGR7] gi|219997459|gb|ACL74061.1| RNA polymerase, sigma 32 subunit, RpoH [Thioalkalivibrio sp. HL-EbGR7] Length = 281 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 65/233 (27%), Positives = 116/233 (49%), Gaps = 11/233 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V NLR V+ +A+ Y+ GL DLIQEGNIGLMKA ++FD +G + ++A+ W Sbjct: 47 AARKLVMHNLRFVVHIARGYSGYGLGLGDLIQEGNIGLMKAVKRFDPEMGVRLISFAVHW 106 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM-PVE 561 ++ I I +++ + K+ +R+A++ E +A L + P + Sbjct: 107 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSAKQRLGWFNSEEV-NAVADDLGVTPAQ 165 Query: 562 GVRKVLKITKEPISLE-TPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTRV 616 + ++ + +S + P DED L E + L++ A ET Sbjct: 166 VLEMESRLAGQDVSFDPAPASDEDGPSLSPAETLIDESGDPAERLEADDWAAHHETRLHS 225 Query: 617 -LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L +L PR ++ R+ TL E+ ++ ++ ER+RQ+E+ A+RKL+ Sbjct: 226 GLEALDPRSRDIVARRWLTEQKA--TLHELAAEYGISAERVRQLESNAMRKLR 276 >gi|313901053|ref|ZP_07834541.1| RNA polymerase sigma-F factor [Clostridium sp. HGF2] gi|312954011|gb|EFR35691.1| RNA polymerase sigma-F factor [Clostridium sp. HGF2] Length = 241 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 62/228 (27%), Positives = 113/228 (49%), Gaps = 15/228 (6%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ +R G+ EA K V+ N LV S+ ++++ + + DL Q G +GLMKA FD Sbjct: 10 LIERIRLGDEEA---KSCFVQQNSALVYSIIRRFSRQRISNEDLFQIGCVGLMKALNNFD 66 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R D +IRI +++ ++V+ + K+ EPT Sbjct: 67 TSYEVKFSTYAVPIIMGEIKRFFRDDG-SIRISRSLKEGYLQMVKAKEVLLQKLNHEPTY 125 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDK-NAVSPLDSAIQAN 608 +EIA + + V V + + SL+ I + D S + +EDK + D ++ + Sbjct: 126 QEIADAMELDVADVILAFEANQFIYSLDETIYENDGSPI--LLEDKVSNKKEEDVVMKVS 183 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 LR+ + L RE+ +L R+ + M EE+ ++ +++ ++ Sbjct: 184 LRDEIQK----LDQREQLLLHYRYDLSMKQ----EEIARKLNISQVQV 223 >gi|291537993|emb|CBL11104.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Roseburia intestinalis XB6B4] Length = 248 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 58/228 (25%), Positives = 115/228 (50%), Gaps = 8/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ NL LV ++A ++ +RG + +L Q G IGLMKA +KFD L FSTYA+ Sbjct: 18 ARDTLIAGNLGLVHTIANRFEHRGHEREELFQIGCIGLMKAVDKFDLSLNLAFSTYAVPV 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +K R + ++ REP EIA++ + + Sbjct: 78 IMGEIRRFLRDDG-MVKVSRTLKENAYKAGRAKEELWGELGREPGLLEIAERTGLSSGEI 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL-RETTTRVLASL 620 ++ ++ S+ P+ ++D L D + +K + +A L R +++ L Sbjct: 137 IMAMESARDVESIYQPVYEKDGDELLMVDQLCEKEENGKDEPEKEAVLNRMVIEQLMELL 196 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++R R+ + T E K+ +T+ ++ ++E K + L+ Sbjct: 197 DEREQNLIRCRY----FENRTQSETAKELGMTQVQVSRLEKKILLCLR 240 >gi|325846834|ref|ZP_08169712.1| putative RNA polymerase sigma-B factor [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|325481206|gb|EGC84249.1| putative RNA polymerase sigma-B factor [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 256 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 120/230 (52%), Gaps = 18/230 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E++E ++ +V ++ KY +G++ DL Q ++GL+ A +++D GY+FS++A + Sbjct: 30 RNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFATPTI 89 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D+ IR+P +++ K+ + + +++R PT ++IA L E + Sbjct: 90 MGELKRYFRDKGWVIRVPRRIQNLYKKINVAKKILPQELQRTPTIKDIAAYLGEDEETIL 149 Query: 565 KVLKITK--EPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVL 617 + ++ +K P SL+ E++ L D I +DKN DS +L E +T L Sbjct: 150 ETMEASKVYTPQSLDMKYQVQKGENSVDLSDMIGEDDKN----FDSIELKDLIEKSTERL 205 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E+++L +R+ G T ++ K+ +++ + +IE K ++K Sbjct: 206 NDL---EKQILELRYYEG----RTQVDIAKKLSISQMTVSRIEKKILQKF 248 >gi|291437789|ref|ZP_06577179.1| RNA polymerase sigma factor sig8 [Streptomyces ghanaensis ATCC 14672] gi|291340684|gb|EFE67640.1| RNA polymerase sigma factor sig8 [Streptomyces ghanaensis ATCC 14672] Length = 285 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 54/211 (25%), Positives = 108/211 (51%), Gaps = 11/211 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 FR + +++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 75 FRQL-AVLEEGTPEYQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 133 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ + R D S ++ +P +++ ++ R + ++ R Sbjct: 134 DRFELSREVEFTSFAIPYIVGEMKRFFRDTSWSVHVPRRLQEARVQLARATEELRTRLGR 193 Query: 546 EPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPL 601 PT E+A+ +++ E V ++ SL+ IG E S L DFI ++A L Sbjct: 194 TPTTRELAQLMSLTEEEVNEARIAANGYNSASLDAAIGSEPDGESVLADFIGSEDAALEL 253 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRF 632 A ++A L RE +++ RF Sbjct: 254 VEDFHA-----LAPMIAELDERERKIIHWRF 279 >gi|1276889|gb|AAC44103.1| stress response/stationary phase sigma factor [Mycobacterium tuberculosis H37Rv] gi|1589717|prf||2211432A RNA polymerase sigma factor Length = 261 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 125/248 (50%), Gaps = 19/248 (7%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR +V + G E + ++V+ L L +A+++ RG DLIQ +GL+ AA Sbjct: 23 FRELVGLP-AGSPEFQRHRDKIVQRCLPLADHIARRFEGRGEPRDDLIQVARVGLVNAAV 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKR 545 +FD G F ++A+ + + R D S ++++P +++ +H + TA +S ++ R Sbjct: 82 RFDVKTGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKE-LHLRLGTATADLSQRLGR 140 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSP 600 P+ E+A +L M +EG+ + + +S+++ G D+D + D + D +A Sbjct: 141 APSASELAAELGMDRAEVIEGL--LAGSSYHTLSIDSGGGSDDDARAITDTLGDVDA--G 196 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LD Q RE +L +L RE VL +RF M E VG +++ + ++ Sbjct: 197 LD---QIENREVLRPLLEALPERERTVLVLRFFDSMTQTQIAERVG----ISQMHVSRVL 249 Query: 661 AKAIRKLK 668 AK++ +L+ Sbjct: 250 AKSLARLR 257 >gi|215432251|ref|ZP_03430170.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis EAS054] gi|289755409|ref|ZP_06514787.1| stress response/stationary phase sigma factor SigF [Mycobacterium tuberculosis EAS054] gi|289695996|gb|EFD63425.1| stress response/stationary phase sigma factor SigF [Mycobacterium tuberculosis EAS054] Length = 261 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 125/248 (50%), Gaps = 19/248 (7%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR +V + G E + ++V+ L L +A+++ RG DLIQ +GL+ AA Sbjct: 23 FRELVGLP-AGSPEFQRHRDKIVQRCLPLADHIARRFEGRGEPRDDLIQVARVGLVNAAV 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKR 545 +FD G F ++A+ + + R D S ++++P +++ +H + TA +S ++ R Sbjct: 82 RFDMKTGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKE-LHLRLGTATADLSQRLGR 140 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSP 600 P+ E+A +L M +EG+ + + +S+++ G D+D + D + D +A Sbjct: 141 APSASELAAELGMDRAEVIEGL--LAGSSYHTLSIDSGGGSDDDARAITDTLGDVDA--G 196 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LD Q RE +L +L RE VL +RF M E VG +++ + ++ Sbjct: 197 LD---QIENREVLRPLLEALPERERTVLVLRFFDSMTQTQIAERVG----ISQMHVSRLL 249 Query: 661 AKAIRKLK 668 AK++ +L+ Sbjct: 250 AKSLARLR 257 >gi|332096706|gb|EGJ01697.1| RNA polymerase sigma factor for flagellar operon [Shigella boydii 3594-74] Length = 229 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 54/200 (27%), Positives = 98/200 (49%), Gaps = 14/200 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKL 667 V R+ Q+ ++AI++L Sbjct: 203 VLEVGESRVSQLHSQAIKRL 222 >gi|295840299|ref|ZP_06827232.1| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] gi|295827905|gb|EDY46913.2| RNA polymerase sigma-F factor [Streptomyces sp. SPB74] Length = 286 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 60/249 (24%), Positives = 121/249 (48%), Gaps = 35/249 (14%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 +G E A+ ++E N+ LV A+++ +RG D++Q G IGL+KA ++F+ + Sbjct: 50 EGTREFQDARNTLIEMNMSLVRFAARRFRSRGDDMEDVVQVGTIGLIKAIDRFELSREVE 109 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F+T+A+ ++ I R D + + +P +++ ++ + +S ++ R P E+A Sbjct: 110 FTTFAVPYIVGEIKRFFRDTTWAVHVPRRLQEARVELAKANEELSTRLGRAPRVSELAAL 169 Query: 556 LAMPVEGV--RKVLKITKEPISLETPIGDEDTSH----LGDFI----------EDKNAVS 599 + + + V ++ SL+ IG ED+ L DFI ED +A++ Sbjct: 170 MNLSEQQVVEAQIAANGYSSSSLDATIGGEDSGEGEAVLSDFIGADDPGMELVEDLHALA 229 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 PL LA L PR+ ++L +RFG + T ++G++ V++ + ++ Sbjct: 230 PL---------------LAGLEPRDRQILELRFG----QELTQAQIGERLGVSQMHVSRL 270 Query: 660 EAKAIRKLK 668 + + L+ Sbjct: 271 LNRTLGTLR 279 >gi|94676476|ref|YP_588537.1| alternative sigma factor RpoH [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|94219626|gb|ABF13785.1| alternative sigma factor RpoH [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 286 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 72/284 (25%), Positives = 138/284 (48%), Gaps = 38/284 (13%) Query: 403 VDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKK 462 ++ +K N ++ E + ++E H +G+ EA+ K ++ ++LR VI++A+ Sbjct: 17 LEDYVKAANAYPMLTAEEELKLAEKLHY-----QGDIEAA---KLLILSHLRFVINIART 68 Query: 463 YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 Y+ L DLIQEGNIGLMKA KF+ +G + ++A+ W+K I + +++ Sbjct: 69 YSGYNLPQADLIQEGNIGLMKAVRKFNPEVGVRLVSFAVHWIKAEIHEYVLRNWRIVKVA 128 Query: 523 VHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV------LKITKEPI 574 + ++ R++ ++ + E +AK+L + + VR++ I +PI Sbjct: 129 TTKAQR--RLFFNLRKIKQRLGWFNQEEVEMVAKELGVTSKDVREMESRMAAQDIAFDPI 186 Query: 575 S--------LETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 L PI + S D IE++N +A + N+ L L R Sbjct: 187 PNDEVPDKLLMAPILYLQDKGSDFADRIEEQN--WEYHAADKLNI------ALDKLDERS 238 Query: 625 ERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + ++ R+ N TL+++ ++ V+ ERIRQ+E A++K++ Sbjct: 239 KNIIAARW--LDNKKSTLQDLANKYGVSAERIRQLEKNAMKKIR 280 >gi|72161738|ref|YP_289395.1| RNA polymerase sigma factor [Thermobifida fusca YX] gi|71915470|gb|AAZ55372.1| RNA polymerase sigma factor [Thermobifida fusca YX] Length = 308 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 115/235 (48%), Gaps = 15/235 (6%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A I + E+V + LV A++Y NRG DL Q G +GLMKA + FD G F Sbjct: 80 ETSARI-RDELVRLYMPLVRREARRYRNRGEPMDDLYQVGMLGLMKAIKGFDPSYGKPFV 138 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 Y + V + R D + +R+P +++ ++ R + K R PT EIA L Sbjct: 139 AYLLPMVTGELKRHFRDTTWAVRVPRVHQERRSELNRVIAEFTQKHGRTPTTREIADALE 198 Query: 558 MPVEGVRKVLKITK--EPISLETPIGD-EDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 M +E +++ + +SL+TP GD ED S LGD + D ++ + +T+ Sbjct: 199 MDLESAIELIDASSAYSALSLDTPFGDTEDESALGD------TLGVADGDLETVVDKTSL 252 Query: 615 R-VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + L L RE RV+ +RF + T E+ +++ + ++ ++ +R+L+ Sbjct: 253 KDALDRLPERERRVILLRF----FGNKTQSEIAADVGLSQMHVSRLLSQTLRQLR 303 >gi|82543610|ref|YP_407557.1| flagellar biosynthesis sigma factor [Shigella boydii Sb227] gi|81245021|gb|ABB65729.1| alternative sigma factor 28 [Shigella boydii Sb227] gi|320176074|gb|EFW51142.1| RNA polymerase sigma factor for flagellar operon [Shigella dysenteriae CDC 74-1112] gi|320184751|gb|EFW59543.1| RNA polymerase sigma factor for flagellar operon [Shigella flexneri CDC 796-83] Length = 239 Score = 74.7 bits (182), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 54/200 (27%), Positives = 98/200 (49%), Gaps = 14/200 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKL 667 V R+ Q+ ++AI++L Sbjct: 213 VLEVGESRVSQLHSQAIKRL 232 >gi|198284457|ref|YP_002220778.1| RNA polymerase sigma-32 subunit RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218667652|ref|YP_002427124.1| RNA polymerase sigma-32 factor [Acidithiobacillus ferrooxidans ATCC 23270] gi|198248978|gb|ACH84571.1| RNA polymerase, sigma 32 subunit, RpoH [Acidithiobacillus ferrooxidans ATCC 53993] gi|218519865|gb|ACK80451.1| RNA polymerase sigma-32 factor [Acidithiobacillus ferrooxidans ATCC 23270] Length = 286 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 62/237 (26%), Positives = 118/237 (49%), Gaps = 20/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K++V ++LR V+ VA+ Y GLQ DLIQEGNIGLMKA +++D G + ++A+ W Sbjct: 50 AAKDLVLSHLRFVVRVARGYRGYGLQEADLIQEGNIGLMKAVKRYDPDHGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPE-----EIAKKLA 557 VK I I +++ + K+ +R++R + + E + + + Sbjct: 110 VKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSSRSHTGWMSGEESAAMADDLGVTQAQV 169 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-- 615 + +EG +++ SL +E + D SP++ ++ + + R Sbjct: 170 LEMEG-----RMSGYDYSLNLEPDEEREGGRAPDLADPTG-SPIEQLVERDWDQQQHRAL 223 Query: 616 --VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L++L R+ ++ R+ ++ D TL+ +G + V+ ER+RQ+E ++ KL+ Sbjct: 224 HTALSALPQRDRYIIENRW---LSDDPKTLQVLGDELGVSAERVRQLEKSSMGKLRQ 277 >gi|138894766|ref|YP_001125219.1| RNA polymerase sigma factor SigD [Geobacillus thermodenitrificans NG80-2] gi|196247611|ref|ZP_03146313.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. G11MC16] gi|134266279|gb|ABO66474.1| RNA polymerase sigma-28 factor (sigma-D) [Geobacillus thermodenitrificans NG80-2] gi|196212395|gb|EDY07152.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacillus sp. G11MC16] Length = 253 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 59/199 (29%), Positives = 96/199 (48%), Gaps = 11/199 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 +L+ G +GL A EKFD KF TYA + ++ AI + + +P +RDK+ K Sbjct: 57 ELVSLGLVGLYDALEKFDPSRDLKFDTYASFRIRGAILDGLRKEDW---LPRSVRDKVKK 113 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT--KEPISLETPIGDEDTSHLG 589 + TA R+ + R T +E+A +L M E V+ + T +SL +ED L Sbjct: 114 IEETAERLEQRYMRSVTAKEVAAELGMTEEEVQAAVNETFFSNWLSLGQTACEEDDEPLA 173 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 I D AV P + ++ + E + L +E+ V+ + + + T E+G Sbjct: 174 --IRDDRAVLPEEQVVKQEMIEKLAVGIGQLNEKEQLVISLFY----KEELTFTEIGSIL 227 Query: 650 CVTRERIRQIEAKAIRKLK 668 ++ RI QI AKA+ KL+ Sbjct: 228 QLSTSRISQIHAKALWKLR 246 >gi|114566161|ref|YP_753315.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337096|gb|ABI67944.1| sigma 28 (flagella/sporulation) [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 243 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 66/249 (26%), Positives = 120/249 (48%), Gaps = 15/249 (6%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 S S +++ +++R + AK ++ EAN+ L+ V +++ N DL Q G +GL+ Sbjct: 3 SSSSYQNNEALLRLAQGGDQEAKAQLYEANVGLIYLVLERFKNTSYDQEDLFQVGAMGLL 62 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA E+FD+ +FSTYA+ + I + + D +++ +++ +V ++ Sbjct: 63 KAIERFDFSFDVRFSTYAVPMIIGEIKKFLRDDGM-VKVQRGIKELYARVRWAQDKLRGD 121 Query: 543 IKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED---TSHLGDFIEDKNAVS 599 + REP EIA L M E + ++ + P + + E+ S L + ++ V+ Sbjct: 122 LGREPGVNEIASLLEMEKEDIVVAMEACQAPAYIHDVVPSEEKEQLSLLDKLVHEEGNVA 181 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 L+ + LRE LA L RE V+ RF D T + + V++ +I +I Sbjct: 182 ILE---KLALREA----LAKLDERERVVIIRRF----FQDETQTVIAEDLGVSQVQISRI 230 Query: 660 EAKAIRKLK 668 E AI KL+ Sbjct: 231 EKSAILKLR 239 >gi|325523159|gb|EGD01550.1| RpoD family RNA polymerase sigma factor [Burkholderia sp. TJI49] Length = 126 Score = 74.3 bits (181), Expect = 6e-11, Method: Composition-based stats. Identities = 40/125 (32%), Positives = 68/125 (54%) Query: 556 LAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR 615 + +P+ V ++ I +EP+S + P+ + G+ + D+ P D+A LR Sbjct: 1 MDLPLAKVLDLMAIVREPVSTDVPVSPDGDMTFGEVVPDQATPLPEDAAAATQLRAAMAA 60 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L L RE VLR+R+GIG +L ++G+Q ++ ER+RQIEA A+ +++ Sbjct: 61 TLGGLPAREATVLRLRYGIGTADGVSLRDIGRQLNLSAERVRQIEASALERIRASGALHG 120 Query: 676 LRSFL 680 LRSF+ Sbjct: 121 LRSFM 125 >gi|291545019|emb|CBL18128.1| RNA polymerase sigma factor, sigma-70 family [Ruminococcus sp. 18P13] Length = 220 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/197 (28%), Positives = 98/197 (49%), Gaps = 10/197 (5%) Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 E NL LV A ++ RG+++ DL G IGLMKA FD G +FSTYA+ + I Sbjct: 11 EENLGLVHLCANRFRGRGVEYDDLYSAGCIGLMKAVNAFDTERGVRFSTYAVPVILGEIK 70 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 R D T+++ M++ +VVR + + +EPT +++A+++ + + + L + Sbjct: 71 RLFRDGG-TVKVSRSMKELSMRVVRLRDELRMQSGKEPTVQQLAREMGVEEAEIVQALCV 129 Query: 570 TKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 + P+SL P G+ L D V P D+ I L +++ +L+ R+ +L Sbjct: 130 SVPPVSLTDP-GESGEGQL-DI-----PVPPPDTEIGDVL--ALRQIMQTLSERDRMLLT 180 Query: 630 MRFGIGMNTDHTLEEVG 646 MR+ T + +G Sbjct: 181 MRYYQNKTQSQTAQALG 197 >gi|229542547|ref|ZP_04431607.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus coagulans 36D1] gi|229326967|gb|EEN92642.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Bacillus coagulans 36D1] Length = 259 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/230 (24%), Positives = 122/230 (53%), Gaps = 14/230 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++ +V +LV S+A+KY+ D+ Q G IGL+ A ++FD +G F ++A+ Sbjct: 27 AQEILVAHYQKLVESLARKYSKGRAYQEDIFQVGIIGLLGAIQRFDPNIGKSFESFAIPT 86 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D++ ++ +P +++ ++ T +++N+++R P EIA L + E V Sbjct: 87 IIGEIKRFLRDKTWSVHVPRRIKELGPRIKSTVEKLTNELQRSPKIAEIAAHLEISEEEV 146 Query: 564 RKVLKITK--EPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + ++++K +S++ I D T L D + ++ D + N R +VL Sbjct: 147 LEAMEMSKSYHALSVDHSIESDSDGSTVTLLDMVGSED-----DGYEKVNQRLVLEKVLH 201 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+ RE +V+ + ++ T E++G +++ + +++ +AI+KL+ Sbjct: 202 VLSERERQVIHYTYIENLSQKDTGEKLG----ISQMHVSRLQRRAIKKLR 247 >gi|5911749|emb|CAB55833.1| SigJ protein [Streptomyces coelicolor A3(2)] Length = 266 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 57/247 (23%), Positives = 128/247 (51%), Gaps = 14/247 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 F ++++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 22 FFEQLTVLEEGTPEHQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 81 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S + +P +++ ++ R + +++ R Sbjct: 82 DRFELTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVQLARATEELRSRLGR 141 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPI-GDEDT-SHLGDFIEDKNAVSPL 601 PT E+++ +++P + V ++ SL+ I G ED S L DFI +A L Sbjct: 142 TPTTAELSELMSLPEDEVVEARLAANGYNSASLDAAINGSEDGESALADFIGADDAALAL 201 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A ++A L R+ +++ RF + T +++G++ V++ + ++ + Sbjct: 202 VDDFHA-----LAPMIAELDERDRQIIHWRF----VEELTQKDIGERLGVSQMHVSRLIS 252 Query: 662 KAIRKLK 668 + + +L+ Sbjct: 253 RLLARLR 259 >gi|253990087|ref|YP_003041443.1| flagellar biosynthesis sigma factor [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253781537|emb|CAQ84700.1| rna polymerase sigma factor for flagellar operon (sigma-f factor (sigma-27) (sigma-28) [Photorhabdus asymbiotica] Length = 244 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 55/201 (27%), Positives = 102/201 (50%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + P +R + Sbjct: 47 DLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 103 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V +T R++ + R + +E+AK+L + + R++L T DE G+ Sbjct: 104 VTQTIRKLEQDLGRPASEQEVAKELKIDLVEYRQILLDTNNSQLFSY---DEWHEMHGES 160 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE+ + +PL +++++R+ + SL RE+ VL + + +N L+E+G Sbjct: 161 CEPVIEEGHETNPLQQLLESDVRQRVIDAIDSLPEREKMVLTLYYQEELN----LKEIGA 216 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V RI Q+ ++AI++L+ Sbjct: 217 VLEVGESRISQLHSQAIKRLR 237 >gi|294669660|ref|ZP_06734727.1| hypothetical protein NEIELOOT_01561 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308573|gb|EFE49816.1| hypothetical protein NEIELOOT_01561 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 146 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 51/141 (36%), Positives = 80/141 (56%), Gaps = 16/141 (11%) Query: 14 EHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNM 73 E ED + L + +++I + RGY+T E+N LP D +EQ+++ V M+ + Sbjct: 9 EQEDDNRPLTAEEQRARLRQLILQGKDRGYITYAEINDALPDDMSDAEQIDNIVNMIQGL 68 Query: 74 GINVV----DGDDL-EDEEGS----EDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMY 124 GI V D D L ++ G+ +D+++ A +A +++ DS T DPVRMY Sbjct: 69 GIQVTEEAPDADSLLMNDSGTGMTDDDAVEEAEAALSNA-------DSEFGRTTDPVRMY 121 Query: 125 LREMGSIELLSREGEIAIAKR 145 +REMG +ELL+RE EI IAK+ Sbjct: 122 MREMGQVELLTREDEIIIAKK 142 >gi|116694211|ref|YP_728422.1| DNA-directed RNA polymerase sigma subunit / flagellum specific [Ralstonia eutropha H16] gi|113528710|emb|CAJ95057.1| DNA-directed RNA polymerase sigma subunit / flagellum specific [Ralstonia eutropha H16] Length = 238 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 67/243 (27%), Positives = 117/243 (48%), Gaps = 20/243 (8%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 + + + ++V+A+ +LV +A + R +Q DLIQ G IGL+ AA++++ G +F Sbjct: 5 QGKLEQADVVKAHAQLVRRIALQLAARLPASVQIDDLIQAGMIGLLDAAKRYEDTHGARF 64 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 TYA ++ A+ + R +R ++ RT R + K+ R P E+A+ + Sbjct: 65 ETYASQRIRGAMLDEVRANDWQSR---SLRQFTRRIERTQRGLEQKLGRAPLDSEVAEAM 121 Query: 557 AMPVEGVRKVLKITKEPISLETP----IGDEDT--SHLGDFIEDKNAVSPLDSAIQANLR 610 M ++ + +L L G+ED HLG +D N PL +++ +R Sbjct: 122 EMALDEYQLLLNEVYGCQLLHYEDFERSGEEDFLDRHLGGS-DDGN---PLTVLMESGMR 177 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 E R + L RE+ VL + + +N L E+G VT R+ QI +AI +L++ Sbjct: 178 EALIRAIDRLPEREKLVLSLCYDQELN----LREIGAVLDVTESRVCQIRGQAITRLRNQ 233 Query: 671 SRS 673 R Sbjct: 234 LRG 236 >gi|157692327|ref|YP_001486789.1| RNA polymerase sigma factor SigD [Bacillus pumilus SAFR-032] gi|157681085|gb|ABV62229.1| DNA-directed RNA polymerase sigma subunit D [Bacillus pumilus SAFR-032] Length = 255 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 58/201 (28%), Positives = 98/201 (48%), Gaps = 10/201 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL A EKFD KF TYA + ++ AI + + +P R+K K Sbjct: 54 DLISLGMLGLYDALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW---LPRTSREKTKK 110 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLETPIGD-EDTSHL 588 V ++ + R TP E+A++L M + V + +S++ + D ED ++ Sbjct: 111 VEAAIEKLEQRYLRNVTPTEVAEELGMSEQDVVTTMNEGFFANLLSIDEKLHDQEDGENV 170 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 I D+ V+P + ++ L E + L+ +E+ V+ + + + TL E+G Sbjct: 171 QVMIRDEKTVTPEEKMLKDELIEQLAEKMTELSEKEKLVISLFY----KEELTLTEIGHV 226 Query: 649 FCVTRERIRQIEAKAIRKLKH 669 ++ RI QI +KA+ KLKH Sbjct: 227 LNLSTSRISQIHSKALFKLKH 247 >gi|188495466|ref|ZP_03002736.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 53638] gi|293415233|ref|ZP_06657876.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B185] gi|331647515|ref|ZP_08348607.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M605] gi|188490665|gb|EDU65768.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli 53638] gi|281178984|dbj|BAI55314.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli SE15] gi|291432881|gb|EFF05860.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli B185] gi|330911730|gb|EGH40240.1| RNA polymerase sigma factor for flagellar operon [Escherichia coli AA86] gi|331043239|gb|EGI15377.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli M605] Length = 239 Score = 74.3 bits (181), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDNNLRQRVMEAIETLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|15610422|ref|NP_217803.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis H37Rv] gi|15842877|ref|NP_337914.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis CDC1551] gi|31794466|ref|NP_856959.1| RNA polymerase sigma factor SigF [Mycobacterium bovis AF2122/97] gi|121639175|ref|YP_979399.1| RNA polymerase sigma factor SigF [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148663149|ref|YP_001284672.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis H37Ra] gi|148824488|ref|YP_001289242.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis F11] gi|167968918|ref|ZP_02551195.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis H37Ra] gi|215405299|ref|ZP_03417480.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis 02_1987] gi|215413164|ref|ZP_03421865.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis 94_M4241A] gi|215428770|ref|ZP_03426689.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis T92] gi|215447591|ref|ZP_03434343.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis T85] gi|218755069|ref|ZP_03533865.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis GM 1503] gi|219559346|ref|ZP_03538422.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis T17] gi|224991668|ref|YP_002646357.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253800329|ref|YP_003033330.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis KZN 1435] gi|254233896|ref|ZP_04927221.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis C] gi|254365909|ref|ZP_04981954.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis str. Haarlem] gi|254552388|ref|ZP_05142835.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis '98-R604 INH-RIF-EM'] gi|260188335|ref|ZP_05765809.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis CPHL_A] gi|260202448|ref|ZP_05769939.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis T46] gi|260206638|ref|ZP_05774129.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis K85] gi|289444868|ref|ZP_06434612.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T46] gi|289448975|ref|ZP_06438719.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis CPHL_A] gi|289555564|ref|ZP_06444774.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis KZN 605] gi|289571513|ref|ZP_06451740.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T17] gi|289576006|ref|ZP_06456233.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis K85] gi|289747104|ref|ZP_06506482.1| sigma factor SigF [Mycobacterium tuberculosis 02_1987] gi|289751981|ref|ZP_06511359.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T92] gi|289759427|ref|ZP_06518805.1| sigma factor SigF [Mycobacterium tuberculosis T85] gi|289763474|ref|ZP_06522852.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis GM 1503] gi|294993773|ref|ZP_06799464.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis 210] gi|297635940|ref|ZP_06953720.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis KZN 4207] gi|297732937|ref|ZP_06962055.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis KZN R506] gi|298526762|ref|ZP_07014171.1| sigma factor SigF [Mycobacterium tuberculosis 94_M4241A] gi|306777615|ref|ZP_07415952.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu001] gi|306782337|ref|ZP_07420674.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu002] gi|306786159|ref|ZP_07424481.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu003] gi|306790527|ref|ZP_07428849.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu004] gi|306795048|ref|ZP_07433350.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu005] gi|306799245|ref|ZP_07437547.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu006] gi|306805094|ref|ZP_07441762.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu008] gi|306809281|ref|ZP_07445949.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu007] gi|306969383|ref|ZP_07482044.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu009] gi|306973735|ref|ZP_07486396.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu010] gi|307081445|ref|ZP_07490615.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu011] gi|307086048|ref|ZP_07495161.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu012] gi|313660269|ref|ZP_07817149.1| RNA polymerase sigma factor SigF [Mycobacterium tuberculosis KZN V2475] gi|5917771|gb|AAD56032.1|AF181975_3 sigma factor SigF [Mycobacterium bovis] gi|1877341|emb|CAB07069.1| ALTERNATE RNA POLYMERASE SIGMA FACTOR SIGF [Mycobacterium tuberculosis H37Rv] gi|13883208|gb|AAK47728.1| stress response/stationary phase sigma factor SigF [Mycobacterium tuberculosis CDC1551] gi|31620062|emb|CAD95406.1| PROBABLE RNA POLYMERASE SIGMA FACTOR SIGF [Mycobacterium bovis AF2122/97] gi|121494823|emb|CAL73304.1| Probable rna polymerase sigma factor sigF [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|124599425|gb|EAY58529.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis C] gi|134151422|gb|EBA43467.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis str. Haarlem] gi|148507301|gb|ABQ75110.1| sigma factor SigF [Mycobacterium tuberculosis H37Ra] gi|148723015|gb|ABR07640.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis F11] gi|224774783|dbj|BAH27589.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo 172] gi|253321832|gb|ACT26435.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis KZN 1435] gi|289417787|gb|EFD15027.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T46] gi|289421933|gb|EFD19134.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis CPHL_A] gi|289440196|gb|EFD22689.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis KZN 605] gi|289540437|gb|EFD45015.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis K85] gi|289545267|gb|EFD48915.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T17] gi|289687632|gb|EFD55120.1| sigma factor SigF [Mycobacterium tuberculosis 02_1987] gi|289692568|gb|EFD59997.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis T92] gi|289710980|gb|EFD74996.1| alternate RNA polymerase sigma factor sigF [Mycobacterium tuberculosis GM 1503] gi|289714991|gb|EFD79003.1| sigma factor SigF [Mycobacterium tuberculosis T85] gi|298496556|gb|EFI31850.1| sigma factor SigF [Mycobacterium tuberculosis 94_M4241A] gi|308214036|gb|EFO73435.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu001] gi|308325087|gb|EFP13938.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu002] gi|308329308|gb|EFP18159.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu003] gi|308333139|gb|EFP21990.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu004] gi|308336826|gb|EFP25677.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu005] gi|308340659|gb|EFP29510.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu006] gi|308344393|gb|EFP33244.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu007] gi|308348397|gb|EFP37248.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu008] gi|308353234|gb|EFP42085.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu009] gi|308356974|gb|EFP45825.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu010] gi|308360831|gb|EFP49682.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu011] gi|308364515|gb|EFP53366.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis SUMu012] gi|323718155|gb|EGB27337.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis CDC1551A] gi|326902486|gb|EGE49419.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis W-148] gi|328460063|gb|AEB05486.1| RNA polymerase sigma factor sigF [Mycobacterium tuberculosis KZN 4207] Length = 261 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 125/248 (50%), Gaps = 19/248 (7%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR +V + G E + ++V+ L L +A+++ RG DLIQ +GL+ AA Sbjct: 23 FRELVGLP-AGSPEFQRHRDKIVQRCLPLADHIARRFEGRGEPRDDLIQVARVGLVNAAV 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKR 545 +FD G F ++A+ + + R D S ++++P +++ +H + TA +S ++ R Sbjct: 82 RFDVKTGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKE-LHLRLGTATADLSQRLGR 140 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSP 600 P+ E+A +L M +EG+ + + +S+++ G D+D + D + D +A Sbjct: 141 APSASELAAELGMDRAEVIEGL--LAGSSYHTLSIDSGGGSDDDARAITDTLGDVDA--G 196 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LD Q RE +L +L RE VL +RF M E VG +++ + ++ Sbjct: 197 LD---QIENREVLRPLLEALPERERTVLVLRFFDSMTQTQIAERVG----ISQMHVSRLL 249 Query: 661 AKAIRKLK 668 AK++ +L+ Sbjct: 250 AKSLARLR 257 >gi|317121837|ref|YP_004101840.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter marianensis DSM 12885] gi|315591817|gb|ADU51113.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter marianensis DSM 12885] Length = 261 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 56/201 (27%), Positives = 97/201 (48%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G GLM+A ++D G KF TYA ++ A+ + +P +R + Sbjct: 57 DLISYGIFGLMEAIRRYDPARGVKFETYAYTRIRGAMLDGLRAMDW---VPQTLRRRARD 113 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLE--TPIGDEDTSH 587 V RR+ N++ R +E+A +L + E +L+ +SL+ P +D + Sbjct: 114 VEACYRRLENRLGRPANDDEVAAELGLKPEEFAGLLQELARTTVVSLDDVLPSDSDDPAA 173 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 + D + D A PL +A A+LR LA L RE V+ + + G+ T++E+ + Sbjct: 174 VLDRLADPGATDPLQAATLADLRRRLADALAGLPERERLVVSLYYYEGL----TVKEIAE 229 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V+ R+ Q+ +AI +L+ Sbjct: 230 VMGVSPSRVSQLHTRAILRLR 250 >gi|224477054|ref|YP_002634660.1| RNA polymerase sigma factor SigB [Staphylococcus carnosus subsp. carnosus TM300] gi|222421661|emb|CAL28475.1| sigma factor B [Staphylococcus carnosus subsp. carnosus TM300] Length = 256 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 123/238 (51%), Gaps = 14/238 (5%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E + A+ ++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD G KF + Sbjct: 27 ENTDAQDKLVKHYQKLIESLAFKYSKGQSHHEDLVQVGMVGLIGAINRFDINFGRKFEAF 86 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 + V I R + D++ ++ +P +++ ++ +T ++N+++R P+ EIA++L + Sbjct: 87 LVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKTTDELTNELERSPSISEIAERLEVT 146 Query: 560 VEGVRKVLKITK--EPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 E V + +++ + +S++ I D T L D + ++ L R Sbjct: 147 DEEVLEAMEMGQSYNALSVDHSIEADKDGSTVTLLDIMGEQEGGYDLTEK-----RMILE 201 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 R+L LT RE +++ F G++ T E +G +++ + +++ AI+KL+ ++ Sbjct: 202 RILPILTDREREIIQCTFIEGLSQKETGERIG----LSQMHVSRLQRNAIKKLQQAAK 255 >gi|329735692|gb|EGG71975.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU028] Length = 256 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 123/243 (50%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSQAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ AI+KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAIKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|149177082|ref|ZP_01855690.1| sigma-70 factor [Planctomyces maris DSM 8797] gi|148844147|gb|EDL58502.1| sigma-70 factor [Planctomyces maris DSM 8797] Length = 556 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 31/73 (42%), Positives = 50/73 (68%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 E++ K ++ +NLRLV+S+AK++ G F +++ +GN+ L++A EKFD+ G KFSTY Sbjct: 373 ESTDVKNFLIRSNLRLVVSIAKRHIRPGGNFFEMVSDGNMSLIRAIEKFDYTKGNKFSTY 432 Query: 500 AMWWVKQAITRSI 512 A W + + RSI Sbjct: 433 ASWAIMKNYARSI 445 Score = 50.4 bits (119), Expect = 0.001, Method: Compositional matrix adjust. Identities = 25/54 (46%), Positives = 39/54 (72%), Gaps = 1/54 (1%) Query: 616 VLASLTPREERVLRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L L RE+ +L R+G+ N TLE+VG +F VT+ERIRQ+E++A++KL+ Sbjct: 490 ILDQLDGREKDILIYRYGLNARNEPQTLEQVGDRFGVTKERIRQLESRALKKLR 543 >gi|146344354|ref|YP_001202210.1| putative RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] gi|146188166|emb|CAM96497.1| putative RNA polymerase sigma factor [Pseudomonas fluorescens SBW25] Length = 533 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 61/200 (30%), Positives = 108/200 (54%), Gaps = 19/200 (9%) Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 N+GL +A +F +G++FST A+ W+ +I+R +ADQ +IR+P M HK Sbjct: 330 ANMGLTRAVYRFAPEMGFRFSTIALTWINVSISRDLADQE-SIRLPEGM----HK----H 380 Query: 537 RRM-SNKIKREP--TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTS---HLGD 590 RRM SN ++ +P + +A+ + + VR ++ S++T D+S L + Sbjct: 381 RRMISNMLRDQPNVSINSLAEATKLEQDVVRDLVHFAGGQRSIDTAFQGTDSSDADGLHE 440 Query: 591 FIEDKNAVSPLDSAIQAN-LRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + D N + S I+ + +R+ L LT RE V+ RFG+G + TL E+ + Sbjct: 441 LLADTN--NDFMSEIEDDSMRQFVESALGDVLTQREIFVIVNRFGMGDAREKTLAELSVE 498 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ER+RQ+E +A+ K++ Sbjct: 499 MNLSKERVRQLEIQALSKIR 518 >gi|17226799|gb|AAL37943.1|AF359562_4 SigB [Staphylococcus epidermidis] Length = 256 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 61/243 (25%), Positives = 123/243 (50%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSQAQDKLVKHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ AI+KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAIKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|253688938|ref|YP_003018128.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251755516|gb|ACT13592.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 240 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ ++ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGSMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ ++ R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQAEQQLGRTPTEQEVAQALNITLEDYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL ++ NLR + SL RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEDANPLHQLMEGNLRHRVMDAIESLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|120402666|ref|YP_952495.1| RNA polymerase sigma factor SigF [Mycobacterium vanbaalenii PYR-1] gi|119955484|gb|ABM12489.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium vanbaalenii PYR-1] Length = 262 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 66/254 (25%), Positives = 121/254 (47%), Gaps = 22/254 (8%) Query: 426 EFRHIVSMVRK-GECEASIA-----KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 E+ + M R+ E E A + +VE L L +A+++ RG DL+Q + Sbjct: 16 EYADVAPMFRELAELEEGTAAFQRQRDRIVERCLPLADHIARRFDGRGEPRDDLVQVARV 75 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL+ A +FD G F ++A+ + + R D S ++++P +++ ++ + Sbjct: 76 GLVNAVIRFDVNAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGAATAEL 135 Query: 540 SNKIKREPTPEEIAKKLAM----PVEGVRKVLKITKEPISLET-PIGDEDTSHLGDFIED 594 S ++ R PT E+A +L M VEG+ V + +S+++ G+ED + D + D Sbjct: 136 SQRLGRAPTATELAAELEMDRDEVVEGL--VAGSSYNTLSIDSGGSGNEDAPAIADTLGD 193 Query: 595 KNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRE 654 + S Q RE +LA+L RE VL +RF M E VG +++ Sbjct: 194 VDL-----SLDQIENREALRPLLAALPERERTVLALRFFESMTQTQIAERVG----ISQM 244 Query: 655 RIRQIEAKAIRKLK 668 + ++ AK++ +L+ Sbjct: 245 HVSRLLAKSLARLR 258 >gi|331657967|ref|ZP_08358929.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA206] gi|331056215|gb|EGI28224.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor)(Sigma-27) (Sigma-28) [Escherichia coli TA206] Length = 239 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 100 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + L RE+ VL + + +N L+E+G Sbjct: 157 IELVTDDHQRENPLQQLLDSNLRQRVMEAIEMLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|329896515|ref|ZP_08271573.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC3088] gi|328921732|gb|EGG29105.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC3088] Length = 286 Score = 74.3 bits (181), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 61/234 (26%), Positives = 123/234 (52%), Gaps = 14/234 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V ++LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ G + ++A+ W Sbjct: 50 AARQLVMSHLRFVVHIARSYSGYGLAEADLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K + I +++ + K+ +R++++ + E + +A L + V Sbjct: 110 IKAEMHEFILRNWRIVKVATTKAQRKLFFNLRSSKKALAWLSAEEA-QAVADDLGVDVRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHLGD--FIEDKNAVSPLDSAIQANLRE-TTTRVLA 618 V + +++ ++ + P +D ++ED A P N +E + +R+ Sbjct: 169 VATMEARMSSRDVAFDAPSDSDDDDVYAPQYYLEDHRA-DPAQQVESTNWQEDSESRLHY 227 Query: 619 SLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +ER +L R+ +N + TL ++ Q+ V+ ERIRQ+E A++K++ Sbjct: 228 ALEQLDERSRDILAQRW---LNDEKATLHDLAAQYGVSAERIRQLEQNAMQKVR 278 >gi|240171602|ref|ZP_04750261.1| RNA polymerase sigma factor SigF [Mycobacterium kansasii ATCC 12478] Length = 262 Score = 73.9 bits (180), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 60/233 (25%), Positives = 114/233 (48%), Gaps = 23/233 (9%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++VE L L +A+++ RG DLIQ +GL+ A +FD G F ++A+ + Sbjct: 40 RDKIVERCLPLADHIARRFEGRGEPRDDLIQVARVGLVNAVVRFDVETGSDFVSFAVPTI 99 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP----V 560 + R D S ++++P +++ ++ +S ++ R PT E+A +L M V Sbjct: 100 MGEVRRHFRDNSWSVKVPRRLKELHLRLGTATAELSQRLGRAPTATELAAELGMDRGEVV 159 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-----RETTTR 615 EG+ V + +S+++ G+ED +D A++ + A L RE+ Sbjct: 160 EGL--VAGSSYNTLSIDSGGGNED--------DDARAIADTLGDMDAGLDRIEDRESLRP 209 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +L RE VL +RF M E VG +++ + ++ AK++ +L+ Sbjct: 210 LLEALPERERTVLILRFFESMTQTQIAERVG----ISQMHVSRLLAKSLARLR 258 >gi|21219133|ref|NP_624912.1| RNA polymerase sigma factor sig8 [Streptomyces coelicolor A3(2)] gi|256789847|ref|ZP_05528278.1| RNA polymerase sigma factor sig8 [Streptomyces lividans TK24] gi|289773730|ref|ZP_06533108.1| SigB [Streptomyces lividans TK24] gi|6670923|gb|AAF23070.1|AF068267_4 SigB [Streptomyces coelicolor A3(2)] gi|6448735|emb|CAB61294.1| RNA polymerase sigma factor sig8 [Streptomyces coelicolor A3(2)] gi|289703929|gb|EFD71358.1| SigB [Streptomyces lividans TK24] Length = 281 Score = 73.9 bits (180), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 57/247 (23%), Positives = 128/247 (51%), Gaps = 14/247 (5%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAA 485 F ++++ +G E A+ ++E N+ LV A ++ +RG + + D++Q G IGL+KA Sbjct: 37 FFEQLTVLEEGTPEHQYARNTLIEMNMSLVRFAAGRFRSRGPEEMEDIVQVGMIGLIKAI 96 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S + +P +++ ++ R + +++ R Sbjct: 97 DRFELTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVQLARATEELRSRLGR 156 Query: 546 EPTPEEIAKKLAMPVEGV--RKVLKITKEPISLETPI-GDEDT-SHLGDFIEDKNAVSPL 601 PT E+++ +++P + V ++ SL+ I G ED S L DFI +A L Sbjct: 157 TPTTAELSELMSLPEDEVVEARLAANGYNSASLDAAINGSEDGESALADFIGADDAALAL 216 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A ++A L R+ +++ RF + T +++G++ V++ + ++ + Sbjct: 217 VDDFHA-----LAPMIAELDERDRQIIHWRF----VEELTQKDIGERLGVSQMHVSRLIS 267 Query: 662 KAIRKLK 668 + + +L+ Sbjct: 268 RLLARLR 274 >gi|304398826|ref|ZP_07380696.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. aB] gi|308187260|ref|YP_003931391.1| RNA polymerase sigma factor for flagellar operon [Pantoea vagans C9-1] gi|304353530|gb|EFM17907.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. aB] gi|308057770|gb|ADO09942.1| RNA polymerase sigma factor for flagellar operon [Pantoea vagans C9-1] Length = 240 Score = 73.9 bits (180), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V R+ + R + +E+A++L + +E R++L T DE GD Sbjct: 100 VAGAMHRVEQSLGRSASEQEVAQQLNVSMEEYRQILLDTNNSQLFSY---DEYREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ +LRE + +L RE+ VL + + +N L+E+G Sbjct: 157 AELVTEGHEEANPLHQLLEGSLRERVIEAIEALPDREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLDVGESRVSQLHSQAIKRLR 233 >gi|262204122|ref|YP_003275330.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Gordonia bronchialis DSM 43247] gi|262087469|gb|ACY23437.1| RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Gordonia bronchialis DSM 43247] Length = 276 Score = 73.9 bits (180), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 116/244 (47%), Gaps = 15/244 (6%) Query: 426 EFRHIVSMVRKGECE---ASIAKK--EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 ++ +V+ +R+ E A+ AKK ++E L L VA ++++RG F DL+Q IG Sbjct: 24 DYADVVAALRELSAETDAAAHAKKRDNIIERCLPLAEHVAWRFSDRGEPFDDLLQVARIG 83 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 ++ A ++FD G F ++A+ V + R D IR+P ++ + + + Sbjct: 84 VVNAVDRFDGERGDSFLSFAVPTVMGEVRRHFRDSMWAIRVPRRAKETSLSIGKATDELV 143 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVL--KITKEPISLETPIGDEDTSHLGDFIEDKNA- 597 ++ R P P E+A L +PV+ V L + + S++ D+D + D + D +A Sbjct: 144 QRLGRSPRPSELAAHLGLPVDEVIDGLLARSAYQARSIDATPEDDDGRSIRDTLGDDDAR 203 Query: 598 VSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERI 656 ++ +D + T VL L RE ++ +RF M+ VG Q V+R Sbjct: 204 LAQIDEFV------TLRPVLDQLPDREREIVTLRFFHAMSQSEIAARVGISQMHVSRLLS 257 Query: 657 RQIE 660 R +E Sbjct: 258 RTLE 261 >gi|332970514|gb|EGK09503.1| RNA polymerase sigma factor SigB [Desmospora sp. 8437] Length = 261 Score = 73.9 bits (180), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 122/225 (54%), Gaps = 18/225 (8%) Query: 455 LVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIAD 514 LV ++A K+T F DL+Q G IGL+ A +++D G F ++A+ + I R I D Sbjct: 41 LVETLASKFTKGSEPFEDLVQVGMIGLLAALKRYDPDFGKSFESFAVPTIVGEIKRHIRD 100 Query: 515 QSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--E 572 ++ ++ +P +++ ++ + A ++ + +R P+ +EIA+ L + E V + +++ + Sbjct: 101 KTWSVHVPRRIKELGPRIKKAAEELTIRYQRSPSVDEIAQYLDVTPEEVLETMEMGRSYN 160 Query: 573 PISLETPI-----GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 +S+++PI G + T L D + +++A + Q L + +V LT RE+ + Sbjct: 161 AVSVDSPIEANNEGSQVT--LLDLVGNRDA--GFEKVDQQLLLQKAFQV---LTDREQAI 213 Query: 628 LRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +RM F ++ ++VG + +++ + +++ +A+ KL+ R Sbjct: 214 IRMTFFDNLSQ----KQVGDELGISQMHVSRLQRRALGKLREAIR 254 >gi|223986127|ref|ZP_03636150.1| hypothetical protein HOLDEFILI_03458 [Holdemania filiformis DSM 12042] gi|223961932|gb|EEF66421.1| hypothetical protein HOLDEFILI_03458 [Holdemania filiformis DSM 12042] Length = 241 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 63/247 (25%), Positives = 126/247 (51%), Gaps = 22/247 (8%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKY-TNRGLQFLDLIQEGNIGLMKA 484 EF ++ ++G+ +A +++ V N+ LV S+ ++ T+ Q DL Q G +GLMKA Sbjct: 6 EFFDLLHQAQQGDEQA---REQCVLRNVGLVWSIVNRFKTHSSAQ--DLFQIGCLGLMKA 60 Query: 485 AEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 FD FSTYA+ + I R D+ ++I ++++ +V ++ R++ K++ Sbjct: 61 INNFDTSYNVMFSTYAVPIILGEIKRYFRDEG-QMKISRSLKERYLQVQKSRERLAQKLQ 119 Query: 545 REPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDED--TSHLGDFIEDKNAVS-PL 601 REPT EI + L + V ++ + S++ +D T L D +ED++ P+ Sbjct: 120 REPTYREIGEDLGVEENDVMLAMEANQFLASMDEAFYQKDGSTIKLEDKVEDRHGEDVPM 179 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 A++ + + L RE+ ++ +R+ + N E + K+ +++ ++ ++E Sbjct: 180 KLALK--------KEIGHLEQREQYLIYLRYELEYNQ----EAIAKKMGISQVQVSRLEK 227 Query: 662 KAIRKLK 668 K + KLK Sbjct: 228 KILNKLK 234 >gi|304316787|ref|YP_003851932.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778289|gb|ADL68848.1| RNA polymerase, sigma 28 subunit, SigF [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 247 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 111/241 (46%), Gaps = 37/241 (15%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 ++RK + ++ +++++ N L+ S+ KK++NRG + DL Q G IG +KA KFD Sbjct: 15 LIRKSKNNDKLSLEKLLKENSGLIWSIVKKFSNRGYEAEDLYQIGCIGFVKAINKFDESY 74 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 K STYA+ + I R + D I++ +++ +K + ++ REPT +EI Sbjct: 75 NVKLSTYAVPIILGEIKRFLRDDGL-IKVSRSLKELSNKAYYIKDELEKELNREPTIQEI 133 Query: 553 AKKLAMPVEGVRKVLKITK--------------EPISLETPIGDEDTSHLGDFIEDKNAV 598 A KL + E + + T + + L IG ED + IEDK A+ Sbjct: 134 ASKLNVSAEEIAMAFESTATAEYLYDNSQHSEDDNMLLIEKIGSEDNEY---DIEDKLAL 190 Query: 599 SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 VL L RE +++ +R+ D T EV K +++ ++ + Sbjct: 191 RM---------------VLKKLDSRERQIIVLRYF----KDMTQTEVSKILGISQVQVSR 231 Query: 659 I 659 I Sbjct: 232 I 232 >gi|317048579|ref|YP_004116227.1| FliA/WhiG subfamily RNA polymerase sigma-28 factor [Pantoea sp. At-9b] gi|316950196|gb|ADU69671.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Pantoea sp. At-9b] Length = 240 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 95/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V ++ + R T +E+A +L + +E R++L T DE GD Sbjct: 100 VAGAMHQVEQAMGRAATEQEVADQLNVSLEEYRQILLDTNNSQLFSY---DEYREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ NLRE + +L RE+ VL + + +N L+E+G Sbjct: 157 AELVTEGHEEANPLHQLMEGNLRERVIEAIEALPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|256392583|ref|YP_003114147.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] gi|256358809|gb|ACU72306.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Catenulispora acidiphila DSM 44928] Length = 262 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 51/214 (23%), Positives = 106/214 (49%), Gaps = 13/214 (6%) Query: 459 VAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 VA ++ RG DL Q +GL+KA + FD G F TYA + + R D + Sbjct: 52 VAGRFRQRGESQADLEQVAYLGLVKAVDNFDPDYGAAFLTYATPMIAGEVRRHFRDTTWD 111 Query: 519 IRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKIT--KEPISL 576 + +P +++ V R ++ ++ P+ +IA++L + + V + + + SL Sbjct: 112 VHVPRRVQENALAVRAAERELTQQLGHAPSAAQIAERLDLSADEVAEAYEASAAHHTASL 171 Query: 577 ETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 + P+ D D + +G+ + D + D + RE +LA L+PR++R+L M+F Sbjct: 172 DVPVAMADGDGASMGELMGDDD--PGYDLVVD---REALKPLLAELSPRDKRILLMKFFR 226 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 M+ ++G + V++ ++ ++ ++ + +L+ Sbjct: 227 NMSQ----AQIGAELGVSQMQVSRLLSQILGRLR 256 >gi|5360738|dbj|BAA82139.1| sigma factor of sigB family [Streptomyces griseus] Length = 259 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 59/255 (23%), Positives = 119/255 (46%), Gaps = 43/255 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGY 494 +G A+ ++E NL LV A ++ NRG + D++Q G IGL+KA ++FD Sbjct: 19 EGTHAYQYARNTLIEMNLSLVRFAANRFRNRGSGDMEDIVQVGTIGLIKAIDRFDLSREV 78 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F+++A+ ++ I R D S + +P +++ + + ++ + R+PT +E+A+ Sbjct: 79 EFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRVDLAKAKEALAGVLDRDPTAKELAE 138 Query: 555 KLAMP----VEGVRKVLKITKEPISLET-----------------PIGDEDTSHLGDFIE 593 L + EG+ T + + T +GD D + + +E Sbjct: 139 YLGIEESEVTEGIVASNGYTAGSLDMPTDTAEAGPGQTAGRTFADVLGDPDPAM--EAVE 196 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + +A++PL L L RE R++ MRFG M T ++G + +++ Sbjct: 197 NLHALAPL---------------LDELDERERRIIDMRFGQEM----TQAQIGAELGISQ 237 Query: 654 ERIRQIEAKAIRKLK 668 + ++ ++ + KL+ Sbjct: 238 MHVSRLLSRMLGKLR 252 >gi|331695379|ref|YP_004331618.1| SigB/F/G subfamily RNA polymerase sigma-28 subunit [Pseudonocardia dioxanivorans CB1190] gi|326950068|gb|AEA23765.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Pseudonocardia dioxanivorans CB1190] Length = 259 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 64/241 (26%), Positives = 113/241 (46%), Gaps = 21/241 (8%) Query: 426 EFRHIVSMVRKGECEASIA---------KKEMVEANLRLVISVAKKYTNRGLQFLDLIQE 476 E+ H+V ++ E A +A + E+V L + +A+++ +RG DL Q Sbjct: 7 EYGHLVPLL---EEYAGLAPDDPRREALRDELVRGYLPVAQHIARRFAHRGEPLDDLTQV 63 Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 +GL+ A ++F G F ++A+ + + R D ++R+P ++D + Sbjct: 64 ATVGLINAIDRFAPDKGSDFFSFAVPTISGEVRRHFRDLGWSMRVPRRLKDLHVSLNGAV 123 Query: 537 RRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPIGDEDTSH-LGDFIE 593 +S ++ R P P EIA+ L MPV V + L+ SL+ + E S +G+ + Sbjct: 124 SDLSQRLGRAPKPTEIAEYLGMPVADVLEGLEAADAYRSSSLDEMLSSEQGSATVGELVG 183 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVT 652 + +A LD + + R+ VLA L RE ++ +RF M E+VG Q V+ Sbjct: 184 EADA--ELD---RVDTRQALRPVLAELGERERTIVMLRFFGNMTQTQIAEKVGISQMHVS 238 Query: 653 R 653 R Sbjct: 239 R 239 >gi|255523683|ref|ZP_05390649.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium carboxidivorans P7] gi|296186687|ref|ZP_06855089.1| putative RNA polymerase sigma factor WhiG [Clostridium carboxidivorans P7] gi|255512552|gb|EET88826.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium carboxidivorans P7] gi|296048724|gb|EFG88156.1| putative RNA polymerase sigma factor WhiG [Clostridium carboxidivorans P7] Length = 241 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 67/239 (28%), Positives = 119/239 (49%), Gaps = 15/239 (6%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 K+E+V+ + LV +A + + +++ DL+ G +GLM A KFD G KFSTY+ Sbjct: 9 VKEELVKKYIPLVKYIASRVIIGKTKYIEYEDLVSYGMLGLMDAIGKFDNTRGMKFSTYS 68 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 +K A+ I S I DK+++ R+ + REP+ +EIA +L + + Sbjct: 69 SIRIKGAMIDEIRKNSP---ISKGAMDKLNRYNAAVERLQKTLGREPSDKEIANELNITL 125 Query: 561 EGVRKVLKITK--EPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 + + ++ +SLE I D+D +G I+D + SP S + E + Sbjct: 126 KEMIEIENYINYISIVSLEDLIFSEDDDIPLIGT-IQDNKSPSPEKSLEEKEELEYLAKA 184 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKK 675 L L +++ VL + + G+ TL+E+GK V+ R+ Q+ ++AI L++ + K Sbjct: 185 LDLLNEKDKTVLSLYYYEGL----TLKEIGKVLSVSESRVCQLHSRAIVHLRNAMQKLK 239 >gi|240146182|ref|ZP_04744783.1| RNA polymerase sigma-F factor [Roseburia intestinalis L1-82] gi|257201716|gb|EEV00001.1| RNA polymerase sigma-F factor [Roseburia intestinalis L1-82] gi|291536709|emb|CBL09821.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma-70 factor, sigma-B/F/G subfamily [Roseburia intestinalis M50/1] Length = 248 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 58/228 (25%), Positives = 115/228 (50%), Gaps = 8/228 (3%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++ NL LV ++A ++ +RG + +L Q G IGLMKA +KFD L FSTYA+ Sbjct: 18 ARDTLIAGNLGLVHTIANRFEHRGHEREELFQIGCIGLMKAVDKFDLSLNLAFSTYAVPV 77 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D +++ +++ +K R + ++ REP EIA++ + + Sbjct: 78 IMGEIRRFLRDDG-MVKVSRTLKENAYKAGRAKEELWGELGREPGLLEIAERTGLSSGEI 136 Query: 564 RKVLKITKEPISLETPIGDEDTSHL--GDFIEDKNAVSPLDSAIQANL-RETTTRVLASL 620 ++ ++ S+ P+ ++D L D + +K + +A L R +++ L Sbjct: 137 IMAMESARDVESIYQPVYEKDGDELLMVDQLCEKEENGRDEPEKEAVLNRMVIEQLMELL 196 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++R R+ + T E K+ +T+ ++ ++E K + L+ Sbjct: 197 DEREQNLIRCRY----FENRTQSETAKELGMTQVQVSRLEKKILLCLR 240 >gi|149174362|ref|ZP_01852989.1| probable RNA polymerase sigma 70 [Planctomyces maris DSM 8797] gi|148846907|gb|EDL61243.1| probable RNA polymerase sigma 70 [Planctomyces maris DSM 8797] Length = 309 Score = 73.9 bits (180), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 58/237 (24%), Positives = 104/237 (43%), Gaps = 60/237 (25%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + + E++ N+RLV S+ KK T G+ F +L +G + ++KA +KFD+ G++FSTYA Sbjct: 123 AQLVRDEILRRNMRLVASIVKKCTTTGVSFDELFSDGCLTMLKAIDKFDYSRGFRFSTYA 182 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 + R IA++ +E AK +P Sbjct: 183 YHAISNFAYRKIANRK---------------------------------KERAKYKQLPP 209 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 E + K P+ + T DE L E + + +L Sbjct: 210 EQSMEETGAVKNPL-MGTDTWDE-------------------------LSELLNQSIDTL 243 Query: 621 TPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 RE+ +++ RF +G + T +++ Q +++ER+RQ+E +A+ KLK ++ +L Sbjct: 244 DEREQLIVKSRFALGKHRKTLTFQKLADQLGISKERVRQLEQRAVAKLKAVTQGTRL 300 >gi|311894139|dbj|BAJ26547.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054] Length = 281 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 62/230 (26%), Positives = 114/230 (49%), Gaps = 10/230 (4%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 S + ++E N+ LV VA ++ +R + D++Q G +GL+KA + FD G +F TYA+ Sbjct: 28 SYVRGTVIELNMPLVRFVASRFRHRPEELDDIVQVGTVGLIKAVDGFDPDRGVEFVTYAI 87 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 + I R D S +R+P ++++ VR + R+ + R P E+A +L + + Sbjct: 88 PTISGEIKRFFRDTSWPLRVPRSVQERYLAAVRASDRLEQALGRLPDTAELAAELHVTED 147 Query: 562 GVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLA 618 + L+ + SL++ + D+ + G + N + D ++ A LR T L+ Sbjct: 148 EAAEGLEAGRLCRCDSLDS-LRDDGSDDAGSAL--INRLGGCDPELEVAELRVMATPFLS 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE VL +RF G+ T E+ + V++ + +I A + L+ Sbjct: 205 RLPERERTVLLLRFWGGL----TQSEIAARIGVSQMHVSRILAATLAGLR 250 >gi|254974392|ref|ZP_05270864.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-66c26] gi|255091783|ref|ZP_05321261.1| RNA polymerase sigma-F factor [Clostridium difficile CIP 107932] gi|255099887|ref|ZP_05328864.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-63q42] gi|255305776|ref|ZP_05349948.1| RNA polymerase sigma-F factor [Clostridium difficile ATCC 43255] gi|255313518|ref|ZP_05355101.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-76w55] gi|255516203|ref|ZP_05383879.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-97b34] gi|255649300|ref|ZP_05396202.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-37x79] gi|255654820|ref|ZP_05400229.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-23m63] gi|260682470|ref|YP_003213755.1| RNA polymerase sigma-F factor [Clostridium difficile CD196] gi|260686069|ref|YP_003217202.1| RNA polymerase sigma-F factor [Clostridium difficile R20291] gi|296449564|ref|ZP_06891341.1| RNA polymerase sigma-F factor [Clostridium difficile NAP08] gi|296878113|ref|ZP_06902128.1| RNA polymerase sigma-F factor [Clostridium difficile NAP07] gi|306519396|ref|ZP_07405743.1| RNA polymerase sigma-F factor [Clostridium difficile QCD-32g58] gi|260208633|emb|CBA61376.1| RNA polymerase sigma-F factor [Clostridium difficile CD196] gi|260212085|emb|CBE02685.1| RNA polymerase sigma-F factor [Clostridium difficile R20291] gi|296261628|gb|EFH08446.1| RNA polymerase sigma-F factor [Clostridium difficile NAP08] gi|296430866|gb|EFH16698.1| RNA polymerase sigma-F factor [Clostridium difficile NAP07] Length = 254 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 11/227 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ +NL LV SV ++ N G DL Q G+IGL+K+ KFD KFSTYA+ Sbjct: 33 AKEILISSNLGLVRSVVSRFLNIGYDREDLFQLGSIGLIKSIYKFDPKFNVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ ++ K + ++ K+ REP+ EE+AK + + E + Sbjct: 93 ILGEIKRYLRDDGM-IKVSRSLKQIAVKAKMESEALTKKLGREPSIEELAKAIDVEKEDL 151 Query: 564 RKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++ L+ I +E+ S L D I K + + N+ +L L Sbjct: 152 VMAMEANFNVEYLQGVIHEEEGSPICLIDKISMKGESE--EEKVVDNI--LLKDILGRLD 207 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +++ +R+ D T E+G+ +++ ++ +IE K + KLK Sbjct: 208 KRERQIIVLRY----FEDMTQSEIGEMLNISQVQVSRIEKKVLSKLK 250 >gi|300928953|ref|ZP_07144457.1| flagellar biosynthesis sigma factor [Escherichia coli MS 187-1] gi|300463107|gb|EFK26600.1| flagellar biosynthesis sigma factor [Escherichia coli MS 187-1] Length = 229 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R T E+A++L + + R++L T DE GD Sbjct: 90 VAQAIGQLEQELGRNATETEVAERLGIDIADYRQMLLDTNNSQLFSY---DEWREEHGDS 146 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE D +PL + +NLR+ + L RE+ VL + + +N L+E+G Sbjct: 147 IELVTDDHQRENPLQQLLDSNLRQRVMEAIEMLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|227112555|ref|ZP_03826211.1| flagellar biosynthesis sigma factor [Pectobacterium carotovorum subsp. brasiliensis PBR1692] gi|227329198|ref|ZP_03833222.1| flagellar biosynthesis sigma factor [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 230 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ ++ + + P +R + Sbjct: 33 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGSMLDELRSRDWA---PRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ ++ R PT +E+A+ L + +E R++L T DE GD Sbjct: 90 VAQAMQQAEQQLGRTPTEQEVAQTLNITLEDYRQILLDTNNSQLFSY---DEWREEHGDS 146 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL ++ NLR + SL RE+ VL + + +N L+E+G Sbjct: 147 AEALLEGNEDANPLHQLMEGNLRHRVMDAIESLPEREKLVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLEVGESRVSQLHSQAIKRLR 223 >gi|126698352|ref|YP_001087249.1| RNA polymerase sigma-F factor [Clostridium difficile 630] gi|115249789|emb|CAJ67606.1| RNA polymerase sigma-F factor [Clostridium difficile] Length = 254 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 65/227 (28%), Positives = 113/227 (49%), Gaps = 11/227 (4%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ ++ +NL LV SV ++ N G DL Q G+IGL+K+ KFD KFSTYA+ Sbjct: 33 AKEILISSNLGLVRSVVSRFLNIGYDREDLFQLGSIGLIKSIYKFDPKFNVKFSTYAVPM 92 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D I++ ++ K + ++ K+ REP+ EE+AK + + E + Sbjct: 93 ILGEIKRYLRDDGM-IKVSRSLKQIAIKAKMESEALTKKLGREPSIEELAKAIDVEKEDL 151 Query: 564 RKVLKITKEPISLETPIGDEDTSH--LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLT 621 ++ L+ I +E+ S L D I K + + N+ +L L Sbjct: 152 VMAMEANFNVEYLQGVIHEEEGSPICLIDKISMKGESE--EEKVVDNI--LLKDILGRLD 207 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE +++ +R+ D T E+G+ +++ ++ +IE K + KLK Sbjct: 208 KRERQIIVLRY----FEDMTQSEIGEMLNISQVQVSRIEKKVLSKLK 250 >gi|269139471|ref|YP_003296172.1| flagellar biosynthesis sigma factor [Edwardsiella tarda EIB202] gi|267985132|gb|ACY84961.1| flagellar biosynthesis sigma factor [Edwardsiella tarda EIB202] Length = 240 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 109/232 (46%), Gaps = 23/232 (9%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + + E + +RL SV + DL+Q G IGL+ A E++D G F+TYA Sbjct: 21 APLVRHEALRLQVRLPASV---------ELDDLLQAGGIGLLHAVERYDAMQGTAFTTYA 71 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 + ++ A+ + + +P +R V +R ++ R P EIA+++ +P+ Sbjct: 72 IQRIRGAMLDELRSRDW---VPRSVRRNARGVSAAMQRAEQRLGRTPGDSEIAQEMGIPL 128 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGD----FIEDKNAVSPLDSAIQANLRETTTRV 616 E +++L T DE GD +E +PL ++++LR Sbjct: 129 EEYQQILLDTNTSQLFSY---DEWREDHGDSAEPVLEQSEEANPLRQLLESDLRGRVIAA 185 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L RE+ VL + + +N L+E+G V R+ Q+ ++AI++L+ Sbjct: 186 IEALPEREKLVLTLYYQEELN----LKEIGAVLEVGESRVSQLHSQAIKRLR 233 >gi|182440445|ref|YP_001828164.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326781114|ref|ZP_08240379.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] gi|178468961|dbj|BAG23481.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus NBRC 13350] gi|326661447|gb|EGE46293.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces cf. griseus XylebKG-1] Length = 293 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 59/255 (23%), Positives = 119/255 (46%), Gaps = 43/255 (16%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGY 494 +G A+ ++E NL LV A ++ NRG + D++Q G IGL+KA ++FD Sbjct: 53 EGTHAYQYARNTLIEMNLSLVRFAANRFRNRGSGDMEDIVQVGTIGLIKAIDRFDLSREV 112 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F+++A+ ++ I R D S + +P +++ + + ++ + R+PT +E+A+ Sbjct: 113 EFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQELRVDLAKAKEALAGVLDRDPTAKELAE 172 Query: 555 KLAMP----VEGVRKVLKITKEPISLET-----------------PIGDEDTSHLGDFIE 593 L + EG+ T + + T +GD D + + +E Sbjct: 173 YLGIEESEVTEGIVASNGYTAGSLDMPTDTAEAGPGQTAGRTFADVLGDPDPAM--EAVE 230 Query: 594 DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR 653 + +A++PL L L RE R++ MRFG M T ++G + +++ Sbjct: 231 NLHALAPL---------------LDELDERERRIIDMRFGQEM----TQAQIGAELGISQ 271 Query: 654 ERIRQIEAKAIRKLK 668 + ++ ++ + KL+ Sbjct: 272 MHVSRLLSRMLGKLR 286 >gi|313901496|ref|ZP_07834946.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter subterraneus DSM 13965] gi|313468234|gb|EFR63698.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Thermaerobacter subterraneus DSM 13965] Length = 258 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 57/201 (28%), Positives = 101/201 (50%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G GLM+A +++D G KF TYA ++ A+ + +P +R + + Sbjct: 57 DLISYGIFGLMEAIKRYDPSRGVKFETYAYTRIRGAMLDGLRAMDW---VPQGLRRRARE 113 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLETPIGDE--DTSH 587 V RR+ N++ R E+A +L + + ++LK ISL+ + E D + Sbjct: 114 VEACYRRLENRLGRPAEDAEVAAELGLTPDEFGELLKDLARTTVISLDDVLRSESDDPAA 173 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 + D + D A PL +A A+LR+ + LA L RE V+ + + G+ T++E+ + Sbjct: 174 VLDRLADPGAADPLAAATLADLRQRLAQALAVLPERERLVITLYYYEGL----TVKEIAE 229 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V+ R+ Q+ +AI +L+ Sbjct: 230 VMGVSPSRVSQLHTRAILRLR 250 >gi|326938732|gb|AEA14628.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis serovar chinensis CT-43] Length = 257 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 59/252 (23%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C A++ +V+ LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCNE--AQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIANHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|261821180|ref|YP_003259286.1| flagellar biosynthesis sigma factor [Pectobacterium wasabiae WPP163] gi|261605193|gb|ACX87679.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Pectobacterium wasabiae WPP163] Length = 240 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ ++ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGSMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ ++ R PT +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQAEQQLGRTPTEQEVAQTLNITLEDYRQILLDTNNTQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL ++ NLR + SL RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEDANPLHQLMEGNLRHRVMDAIESLPEREKLVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|302874980|ref|YP_003843613.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulovorans 743B] gi|307690403|ref|ZP_07632849.1| sporulation sigma factor SigF [Clostridium cellulovorans 743B] gi|302577837|gb|ADL51849.1| RNA polymerase, sigma 28 subunit, SigF [Clostridium cellulovorans 743B] Length = 265 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 40/132 (30%), Positives = 75/132 (56%), Gaps = 1/132 (0%) Query: 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLM 482 SI+++ V +++ + + A ++++ N+ LV +++KK+ NRG ++ D+ Q G +GL+ Sbjct: 23 SINDYTDNVELIKLAQGGDNEALNDLIKKNMPLVAAISKKFLNRGYEYDDIFQIGCMGLI 82 Query: 483 KAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNK 542 KA F+ KFSTYA+ + I R + D I+I ++ K+ ++N Sbjct: 83 KAVNNFNTDFNVKFSTYAVPMIMGEIKRFLRDDGI-IKISRSIKATAKKLHYDRENLTNI 141 Query: 543 IKREPTPEEIAK 554 + REPT EE++K Sbjct: 142 LNREPTIEELSK 153 >gi|87306557|ref|ZP_01088704.1| sigma-70 factor [Blastopirellula marina DSM 3645] gi|87290736|gb|EAQ82623.1| sigma-70 factor [Blastopirellula marina DSM 3645] Length = 556 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 31/74 (41%), Positives = 52/74 (70%), Gaps = 1/74 (1%) Query: 440 EASI-AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 EA++ K ++V++NLRLV+S+AK++ +F +L+ +GN+ L++A EKFD+ G KFST Sbjct: 371 EAAVEVKNQIVQSNLRLVVSIAKRHLGAADEFFELVSDGNMSLIRAVEKFDYSRGNKFST 430 Query: 499 YAMWWVKQAITRSI 512 Y W + + R+I Sbjct: 431 YCSWAIMKNFARTI 444 Score = 48.5 bits (114), Expect = 0.003, Method: Compositional matrix adjust. Identities = 28/63 (44%), Positives = 43/63 (68%), Gaps = 5/63 (7%) Query: 617 LASLTPREERVLRMRFGIGMNTDH---TLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 L L RE++++ R+G ++ DH TL+EVG + VT+ERIRQIEA+A+ KL+ ++ Sbjct: 490 LNRLDEREQKIIIRRYG--LDHDHEPQTLKEVGAELGVTKERIRQIEARALNKLRVAAQE 547 Query: 674 KKL 676 KL Sbjct: 548 AKL 550 >gi|317132447|ref|YP_004091761.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] gi|315470426|gb|ADU27030.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Ethanoligenens harbinense YUAN-3] Length = 237 Score = 73.9 bits (180), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 40/124 (32%), Positives = 73/124 (58%), Gaps = 2/124 (1%) Query: 433 MVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +R G+ +A+ A+ ++VE NL LV + A+ + +G+++ DL Q G +GL+KA FD Sbjct: 11 FIRAGKGDAA-AQTQLVEENLGLVHAAARHFNGKGIEYDDLYQAGCMGLVKAVTGFDITR 69 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 G +FSTYA+ + + R D +++ +++ K +R ++S ++ REPT E+ Sbjct: 70 GVQFSTYAVPVIMGEMRRLFRDDG-PVKVSRSLKELSLKAMRAREKLSARLCREPTLSEL 128 Query: 553 AKKL 556 A +L Sbjct: 129 AAEL 132 >gi|21225555|ref|NP_631334.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|256783425|ref|ZP_05521856.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|289767301|ref|ZP_06526679.1| RNA polymerase sigma factor [Streptomyces lividans TK24] gi|4835317|emb|CAB42939.1| putative RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|289697500|gb|EFD64929.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 295 Score = 73.6 bits (179), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 60/260 (23%), Positives = 125/260 (48%), Gaps = 40/260 (15%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G E A+ ++E N+ LV A ++ RG D++Q G IGL+KA + Sbjct: 48 FRRLTEL-EEGTAEYQFARNTLIEMNMSLVRFAAGRFRGRGNDMEDIVQTGMIGLIKAID 106 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +F+ +F+++A+ ++ I R D + + +P +++ ++ R +S ++ RE Sbjct: 107 RFELSREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELARAREELSTRLDRE 166 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPI---GDEDT-SHLGDFI------ 592 PT E+A + + +EG ++ SL+ + G E+ S L DFI Sbjct: 167 PTVAELATLMNIGEDQVIEG--QIASNGYNSSSLDAALTGDGPENGESVLADFIGVEEDG 224 Query: 593 ----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ED ++++PL +A L+ R+ +++ +RF + T E+G++ Sbjct: 225 LRLVEDFHSLAPL---------------MAELSERDRQIIHLRF----VEEATQAEIGER 265 Query: 649 FCVTRERIRQIEAKAIRKLK 668 ++ + ++ + I +L+ Sbjct: 266 LGCSQMHVSRLIKRIITRLR 285 >gi|224370767|ref|YP_002604931.1| FliA [Desulfobacterium autotrophicum HRM2] gi|223693484|gb|ACN16767.1| FliA [Desulfobacterium autotrophicum HRM2] Length = 238 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 106/222 (47%), Gaps = 15/222 (6%) Query: 455 LVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRS 511 LV +A ++ R + F +L+ G++GL+ A +KFD TYA + +K AI Sbjct: 8 LVRQIASRFARRLPSSVLFDELVSAGSLGLIDAVDKFDSGKHVSLKTYAQYRIKGAILDE 67 Query: 512 IADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK-IT 570 + R MR KI + R + + +K K + E+AK L +P+E +L I Sbjct: 68 LRSMDTYSR---SMRKKIQDISRAVKAIEDKKKGPASDNEVAKLLEVPLESYYDMLTDIH 124 Query: 571 KEPI-SLETPI--GDEDTSHLGDFIED-KNAVSPLDSAIQANLRETTTRVLASLTPREER 626 I SL+ I GD DTS + F K +P D + L+ R + +LT +E+ Sbjct: 125 GAAILSLDAFIRTGDNDTSSMTRFQAGIKGEHTPADLLDREELKGVLARAVTTLTEKEQL 184 Query: 627 VLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 V+ + + + TL+E+G+ +T RI QI + KLK Sbjct: 185 VVSLYY----YEELTLKEIGEVLTLTESRICQIHTAILIKLK 222 >gi|304559365|gb|ADM42029.1| RNA polymerase sigma factor for flagellar operon [Edwardsiella tarda FL6-60] Length = 237 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/229 (24%), Positives = 108/229 (47%), Gaps = 17/229 (7%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + + E + +RL SV + DL+Q G IGL+ A E++D G F+TYA Sbjct: 18 APLVRHEALRLQVRLPASV---------ELDDLLQAGGIGLLHAVERYDAMQGTAFTTYA 68 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 + ++ A+ + + +P +R V +R ++ R P EIA+++ +P+ Sbjct: 69 IQRIRGAMLDELRSRDW---VPRSVRRNARGVSAAMQRAEQRLGRTPGDSEIAQEMGIPL 125 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGD-FIEDKNAVSPLDSAIQANLRETTTRVLAS 619 E +++L T ED + +E +PL ++++LR + + Sbjct: 126 EEYQQILLDTNTSQLFSYDEWREDHGDSAEPVLEQSEEANPLRQLLESDLRGRVIAAIEA 185 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L RE+ VL + + +N L+E+G V R+ Q+ ++AI++L+ Sbjct: 186 LPEREKLVLTLYYQEELN----LKEIGAVLEVGESRVSQLHSQAIKRLR 230 >gi|218232670|ref|YP_002365766.1| RNA polymerase sigma factor SigB [Bacillus cereus B4264] gi|218160627|gb|ACK60619.1| RNA polymerase sigma-B factor [Bacillus cereus B4264] Length = 257 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 59/252 (23%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +V LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIADFQQNQCDE--AQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ ++++ +R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRFQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|108743436|dbj|BAE95539.1| putative RNA polymerase sigma factor [Streptomyces kanamyceticus] Length = 278 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/216 (31%), Positives = 103/216 (47%), Gaps = 14/216 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++E+VE L + +A ++ NRG DL Q +GL+KA +++D G F +YA+ V Sbjct: 52 RQEVVEVWLPMSERLAGRFRNRGESLDDLRQVAALGLVKAVDRYDPRRGTAFESYAVPTV 111 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIK-REPTPEEIAKKLAMPVE- 561 I R D T+ +P ++D + VR AR+ ++ + R PT EIA++ M E Sbjct: 112 TGEIKRHFRDHMWTLHVPRRVQD-LRNRVRFARQDLAQTVSGRAPTTAEIAERAQMSEED 170 Query: 562 ---GVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 G+ + T + E P G ED L D + + LD I RE+ +A Sbjct: 171 AKAGLEALDSFTALSLDAELP-GSEDGYSLSDALGGPDPA--LDVVID---RESVKPRIA 224 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L RE +L MRF M +E+G Q V+R Sbjct: 225 QLPERERTILYMRFFGDMTQSRIADEMGISQMHVSR 260 >gi|206968111|ref|ZP_03229067.1| RNA polymerase sigma-B factor [Bacillus cereus AH1134] gi|206737031|gb|EDZ54178.1| RNA polymerase sigma-B factor [Bacillus cereus AH1134] Length = 257 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 59/252 (23%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +V LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIADFQQNQCDE--AQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ ++++ +R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRFQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ ET R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEETERRLVLKDIFNVLNETEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|325111003|ref|YP_004272071.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] gi|324971271|gb|ADY62049.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] Length = 555 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 31/73 (42%), Positives = 48/73 (65%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 EA K ++ +NLRLV+S+AK++ F +++ +GN+ L++A EKFD+ G KFSTY Sbjct: 372 EAVAVKNFLIRSNLRLVVSIAKRHFKPQANFFEMVSDGNMSLIRAIEKFDYSQGNKFSTY 431 Query: 500 AMWWVKQAITRSI 512 A W + + RSI Sbjct: 432 ATWAIMKNYARSI 444 Score = 57.0 bits (136), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 30/62 (48%), Positives = 43/62 (69%), Gaps = 1/62 (1%) Query: 616 VLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSK 674 +L L PRE ++ RFG+ T+ TLE+VG +F VT+ERIRQIE++A+ KLK + + Sbjct: 489 ILGQLDPRERDIILHRFGLNKGTEPETLEQVGHRFGVTKERIRQIESRALSKLKKIAVEE 548 Query: 675 KL 676 KL Sbjct: 549 KL 550 >gi|188996275|ref|YP_001930526.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] gi|188931342|gb|ACD65972.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium sp. YO3AOP1] Length = 590 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 55/171 (32%), Positives = 89/171 (52%), Gaps = 18/171 (10%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGDDL--ED 85 D + +I LAR++GYVT E++ ++ + SS E +E + L+ + I+V D + + ED Sbjct: 8 DDVRTLINLAREKGYVTYAEISTYVEEEFFSSDENIESLIEYLNELNIDVRDDEKIKSED 67 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E+ SE L S+ V+ DDPV++YLREMG I LL R+ EI + Sbjct: 68 EDISEH---LGIDLSDDDVW---------NKADDPVKLYLREMGKIPLLKRDEEIKYSME 115 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 IE GR + L + + L+ ++ DG + +I++L+ PE K Sbjct: 116 IERGRKKVFRGLLRTSFLTERLLDEWAKVIDGKARVHDILNLDE---PEVK 163 >gi|300814743|ref|ZP_07094991.1| putative RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 836 str. F0141] gi|300511130|gb|EFK38382.1| putative RNA polymerase sigma-B factor [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 258 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/226 (25%), Positives = 116/226 (51%), Gaps = 15/226 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E L + ++KKY +G+ + D+ Q +IGL+ + ++FD GY+FS++A + Sbjct: 34 LIEEYLYIAEILSKKYIGKGIDYDDIYQVASIGLIYSVDRFDPTKGYEFSSFATPTIIGE 93 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ TIR+P +++ K++ ++S + +R PT E+IA+ L E + + + Sbjct: 94 IKKYFRDKGWTIRVPRRIQELSKKIMIAKNKLSQEYQRTPTVEDIAEFLNASPEEIIESM 153 Query: 568 KITK--EPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +K P SL+ GD+ L D I ED+ +D L++ + + +L Sbjct: 154 EASKVYTPQSLDIVYDSGDDKKMSLQDLIGEDEKYFDKID------LKDFLLKSMKNLNE 207 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ +L R+ T + K+ +++ + +IE K + K++ Sbjct: 208 VEKTILIDRYF----NKKTQIVIAKKLNISQMTVSRIEKKVLEKMR 249 >gi|222053730|ref|YP_002536092.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter sp. FRC-32] gi|221563019|gb|ACM18991.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter sp. FRC-32] Length = 251 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/201 (28%), Positives = 96/201 (47%), Gaps = 11/201 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL IGL+ AAE+FD G F T+A ++ I + Q R +RDK + Sbjct: 50 DLRSAAVIGLISAAERFDPTRGVMFKTFAEQRIRGTIMDELRSQDWLTR---SLRDKFKR 106 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + R + ++ R P+ +E+A + + +E +L+ +SL+ DED S LG Sbjct: 107 LEREFSALEQRLGRNPSSDEVAAAMGLDLEAYFHLLEEIHFLSFVSLDDAWMDEDGSPLG 166 Query: 590 --DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 D +EDK SP + I E + +L +E V+ + + MN L+E+G Sbjct: 167 LLDVLEDKGIESPQNQLIARQTVENLAEAIDNLPEKERIVITLYYYEEMN----LKEIGA 222 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 +T RI Q+ ++A+ +L+ Sbjct: 223 VLHLTESRISQLHSQALLRLR 243 >gi|317063374|ref|ZP_07927859.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] gi|313689050|gb|EFS25885.1| RNA polymerase [Fusobacterium ulcerans ATCC 49185] Length = 151 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 41/122 (33%), Positives = 71/122 (58%), Gaps = 2/122 (1%) Query: 547 PTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ 606 P+ EEIA +L + + V+ ++ ++P+SL T IGD+ +L D + + S + Sbjct: 20 PSVEEIAAELNIEADKVQDIIMDFQDPMSLSTQIGDD--IYLEDTLAQQEDFSMEEEIFN 77 Query: 607 ANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRK 666 R+ ++ L RE+ +L++R+G+ HTLEE+G +TRER+RQIE K ++K Sbjct: 78 EMGRKQVRDMVNQLEEREKEILKLRYGLDGYEIHTLEEIGNTLNITRERVRQIEKKTLQK 137 Query: 667 LK 668 L+ Sbjct: 138 LR 139 >gi|20808064|ref|NP_623235.1| sporulation sigma factor SigE [Thermoanaerobacter tengcongensis MB4] gi|20516645|gb|AAM24839.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) [Thermoanaerobacter tengcongensis MB4] Length = 241 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 118/247 (47%), Gaps = 53/247 (21%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+ E +++S + KG+ EA K ++E NLRLV+ +AKK+ N G+ DLI G IGL Sbjct: 41 LSVEEESYLISKMEKGDNEA---KSILIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 97 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA F+ K +TYA +R I ++ I +++R +N Sbjct: 98 IKAINTFNPRKKIKLATYA--------SRCIENE-----ILMYLRR------------NN 132 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K + E + +E L + +G +L + I D + +IED+ Sbjct: 133 KTRLEVSFDE---PLNVDWDGNELLL----------SDILGTDNETVYKYIEDEVE---- 175 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 RE T L L RE++++R+RFG+ T+ T +EV +++ I ++E Sbjct: 176 --------RELLTSALKKLPDREKKIIRLRFGLEGGTEKTQKEVADMLGISQSYISRLEK 227 Query: 662 KAIRKLK 668 K +++LK Sbjct: 228 KILKRLK 234 >gi|163938900|ref|YP_001643784.1| RNA polymerase sigma factor SigB [Bacillus weihenstephanensis KBAB4] gi|163861097|gb|ABY42156.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] Length = 257 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/252 (22%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C+ A++ +V LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCDE--AQERLVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ + +P ++D K+ +++ ++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGVHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIANHLGLSEEEVLEIMDAKN----------NYQVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ +T R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEQTERRLVLDDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|288942274|ref|YP_003444514.1| RNA polymerase sigma-32 subunit RpoH [Allochromatium vinosum DSM 180] gi|288897646|gb|ADC63482.1| RNA polymerase, sigma 32 subunit, RpoH [Allochromatium vinosum DSM 180] Length = 279 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 116/240 (48%), Gaps = 26/240 (10%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A K +V ++LR VI +A+ Y GL DLIQEG +GLMKA +F+ +G + ++A+ W Sbjct: 46 AAKRLVTSHLRFVIRIARGYLGYGLPLPDLIQEGTVGLMKAVRRFEPDMGVRLVSFAVHW 105 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I +++ + K+ +R++++ + ++ +E+A L + E Sbjct: 106 IRAEIHEYILRNWRIVKVATTKAQRKLFFNLRSSKKRLGWLTKQEV-DEVAADLGVKPEV 164 Query: 563 VRKVLKITKEPISLETPIGDEDTSHLG-------------DFIEDKNAVSPLDSAIQANL 609 V + +E+ + ++D S G ++ D + Sbjct: 165 V----------LQMESRLSNQDLSFDGLEDDDDDSPAAPSTYLPDVRMEPSRLLEHEDTD 214 Query: 610 RETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ R+ A+L +ER + F ++ TL E+ ++F V+ ERIRQIE A++K++ Sbjct: 215 RDQRERLYAALADLDERSKTILFERWLSEKKQTLHELAEKFGVSAERIRQIEKNAMKKVR 274 >gi|329937639|ref|ZP_08287158.1| RNA polymerase sigma factor sig8 [Streptomyces griseoaurantiacus M045] gi|329303038|gb|EGG46926.1| RNA polymerase sigma factor sig8 [Streptomyces griseoaurantiacus M045] Length = 287 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 56/225 (24%), Positives = 106/225 (47%), Gaps = 35/225 (15%) Query: 428 RHI---VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMK 483 RH ++ + +G E + ++E NL LV A ++ +RG + D++Q G IGL+K Sbjct: 39 RHFFARLATLEEGTPEYQYVRNTLIEMNLSLVRYAASRFRSRGADEMEDIVQVGTIGLIK 98 Query: 484 AAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI 543 A ++F+ +F+++A+ ++ I R D S + +P +++ ++ R +S + Sbjct: 99 AIDRFELTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARVELARATEELSRRT 158 Query: 544 KREPTPEEIAKKLAMPVEGVRKVLKITKEP------ISLETPIGDEDTSHLGDF------ 591 R+PT E++ +++P E V + K + SL G + S L DF Sbjct: 159 GRQPTVRELSALMSLPEEEVIEARKASNAYRSSSLDASLSGDGGLDGESALADFIGVEER 218 Query: 592 ----IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRF 632 IED ++++PL +A L R+ +L +RF Sbjct: 219 GLELIEDLHSLAPL---------------VAGLPERDRTILHLRF 248 >gi|300717210|ref|YP_003742013.1| RNA polymerase sigma factor for flagellar operon [Erwinia billingiae Eb661] gi|299063046|emb|CAX60166.1| RNA polymerase sigma factor for flagellar operon [Erwinia billingiae Eb661] Length = 240 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 50/198 (25%), Positives = 95/198 (47%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V ++ + R T +E+A L + ++ R++L T E+ + Sbjct: 100 VAGAMHKVEQSLGRTATEQEVAASLDVSLQEYRQILLDTNNSQLFSYDEFREEHGDTAEL 159 Query: 592 IEDKN-AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 + D + +PL ++ NLRE + +L RE+ VL + + +N L+E+G Sbjct: 160 VTDGHEEANPLHQLMEGNLRERVIEAIEALPDREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|251789202|ref|YP_003003923.1| flagellar biosynthesis sigma factor [Dickeya zeae Ech1591] gi|247537823|gb|ACT06444.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dickeya zeae Ech1591] Length = 240 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 52/201 (25%), Positives = 98/201 (48%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLSAVERYDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + ++ + R P+ +E+A+ L + +E R++L T DE GD Sbjct: 100 VAQAMQQAEQSLGRAPSEQEVAQTLNISLEEYRQILLDTNNSQLFSY---DEWREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E +PL+ + +LR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 AEALLEGNEDANPLNQLMDVSLRQRVMDAIENLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|212697380|ref|ZP_03305508.1| hypothetical protein ANHYDRO_01950 [Anaerococcus hydrogenalis DSM 7454] gi|212675572|gb|EEB35179.1| hypothetical protein ANHYDRO_01950 [Anaerococcus hydrogenalis DSM 7454] Length = 256 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/230 (25%), Positives = 120/230 (52%), Gaps = 18/230 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E++E ++ +V ++ KY +G++ DL Q ++GL+ A +++D GY+FS++A + Sbjct: 30 RNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFATPTI 89 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D+ IR+P +++ K+ + + +++R PT ++IA L E + Sbjct: 90 MGELKRYFRDKGWVIRVPRRIQNLYKKINVAKKILPQELQRTPTIKDIAAYLGEDEETIL 149 Query: 565 KVLKITK--EPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVL 617 + ++ +K P SL+ E++ L D I +DKN DS +L E +T L Sbjct: 150 ETMEASKVYTPQSLDMKYQVQKGENSVDLSDMIGEDDKN----FDSIELKDLIEKSTERL 205 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E+++L +R+ G T ++ ++ +++ + +IE K ++K Sbjct: 206 NDL---EKQILELRYYEG----RTQVDIAQKLSISQMTVSRIEKKILQKF 248 >gi|219129831|ref|XP_002185083.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] gi|217403578|gb|EEC43530.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1] Length = 435 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 66/246 (26%), Positives = 110/246 (44%), Gaps = 57/246 (23%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEG IGL +A ++++ +G KFSTYA++WV+ AI R IA++ +R+P H+ + K Sbjct: 184 DLIQEGAIGLARAVDRWNPEIGGKFSTYAVYWVRAAILRCIAERDDLVRVPEHVSAAVRK 243 Query: 532 VVRTARRMSNKI----------------KREPTPEEIAKKLAMPVEGVRKVLKITKE--- 572 + R AR++ I K + +A++ + V + +K+ Sbjct: 244 ISRAARQLGIDIDGNDLISSVYSKDASWKEAQAAKALAEEAGLTPRQVSEAIKVKARRRG 303 Query: 573 -PISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLR 629 +S E + G + + L + D N PL S L+ T ++ L P+E L Sbjct: 304 GMLSFEAWMQQGQDFATDLTPVVADDN---PLASLETEQLKSTLSKF---LRPKEMEALS 357 Query: 630 MRFGIGMNTDHTLE---------------------------EVGKQFCVTRERIRQIEAK 662 R+ G+ D+ E EVGK+ V+ E R++ K Sbjct: 358 WRY--GLQRDYVAEAEEELFGRSPRAPITVKGRWGEAMSFTEVGKKMKVSAEYGRRLCHK 415 Query: 663 AIRKLK 668 A+ KL+ Sbjct: 416 ALNKLR 421 >gi|138896107|ref|YP_001126560.1| sporulation sigma factor SigK [Geobacillus thermodenitrificans NG80-2] gi|196249000|ref|ZP_03147700.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] gi|134267620|gb|ABO67815.1| RNA polymerase sigma-K factor [Geobacillus thermodenitrificans NG80-2] gi|196211876|gb|EDY06635.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Geobacillus sp. G11MC16] Length = 237 Score = 73.6 bits (179), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 64/237 (27%), Positives = 101/237 (42%), Gaps = 72/237 (30%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G + DLI G IGL+KA E + G K +TYA Sbjct: 50 ARNRLIEHNLRLVAHIVKKFENTGEEVEDLISIGTIGLIKAIESYSPNKGTKLATYA--- 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 107 -----ARCIENE-----ILMHLRS------------------------------------ 120 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD----------SAIQANLR-ET 612 LK T++ +SL PIG + ++ N +S LD IQ N+ E Sbjct: 121 ---LKKTRKDVSLHEPIGQD---------KEGNEISLLDILKSEGQDIVDEIQLNMELEQ 168 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 + ++ L RE+ V+ RFG+G + T E+ K+ ++R + +IE +A+ K+ H Sbjct: 169 VKKYISVLDEREKEVIVNRFGLGRQREKTQREIAKELGISRSYVSRIEKRALMKMFH 225 >gi|282881777|ref|ZP_06290435.1| RNA polymerase sigma-B factor [Peptoniphilus lacrimalis 315-B] gi|281298387|gb|EFA90825.1| RNA polymerase sigma-B factor [Peptoniphilus lacrimalis 315-B] Length = 261 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 57/226 (25%), Positives = 116/226 (51%), Gaps = 15/226 (6%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E L + ++KKY +G+ + D+ Q +IGL+ + ++FD GY+FS++A + Sbjct: 37 LIEEYLYIAEILSKKYIGKGIDYDDIYQVASIGLIYSVDRFDPTKGYEFSSFATPTIIGE 96 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ TIR+P +++ K++ ++S + +R PT E+IA+ L E + + + Sbjct: 97 IKKYFRDKGWTIRVPRRIQELSKKIMIAKNKLSQEYQRTPTVEDIAEFLNASPEEIIESM 156 Query: 568 KITK--EPISLETPI--GDEDTSHLGDFI-EDKNAVSPLDSAIQANLRETTTRVLASLTP 622 + +K P SL+ GD+ L D I ED+ +D L++ + + +L Sbjct: 157 EASKVYTPQSLDIVYDSGDDKKMSLQDLIGEDEKYFDKID------LKDFLLKSMKNLNE 210 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E+ +L R+ T + K+ +++ + +IE K + K++ Sbjct: 211 IEKTILIDRYF----NKKTQIVIAKKLNISQMTVSRIEKKVLEKMR 252 >gi|256832234|ref|YP_003160961.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Jonesia denitrificans DSM 20603] gi|256685765|gb|ACV08658.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Jonesia denitrificans DSM 20603] Length = 283 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/235 (28%), Positives = 113/235 (48%), Gaps = 15/235 (6%) Query: 442 SIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 ++ ++E++ LV +A + + ++ DL+ G GL+ A +KFD KF T Sbjct: 46 ALGREELILHYAPLVTMIAGRVGMKLPNTVEAADLVSYGMFGLIDAIDKFDPSRDIKFET 105 Query: 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAM 558 YA V+ AI I + IP +R + + R + N + REPT EIA+ L + Sbjct: 106 YASTRVRGAI---IDELRALDWIPRSVRSRAREYDRACEHLENTLHREPTSGEIAQHLGV 162 Query: 559 PVEGVRKV-LKITK-EPISLETPI--GDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 P + V ++ +++ I+L+ + GD D D +++ AV P S Q +RE Sbjct: 163 PEKDVWQLQWQVSSGHVIALDEVVSTGDRVDQISAMDSVQETLAVDPAQSFAQGEMREIL 222 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + L RE V+ + + M TL E+GK VT R+ Q+ + I KL+ Sbjct: 223 AQAVDHLNERERAVVTLYYFRSM----TLSEIGKLLGVTESRVSQMHSAIIVKLR 273 >gi|157371179|ref|YP_001479168.1| flagellar biosynthesis sigma factor [Serratia proteamaculans 568] gi|157322943|gb|ABV42040.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Serratia proteamaculans 568] Length = 240 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 98/198 (49%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + +P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDW---VPRSVRRHARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V + R++ ++ R + E+A+ L + ++ R++L T E+ + Sbjct: 100 VAQVMRQLEQQLGRPASEVEVAQTLNLSLDEYRQILLDTNNSQLFSYDEWREEHGESAEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEEANPLHHLLEGNLRQRVIDAIEALPEREKMVLTLYYQEELN----LKEIGAVLD 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|284045116|ref|YP_003395456.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] gi|283949337|gb|ADB52081.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Conexibacter woesei DSM 14684] Length = 262 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 68/235 (28%), Positives = 116/235 (49%), Gaps = 18/235 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGL----QFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 A++ +V A LV VA + + GL + DLI G IGL+ A E+FD KF TY Sbjct: 25 ARERLVVAYSPLVKYVAGRMAS-GLPAHVEEADLISYGLIGLISAIERFDLGREIKFETY 83 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+ ++ AI I + +P +R K ++ R ++ +K++R PT EE+A +L M Sbjct: 84 AIPRIRGAI---IDELRSLDWVPRSVRAKAREIERANAKLEHKLQRAPTDEEMAHELDMS 140 Query: 560 VEGVRKVL-KITKEPISLETPI-----GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 ++ + L +I+ I+ + D L D ++D +A P + L++ Sbjct: 141 MDEFQDALIQISNSTIAALDELWTVSDASGDQISLLDTLQDPDAPDPEKIVDASELKDRV 200 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +A L RE+ V+ + + + TL E+G+ VT RI Q+ KA+ +L+ Sbjct: 201 ADAIARLPEREKLVIALYY----YENLTLREIGEVLGVTESRISQLHTKAVLRLR 251 >gi|296168913|ref|ZP_06850582.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295896382|gb|EFG76035.1| RNA polymerase sigma-F factor [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 262 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/258 (25%), Positives = 121/258 (46%), Gaps = 38/258 (14%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + V G E + ++VE L L +A+++ RG DL+Q +GL+ A Sbjct: 23 FRELAT-VGAGSMEFQRQRDKIVERCLPLADHIARRFEGRGEPRDDLVQVARVGLVNAVV 81 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +FD G F ++A+ + + R D S ++++P +++ ++ +S ++ R Sbjct: 82 RFDVDAGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGTATAELSQRLGRA 141 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIG-DEDTSH-----LGDF----- 591 PT E+A +L M VEG+ V + +S+++ G DED + LGD Sbjct: 142 PTATELAAELGMDREEVVEGL--VAGSSYNTLSIDSGGGSDEDEARAIADTLGDVDTGLD 199 Query: 592 -IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 IED+ ++ PL L +L RE VL +RF M E VG Sbjct: 200 RIEDQESLRPL---------------LEALPERERTVLVLRFFESMTQTQIAERVG---- 240 Query: 651 VTRERIRQIEAKAIRKLK 668 +++ + ++ AK++ +L+ Sbjct: 241 ISQMHVSRLLAKSLTRLR 258 >gi|258488938|gb|ACV72475.1| RpoD [Xanthomonas axonopodis pv. axonopodis] gi|258488940|gb|ACV72476.1| RpoD [Xanthomonas axonopodis pv. axonopodis] Length = 261 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 50/69 (72%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L++ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLVDYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|254387389|ref|ZP_05002636.1| sigma factor [Streptomyces sp. Mg1] gi|194346181|gb|EDX27147.1| sigma factor [Streptomyces sp. Mg1] Length = 266 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 62/244 (25%), Positives = 114/244 (46%), Gaps = 22/244 (9%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNR--GLQFLDLIQEGNIGLMKAAEKFDWCLG 493 +G E + ++E N LV +++ +R G D++Q G IGL+KA ++FD Sbjct: 22 EGTPEHQYVRNTLIEMNASLVQYAVRRFRSRCDGGDIEDVVQVGTIGLIKAIDRFDPARE 81 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +FST AM ++ I R D S +R+P +++ + + ++ ++ R PT ++A Sbjct: 82 NEFSTLAMPYITGEIKRHFRDTSWAVRVPRRLQELRIDIAKAKEELTVRLDRSPTVTDLA 141 Query: 554 KKLAMP----VEGVRKVLKITKEPISLETPIGDED----TSH-LGDFIEDKNAVSPLDSA 604 L + VEG+ T SL+ P D T H L D + ++ L Sbjct: 142 GHLGLTDEEVVEGLVAANGHTSG--SLDAPHSDHGDGPTTGHTLADVMGEEEPALALVED 199 Query: 605 IQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAI 664 +QA +L L+ RE +LRMRFG + T ++G +++ ++ ++ + + Sbjct: 200 VQA-----LAPLLQRLSERERSMLRMRFG----EELTQAQIGTALGISQMQVSRLLNRIL 250 Query: 665 RKLK 668 L+ Sbjct: 251 AHLR 254 >gi|293366035|ref|ZP_06612723.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis M23864:W2(grey)] gi|291319758|gb|EFE60116.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis M23864:W2(grey)] Length = 256 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 123/243 (50%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V+ +L+ S+A +Y+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSQAQDKLVKHYRKLIESLAYRYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 VFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ AI+KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAIKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|229827370|ref|ZP_04453439.1| hypothetical protein GCWU000182_02758 [Abiotrophia defectiva ATCC 49176] gi|229788308|gb|EEP24422.1| hypothetical protein GCWU000182_02758 [Abiotrophia defectiva ATCC 49176] Length = 268 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 66/241 (27%), Positives = 111/241 (46%), Gaps = 26/241 (10%) Query: 451 ANL-RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 ANL +++ Y +++ DL+ G GL+ A +KFD G KF TYA +K AI Sbjct: 38 ANLVKIIAGRMSIYLGYNVEYDDLVGYGIFGLIDAIDKFDHVKGVKFETYASLRIKGAIL 97 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKI 569 I IP MR + K+ R + K R T EEIA +L + V+ Sbjct: 98 DQIRKMDW---IPRTMRQRQKKLEAAERAIEEKYGRMATDEEIAAELGISVDEYGS---- 150 Query: 570 TKEPISLETPIGDEDTSHLG-DFIEDKNAV--------SPLDSAIQANLRETTTRVLASL 620 + +S+ I +D G D + DK+ P ++ + L+E+ + L Sbjct: 151 WQSQVSMSGIISLDDYLEQGSDLVADKSGSKLGISGFEQPEEAVEKEELKESLAVAIEGL 210 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFL 680 T +E++V+ + + + TL+E+ + V+ R+ Q+ KA+ KLK +KL ++ Sbjct: 211 TEKEQKVIALYY----YEELTLKEISRVLSVSESRVSQLHTKALTKLK-----EKLGDYI 261 Query: 681 D 681 D Sbjct: 262 D 262 >gi|237755496|ref|ZP_04584118.1| RNA polymerase sigma factor RpoD [Sulfurihydrogenibium yellowstonense SS-5] gi|237692360|gb|EEP61346.1| RNA polymerase sigma factor RpoD [Sulfurihydrogenibium yellowstonense SS-5] Length = 570 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 55/171 (32%), Positives = 89/171 (52%), Gaps = 18/171 (10%) Query: 29 DSWKKMIKLARQRGYVTIEELNAFLPPDEVSS-EQMEDTVAMLSNMGINVVDGDDL--ED 85 D + +I LAR++GYVT E++ ++ + SS E +E + L+ + I+V D + + ED Sbjct: 8 DDVRTLINLAREKGYVTYAEISTYVDEEFFSSDENIESLIEYLNELNIDVRDDEKIKSED 67 Query: 86 EEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKR 145 E+ SE L S+ V+ DDPV++YLREMG I LL R+ EI + Sbjct: 68 EDISEH---LGIDLSDDDVW---------NKADDPVKLYLREMGKIPLLKRDEEIKYSME 115 Query: 146 IEAGRAMMMASLCESPLTFQALIIWRDELNDGTTLLREIIDLEACIGPESK 196 IE GR + L + + L+ ++ DG + +I++L+ PE K Sbjct: 116 IERGRKKVFRGLLRTSFLTERLLDEWAKVIDGKARVHDILNLDE---PEVK 163 >gi|226310092|ref|YP_002769986.1| RNA polymerase sigma-B factor [Brevibacillus brevis NBRC 100599] gi|226093040|dbj|BAH41482.1| RNA polymerase sigma-B factor [Brevibacillus brevis NBRC 100599] Length = 262 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/251 (24%), Positives = 123/251 (49%), Gaps = 22/251 (8%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 GE + ++++V A LV S+AKK+ + + DL+Q G IGL+ + +FD F Sbjct: 23 GETKDPTIQEQLVRAYTPLVESLAKKFVRGQVMYEDLVQVGLIGLLASFRRFDPSFERTF 82 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 ++A+ + I R I D++ ++ +P +++ K+ R ++ K++R P +IA L Sbjct: 83 ESFAIPTIVGEIKRYIRDKTWSVYVPRRVKELSPKIKRVVDELTIKLQRSPQIADIANSL 142 Query: 557 AMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD---------SAIQA 607 + E + + L++ + SL D+ D D N +S LD A++ Sbjct: 143 GVSEEAILETLEMGRSYHSLSM-----DSELEADL--DGNTISLLDLVGTMEEGYGAVEQ 195 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 NL R L L RE+ ++++ F ++ ++ G +++ I +++ +A+ KL Sbjct: 196 NL--MLERALQILDHREKEIIQLTFYQNLSQ----KQAGDIMGMSQMHISRLQRRALGKL 249 Query: 668 KHPSRSKKLRS 678 + R ++L + Sbjct: 250 REALRVEQLET 260 >gi|27468586|ref|NP_765223.1| RNA polymerase sigma factor SigB [Staphylococcus epidermidis ATCC 12228] gi|57867587|ref|YP_189242.1| RNA polymerase sigma factor SigB [Staphylococcus epidermidis RP62A] gi|251812213|ref|ZP_04826686.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis BCM-HMP0060] gi|282876523|ref|ZP_06285389.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis SK135] gi|27316133|gb|AAO05267.1|AE016749_213 sigma factor B [Staphylococcus epidermidis ATCC 12228] gi|57638245|gb|AAW55033.1| RNA polymerase sigma-37 factor [Staphylococcus epidermidis RP62A] gi|251804310|gb|EES56967.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis BCM-HMP0060] gi|281294775|gb|EFA87303.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis SK135] gi|329726159|gb|EGG62631.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU144] gi|329734176|gb|EGG70494.1| RNA polymerase sigma-B factor [Staphylococcus epidermidis VCU045] Length = 256 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 60/243 (24%), Positives = 123/243 (50%), Gaps = 20/243 (8%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V+ +L+ S+A +Y+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENEDSQAQDKLVKHYRKLIESLAYRYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTRERIRQIEAKAIRKLKH 669 R+L L+ RE ++++ F G++ T E +G Q V+R ++ AI+KL+ Sbjct: 198 MILERILPILSERERQIIQCTFIEGLSQKETGERIGLSQMHVSR-----LQRTAIKKLQE 252 Query: 670 PSR 672 +R Sbjct: 253 AAR 255 >gi|253573548|ref|ZP_04850891.1| RNA polymerase sigma factor [Paenibacillus sp. oral taxon 786 str. D14] gi|251847076|gb|EES75081.1| RNA polymerase sigma factor [Paenibacillus sp. oral taxon 786 str. D14] Length = 262 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 61/230 (26%), Positives = 112/230 (48%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AKK+++E L +V V+ + + + DL G +GL+ A EKFD+ G +F TYA Sbjct: 26 AKKQLIEKYLPIVDYVSGRLAVGLPKNVSKDDLASNGVMGLIDAVEKFDYKRGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W V+ AI + +P +R+K K+ + + + R T E++ L + Sbjct: 86 SWRVRGAILDGLRQGDW---VPRSVREKAKKIEEGYQHLEQQYLRSVTDAEMSSYLNVSE 142 Query: 561 EGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + + +L+ SLE PI +E++ + D+ A +P + LRE+ + + Sbjct: 143 KEFQSMLQEVAVMTLCSLEDPIREEESETRLTLLVDEKAKNPDYKVREFYLRESLAKGIE 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT +E V+ + + D +L E+ + ++ RI Q+ +KAI +L+ Sbjct: 203 KLTEKERTVVSLLY----YEDLSLSEIAEVMSLSPSRISQLHSKAILRLR 248 >gi|254478789|ref|ZP_05092157.1| RNA polymerase sigma-E factor [Carboxydibrachium pacificum DSM 12653] gi|214035301|gb|EEB76007.1| RNA polymerase sigma-E factor [Carboxydibrachium pacificum DSM 12653] Length = 244 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 69/247 (27%), Positives = 118/247 (47%), Gaps = 53/247 (21%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S+ E +++S + KG+ EA K ++E NLRLV+ +AKK+ N G+ DLI G IGL Sbjct: 44 LSVEEESYLISKMEKGDNEA---KSILIERNLRLVVYIAKKFENTGVGIEDLISIGTIGL 100 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA F+ K +TYA +R I ++ I +++R +N Sbjct: 101 IKAINTFNPRKKIKLATYA--------SRCIENE-----ILMYLRR------------NN 135 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K + E + +E L + +G +L + I D + +IED+ Sbjct: 136 KTRLEVSFDE---PLNVDWDGNELLL----------SDILGTDNETVYKYIEDEVE---- 178 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 RE T L L RE++++R+RFG+ T+ T +EV +++ I ++E Sbjct: 179 --------RELLTSALKKLPDREKKIIRLRFGLEGGTEKTQKEVADMLGISQSYISRLEK 230 Query: 662 KAIRKLK 668 K +++LK Sbjct: 231 KILKRLK 237 >gi|160944585|ref|ZP_02091813.1| hypothetical protein FAEPRAM212_02099 [Faecalibacterium prausnitzii M21/2] gi|158444367|gb|EDP21371.1| hypothetical protein FAEPRAM212_02099 [Faecalibacterium prausnitzii M21/2] gi|295103334|emb|CBL00878.1| RNA polymerase sigma factor, sigma-70 family [Faecalibacterium prausnitzii SL3/3] Length = 224 Score = 73.2 bits (178), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 63/225 (28%), Positives = 116/225 (51%), Gaps = 15/225 (6%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 ++ + NL LV + A ++ RG+++ DL G +GL+KA + FD G FSTYA+ + Sbjct: 8 REAFITQNLGLVHACAGRFRGRGMEYDDLYSAGCVGLIKAYDNFDESRGVCFSTYAVPVI 67 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKI-KREPTPEEIAKKLAMPVEGV 563 I + D T+++ +++ + V+ AR + K+ EPT +++A++L P+E V Sbjct: 68 LGEIKKLFRDGG-TVKVSRSLKE-LGMRVQAAREHTMKLCGAEPTLQQLAEQLDEPIENV 125 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPR 623 ++ + +SL TP G ED GD D SP + R + V+ +L + Sbjct: 126 ALAIQAAQPAMSL-TPEGGED----GDRQLDIPVESPEEELAD---RISLAEVIEALPEQ 177 Query: 624 EERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++++R+RF + T E K T+ +I + E K + +L+ Sbjct: 178 DKQLIRLRF----YGNRTQSETAKALHTTQVQISRRERKILIRLR 218 >gi|46204236|ref|ZP_00050286.2| COG0568: DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Magnetospirillum magnetotacticum MS-1] Length = 182 Score = 73.2 bits (178), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 45/153 (29%), Positives = 81/153 (52%), Gaps = 10/153 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++ A++RLVI++A ++ + GL DL+QEG++GLM+AA +F+ +FSTYA WW Sbjct: 26 ALHRLISAHMRLVIALAGRFRHYGLPMADLVQEGHVGLMEAAARFEPEREVRFSTYATWW 85 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR---EPTPEEIAKKLAMPV 560 ++ +I I +R K + RR+ ++ + E EI ++A + Sbjct: 86 IRASIQDYILRNWSIVRGGTSSAQK--ALFFNLRRLRARLMQSTEEQVGSEIHGRIATAI 143 Query: 561 EGVRKVL-----KITKEPISLETPIGDEDTSHL 588 R+ + +++ +SL P+G+E S L Sbjct: 144 GVSREDVALMDARLSGPDMSLNAPVGEERRSFL 176 >gi|320537994|ref|ZP_08037899.1| RNA polymerase sigma factor WhiG [Treponema phagedenis F0421] gi|320145151|gb|EFW36862.1| RNA polymerase sigma factor WhiG [Treponema phagedenis F0421] Length = 262 Score = 73.2 bits (178), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 65/207 (31%), Positives = 108/207 (52%), Gaps = 14/207 (6%) Query: 468 LQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR-IPVHMR 526 ++F DL+ G GL A +K+D +F+TYA+ ++ AI D+ +I +P +R Sbjct: 53 IEFDDLVSYGIFGLFDAIDKYDPEKNIRFNTYAVTRIRGAIY----DELRSIDWVPRSVR 108 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRK-VLKIT-KEPISL-ETPIGDE 583 +I ++ T + K+ R T EEIA +L + +E + +LKI+ ISL +T G E Sbjct: 109 QQIKQIEDTIAAIEAKLGRSATDEEIAFELNISLEEYHQLLLKISGTSVISLADTKFGGE 168 Query: 584 DTSHL--GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 D+ + GD IE +++P + ++ + L+ RE++VL + + D T Sbjct: 169 DSGQIAVGDSIEAPASLNPDVIVEREEIKRVIVEAIKELSEREQQVLILYY----YEDMT 224 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E+GK VT R+ QI A KLK Sbjct: 225 LKEIGKVLKVTESRVSQIHTSANLKLK 251 >gi|15614994|ref|NP_243297.1| RNA polymerase sigma factor SigD [Bacillus halodurans C-125] gi|10175051|dbj|BAB06150.1| RNA polymerase sigma-D factor [Bacillus halodurans C-125] Length = 256 Score = 73.2 bits (178), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 54/202 (26%), Positives = 106/202 (52%), Gaps = 11/202 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL+ A EKF+ KF TYA + V+ AI + + +P MR+KI K Sbjct: 55 DLISHGMLGLLDALEKFNPDRDLKFDTYASFRVRGAILDGLRKEDW---LPRSMREKIKK 111 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL--KITKEPISLETPIGDED--TSH 587 + ++ K+ R + EE+AK++ + V + + + +S++ D D ++ Sbjct: 112 IEAATEKLEQKLGRNVSVEEVAKEVGISENEVSQTMTESLVANLLSMDEKTNDSDREETY 171 Query: 588 LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 I DK ++SP + ++ +E ++++A++ +E+++ G+ + TL E+G+ Sbjct: 172 TATII-DKQSLSPEEKLLEEAQKEELSQLIANILNEKEQLV---IGLFYFEELTLTEIGQ 227 Query: 648 QFCVTRERIRQIEAKAIRKLKH 669 ++ RI QI +KA+ +L+ Sbjct: 228 ILKLSTSRISQIHSKALFRLQQ 249 >gi|294634103|ref|ZP_06712658.1| RNA polymerase sigma factor [Streptomyces sp. e14] gi|292829917|gb|EFF88271.1| RNA polymerase sigma factor [Streptomyces sp. e14] Length = 294 Score = 73.2 bits (178), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/261 (22%), Positives = 122/261 (46%), Gaps = 40/261 (15%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G E A+ ++E N+ LV A ++ NR D++Q G IGL+KA + Sbjct: 47 FRRLTEL-EEGTHEYQYARNTLIEMNMSLVRFAAGRFRNRSDDMEDIVQTGMIGLIKAID 105 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +F+ +F+++A+ ++ I R D + + +P +++ ++ R +S+++ R+ Sbjct: 106 RFELSREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELARAREELSSRLDRD 165 Query: 547 PTPEEIAKKLAMPVEGVRKVLKITK--------EPISLETPIGDEDTSHLGDFI------ 592 PT E+A + + V + + ++ + P G E L DFI Sbjct: 166 PTVAELATLMNLSESEVVEAQIASNGYNSSSLDAALTGDGPEGGEAV--LADFIGVEEHG 223 Query: 593 ----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ED +A++PL +A L+ R+ R++ +RF + T E+G+Q Sbjct: 224 IRLVEDFHALAPL---------------VADLSERDRRIIHLRF----VEEATQAEIGEQ 264 Query: 649 FCVTRERIRQIEAKAIRKLKH 669 ++ + ++ + I +L+ Sbjct: 265 LGCSQMHVSRLIKRIITQLRQ 285 >gi|310641572|ref|YP_003946330.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] gi|309246522|gb|ADO56089.1| RNA polymerase sigma factor [Paenibacillus polymyxa SC2] Length = 262 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 113/230 (49%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AKK+++E L +V V+ + + + DL G +GL+ A EKFD+ G +F TYA Sbjct: 26 AKKQLIEKYLHIVEYVSGRLAVGLPKNVSKDDLASNGVMGLIDALEKFDYERGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W V+ AI + +P +R+K K+ + + + R + EE++ L + Sbjct: 86 SWRVRGAILDGLRQGDW---VPRSVREKAKKIEDAYQHLEQRYLRTVSDEEMSHYLDVSE 142 Query: 561 EGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + + +++ +SLE PI +E++ + D+ A +P + LR+ + + Sbjct: 143 KEFQSMIQEVAVMSIVSLEDPIREEESETRLSLLVDEKAKNPDHKVNEFTLRDALAQGID 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT +E V+ + + D +L E+ + ++ RI Q+ +KAI +L+ Sbjct: 203 KLTEKERIVVSLLY----YEDLSLSEIAEVMSLSPSRISQLHSKAILRLR 248 >gi|308068681|ref|YP_003870286.1| RNA polymerase sigma-D factor (Sigma-28) [Paenibacillus polymyxa E681] gi|305857960|gb|ADM69748.1| RNA polymerase sigma-D factor (Sigma-28) [Paenibacillus polymyxa E681] Length = 262 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/230 (25%), Positives = 113/230 (49%), Gaps = 12/230 (5%) Query: 444 AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 AKK+++E L +V V+ + + + DL G +GL+ A EKFD+ G +F TYA Sbjct: 26 AKKQLIEKYLHIVEYVSGRLAVGLPKNVSKDDLASNGVMGLIDALEKFDYERGLQFETYA 85 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 W V+ AI + +P +R+K K+ + + + R + EE++ L + Sbjct: 86 SWRVRGAILDGLRQGDW---VPRSVREKAKKIEDAYQHLEQRYLRTVSDEEMSHYLDVSE 142 Query: 561 EGVRKVLK--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLA 618 + + +++ +SLE PI +E++ + D+ A +P + LR+ + + Sbjct: 143 KEFQNMIQEVAVMSIVSLEDPIREEESETRLSLLVDEKAKNPDHKVNEFTLRDALAQGID 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LT +E V+ + + D +L E+ + ++ RI Q+ +KAI +L+ Sbjct: 203 KLTEKERIVVSLLY----YEDLSLSEIAEVMSLSPSRISQLHSKAILRLR 248 >gi|88797598|ref|ZP_01113187.1| RNA polymerase sigma factor [Reinekea sp. MED297] gi|88779770|gb|EAR10956.1| RNA polymerase sigma factor [Reinekea sp. MED297] Length = 290 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 64/234 (27%), Positives = 111/234 (47%), Gaps = 17/234 (7%) Query: 446 KEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 + +V ++LR V+ +AK Y+ GL DLIQEGN+GLMKA +F+ +G + ++A+ W+K Sbjct: 56 RRLVMSHLRFVVHIAKSYSGYGLNQGDLIQEGNVGLMKAIRRFNPEVGVRLVSFAVHWIK 115 Query: 506 QAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEE----IAKKLAMP 559 I I ++I R + + +R+ +RE + KK+ Sbjct: 116 AEIHEYILKNWRIVKIATTKAQRKLFFNLRSSKKRLGWLNEREAQAIADDLGVEKKIVYD 175 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 +EG ++ D H D++ ++ A P + QAN + L S Sbjct: 176 MEG--RLTASDAAFDGFNDDDDDGAAFHPSDYLMNE-ADDPAAAVEQANYTDDAHGQLFS 232 Query: 620 ----LTPREERVLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L R +++ R+ +N + TL E+ ++ V+ ERIRQ+E A+ K+K Sbjct: 233 ALEDLDDRSRDIIQQRW---LNEEKATLHELADKYGVSAERIRQLEKNAMNKVK 283 >gi|239934572|emb|CAR94600.1| DNA-directed RNA polymerase subunit D [uncultured gamma proteobacterium] Length = 219 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 47/69 (68%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEI IAKRIE G + +L PLTFQ ++ + + Sbjct: 1 TTDPVRMYMREMGTVELLTREGEIRIAKRIEEGLDAVRTALSSYPLTFQHILNSYESVKQ 60 Query: 177 GTTLLREII 185 G L +II Sbjct: 61 GQGRLVDII 69 >gi|152998320|ref|YP_001343155.1| RNA polymerase factor sigma-32 [Marinomonas sp. MWYL1] gi|150839244|gb|ABR73220.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas sp. MWYL1] Length = 288 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 111/238 (46%), Gaps = 21/238 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V ++LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARTLVMSHLRFVVHIAKSYSGYGLAQGDLIQEGNVGLMKAVKRFNPEVGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+A++ + E +A L + E Sbjct: 110 IKAEIHEFILKNWRIVKVATTKAQRKMFFNLRSAKKSLSWFSNSEV-ESVASDLGVTPEV 168 Query: 563 VRKV--------LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 VR++ + + + +L D D P N E + Sbjct: 169 VRQMEGRLSSSDMAFDASADDDDDSAFQAPSQYLEDHRSD-----PATLLENGNWEEDSN 223 Query: 615 R----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +A L R +L R+ + TL E+ ++ V+ ERIRQ+E A++K++ Sbjct: 224 QRLEVAMADLDERSRNILVQRW--LSDAKSTLHELADEYGVSAERIRQLEKNAMKKIR 279 >gi|297197353|ref|ZP_06914750.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] gi|197714848|gb|EDY58882.1| RNA polymerase sigma-B factor [Streptomyces sviceus ATCC 29083] Length = 263 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 62/222 (27%), Positives = 98/222 (44%), Gaps = 28/222 (12%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+VE L + +A ++ RG DL Q +GL+KA + +D G F YA+ V Sbjct: 38 RDELVELWLPMAERIAVRFRGRGESLEDLYQVAALGLVKAVDHYDPARGSAFEAYAVPTV 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I R D T+ +P ++D ++V + ++ +S R PT EIA++ + + VR Sbjct: 98 TGEIKRHFRDHMWTLHVPRRVQDLRNRVRQASKELSQTPGRAPTVAEIAERAHLTEDEVR 157 Query: 565 KVLKITK--EPISLETPIGDEDTSHLG----------DFIEDKNAVSPLDSAIQANLRET 612 + + +SLE + D LG D + D+ AV P Sbjct: 158 AGAEALECFSALSLEAEMPGTDGYALGDALGVPDPGYDVVVDRVAVGP------------ 205 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L +L RE +L +RF GM EE+G Q V+R Sbjct: 206 ---CLKALPERERTILYLRFFRGMTQSCIAEELGISQMHVSR 244 >gi|134300227|ref|YP_001113723.1| FliA/WhiG family RNA polymerase sigma factor [Desulfotomaculum reducens MI-1] gi|134052927|gb|ABO50898.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Desulfotomaculum reducens MI-1] Length = 251 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 123/245 (50%), Gaps = 19/245 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFL---DLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A+++++ +L LV +A + + F+ DL G IGLM+A +K+D +G+ F +YA Sbjct: 18 ARQKIILLHLPLVKHLAGRVAVKLPSFILREDLESYGVIGLMEALDKYDPAMGHSFDSYA 77 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 ++ A+ + Q+ +P K + T R+ + T E +AK++ +PV Sbjct: 78 YHRIRGAMLDEVRRQNW---LPRTAWQKNQLLKNTRERLEREQGEVITNEVLAKEMGIPV 134 Query: 561 EGVRK-VLKITKEPI-SLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETTTRV 616 E VR+ + K I SL+ + D S + + +ED N+ PL + + Sbjct: 135 EEVRQLIFNANKMYIQSLDEEVAGHDGSQMSKLELLEDTNSPDPLSIVEEKESKRLLAEA 194 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 + +L+ RE+ +L + + G+ TL+E+G+ V+ R+ Q+ ++ +++LK K L Sbjct: 195 IETLSEREKLILALYYSEGL----TLKEIGQVLEVSESRVCQLHSQVMKRLK-----KTL 245 Query: 677 RSFLD 681 S L+ Sbjct: 246 ESMLN 250 >gi|256545958|ref|ZP_05473313.1| RNA polymerase sigma-B factor [Anaerococcus vaginalis ATCC 51170] gi|256398380|gb|EEU12002.1| RNA polymerase sigma-B factor [Anaerococcus vaginalis ATCC 51170] Length = 256 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 57/230 (24%), Positives = 119/230 (51%), Gaps = 18/230 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E++E ++ +V ++ KY +G++ DL Q ++GL+ A +++D GY+FS++A + Sbjct: 30 RNELIEDHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIDRYDPSKGYEFSSFATPTI 89 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D+ IR+P +++ K+ + + +++R PT ++IA L E + Sbjct: 90 MGELKRYFRDKGWVIRVPRRIQNLYKKINVAKKILPQELQRTPTIKDIAAYLGEDEETIL 149 Query: 565 KVLKITK--EPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVL 617 + ++ +K P SL+ E++ L D I +DKN DS +L + +T L Sbjct: 150 ETIEASKVYSPQSLDMKYQVQKGENSVDLSDMIGEDDKN----FDSVELKDLIDKSTERL 205 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E+++L +R+ G T ++ + +++ + +IE K ++K Sbjct: 206 NDL---EKQILELRYYEG----RTQVDIANKLSISQMTVSRIEKKILQKF 248 >gi|221133291|ref|ZP_03559596.1| flagellar biosynthesis sigma factor [Glaciecola sp. HTCC2999] Length = 243 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/237 (25%), Positives = 112/237 (47%), Gaps = 17/237 (7%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 +C S++ +E+VE + LV +A R + DLIQ G +GL++AA+ F+ G Sbjct: 7 DCNQSLSSEELVEKHTILVKRIAHHLLARLPPNILVDDLIQAGMLGLLEAAKNFNSTKGA 66 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 F T+A ++ ++ I T R VH + + + + N++ + +IAK Sbjct: 67 SFETFAGIRIRGSMLDDIRKGDWTPR-SVHKNSR--AITQAISSVENEMNSDAKDSDIAK 123 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED---KNAVSPLDSAIQANLRE 611 +L + + K+L +++ +G ED D I K+ +P D + ++ Sbjct: 124 RLGIELPQYHKMLN----EVNIGKLVGIEDLGISEDVIATPDFKSTNTPYDELVHGCFQK 179 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + + SL RE VL + + + D +L E+G+ V+ R+ QI ++A KLK Sbjct: 180 ALAKAIVSLPEREAIVLSLYY----DEDLSLREIGQALNVSESRVSQIHSQAKSKLK 232 >gi|108798252|ref|YP_638449.1| RNA polymerase sigma factor SigF [Mycobacterium sp. MCS] gi|119867348|ref|YP_937300.1| RNA polymerase sigma factor SigF [Mycobacterium sp. KMS] gi|126433912|ref|YP_001069603.1| RNA polymerase sigma factor SigF [Mycobacterium sp. JLS] gi|108768671|gb|ABG07393.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS] gi|119693437|gb|ABL90510.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. KMS] gi|126233712|gb|ABN97112.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Mycobacterium sp. JLS] Length = 263 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/228 (25%), Positives = 108/228 (47%), Gaps = 13/228 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +VE L L +A+++ RG DL+Q +GL+ A +FD G F ++A+ + Sbjct: 41 RDRIVERCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVIRFDVDAGSDFVSFAVPTI 100 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP----V 560 + R D S ++++P +++ ++ +S ++ R PT E+A++L M V Sbjct: 101 MGEVRRHFRDNSWSVKVPRRLKELHLRLGSATAELSQRLGRAPTASELAEELGMDRDEVV 160 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 EG+ I G+ED + D + D + LD Q RE +LA+L Sbjct: 161 EGLVAGSSYNTLSIDSGGNSGNEDAPAIADTLGDVDL--GLD---QIENREALRPLLAAL 215 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE VL +RF + E VG +++ + ++ AK++ +L+ Sbjct: 216 PERERMVLLLRFFENLTQTQIAERVG----ISQMHVSRLLAKSLTRLR 259 >gi|218896055|ref|YP_002444466.1| RNA polymerase sigma-B factor [Bacillus cereus G9842] gi|218544560|gb|ACK96954.1| RNA polymerase sigma-B factor [Bacillus cereus G9842] Length = 257 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/252 (23%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C A++ +V+ LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 18 LIAEFQQNQCNE--AQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 76 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 135 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 136 IEIANHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 185 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ +T R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 186 VEQGYEQTERRLVLEDIFNVLNDTEKSVIHYIFGENLNQKDTGERLG----ISQMHVSRI 241 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 242 KRQAISKLKQAA 253 >gi|29827282|ref|NP_821916.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] gi|29604380|dbj|BAC68451.1| putative RNA polymerase sigma factor [Streptomyces avermitilis MA-4680] Length = 279 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 56/253 (22%), Positives = 125/253 (49%), Gaps = 34/253 (13%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGL-QFLDLIQEGNIGLMKAAEKFD 489 ++++ +G E A+ ++E N+ LV A ++ +R + D++Q G IGL+KA ++F+ Sbjct: 39 LAVLEEGTPEYQYARNTLIEMNVTLVRFAAARFRSRSQDEMEDIVQVGTIGLIKAIDRFE 98 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 +F+++A+ ++ I R D S + +P +++ ++ + + +++ R PT Sbjct: 99 LTREVEFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARIQLAKATEELQSRLDRMPTV 158 Query: 550 EEIAKKLAMPVEGVR--KVLKITKEPISLETPI--GDEDTSHLGDFI----------EDK 595 +E+++ + + E V ++ SL+ I ++ + L DFI ED Sbjct: 159 KELSELMCLSEEEVNEARLASNGYTSSSLDATISSSNDGEAALADFIGTDDNALELVEDF 218 Query: 596 NAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRER 655 NA++P+ +A L RE R++ MRF + T ++G+ V++ Sbjct: 219 NALAPM---------------IAELDDRERRIIHMRF----VDELTQAQIGEHLGVSQMH 259 Query: 656 IRQIEAKAIRKLK 668 + ++ ++ + KL+ Sbjct: 260 VSRLLSRTLAKLR 272 >gi|154499126|ref|ZP_02037504.1| hypothetical protein BACCAP_03120 [Bacteroides capillosus ATCC 29799] gi|150271966|gb|EDM99192.1| hypothetical protein BACCAP_03120 [Bacteroides capillosus ATCC 29799] Length = 340 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 38/64 (59%), Positives = 46/64 (71%), Gaps = 4/64 (6%) Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ LT REE VLR+RF G+ T E GK+F VTRERI QIE A+RKL+HPSRSK L Sbjct: 111 LSQLTTREEEVLRLRFFEGL----TGAECGKKFGVTRERIHQIEVTALRKLRHPSRSKFL 166 Query: 677 RSFL 680 + F+ Sbjct: 167 KPFV 170 >gi|256269|gb|AAC60415.1| RpoD2 [Synechococcus] Length = 48 Score = 72.8 bits (177), Expect = 2e-10, Method: Composition-based stats. Identities = 33/48 (68%), Positives = 38/48 (79%) Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 LDLIQEG +GL + EKFD GYKFSTYA WW++QAITR+IA QS T Sbjct: 1 LDLIQEGTLGLERGVEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRT 48 >gi|51894120|ref|YP_076811.1| RNA polymerase sigma factor related to flagellar biosynthesis [Symbiobacterium thermophilum IAM 14863] gi|51857809|dbj|BAD41967.1| RNA polymerase sigma factor related to flagellar biosynthesis [Symbiobacterium thermophilum IAM 14863] Length = 253 Score = 72.8 bits (177), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 61/238 (25%), Positives = 122/238 (51%), Gaps = 23/238 (9%) Query: 442 SIAKKEMVEANLRLVISVAKK-------YTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY 494 + A+ +V+ L LV VA + + ++G D+ G GL++A ++D G Sbjct: 16 TAARDALVQHYLWLVRYVAGRLMVGMPDHVDQG----DVEGHGCFGLLEAIARYDPDRGV 71 Query: 495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAK 554 +F T+A+ W++ A + ++ +R ++ ++ R + + REP+ E+A+ Sbjct: 72 RFETFAIPWIRGACLEGLR----AMQWAPALRRRVRQLERVRDELMAVLGREPSAAELAE 127 Query: 555 KLAMPVEGVRKVLK--ITKEPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLR 610 ++ + VE + L+ T +SL+ + D +T+ L D + D+ AV P + +A R Sbjct: 128 QMGISVEEAERRLQEAGTLAVLSLDEALAFDDGETTALADRVADEEAVDPELESQRAERR 187 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 E R +ASLT +E+ V+ + + G+ +EV + +++ RI Q+ +KAI +L+ Sbjct: 188 EVLARAIASLTEQEQLVIALIYQEGLIA----KEVSEILGLSQARISQVHSKAILRLR 241 >gi|302552488|ref|ZP_07304830.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302470106|gb|EFL33199.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 285 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 55/260 (21%), Positives = 123/260 (47%), Gaps = 38/260 (14%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +F ++++ +G E A+ ++E N+ LV A+++ + G D++Q G IGL+KA Sbjct: 40 QFLDRLAVLEEGTPEHQYARNTLIEMNMSLVRFAARRFRSSGQAMEDVVQVGVIGLIKAI 99 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D S + +P +++ ++ + +++++ R Sbjct: 100 DRFEVSREVQFTSFAVPYIVGEIKRFFRDTSWAVHVPRRLQEARTELAKATEELASRLGR 159 Query: 546 EPTPEEIAKKLAMPVEGVRKVLKITKEPIS-----------------LETPIGDEDTSHL 588 P E+A + + E V + +S L IG+ED Sbjct: 160 APRVAELAALMNLSEEEVVEAQVAANGYLSSSLDATISGDSEDSDSTLSEFIGEEDPGL- 218 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + +ED +A++PL +A L R+ +L +RF + T E+GK+ Sbjct: 219 -ELVEDFHALAPL---------------IAELDERQRLILHLRF----VEELTQAEIGKR 258 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ + ++ A+ + +L+ Sbjct: 259 LGISQMHVSRLIARTVARLR 278 >gi|194289649|ref|YP_002005556.1| RNA polymerase sigma 70 (sigma d) factor [Cupriavidus taiwanensis LMG 19424] gi|193223484|emb|CAQ69489.1| RNA polymerase sigma 70 (sigma D) factor [Cupriavidus taiwanensis LMG 19424] Length = 655 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 46/141 (32%), Positives = 71/141 (50%), Gaps = 6/141 (4%) Query: 32 KKMIKLARQRGYVTIEELNAFLPPDEVSSEQMEDTVAMLSNMGINVV----DGDDLEDEE 87 + +I+L RQRGY+T +++ LP + + ME V + MG+ + D + L + Sbjct: 44 RALIQLGRQRGYLTHADISDHLPENFTDTAAMESIVGTFAEMGVKIYEQTPDAETLLLSD 103 Query: 88 GSEDSLDLASSASNSSVFLQKRKDSADRSTDDPVRMYLREMGSIELLSREGEIAIAKRIE 147 G + A + DS T DPVRMY+REM S LL+R+ E+ IAKRIE Sbjct: 104 GP--VVASDEQAEEEAEVALATVDSEFGRTTDPVRMYMREMSSATLLTRKQEVEIAKRIE 161 Query: 148 AGRAMMMASLCESPLTFQALI 168 G M+ ++ P T ++ Sbjct: 162 DGLNNMVHAISACPFTIATIL 182 >gi|302338101|ref|YP_003803307.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Spirochaeta smaragdinae DSM 11293] gi|301635286|gb|ADK80713.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Spirochaeta smaragdinae DSM 11293] Length = 262 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 63/209 (30%), Positives = 107/209 (51%), Gaps = 14/209 (6%) Query: 466 RGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI-RIPVH 524 + ++F DL+ G GL A EKFD KF TYA+ ++ AI D+ +I +P Sbjct: 51 QNVEFDDLVGFGVFGLFDAIEKFDPEKHVKFKTYAVTRIRGAIY----DELRSIDWVPRS 106 Query: 525 MRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV-LKITKEPISLETPI--- 580 +R K ++ T R+ + R + +EIA +L + V +K+ LKI+ + + Sbjct: 107 VRQKAREIEETIHRLEASLGRAASDKEIADELGISVADFQKLMLKISGTSVLSLNDVWYT 166 Query: 581 GDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTD 639 GDE DT + D IE +++P + +R + ++ L +E++VL + + D Sbjct: 167 GDENDTVAIVDGIESPQSLNPDIIIEKEEIRRVIVQAISELPEKEKKVLVLYY----YED 222 Query: 640 HTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 TL+E+GK VT R+ Q+ KAI +L+ Sbjct: 223 LTLKEIGKVLDVTESRVSQLHTKAIMRLR 251 >gi|37525878|ref|NP_929222.1| flagellar biosynthesis sigma factor [Photorhabdus luminescens subsp. laumondii TTO1] gi|36785307|emb|CAE14248.1| RNA polymerase sigma factor for flagellar operon (Sigma-F factor) (Sigma-27) (Sigma-28) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 240 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 54/201 (26%), Positives = 100/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E+FD G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERFDSLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V R++ + R + +E+AK+L + + R++L T DE G+ Sbjct: 100 VTHIIRKLEQDLGRPASEQEVAKELKIDLVEYRQILLDTNNSQLFSY---DEWHEMHGES 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 IE+ + +PL +++++R+ + SL RE+ VL + + +N L+E+G Sbjct: 157 CEPVIEEGHETNPLQQLLESDVRQRVIEAIDSLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V RI Q+ ++AI++L+ Sbjct: 213 VLEVGESRISQLHSQAIKRLR 233 >gi|254422308|ref|ZP_05036026.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] gi|196189797|gb|EDX84761.1| RNA polymerase sigma factor, sigma-70 family [Synechococcus sp. PCC 7335] Length = 259 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/219 (26%), Positives = 107/219 (48%), Gaps = 8/219 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNR-GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +V+ N+ LV A ++ G F DL+Q G++GL+ A E+FD GY FS++A+ + Sbjct: 29 RNRLVQLNIGLVRQEAYRWLGYSGETFDDLMQIGSLGLINAIERFDLEKGYAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ +RIP + ++ + R + N++ R+P E+A +L + VE Sbjct: 89 IRGEIQHYLRDKGTVVRIPRKWQALQNQAAQAIRHLQNELNRKPNDYEVAARLNVTVEEW 148 Query: 564 R--KVLKITKEPISLETPIGDE--DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + K+ + +SL+ PI ++ S LG+ + D S A + +R + L Sbjct: 149 QQVKLASSNRHLLSLDAPIREDRNGASSLGELLPDARYRS-FQLAQEDRIR--LQQALEQ 205 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R VL F + T +++G R+R+ Sbjct: 206 LEKRTREVLEFVFLQDLTQKETAKKLGISSVTVSRRVRK 244 >gi|271964601|ref|YP_003338797.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] gi|270507776|gb|ACZ86054.1| putative RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptosporangium roseum DSM 43021] Length = 258 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 65/246 (26%), Positives = 111/246 (45%), Gaps = 36/246 (14%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E A ++ +VE + L + +A++Y RG DL+Q +GLMKA FD LG+ F Sbjct: 27 EYRAERLRERIVEMHRPLAMEIARRYRYRGEPLEDLLQAAYVGLMKAINGFDPTLGHAFR 86 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 YA+ + + R D++ IR+P +++ ++ R +S + R PT E+A K+ Sbjct: 87 GYAVVTMTGEVKRHFRDRTWAIRVPRVYQERRAELNRLVADLSQDLGRAPTVAELAVKMR 146 Query: 558 MPVEGVRKVLKITKEPISLETP---------------IGDEDTSHLGDFIEDKNAVSPLD 602 + E V L + +L I DED + LG + D+ AV PL Sbjct: 147 ISEEDVLLTLDASAAYSALSLDAPLGADDDAAALGDIIPDEDDA-LGVLV-DREAVKPL- 203 Query: 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK 662 + L RE+ +L +RF M T E+ +F +++ + +I K Sbjct: 204 --------------IDKLPTREKNILLLRFFGNM----TQAEIAAEFGISQMHVSRILRK 245 Query: 663 AIRKLK 668 + +L+ Sbjct: 246 VLDQLR 251 >gi|118443948|ref|YP_877996.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium novyi NT] gi|118134404|gb|ABK61448.1| RNA polymerase sigma factor for flagellar operon fliA [Clostridium novyi NT] Length = 242 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 114/231 (49%), Gaps = 15/231 (6%) Query: 445 KKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 K+E+V+ + LV +A + + ++F DL+ G +GLM A KFD G KFSTYA Sbjct: 10 KEEIVKKYIPLVKYIASRVIIGKTKYIEFEDLLGYGMLGLMDAFNKFDKSKGMKFSTYAS 69 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ ++ I S I DK++K + + EP ++IAK+L M V+ Sbjct: 70 IRIRGSMIDEIRKNSP---ISKGAMDKLNKYNSAIESLQKRNLAEPNIKDIAKELDMTVK 126 Query: 562 GVRKVLKITK--EPISLETPIG--DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 V ++ +SLE I D+D S +G IED N+ +P + E ++ L Sbjct: 127 QVGEIENFINYISIVSLEDLIFSEDDDISLMGT-IEDINSPNPEEEYENDEKLEYLSKGL 185 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL + + + TL+E+GK V+ R+ Q+ ++AI L+ Sbjct: 186 DMLNEKDRTVLSLYY----YEEMTLKEIGKILGVSESRVCQLHSRAIVHLR 232 >gi|302556969|ref|ZP_07309311.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] gi|302474587|gb|EFL37680.1| RNA polymerase sigma factor [Streptomyces griseoflavus Tu4000] Length = 295 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/260 (22%), Positives = 124/260 (47%), Gaps = 40/260 (15%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G E A+ ++E N+ LV A ++ RG D++Q G IGL+KA + Sbjct: 48 FRRLAEL-EEGTREYQYARNTLIEMNMSLVRFAAGRFRGRGDDMDDVVQTGMIGLIKAID 106 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +F+ +F+++A+ ++ I R D + + +P +++ ++ + +++++ RE Sbjct: 107 RFELAREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELAKAREELASRLDRE 166 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPIGDEDTSH----LGDFI------ 592 PT E+A + + VEG ++ SL+ + + + L DFI Sbjct: 167 PTVAELATLMNITEQQVVEG--QIAANGYNSSSLDAALTGDGPEYGEAVLADFIGVEEEG 224 Query: 593 ----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ED ++++PL +A L+PR+ +L +RF + T E+G++ Sbjct: 225 LRLVEDFHSLAPL---------------MAELSPRDREILHLRF----VEEATQAEIGER 265 Query: 649 FCVTRERIRQIEAKAIRKLK 668 ++ + ++ + I +L+ Sbjct: 266 LGCSQMHVSRLIKRIIARLR 285 >gi|302874610|ref|YP_003843243.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] gi|307690779|ref|ZP_07633225.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] gi|302577467|gb|ADL51479.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Clostridium cellulovorans 743B] Length = 241 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 65/228 (28%), Positives = 110/228 (48%), Gaps = 13/228 (5%) Query: 447 EMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 E++ + LV +A + ++ ++F DL+ G +GLM A KFD G KFS+YA Sbjct: 12 EIITKYIPLVKYIASRVIIGKSKHIEFDDLVSNGILGLMDALNKFDESKGMKFSSYASIR 71 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 +K A+ + S IP DK+++ + N + REPT +EIA ++A+ + V Sbjct: 72 IKGAMIDELRRNS---PIPKGAMDKLNRYNSAIDSLRNTLLREPTVDEIACEMAIDIADV 128 Query: 564 RKVLKITK--EPISLETPIGDEDTSH-LGDFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 ++ +SLE I ED L I+D + SP E + + L Sbjct: 129 IEIENHINYLSVVSLEELIYSEDDDMPLIGTIKDNKSPSPEKDLEDKEKMEYLAKAIELL 188 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +++ VL + + G+ TL+E+GK V+ R+ Q+ +AI L+ Sbjct: 189 NEKDKLVLNLYYYEGL----TLKEIGKILEVSESRVCQLHTRAIAHLR 232 >gi|256379908|ref|YP_003103568.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Actinosynnema mirum DSM 43827] gi|255924211|gb|ACU39722.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Actinosynnema mirum DSM 43827] Length = 272 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/205 (28%), Positives = 101/205 (49%), Gaps = 16/205 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G GL+ A EKF+ G KF TYAM ++ AI + Q +P +R + Sbjct: 67 DLIQSGIFGLVDAIEKFEPERGLKFETYAMQRIRGAILDDLRSQDW---VPRSVRSRARD 123 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKV---LKITKEPISLETPI-----GDE 583 V R R+ +++R PT E+A +L + + +R++ ++T ++L+ I Sbjct: 124 VERALERLGGRLQRTPTDRELAAELKIGLGELRELYAQFQLTS-VVALDELIAAGRAAGS 182 Query: 584 DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLE 643 S L + + D+ A P+ S + + R +A L R+ V+ + + + TL Sbjct: 183 AGSSLAESLPDEGAEDPVASLVDQDSRRQLADAIAQLAERDRVVVTLYY----FENLTLA 238 Query: 644 EVGKQFCVTRERIRQIEAKAIRKLK 668 E+GK VT R+ Q+ +A+ +L+ Sbjct: 239 EIGKVLGVTESRVCQLHTRAVLRLR 263 >gi|297200782|ref|ZP_06918179.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] gi|197712352|gb|EDY56386.1| RNA polymerase sigma-E factor [Streptomyces sviceus ATCC 29083] Length = 285 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 115/241 (47%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + + ++EANL LV A ++ +R D+IQ G IGL+ A ++FD G Sbjct: 51 LQPGTPEHNRVRTALIEANLPLVRYAAARFRSRNEPMEDVIQVGTIGLINAIDRFDPDRG 110 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM V I R D T+ +P + + +V ++ R PT EIA Sbjct: 111 VQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNGATEDLTTAFGRTPTTAEIA 170 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++L + + V ++ + SLE ++ L ++ P ++ R+ Sbjct: 171 QRLRITEDEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RD 225 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ + Sbjct: 226 LVRHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSAN 281 Query: 672 R 672 R Sbjct: 282 R 282 >gi|328880523|emb|CCA53762.1| RNA polymerase sigma factor SigB [Streptomyces venezuelae ATCC 10712] Length = 325 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 59/249 (23%), Positives = 124/249 (49%), Gaps = 10/249 (4%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S + F + S+ +G S + +VE NL LV A ++ + + DL+Q G +GL Sbjct: 49 LSTALFERLRSL-EEGTASYSYVRNTLVELNLSLVKYAATRFRHSSENWEDLVQVGTVGL 107 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA +FD G +F ++A+ V I R + D S ++ +P +++ V + + Sbjct: 108 IKAINRFDPARGNEFMSFALPTVLGEIRRHLRDTSWSVHVPRRLQELRLDVAKANDALEQ 167 Query: 542 KIKREPTPEEIAKKLAMPVEGVR--KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 ++ R PT E++ +L + + +R ++ SL+ P+ DED G + + S Sbjct: 168 ELGRPPTAAELSDRLHITEDELREGRIAANGFASRSLDVPVDDEDA---GPGMLARCLGS 224 Query: 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 D+ + E ++A+L+ R+ +L +RFG + T E+G++ +++ + ++ Sbjct: 225 DDDAFEKVLNLEALKPLVAALSERDRTILALRFG----GELTQAEIGERLGLSQMHVSRL 280 Query: 660 EAKAIRKLK 668 ++ + L+ Sbjct: 281 LSRILGGLR 289 >gi|228919826|ref|ZP_04083184.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228839842|gb|EEM85125.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 224 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 57/234 (24%), Positives = 111/234 (47%), Gaps = 24/234 (10%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV LV S+A +Y+ G D+IQ G +GL+ A ++D+ +G F +A+ + Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + + D++ I +P ++D K+ ++++++R P EIA L + E V +++ Sbjct: 61 IKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRLQRSPKIIEIADHLGLSEEEVLEIM 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA--IQANLRETTTR-----VL 617 + S L D +E D ++V+ ++S ++ ET R + Sbjct: 121 DAKN----------NYRVSSLDDVVENSSDGSSVARIESVGEVEQGYEETERRLVLKDIF 170 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 L E+ V+ FG +N T G++ +++ + +I+ +AI KLK + Sbjct: 171 NVLNETEKSVIHYIFGENLNQKDT----GERLGISQMHVSRIKRQAISKLKQAA 220 >gi|21222438|ref|NP_628217.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] gi|585925|sp|P37971|RPOF_STRCO RecName: Full=RNA polymerase sigma-F factor gi|153455|gb|AAA93052.1| sigma factor [Streptomyces coelicolor A3(2)] gi|13122128|emb|CAC32306.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)] Length = 287 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 112/238 (47%), Gaps = 11/238 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G +F Sbjct: 56 GTPEHDRVRAALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQF 115 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 T+AM V I R D T+ +P + + +V ++ R PT EIA++L Sbjct: 116 PTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIAERL 175 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 176 RITEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RDLVR 230 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ +R Sbjct: 231 HLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSANR 284 >gi|168186139|ref|ZP_02620774.1| RNA polymerase sigma-D factor [Clostridium botulinum C str. Eklund] gi|169295860|gb|EDS77993.1| RNA polymerase sigma-D factor [Clostridium botulinum C str. Eklund] Length = 242 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 68/231 (29%), Positives = 113/231 (48%), Gaps = 15/231 (6%) Query: 445 KKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAM 501 K+E+V+ + LV +A + + ++F DL+ G +GLM A KFD G KFSTYA Sbjct: 10 KEEIVKKYIPLVKYIASRVIIGKTKYIEFEDLLGYGMLGLMDAFNKFDKSKGMKFSTYAS 69 Query: 502 WWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ ++ I S I DK++K + K EP ++IA++L M V Sbjct: 70 IRIRGSMIDEIRKNSP---ISKGAMDKLNKYNAAIENLQRKNLSEPNIKDIAQELDMTVS 126 Query: 562 GVRKVLKITK--EPISLETPI--GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVL 617 V ++ +SLE I D+D S +G IED N+ P + + E ++ L Sbjct: 127 QVGEIENFINYISIVSLEDLIFSDDDDISLIGT-IEDINSPDPEEEFERDEKLEYLSKGL 185 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L ++ VL + + + TL+E+GK V+ R+ Q+ ++AI L+ Sbjct: 186 DMLNDKDRTVLSLYY----YEEMTLKEIGKVLGVSESRVCQLHSRAIVHLR 232 >gi|294630217|ref|ZP_06708777.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] gi|292833550|gb|EFF91899.1| RNA polymerase sigma-F factor [Streptomyces sp. e14] Length = 314 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 113/238 (47%), Gaps = 11/238 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G +F Sbjct: 83 GTSEHARVRGALIEANLPLVRYAAGRFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQF 142 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 T+AM V I R D T+ +P + + +V ++ R PT EIA++L Sbjct: 143 PTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIAERL 202 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 203 RITEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RDLVR 257 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ +R Sbjct: 258 HLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSANR 311 >gi|291278833|ref|YP_003495668.1| RNA polymerase sigma factor for flagellar operon FliA [Deferribacter desulfuricans SSM1] gi|290753535|dbj|BAI79912.1| RNA polymerase sigma factor for flagellar operon FliA [Deferribacter desulfuricans SSM1] Length = 243 Score = 72.4 bits (176), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 52/192 (27%), Positives = 100/192 (52%), Gaps = 10/192 (5%) Query: 479 IGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARR 538 G ++A +++D F YA VK AI + R ++R KI + R Sbjct: 53 FGFVEALKRYDKSRNIDFKYYAEKRVKGAILDVLRKMDILSR---NVRTKIKDLEDKIAR 109 Query: 539 MSNKIKREPTPEEIAKKLAMPVEGVRKVLKI--TKEPISLETPIGDEDTSHLGDFIEDKN 596 +S+K+ R+P P EIAK+ + ++ V K+L++ + +SL+ G++D+S L +FI+ + Sbjct: 110 LSSKLGRKPHPSEIAKEYNLDIDEVNKLLELLENSDQVSLDITFGEDDSSSLINFIKS-D 168 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 ++P +S + L E + + L +E V+ + + D T++E+G ++ R+ Sbjct: 169 ILTPEESIEKKELIEVLGKEIEKLNEKERLVITLYYY----EDLTMKEIGSVLGISESRV 224 Query: 657 RQIEAKAIRKLK 668 Q+ A++KLK Sbjct: 225 SQLHNSAVKKLK 236 >gi|210624023|ref|ZP_03294140.1| hypothetical protein CLOHIR_02092 [Clostridium hiranonis DSM 13275] gi|210153230|gb|EEA84236.1| hypothetical protein CLOHIR_02092 [Clostridium hiranonis DSM 13275] Length = 255 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/223 (22%), Positives = 112/223 (50%), Gaps = 9/223 (4%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 ++E +L L +AKKY N+G+ + D+ Q ++ L+ A +++D G++FS++A + Sbjct: 34 LIERHLYLARILAKKYINKGVDYEDIYQVASLALIYAIDRYDISKGFEFSSFATPTIIGE 93 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + D+ T+R+P +++ K+ + + KR P+ ++IA+ + E V + + Sbjct: 94 IKKYFRDKVWTMRVPRRIQELSKKISNAKIAIEQEKKRHPSVKDIAEYIGCREEDVLEAM 153 Query: 568 K--ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREE 625 + + +P+SL+ GD+ L + D+ V D ++ R + +L E Sbjct: 154 EASYSYQPVSLDASSGDDSEDDLT--LSDRVGVEEKDFG-NIEQKDFLNRFMQTLNELEV 210 Query: 626 RVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++L RF + T + + +++ + ++E K + KL+ Sbjct: 211 KILEDRFF----HNKTQSVIATELNISQMTVSRLEKKVVEKLR 249 >gi|291436144|ref|ZP_06575534.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291339039|gb|EFE65995.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 282 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 105/215 (48%), Gaps = 12/215 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+VEA L + +A ++ +RG F DL Q +GL+KA +++D LG F +YA+ + Sbjct: 53 RGEIVEAWLPMADRLAGRFRSRGESFDDLRQVAALGLVKAVDRYDPELGNAFESYAVPTI 112 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS-NKIKREPTPEEIAKKLAMPVEGV 563 I R D T+ +P +++ ++V ++ +S + R PT EIA+ + E V Sbjct: 113 TGEIKRHFRDHMWTLHVPRRVQELRNRVRSASQDLSLSGSGRPPTVAEIAEHADLSEEDV 172 Query: 564 R----KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 R + T + E GD+ S LGD + + LD+ + RE LA+ Sbjct: 173 RTGQGALDSFTALSLDAELTSGDDGYS-LGDTLGAPDPA--LDTVVD---REAVRERLAA 226 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 L RE+ +L MRF M E+G Q V+R Sbjct: 227 LPEREQAILYMRFFGDMTQSSIAAELGISQMHVSR 261 >gi|75761672|ref|ZP_00741618.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74490828|gb|EAO54098.1| RNA polymerase sigma-B factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 258 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 58/252 (23%), Positives = 121/252 (48%), Gaps = 26/252 (10%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 +++ ++ +C A++ +V+ LV S+A +Y+ G D+IQ G +GL+ A ++D Sbjct: 19 LIAEFQQNQCNE--AQERLVDHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYD 76 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 + +G F +A+ + I + + D++ I +P ++D K+ +++ ++R P Sbjct: 77 YSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKI 136 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA-- 604 EIA L + E V +++ + S L D +E D ++V+ ++S Sbjct: 137 IEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENSSDGSSVARIESVGE 186 Query: 605 IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 ++ +T R + L E+ V+ FG +N T E +G +++ + +I Sbjct: 187 VEQGYEQTERRLVLEDIFNVLNDMEKSVIHYIFGENLNQKDTRERLG----ISQMHVSRI 242 Query: 660 EAKAIRKLKHPS 671 + +AI KLK + Sbjct: 243 KRQAISKLKQAA 254 >gi|256786488|ref|ZP_05524919.1| RNA polymerase sigma factor [Streptomyces lividans TK24] Length = 291 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 112/238 (47%), Gaps = 11/238 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G +F Sbjct: 60 GTPEHDRVRAALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQF 119 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 T+AM V I R D T+ +P + + +V ++ R PT EIA++L Sbjct: 120 PTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIAERL 179 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 180 RITEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RDLVR 234 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ +R Sbjct: 235 HLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSANR 288 >gi|223043961|ref|ZP_03614002.1| RNA polymerase sigma-B factor [Staphylococcus capitis SK14] gi|314934140|ref|ZP_07841501.1| RNA polymerase sigma-B factor [Staphylococcus caprae C87] gi|222442676|gb|EEE48780.1| RNA polymerase sigma-B factor [Staphylococcus capitis SK14] gi|313653045|gb|EFS16806.1| RNA polymerase sigma-B factor [Staphylococcus caprae C87] Length = 256 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/242 (23%), Positives = 123/242 (50%), Gaps = 18/242 (7%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENENSQAQDKLVTHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKISDELTNELERSPSISEIAQRLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VSDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L L+ RE ++++ F G++ T E +G +++ + +++ AI+KL+ Sbjct: 198 MILERILPILSDRERQIIQCTFIEGLSQKETGERIG----LSQMHVSRLQRTAIKKLQEA 253 Query: 671 SR 672 ++ Sbjct: 254 AK 255 >gi|47569335|ref|ZP_00240019.1| RNA polymerase sigma-K factor [Bacillus cereus G9241] gi|228967406|ref|ZP_04128439.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar sotto str. T04001] gi|47554006|gb|EAL12373.1| RNA polymerase sigma-K factor [Bacillus cereus G9241] gi|228792294|gb|EEM39863.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar sotto str. T04001] Length = 228 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 27 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 83 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 84 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 109 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 110 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 151 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 152 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 211 Query: 666 KLKH 669 K+ H Sbjct: 212 KMFH 215 >gi|206975995|ref|ZP_03236905.1| RNA polymerase sigma-27 factor [Bacillus cereus H3081.97] gi|206745747|gb|EDZ57144.1| RNA polymerase sigma-27 factor [Bacillus cereus H3081.97] Length = 237 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 36 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 92 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 93 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 118 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 119 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 160 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 161 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEETQREIAKALGISRSYVSRIEKRALM 220 Query: 666 KLKH 669 K+ H Sbjct: 221 KMFH 224 >gi|149183717|ref|ZP_01862127.1| sigma factor B [Bacillus sp. SG-1] gi|148848576|gb|EDL62816.1| sigma factor B [Bacillus sp. SG-1] Length = 265 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 54/216 (25%), Positives = 113/216 (52%), Gaps = 8/216 (3%) Query: 455 LVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIA 513 LVIS+A+KY+ +G F D++Q G IGL+ A ++D G F +A+ + I R + Sbjct: 41 LVISIARKYS-KGKSFHEDIVQVGMIGLLGAIRRYDDSFGKTFEAFAIPTIVGEIKRFLR 99 Query: 514 DQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 D++ ++ +P +++ K+ T ++N ++R P EEIA + + E V + +++ K Sbjct: 100 DKTWSVHVPRRIKELGPKIKSTVEELTNTLERSPKVEEIADYIGVTEEEVLEAMEMGKSY 159 Query: 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLASLTPREERVLRMRF 632 +L E S G + + V +D + N + +VL L+ RE +++ + Sbjct: 160 QALSVDHSIEADSE-GSTVTLLDIVGNVDEGYERINQKLVLEKVLHVLSERERLIIQYTY 218 Query: 633 GIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 ++ ++ G++ +++ + +++ +AI+KLK Sbjct: 219 LDNLSQ----KDAGEKLGISQMHVSRLQRRAIKKLK 250 >gi|259908158|ref|YP_002648514.1| flagellar biosynthesis sigma factor [Erwinia pyrifoliae Ep1/96] gi|224963780|emb|CAX55281.1| RNA polymerase sigma factor for flagellar operon [Erwinia pyrifoliae Ep1/96] gi|283478078|emb|CAY73994.1| RNA polymerase sigma factor FliA/RpoD [Erwinia pyrifoliae DSM 12163] gi|310767931|gb|ADP12881.1| flagellar biosynthesis sigma factor [Erwinia sp. Ejp617] Length = 240 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 95/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V ++ + R T +E+A +L +P+E R++L T DE GD Sbjct: 100 VAGAMHQVEQALGRTATEQEVAAQLDVPLEEYRQILLDTNNSQLFSF---DEYREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ +LR+ + L RE+ VL + + +N L+E+G Sbjct: 157 AELVTEGHEQENPLHQLLEGDLRDRVIEAIDGLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|225181587|ref|ZP_03735028.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiobacter alkaliphilus AHT 1] gi|225167695|gb|EEG76505.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Dethiobacter alkaliphilus AHT 1] Length = 239 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 55/197 (27%), Positives = 102/197 (51%), Gaps = 12/197 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G +GL++A ++FD G KF ++A ++ A+ + + C +P + ++ + Sbjct: 49 DLLQAGMLGLLEALQRFDPTRGVKFESFAALRIRGAMLDEL-RRLCW--VPRSVVREMRE 105 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + R + ++ ++ REP EEIA+K+ + + +RK+ + I+ + + EDT L Sbjct: 106 MDRAVQELATQLGREPAEEEIAEKMGITIPQLRKITGM----INSSSLLSLEDTL-LAVP 160 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 D V LD I A R+ + L R +++L + + D TL+EVG V Sbjct: 161 AVDGPEVEALDRLIAAEDRQRLAEAIGQLPERHQQLLALYY----QEDLTLKEVGLVLGV 216 Query: 652 TRERIRQIEAKAIRKLK 668 T R+ Q+ A+ I +L+ Sbjct: 217 TESRVCQLHARIIARLR 233 >gi|331007677|ref|ZP_08330813.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC1989] gi|330418520|gb|EGG93050.1| RNA polymerase sigma factor RpoH [gamma proteobacterium IMCC1989] Length = 288 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 115/236 (48%), Gaps = 16/236 (6%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A + +V A+LR V+ +AK Y GL DLIQEGN+GLMKA ++F+ G + ++A+ W Sbjct: 50 AARGLVMAHLRFVVHIAKSYAGYGLSQSDLIQEGNVGLMKAVKRFNPEKGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 +K + I +++ R + +R+ E T +A L + V+ Sbjct: 110 IKAEMHEFILRNWRIVKVATTKAQRKLFFNLRGQKKRLGWLSYDEATA--VAADLNVEVK 167 Query: 562 GVR----KVLKITKEPISLETPIGDEDTSHLGDFIEDK--NAVSPLDSAIQANLRETTTR 615 V ++ + + +++ED N L+++ ++ + R Sbjct: 168 HVHEMESRLSAYDASFDADNDDDDESAYKAPANYLEDHRYNPAQELEASDWSDDNASRLR 227 Query: 616 V-LASLTPREERVLRMRFGIGMNTDH--TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 LA+L R + +++ R+ +N D+ TL E+ +F V+ ERIRQ+E A++K+K Sbjct: 228 TALATLDERSQVIIQRRW---LNDDNKSTLHELAAEFGVSAERIRQLEKNAMKKVK 280 >gi|319893019|ref|YP_004149894.1| RNA polymerase sigma factor SigB [Staphylococcus pseudintermedius HKU10-03] gi|317162715|gb|ADV06258.1| RNA polymerase sigma factor SigB [Staphylococcus pseudintermedius HKU10-03] Length = 256 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 56/236 (23%), Positives = 120/236 (50%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF + + Sbjct: 31 AQEKLVKHYEKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFEAFLVPT 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V I R + D++ ++ +P +++ ++ + + ++N++ R P+ EIA++L + E V Sbjct: 91 VIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELGRSPSISEIAERLEVSDEDV 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LRETTTRV 616 + +++ + +L H + +D + V+ LD Q + R R+ Sbjct: 151 LEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQHDDNYELTEKRMILERI 203 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L LT RE +++ F G++ T E +G +++ + +++ AI+KL+ +R Sbjct: 204 LPILTDREREIIQCTFIDGLSQKETGERIG----LSQMHVSRLQRTAIKKLQEAAR 255 >gi|302552549|ref|ZP_07304891.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] gi|302470167|gb|EFL33260.1| RNA polymerase sigma-B factor [Streptomyces viridochromogenes DSM 40736] Length = 289 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/241 (23%), Positives = 114/241 (47%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G Sbjct: 55 LQPGTSEHDRVRGALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRG 114 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM V I R D T+ +P + + +V ++ R PT EIA Sbjct: 115 VQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTSFGRTPTTAEIA 174 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++L + + V ++ + SLE ++ L ++ P ++ R+ Sbjct: 175 ERLRITEDEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RD 229 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ + Sbjct: 230 LVRHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSAN 285 Query: 672 R 672 R Sbjct: 286 R 286 >gi|297156863|gb|ADI06575.1| RNA polymerase sigma factor WhiG [Streptomyces bingchenggensis BCW-1] Length = 277 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 58/207 (28%), Positives = 97/207 (46%), Gaps = 21/207 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 D + G GL+ A EKFD KF TYA+ ++ A+ I + IP +R K Sbjct: 74 DFVSSGVFGLIDAIEKFDPERAIKFETYAITRIRGAM---IDELRALDWIPRSVRQKARA 130 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---- 587 V R + ++R P+ E+A ++ + ++ + V +SL + ED H Sbjct: 131 VERAYATLEAALRRTPSEAEVAAEMDIGLDELHGVFS----QLSLANVVALEDLLHASGE 186 Query: 588 ------LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 L D +ED A +P++ A LR R + +L RE+ V+ + + G+ T Sbjct: 187 GGERLSLMDTLEDTAADNPVEVAEDRELRRLLARAINTLPEREKTVVTLYYYEGL----T 242 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L E+G+ VT R+ QI K++ +L+ Sbjct: 243 LAEIGQVLGVTESRVSQIHTKSVLQLR 269 >gi|292488613|ref|YP_003531497.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora CFBP1430] gi|292899773|ref|YP_003539142.1| RNA polymerase sigma factor for flagellar operon (sigma-F factor) [Erwinia amylovora ATCC 49946] gi|291199621|emb|CBJ46740.1| RNA polymerase sigma factor for flagellar operon (sigma-F factor) [Erwinia amylovora ATCC 49946] gi|291554044|emb|CBA21132.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora CFBP1430] gi|312172755|emb|CBX81011.1| RNA polymerase sigma factor FliA/RpoD [Erwinia amylovora ATCC BAA-2158] Length = 240 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 95/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDAMQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V ++ + R T +E+A +L +P+E R++L T DE GD Sbjct: 100 VAGAMHQVEQALGRTATEQEVAAQLDVPLEEYRQILLDTNNSQLFSF---DEYREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ +LR+ + L RE+ VL + + +N L+E+G Sbjct: 157 AELVTEGHEQENPLHQLLEGDLRDRVIEAIDGLPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|289770379|ref|ZP_06529757.1| transcription initiation factor sigma F [Streptomyces lividans TK24] gi|289700578|gb|EFD68007.1| transcription initiation factor sigma F [Streptomyces lividans TK24] Length = 287 Score = 72.4 bits (176), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 112/238 (47%), Gaps = 11/238 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G +F Sbjct: 56 GTPEHDRVRAALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQF 115 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 T+AM V I R D T+ +P + + +V ++ R PT EIA++L Sbjct: 116 PTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIAERL 175 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 176 RITEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RDLVR 230 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ +R Sbjct: 231 HLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSANR 284 >gi|294636855|ref|ZP_06715188.1| flagellar biosynthesis sigma factor FliA [Edwardsiella tarda ATCC 23685] gi|291089930|gb|EFE22491.1| flagellar biosynthesis sigma factor FliA [Edwardsiella tarda ATCC 23685] Length = 240 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 59/232 (25%), Positives = 113/232 (48%), Gaps = 23/232 (9%) Query: 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 A + + E + +RL SV + DL+Q G IGL+ A E++D G F+TYA Sbjct: 21 APLVRHEALRLQVRLPASV---------ELDDLLQAGGIGLLHAVERYDAMQGTAFTTYA 71 Query: 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPV 560 + ++ A+ + + +P +R V +R ++ R P+ EIA+++ +P+ Sbjct: 72 IQRIRGAMLDELRSRDW---VPRSVRRNARGVSAAMQRAEQRLGRVPSDGEIAQEMGIPL 128 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIE----DKNAVSPLDSAIQANLRETTTRV 616 +++L T S + DE GD E ++ + +PL ++++LR Sbjct: 129 AEYQQILLDTN---SSQLFSYDEWREEHGDNAEPVWGEEESANPLRQLLESDLRGRVIAA 185 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L RE+ VL + + +N L+E+G V R+ Q+ ++AI++L+ Sbjct: 186 IEALPEREKLVLTLYYQEELN----LKEIGAVLEVGESRVSQLHSQAIKRLR 233 >gi|291617817|ref|YP_003520559.1| FliA [Pantoea ananatis LMG 20103] gi|291152847|gb|ADD77431.1| FliA [Pantoea ananatis LMG 20103] Length = 240 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 52/201 (25%), Positives = 96/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V ++ + R + +E+A++L + +E R++L T DE GD Sbjct: 100 VAGAMHQVEQMLGRAASEQEVAQQLNVSIEEYRQILLDTNNSQLFSY---DEYREEHGDS 156 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ +LRE + +L RE+ VL + + +N L+E+G Sbjct: 157 AELVTEGHEEANPLHQLMEGSLRERVIEAIEALPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLDVGESRVSQLHSQAIKRLR 233 >gi|238784716|ref|ZP_04628720.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] gi|238714395|gb|EEQ06403.1| RNA polymerase sigma factor for flagellar operon [Yersinia bercovieri ATCC 43970] Length = 240 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 50/198 (25%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+AK L + + R++L T +E + Sbjct: 100 VASAMQQVEQRVGRPATEQEVAKILDIDLAEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|242371561|ref|ZP_04817135.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis M23864:W1] gi|242350713|gb|EES42314.1| DNA-directed RNA polymerase sigma subunit FliA [Staphylococcus epidermidis M23864:W1] Length = 256 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/242 (23%), Positives = 123/242 (50%), Gaps = 18/242 (7%) Query: 438 ECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFS 497 E E S A+ ++V +L+ S+A KY+ DL+Q G +GL+ A +FD KF Sbjct: 25 ENENSQAQDKLVTHYRKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFE 84 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 + + V I R + D++ ++ +P +++ ++ + + ++N+++R P+ EIA++L Sbjct: 85 AFLVPTVIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELERSPSINEIAERLE 144 Query: 558 MPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LR 610 + E V + +++ + +L H + +D + V+ LD Q + R Sbjct: 145 VTDEEVLEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQQDDNYDLTEKR 197 Query: 611 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHP 670 R+L L+ RE ++++ F G++ T E +G +++ + +++ AI+KL+ Sbjct: 198 MILERILPILSDRERQIIQCTFIEGLSQKETGERIG----LSQMHVSRLQRTAIKKLQEA 253 Query: 671 SR 672 ++ Sbjct: 254 AK 255 >gi|225019367|ref|ZP_03708559.1| hypothetical protein CLOSTMETH_03320 [Clostridium methylpentosum DSM 5476] gi|224947998|gb|EEG29207.1| hypothetical protein CLOSTMETH_03320 [Clostridium methylpentosum DSM 5476] Length = 221 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 43/131 (32%), Positives = 71/131 (54%), Gaps = 1/131 (0%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 V+ NL LV S A ++T +G+++ DL G +GL+KA + FD G KFSTYA+ + Sbjct: 11 FVKQNLGLVHSCAHRFTGKGIEYDDLFSAGCMGLVKATDAFDEDRGVKFSTYAVPVILGE 70 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I R D ++++ +++ + + R K REPT E+A L + E + L Sbjct: 71 IRRLFRD-GGSVKVSRSLKELSMRATKERERFMLKTGREPTVSELADLLEVTPEQAIEAL 129 Query: 568 KITKEPISLET 578 +++ P+SL T Sbjct: 130 EVSVPPMSLTT 140 >gi|194014777|ref|ZP_03053394.1| RNA polymerase sigma-D factor (Sigma-28) [Bacillus pumilus ATCC 7061] gi|194013803|gb|EDW23368.1| RNA polymerase sigma-D factor (Sigma-28) [Bacillus pumilus ATCC 7061] Length = 255 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 57/201 (28%), Positives = 98/201 (48%), Gaps = 10/201 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL A EKFD KF TYA + ++ AI + + +P R+K K Sbjct: 54 DLISLGMLGLYDALEKFDPGRDLKFDTYASFRIRGAIIDGLRKEDW---LPRTSREKTKK 110 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLETPIGD-EDTSHL 588 V ++ + R TP E+A++L M + V + +S++ + D ED ++ Sbjct: 111 VEAAIEKLEQRYLRNVTPTEVAEELGMSEQDVVTTMNEGFFANLLSIDEKLHDQEDGENV 170 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 I D+ V+P + ++ L E + L+ +E+ V+ + + + TL E+G Sbjct: 171 QVMIRDEKTVTPEEKMLKDELIEQLAEKMTELSEKEKLVISLFY----KEELTLTEIGHV 226 Query: 649 FCVTRERIRQIEAKAIRKLKH 669 ++ RI QI +KA+ KLK+ Sbjct: 227 LNLSTSRISQIHSKALFKLKY 247 >gi|107099361|ref|ZP_01363279.1| hypothetical protein PaerPA_01000373 [Pseudomonas aeruginosa PACS2] Length = 274 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 120/237 (50%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 40 AARQMVLAHLRFVVHIAKSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 99 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 100 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 158 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDK--NAVSPLDSA-----IQANLRE 611 VR++ ++T + ++ + +D S ++ED + L+ A ANL E Sbjct: 159 VREMESRLTGQDMAFDPAADADDESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHE 218 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L+ R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 219 A----LEGLDERSRDILQQRW--LSEEKATLHDLAEKYNVSAERIRQLEKNAMSKLK 269 >gi|330959578|gb|EGH59838.1| putative RNA polymerase sigma factor [Pseudomonas syringae pv. maculicola str. ES4326] Length = 532 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 61/200 (30%), Positives = 108/200 (54%), Gaps = 19/200 (9%) Query: 477 GNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTA 536 N+GL +A +F +G++FST A+ W+ +I+R +ADQ +IR+P M HK Sbjct: 329 ANMGLTRAVYRFAPEMGFRFSTIALTWINVSISRDLADQE-SIRLPEGM----HK----H 379 Query: 537 RRM-SNKIKREP--TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---LGD 590 RRM +N ++ P + + +A+ + + VR ++ S++T D+S L + Sbjct: 380 RRMIANMLRDHPNVSIKTLAEATKLEQDVVRDLVHFAGGQRSIDTAFQGTDSSEADGLHE 439 Query: 591 FIEDKNAVSPLDSAIQAN-LRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + D N + S I+ + +R+ L LT RE VL RFG+G + TL E+ + Sbjct: 440 LLADTN--NDFISEIEDDSMRQFVESALGDVLTQREIFVLVNRFGMGDAREKTLAELSIE 497 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +++ER+RQ+E +A+ K++ Sbjct: 498 MKLSKERVRQLEIQALGKIR 517 >gi|30264411|ref|NP_846788.1| sporulation sigma factor SigK [Bacillus anthracis str. Ames] gi|47529862|ref|YP_021211.1| sporulation sigma factor SigK [Bacillus anthracis str. 'Ames Ancestor'] gi|49187232|ref|YP_030484.1| sporulation sigma factor SigK [Bacillus anthracis str. Sterne] gi|49481469|ref|YP_038392.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52141167|ref|YP_085663.1| sporulation sigma factor SigK [Bacillus cereus E33L] gi|163942095|ref|YP_001646979.1| sporulation sigma factor SigK [Bacillus weihenstephanensis KBAB4] gi|165873242|ref|ZP_02217852.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0488] gi|167634588|ref|ZP_02392908.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0442] gi|167638535|ref|ZP_02396811.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0193] gi|170687349|ref|ZP_02878566.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0465] gi|170707389|ref|ZP_02897843.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0389] gi|177653302|ref|ZP_02935554.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0174] gi|190566875|ref|ZP_03019791.1| RNA polymerase sigma-27 factor [Bacillus anthracis Tsiankovskii-I] gi|196034403|ref|ZP_03101812.1| RNA polymerase sigma-27 factor [Bacillus cereus W] gi|196039171|ref|ZP_03106477.1| RNA polymerase sigma-27 factor [Bacillus cereus NVH0597-99] gi|196044956|ref|ZP_03112190.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB108] gi|206969450|ref|ZP_03230404.1| RNA polymerase sigma-27 factor [Bacillus cereus AH1134] gi|217961829|ref|YP_002340399.1| sporulation sigma factor SigK [Bacillus cereus AH187] gi|218231149|ref|YP_002369149.1| sporulation sigma factor SigK [Bacillus cereus B4264] gi|218899507|ref|YP_002447918.1| RNA polymerase sigma-27 factor [Bacillus cereus G9842] gi|225866320|ref|YP_002751698.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB102] gi|227817116|ref|YP_002817125.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. CDC 684] gi|229603939|ref|YP_002868629.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0248] gi|254684096|ref|ZP_05147956.1| sporulation sigma factor SigK [Bacillus anthracis str. CNEVA-9066] gi|254721930|ref|ZP_05183719.1| sporulation sigma factor SigK [Bacillus anthracis str. A1055] gi|254736444|ref|ZP_05194150.1| sporulation sigma factor SigK [Bacillus anthracis str. Western North America USA6153] gi|254741481|ref|ZP_05199168.1| sporulation sigma factor SigK [Bacillus anthracis str. Kruger B] gi|254750920|ref|ZP_05202959.1| sporulation sigma factor SigK [Bacillus anthracis str. Vollum] gi|254757752|ref|ZP_05209779.1| sporulation sigma factor SigK [Bacillus anthracis str. Australia 94] gi|300118668|ref|ZP_07056396.1| sporulation sigma factor SigK [Bacillus cereus SJ1] gi|49065844|sp|P62180|RP28_BACCR RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|49065845|sp|P62181|RP28_BACTK RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|49065846|sp|P62182|RP28_BACAN RecName: Full=RNA polymerase sigma-28 factor; Flags: Precursor gi|580953|emb|CAA40024.1| sigma factor 28 [Bacillus thuringiensis serovar kurstaki] gi|19918928|gb|AAL99379.1| sigma factor 28 [Bacillus thuringiensis serovar israelensis] gi|30259069|gb|AAP28274.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. Ames] gi|47505010|gb|AAT33686.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. 'Ames Ancestor'] gi|49181159|gb|AAT56535.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. Sterne] gi|49333025|gb|AAT63671.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51974636|gb|AAU16186.1| RNA polymerase sigma-28 factor [Bacillus cereus E33L] gi|163864292|gb|ABY45351.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus weihenstephanensis KBAB4] gi|164711001|gb|EDR16568.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0488] gi|167513383|gb|EDR88753.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0193] gi|167530040|gb|EDR92775.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0442] gi|170127633|gb|EDS96506.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0389] gi|170668544|gb|EDT19290.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0465] gi|172081584|gb|EDT66656.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0174] gi|190561866|gb|EDV15835.1| RNA polymerase sigma-27 factor [Bacillus anthracis Tsiankovskii-I] gi|195992945|gb|EDX56904.1| RNA polymerase sigma-27 factor [Bacillus cereus W] gi|196024444|gb|EDX63117.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB108] gi|196029798|gb|EDX68399.1| RNA polymerase sigma-27 factor [Bacillus cereus NVH0597-99] gi|206735138|gb|EDZ52306.1| RNA polymerase sigma-27 factor [Bacillus cereus AH1134] gi|217066768|gb|ACJ81018.1| RNA polymerase sigma-27 factor [Bacillus cereus AH187] gi|218159106|gb|ACK59098.1| RNA polymerase sigma-27 factor [Bacillus cereus B4264] gi|218543613|gb|ACK96007.1| RNA polymerase sigma-27 factor [Bacillus cereus G9842] gi|225788740|gb|ACO28957.1| RNA polymerase sigma-27 factor [Bacillus cereus 03BB102] gi|227007199|gb|ACP16942.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. CDC 684] gi|229268347|gb|ACQ49984.1| RNA polymerase sigma-27 factor [Bacillus anthracis str. A0248] gi|298723917|gb|EFI64631.1| sporulation sigma factor SigK [Bacillus cereus SJ1] gi|324328243|gb|ADY23503.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar finitimus YBT-020] gi|326942122|gb|AEA18018.1| sporulation sigma factor SigK [Bacillus thuringiensis serovar chinensis CT-43] Length = 237 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 36 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 92 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 93 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 118 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 119 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 160 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 161 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 220 Query: 666 KLKH 669 K+ H Sbjct: 221 KMFH 224 >gi|118618107|ref|YP_906439.1| RNA polymerase sigma factor SigF [Mycobacterium ulcerans Agy99] gi|183981270|ref|YP_001849561.1| alternate RNA polymerase sigma factor SigF [Mycobacterium marinum M] gi|118570217|gb|ABL04968.1| alternate RNA polymerase sigma factor SigF [Mycobacterium ulcerans Agy99] gi|183174596|gb|ACC39706.1| alternate RNA polymerase sigma factor SigF [Mycobacterium marinum M] Length = 262 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 59/233 (25%), Positives = 112/233 (48%), Gaps = 23/233 (9%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +VE L L +A+++ RG DL+Q +GL+ A +FD G F ++A+ + Sbjct: 40 RDTIVERCLPLADHIARRFEGRGEPRDDLVQVARVGLVNAVVRFDVETGSDFVSFAVPTI 99 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP----V 560 + R D S ++++P +++ ++ +S ++ R PT E+A +L M V Sbjct: 100 MGEVRRHFRDNSWSVKVPRRLKELHLRLGAATAELSQRLGRAPTATELAAELEMDRAEVV 159 Query: 561 EGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANL-----RETTTR 615 EG+ V + +S+++ G ED +D A++ + A L RE+ Sbjct: 160 EGL--VAGSSYNTLSIDSGSGSED--------DDARAIADTLGDMDAGLDRIEDRESLRP 209 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 +L +L RE VL +RF M E VG +++ + ++ AK++ +L+ Sbjct: 210 LLEALPERERTVLVLRFFDSMTQTQIAERVG----ISQMHVSRLLAKSLARLR 258 >gi|324325029|gb|ADY20289.1| RNA polymerase sigma factor SigB [Bacillus thuringiensis serovar finitimus YBT-020] Length = 257 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 60/262 (22%), Positives = 125/262 (47%), Gaps = 26/262 (9%) Query: 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNI 479 T ++ + +++ ++ +C+ A++ +VE LV S+A +Y+ G D+IQ G + Sbjct: 8 TNLTKEDVMKLIAEFQQNQCDE--AQERLVEHYKNLVYSIAYRYSKGGPMHEDIIQVGML 65 Query: 480 GLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRM 539 GL+ A ++D+ +G F +A+ + I + + D++ I +P ++D K+ + Sbjct: 66 GLLGAIRRYDYSIGNAFEPFAIPTIVGEIKKYLRDKTWGIHVPRRIKDLGGKIKLAIEEL 125 Query: 540 SNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIE---DKN 596 ++ ++R P EIA L + E V +++ + S L D +E D + Sbjct: 126 TDHLQRSPKIIEIADHLGLSEEEVLEIMDAKN----------NYRVSSLDDVVENASDGS 175 Query: 597 AVSPLDSA--IQANLRETTTR-----VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 +V+ ++S ++ ET R + L E+ V+ F +N T E +G Sbjct: 176 SVARIESVGEVEQGYEETERRLVLKDIFNVLNETEKSVIHYIFEENLNQKDTGERLG--- 232 Query: 650 CVTRERIRQIEAKAIRKLKHPS 671 +++ + +I+ +AI KLK + Sbjct: 233 -ISQMHVSRIKRQAISKLKQAA 253 >gi|30022417|ref|NP_834048.1| sporulation sigma factor SigK [Bacillus cereus ATCC 14579] gi|228902866|ref|ZP_04067008.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 4222] gi|228910177|ref|ZP_04073996.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 200] gi|228916971|ref|ZP_04080532.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228929384|ref|ZP_04092407.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935660|ref|ZP_04098474.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228941506|ref|ZP_04104056.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228954625|ref|ZP_04116649.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228960610|ref|ZP_04122256.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228974436|ref|ZP_04135004.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228981030|ref|ZP_04141332.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis Bt407] gi|229025805|ref|ZP_04182204.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1272] gi|229031990|ref|ZP_04187975.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1271] gi|229048046|ref|ZP_04193621.1| RNA polymerase sigma-28 factor [Bacillus cereus AH676] gi|229062038|ref|ZP_04199363.1| RNA polymerase sigma-28 factor [Bacillus cereus AH603] gi|229071846|ref|ZP_04205059.1| RNA polymerase sigma-28 factor [Bacillus cereus F65185] gi|229076014|ref|ZP_04208987.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-18] gi|229098811|ref|ZP_04229749.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-29] gi|229104971|ref|ZP_04235627.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-28] gi|229111812|ref|ZP_04241358.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-15] gi|229117837|ref|ZP_04247201.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-3] gi|229123878|ref|ZP_04253071.1| RNA polymerase sigma-28 factor [Bacillus cereus 95/8201] gi|229129620|ref|ZP_04258588.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-Cer4] gi|229141077|ref|ZP_04269619.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST26] gi|229157954|ref|ZP_04286026.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 4342] gi|229163288|ref|ZP_04291242.1| RNA polymerase sigma-28 factor [Bacillus cereus R309803] gi|229169087|ref|ZP_04296802.1| RNA polymerase sigma-28 factor [Bacillus cereus AH621] gi|229175013|ref|ZP_04302532.1| RNA polymerase sigma-28 factor [Bacillus cereus MM3] gi|229180616|ref|ZP_04307957.1| RNA polymerase sigma-28 factor [Bacillus cereus 172560W] gi|229192552|ref|ZP_04319513.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 10876] gi|229198467|ref|ZP_04325171.1| RNA polymerase sigma-28 factor [Bacillus cereus m1293] gi|29897975|gb|AAP11249.1| RNA polymerase sigma-K factor [Bacillus cereus ATCC 14579] gi|228584970|gb|EEK43084.1| RNA polymerase sigma-28 factor [Bacillus cereus m1293] gi|228590859|gb|EEK48717.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 10876] gi|228602859|gb|EEK60339.1| RNA polymerase sigma-28 factor [Bacillus cereus 172560W] gi|228608474|gb|EEK65777.1| RNA polymerase sigma-28 factor [Bacillus cereus MM3] gi|228614315|gb|EEK71425.1| RNA polymerase sigma-28 factor [Bacillus cereus AH621] gi|228620195|gb|EEK77067.1| RNA polymerase sigma-28 factor [Bacillus cereus R309803] gi|228625514|gb|EEK82269.1| RNA polymerase sigma-28 factor [Bacillus cereus ATCC 4342] gi|228642355|gb|EEK98644.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST26] gi|228653737|gb|EEL09607.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-Cer4] gi|228659592|gb|EEL15239.1| RNA polymerase sigma-28 factor [Bacillus cereus 95/8201] gi|228665634|gb|EEL21112.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-3] gi|228671568|gb|EEL26866.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock1-15] gi|228678465|gb|EEL32686.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-28] gi|228684655|gb|EEL38595.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-29] gi|228707126|gb|EEL59326.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-18] gi|228711276|gb|EEL63238.1| RNA polymerase sigma-28 factor [Bacillus cereus F65185] gi|228717190|gb|EEL68865.1| RNA polymerase sigma-28 factor [Bacillus cereus AH603] gi|228723290|gb|EEL74660.1| RNA polymerase sigma-28 factor [Bacillus cereus AH676] gi|228729345|gb|EEL80337.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1271] gi|228735513|gb|EEL86109.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1272] gi|228778690|gb|EEM26955.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis Bt407] gi|228785272|gb|EEM33283.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228799038|gb|EEM46009.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pakistani str. T13001] gi|228805071|gb|EEM51666.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228818156|gb|EEM64231.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228824020|gb|EEM69838.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830290|gb|EEM75904.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228842692|gb|EEM87779.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228849460|gb|EEM94295.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 200] gi|228856740|gb|EEN01258.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis IBL 4222] Length = 240 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 39 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 95 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 96 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 121 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 122 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 163 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 164 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 223 Query: 666 KLKH 669 K+ H Sbjct: 224 KMFH 227 >gi|254381060|ref|ZP_04996425.1| sigma factor [Streptomyces sp. Mg1] gi|194339970|gb|EDX20936.1| sigma factor [Streptomyces sp. Mg1] Length = 302 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 60/257 (23%), Positives = 118/257 (45%), Gaps = 45/257 (17%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCL 492 +G E + ++E N+ LV A+++ +R G+ D++Q G IGL+KA ++FD Sbjct: 61 EGTREYQYTRNTLIEMNISLVNFAARRFRSRAGGGVDIEDIVQVGTIGLIKAIDRFDPDR 120 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FST A+ ++ I R D + + +P +++ ++ ++ ++ R PT +EI Sbjct: 121 EVEFSTLALPYISGEIKRFFRDTTWAVHVPRRLQELRSELAKSQDALTEVFGRAPTVKEI 180 Query: 553 AKKLAMP----VEGVRKVLKITKEPI-----------------SLETPIGDEDTSHLGDF 591 A+ L + +EG+ T I SL +G+ D + Sbjct: 181 AEHLELSEDDVIEGLVAANGYTSGSIDAATSSRQRTSGETEGRSLAETVGEVDPDM--EL 238 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 E+ + ++PL L SL R+ R+L MRFG M T E+G + + Sbjct: 239 FEEFHTLAPL---------------LQSLKERDRRILAMRFGEEM----TQAEIGTELGI 279 Query: 652 TRERIRQIEAKAIRKLK 668 ++ ++ ++ + + +L+ Sbjct: 280 SQMQVSRLLTRVLTRLR 296 >gi|165973130|gb|ABY76244.1| sigma-K factor [Bacillus thuringiensis] Length = 237 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 36 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 92 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 93 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 118 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 119 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 160 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 161 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 220 Query: 666 KLKH 669 K+ H Sbjct: 221 KMFH 224 >gi|126659553|ref|ZP_01730685.1| sigma factor SigF [Cyanothece sp. CCY0110] gi|126619192|gb|EAZ89929.1| sigma factor SigF [Cyanothece sp. CCY0110] Length = 258 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 56/219 (25%), Positives = 107/219 (48%), Gaps = 8/219 (3%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + +++E N LV A + ++ + + DL+Q G++GL++A E+F G+ FS++A+ + Sbjct: 29 RNKILELNFGLVRKEAHHWVHQCPESYEDLVQVGSLGLIRAIERFSIEKGHAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I + D+ T+RIP + + + R K R+PT EIA+ L + ++ Sbjct: 89 IRGEIQHYLRDKKYTVRIPRRWLELGRQSMNVRREFREKFNRQPTDSEIAQVLEISLKEW 148 Query: 564 R--KVLKITKEPISLETPIGD--EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS 619 + K+ +EP+SL+ + E + LGD + D N S A + +R + L Sbjct: 149 QEIKLAFQNREPVSLDVKVSSEGEGQTSLGDLVPDANYRS-FQLAQEDQIR--LQQALEQ 205 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R +L F + T E++G R+++ Sbjct: 206 LEERTRNILEFVFLKDLTQRETAEQLGISVVTVSRRVKK 244 >gi|493078|gb|AAA92723.1| RpoH (sigma 32) [Pseudomonas aeruginosa] Length = 284 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 120/237 (50%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIAKSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDK--NAVSPLDSA-----IQANLRE 611 VR++ ++T + ++ + +D S ++ED + L+ A ANL E Sbjct: 169 VREMESRLTGQDMAFDPAADADDESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHE 228 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L+ R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 A----LEGLDERSRDILQQRW--LSEEKATLHDLAEKYNVSAERIRQLEKNAMSKLK 279 >gi|65321710|ref|ZP_00394669.1| COG1191: DNA-directed RNA polymerase specialized sigma subunit [Bacillus anthracis str. A2012] gi|228923092|ref|ZP_04086384.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228948053|ref|ZP_04110338.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228987592|ref|ZP_04147708.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229013560|ref|ZP_04170693.1| RNA polymerase sigma-28 factor [Bacillus mycoides DSM 2048] gi|229019564|ref|ZP_04176380.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1273] gi|229081603|ref|ZP_04214099.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-2] gi|229135165|ref|ZP_04263965.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST196] gi|229146910|ref|ZP_04275274.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST24] gi|229152543|ref|ZP_04280733.1| RNA polymerase sigma-28 factor [Bacillus cereus m1550] gi|229186579|ref|ZP_04313740.1| RNA polymerase sigma-28 factor [Bacillus cereus BGSC 6E1] gi|228596838|gb|EEK54497.1| RNA polymerase sigma-28 factor [Bacillus cereus BGSC 6E1] gi|228630909|gb|EEK87548.1| RNA polymerase sigma-28 factor [Bacillus cereus m1550] gi|228636509|gb|EEK92975.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST24] gi|228648293|gb|EEL04328.1| RNA polymerase sigma-28 factor [Bacillus cereus BDRD-ST196] gi|228701709|gb|EEL54199.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock4-2] gi|228741730|gb|EEL91914.1| RNA polymerase sigma-28 factor [Bacillus cereus AH1273] gi|228747720|gb|EEL97590.1| RNA polymerase sigma-28 factor [Bacillus mycoides DSM 2048] gi|228772133|gb|EEM20583.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228811639|gb|EEM57975.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228836590|gb|EEM81939.1| RNA polymerase sigma-28 factor [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 243 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 42 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 98 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 99 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 124 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 125 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 166 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 167 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 226 Query: 666 KLKH 669 K+ H Sbjct: 227 KMFH 230 >gi|16332163|ref|NP_442891.1| RNA polymerase sigma factor SigF [Synechocystis sp. PCC 6803] gi|1653792|dbj|BAA18703.1| RNA polymerase sigma-37 [Synechocystis sp. PCC 6803] Length = 258 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/220 (29%), Positives = 103/220 (46%), Gaps = 10/220 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQ-FLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 + ++E NL LV A +T + + F DL Q G +GL++A E+FD G FS++A+ + Sbjct: 29 RNRIMEVNLGLVRKEAHHWTAQCNESFEDLSQVGCLGLIRAIERFDVSKGNAFSSFAIPY 88 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V+ I + D+S +RIP D + + + K R T EEIA+ LA+P+ Sbjct: 89 VRGEIQHFLRDKSNCVRIPRRWLDLGRQAIAVQQEFRLKYDRAATDEEIAQILAVPLADW 148 Query: 564 R--KVLKITKEPISLETPIG--DEDTSHLGDFIEDKNAVS-PLDSAIQANLRETTTRVLA 618 + K+ +E +SL+T + DE +LGD + S L Q L++ LA Sbjct: 149 QETKLALQNRELVSLDTKVNGDDEGQVNLGDCLAHHEFRSFQLSQEDQIRLQQA----LA 204 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 L R R++ F E +G RI+Q Sbjct: 205 GLEERTRRIVEFVFLHDFTHKEAAEMMGVSVITVSRRIKQ 244 >gi|18311030|ref|NP_562964.1| sporulation sigma factor SigF [Clostridium perfringens str. 13] gi|110799417|ref|YP_696728.1| sporulation sigma factor SigF [Clostridium perfringens ATCC 13124] gi|110803821|ref|YP_699329.1| sporulation sigma factor SigF [Clostridium perfringens SM101] gi|168205856|ref|ZP_02631861.1| RNA polymerase sigma-F factor [Clostridium perfringens E str. JGS1987] gi|168208750|ref|ZP_02634375.1| RNA polymerase sigma-F factor [Clostridium perfringens B str. ATCC 3626] gi|168212915|ref|ZP_02638540.1| RNA polymerase sigma-F factor [Clostridium perfringens CPE str. F4969] gi|168215675|ref|ZP_02641300.1| RNA polymerase sigma-F factor [Clostridium perfringens NCTC 8239] gi|182623955|ref|ZP_02951743.1| RNA polymerase sigma-F factor [Clostridium perfringens D str. JGS1721] gi|18145712|dbj|BAB81754.1| RNA polymerase sigma-F factor [Clostridium perfringens str. 13] gi|110674064|gb|ABG83051.1| RNA polymerase sigma-F factor [Clostridium perfringens ATCC 13124] gi|110684322|gb|ABG87692.1| RNA polymerase sigma-F factor [Clostridium perfringens SM101] gi|170662589|gb|EDT15272.1| RNA polymerase sigma-F factor [Clostridium perfringens E str. JGS1987] gi|170712973|gb|EDT25155.1| RNA polymerase sigma-F factor [Clostridium perfringens B str. ATCC 3626] gi|170715517|gb|EDT27699.1| RNA polymerase sigma-F factor [Clostridium perfringens CPE str. F4969] gi|177910848|gb|EDT73202.1| RNA polymerase sigma-F factor [Clostridium perfringens D str. JGS1721] gi|182382022|gb|EDT79501.1| RNA polymerase sigma-F factor [Clostridium perfringens NCTC 8239] Length = 251 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 65/245 (26%), Positives = 119/245 (48%), Gaps = 24/245 (9%) Query: 430 IVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFD 489 ++ M ++G EA +++E N LV S+ K++TNRG + D+ Q G++GL+KA F+ Sbjct: 19 LIVMAKEGNKEAM---NKLIEVNTPLVSSICKRFTNRGYDYEDIFQIGSMGLVKAINNFN 75 Query: 490 WCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTP 549 KFSTYA+ + I R + D I++ + K+ + K+ R+PT Sbjct: 76 DSFNVKFSTYAVPMIIGEIKRFLRDDGI-IKVSRSTKTLAKKLHYNKEELIKKLNRDPTV 134 Query: 550 EEIAKKLAMPVEGVRKVLKITKEPISLETPI-GDEDT-----SHLGDFIEDKNAVSPLDS 603 +E+A+ + E V L+ L I DE T L + ED + V+ + Sbjct: 135 DELAEYSGVDKEEVIVALESASSMQYLYDTIHHDEGTPVLLIDKLSEKGEDDDMVNKI-- 192 Query: 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKA 663 LRE ++SL + ++++ +R+ D T +V K +++ ++ +IE K Sbjct: 193 ----ALREA----ISSLDSKGKQIIMLRYF----KDKTQIQVAKMLGISQVQVSRIEKKV 240 Query: 664 IRKLK 668 ++ +K Sbjct: 241 LKIMK 245 >gi|323705419|ref|ZP_08116994.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] gi|323535321|gb|EGB25097.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Thermoanaerobacterium xylanolyticum LX-11] Length = 246 Score = 72.0 bits (175), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 56/199 (28%), Positives = 96/199 (48%), Gaps = 12/199 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI +G IGL+ A K+D G KF TYA +K I + + IP ++ + Sbjct: 51 DLISQGMIGLIDAVNKYDVSKGVKFETYASIRIKGEIIDYLRKKDW---IPRSLKKRYKS 107 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI--SLETPIGDEDTSHLG 589 + +T ++ + KREPT EEI + + V K L SL+ I E+ + Sbjct: 108 IEKTIEQLEQEYKREPTIEEIMEATKLSKNDVLKTLSYMNAGYISSLDEVI--ENNLKIT 165 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 I D +P + + +L++ ++ + +L +E ++ + + +N +E+ K Sbjct: 166 S-ITDNEVTNPENEVMMFDLKQNISKAIDTLQEKERLIISLYYYEDLN----YKEISKIM 220 Query: 650 CVTRERIRQIEAKAIRKLK 668 +T RI QI +KAI+KLK Sbjct: 221 GLTESRISQIHSKAIKKLK 239 >gi|258488878|gb|ACV72445.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488934|gb|ACV72473.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488986|gb|ACV72499.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489036|gb|ACV72524.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489040|gb|ACV72526.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489042|gb|ACV72527.1| RpoD [Xanthomonas axonopodis pv. phaseoli] Length = 261 Score = 72.0 bits (175), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488860|gb|ACV72436.1| RpoD [Xanthomonas axonopodis pv. manihotis] gi|258488862|gb|ACV72437.1| RpoD [Xanthomonas axonopodis pv. manihotis] gi|258488880|gb|ACV72446.1| RpoD [Xanthomonas axonopodis pv. manihotis] gi|258488882|gb|ACV72447.1| RpoD [Xanthomonas axonopodis pv. manihotis] gi|258489014|gb|ACV72513.1| RpoD [Xanthomonas axonopodis pv. manihotis] Length = 261 Score = 72.0 bits (175), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258489044|gb|ACV72528.1| RpoD [Xanthomonas axonopodis pv. phaseoli] Length = 260 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGTFPLSTELLLSDYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|323463926|gb|ADX76079.1| RNA polymerase sigma-B factor [Staphylococcus pseudintermedius ED99] Length = 256 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 56/236 (23%), Positives = 119/236 (50%), Gaps = 18/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A++++V+ +L+ S+A KY+ DL+Q G +GL+ A +FD KF + + Sbjct: 31 AQEKLVKHYEKLIESLAYKYSKGQSHHEDLVQVGMVGLIGAINRFDLSFDRKFEAFLVPT 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 V I R + D++ ++ +P +++ ++ + + ++N++ R P+ EIA +L + E V Sbjct: 91 VIGEIKRYLRDKTWSVHVPRRIKEIGPRIKKVSDELTNELGRSPSISEIADRLEVSDEDV 150 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN-------LRETTTRV 616 + +++ + +L H + +D + V+ LD Q + R R+ Sbjct: 151 LEAMEMGQSYNAL-------SVDHSIEADKDGSTVTLLDIMGQHDDNYELTEKRMILERI 203 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 L LT RE +++ F G++ T E +G +++ + +++ AI+KL+ +R Sbjct: 204 LPILTDREREIIQCTFIDGLSQKETGERIG----LSQMHVSRLQRTAIKKLQEAAR 255 >gi|296504831|ref|YP_003666531.1| sporulation sigma factor SigK [Bacillus thuringiensis BMB171] gi|296325883|gb|ADH08811.1| sporulation sigma factor SigK [Bacillus thuringiensis BMB171] Length = 196 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 99/228 (43%), Gaps = 54/228 (23%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 8 ARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 64 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 65 -----ARCIENE-----ILMHLR------------------------------------- 77 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQANLR-ETTTRVLASLT 621 VLK TK+ +SL PIG + + I+ K+ + IQ ++ E + L Sbjct: 78 --VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQLSMELEKIKEYIDILD 135 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ K+ H Sbjct: 136 EREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALMKMFH 183 >gi|164688589|ref|ZP_02212617.1| hypothetical protein CLOBAR_02234 [Clostridium bartlettii DSM 16795] gi|164603002|gb|EDQ96467.1| hypothetical protein CLOBAR_02234 [Clostridium bartlettii DSM 16795] Length = 234 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 105/226 (46%), Gaps = 51/226 (22%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 AK+ +V+ N+RLV ++KKY N G + DLI G IGL+KA + F+ G + +TYA Sbjct: 31 AKEVLVQRNMRLVAHISKKYNNSGEELDDLISIGTIGLIKAIDTFNVDKGIRLATYASKC 90 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 ++ I +I ++ V ++D I GV Sbjct: 91 IENEILMNIRSNKKN-KMQVSLQDPI--------------------------------GV 117 Query: 564 RKVLKITKEPISLETPIG-DEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTP 622 K ISL +G DED ++ D +E K +S L I+ LT Sbjct: 118 DK----EGNAISLIDILGTDED--YIVDKVELKMKISKLYEKIE-----------KVLTE 160 Query: 623 REERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 RE+ ++++R+G+ + T E+ +Q ++R + +IE KA++KLK Sbjct: 161 REKEIIKLRYGLTPSGYKTQREIAQQLDISRSYVSRIEKKALKKLK 206 >gi|90579944|ref|ZP_01235752.1| flagellar biosynthesis sigma factor FliA [Vibrio angustum S14] gi|90438829|gb|EAS64012.1| flagellar biosynthesis sigma factor FliA [Vibrio angustum S14] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/200 (26%), Positives = 96/200 (48%), Gaps = 14/200 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G IGL++A + +D G F T+A ++ A+ I +P + K Sbjct: 44 DLIQAGMIGLLEAQQNYDPTKGASFETFAGIRIRGAMLDDIRRGDW---VPRSVYKNSRK 100 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + N++ R+P +EIA+ L MP+E + L ++ +G D D Sbjct: 101 ISEAISHLENELGRDPNDQEIAQYLDMPLEQYHQALN----DVNCGRLVGISDLGVAEDT 156 Query: 592 IEDKNAV---SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + ++ ++ +PL + N R + + +L RE VL + + +N L+E+G Sbjct: 157 VANEESIGENTPLQGVVDDNFRASLAEAIETLPEREALVLSLYYDEELN----LKEIGAV 212 Query: 649 FCVTRERIRQIEAKAIRKLK 668 V+ RI QI ++A+++L+ Sbjct: 213 IGVSESRICQIHSQAMQRLR 232 >gi|304404273|ref|ZP_07385935.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] gi|304347251|gb|EFM13083.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Paenibacillus curdlanolyticus YK9] Length = 262 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 65/241 (26%), Positives = 116/241 (48%), Gaps = 15/241 (6%) Query: 435 RKGECEASI-AKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDW 490 RK + E I AKK+++E L LV V + + + DL G +GL+ A EKFD+ Sbjct: 16 RKWKTEKDIEAKKQLIEQYLPLVDYVTSRMAIGLPKTVSKDDLYSNGVMGLIDAIEKFDY 75 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +F TYA W ++ I + +P +RDK ++ + + K R T Sbjct: 76 ERGLQFETYASWRIRGGIIDGLRQGDW---VPRSVRDKAKRIEEAYQLLEQKYLRSVTDA 132 Query: 551 EIAKKLAMP---VEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 EI+ L + G+ + + +T SLE PI +E++ + D+ A +P + Sbjct: 133 EISDYLNVSEKEFTGILQEIAVTT-ICSLEDPIREEESETRLSLLVDEKAKNPDYKVHEF 191 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+E+ + + LT +E V+ + + + +L E+ + ++ RI Q+ +KAI +L Sbjct: 192 YLKESLVKGIERLTEKERTVVSLFY----YEELSLSEIAEVMSLSPSRISQLHSKAILRL 247 Query: 668 K 668 + Sbjct: 248 R 248 >gi|15595573|ref|NP_249067.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PAO1] gi|116054106|ref|YP_788549.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa UCBPP-PA14] gi|152989115|ref|YP_001345866.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PA7] gi|218889117|ref|YP_002437981.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa LESB58] gi|254243475|ref|ZP_04936797.1| sigma factor RpoH [Pseudomonas aeruginosa 2192] gi|296386874|ref|ZP_06876373.1| RNA polymerase factor sigma-32 [Pseudomonas aeruginosa PAb1] gi|313112005|ref|ZP_07797792.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa 39016] gi|2507390|sp|P42378|RP32_PSEAE RecName: Full=RNA polymerase sigma-32 factor gi|9946228|gb|AAG03765.1|AE004475_7 sigma factor RpoH [Pseudomonas aeruginosa PAO1] gi|765096|dbj|BAA08769.1| heat-shock sigma factor [Pseudomonas aeruginosa] gi|998760|gb|AAB33935.1| heat-shock sigma factor sigma 32 [Pseudomonas aeruginosa] gi|115589327|gb|ABJ15342.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa UCBPP-PA14] gi|126196853|gb|EAZ60916.1| sigma factor RpoH [Pseudomonas aeruginosa 2192] gi|150964273|gb|ABR86298.1| alternative sigma factor RpoH [Pseudomonas aeruginosa PA7] gi|218769340|emb|CAW25100.1| sigma factor RpoH [Pseudomonas aeruginosa LESB58] gi|310884294|gb|EFQ42888.1| RNA polymerase sigma-32 factor [Pseudomonas aeruginosa 39016] Length = 284 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 67/237 (28%), Positives = 120/237 (50%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +AK Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIAKSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 +K I I +++ + K+ +R+ ++ + E +A+ L + Sbjct: 110 IKAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNEEV-HRVAESLGVEPRE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDK--NAVSPLDSA-----IQANLRE 611 VR++ ++T + ++ + +D S ++ED + L+ A ANL E Sbjct: 169 VREMESRLTGQDMAFDPAADADDESAYQSPAHYLEDHRYDPARQLEDADWSDSSSANLHE 228 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L+ R+ TL ++ +++ V+ ERIRQ+E A+ KLK Sbjct: 229 A----LEGLDERSRDILQQRW--LSEEKATLHDLAEKYNVSAERIRQLEKNAMSKLK 279 >gi|327394234|dbj|BAK11656.1| RNA polymerase sigma factor for flagellar operon FliA [Pantoea ananatis AJ13355] Length = 230 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/201 (25%), Positives = 96/201 (47%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGD- 590 V ++ + R + +E+A++L + +E R++L T DE GD Sbjct: 90 VAGAMHQVEQMLGRAASEQEVAQQLNVSIEEYRQILLDTNNSQLFSY---DEYREEHGDS 146 Query: 591 ---FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 E +PL ++ +LRE + +L RE+ VL + + +N L+E+G Sbjct: 147 AELVTEGHEEANPLHQLMEGSLRERVIEAIEALPEREKMVLTLYYQEELN----LKEIGA 202 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 203 VLDVGESRVSQLHSQAIKRLR 223 >gi|308273536|emb|CBX30138.1| RNA polymerase sigma factor whiG [uncultured Desulfobacterium sp.] Length = 255 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 65/214 (30%), Positives = 103/214 (48%), Gaps = 18/214 (8%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL G IGL A E FD G KF TYA + ++ AI + IP +R I K Sbjct: 57 DLNSAGIIGLFDAIENFDSSRGIKFETYASYRIRGAILDEMRKLDW---IPRSVRKDIQK 113 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP--ISLETP-IGDEDTSHL 588 V K+ R P EIA++L + +E K++ T +SL+ P +G T+ Sbjct: 114 VETAVTAAQTKLGRTPEDHEIAEELGVNLEDFYKIIDRTHNVNLLSLDEPALGTSVTT-- 171 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + +E N SPLD ++ + + LA+L + + V+ + + M TL+E+ + Sbjct: 172 VNRLESDNP-SPLDKVKKSEIEKVIASALANLPEKVQMVISLYYYDEM----TLKEIAEI 226 Query: 649 FCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 +T RI QI +KAI L+ KL+++ +G Sbjct: 227 MGLTESRISQIHSKAIIILR-----SKLKAYFEG 255 >gi|239980907|ref|ZP_04703431.1| RNA polymerase sigma factor, sigma F [Streptomyces albus J1074] gi|291452769|ref|ZP_06592159.1| transcription initiation factor sigma F [Streptomyces albus J1074] gi|291355718|gb|EFE82620.1| transcription initiation factor sigma F [Streptomyces albus J1074] Length = 294 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 58/241 (24%), Positives = 113/241 (46%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 V G E + + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G Sbjct: 60 VEPGTAEHARVRSALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRG 119 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM V I R D T+ +P + + +V ++ R PT EIA Sbjct: 120 VQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVTSATEDLTTAHGRSPTTAEIA 179 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++L + + V ++ + SLE ++ L ++ P ++ R+ Sbjct: 180 ERLRISEDEVLACIEAGRSYHATSLEA---AQEGDGLPGLLDRLGYEDPALDGVEH--RD 234 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ +L+ + Sbjct: 235 LVRHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFARLRSAN 290 Query: 672 R 672 R Sbjct: 291 R 291 >gi|258488942|gb|ACV72477.1| RpoD [Xanthomonas campestris pv. campestris] Length = 260 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGTFPLSTELLLSDYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488864|gb|ACV72438.1| RpoD [Xanthomonas axonopodis pv. manihotis] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488994|gb|ACV72503.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489002|gb|ACV72507.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489004|gb|ACV72508.1| RpoD [Xanthomonas axonopodis pv. allii] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488970|gb|ACV72491.1| RpoD [Xanthomonas axonopodis pv. malvacearum] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488870|gb|ACV72441.1| RpoD [Xanthomonas axonopodis pv. begoniae] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|238752744|ref|ZP_04614214.1| RNA polymerase sigma factor for flagellar operon [Yersinia rohdei ATCC 43380] gi|238709075|gb|EEQ01323.1| RNA polymerase sigma factor for flagellar operon [Yersinia rohdei ATCC 43380] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VASAMQKVEQRLGRPATEQEVAQNLEIDLAEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIDAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|258488962|gb|ACV72487.1| RpoD [Xanthomonas axonopodis pv. vasculorum] gi|258488964|gb|ACV72488.1| RpoD [Xanthomonas axonopodis pv. vasculorum] Length = 260 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488840|gb|ACV72426.1| RpoD [Xanthomonas axonopodis pv. vasculorum] Length = 260 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|89073430|ref|ZP_01159953.1| flagellar biosynthesis sigma factor FliA [Photobacterium sp. SKA34] gi|89050694|gb|EAR56175.1| flagellar biosynthesis sigma factor FliA [Photobacterium sp. SKA34] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/200 (26%), Positives = 95/200 (47%), Gaps = 14/200 (7%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQ G IGL++A + +D G F T+A ++ A+ I +P + K Sbjct: 44 DLIQSGMIGLLEAQQNYDPTKGASFETFAGIRIRGAMLDDIRRGDW---VPRSVYKNSRK 100 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + + N++ R+P +EIA+ L MP+E + L ++ +G D D Sbjct: 101 ISEAISHLENELGRDPNDQEIAQYLDMPLEQYHQALN----DVNCGRLVGISDLGVAEDT 156 Query: 592 IEDKNAV---SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 + ++ ++ SP + N R + + +L RE VL + + +N L+E+G Sbjct: 157 VANEESIGENSPFQGVVDDNFRASLAEAIKTLPEREALVLSLYYDEELN----LKEIGAV 212 Query: 649 FCVTRERIRQIEAKAIRKLK 668 V+ RI QI ++A+++L+ Sbjct: 213 IGVSESRICQIHSQAMQRLR 232 >gi|315127302|ref|YP_004069305.1| flagellar biosynthesis sigma factor [Pseudoalteromonas sp. SM9913] gi|315015816|gb|ADT69154.1| flagellar biosynthesis sigma factor [Pseudoalteromonas sp. SM9913] Length = 236 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 65/232 (28%), Positives = 105/232 (45%), Gaps = 26/232 (11%) Query: 448 MVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +VE + LV VA R +Q DLIQ G IGL++A++ FD G F T+A + Sbjct: 12 IVEKHASLVKKVACHLIARLPASVQLDDLIQSGMIGLIEASKNFDASKGASFETFAGIRI 71 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + A+ + R VH + ++ V T + N + REP E+A+KL + + Sbjct: 72 RGAMIDEMRRGDWVPR-SVHRKSRL--VAETIVALENSLNREPKDSEVAEKLEISLNEYH 128 Query: 565 KVLKITKEPISLETPIGDED--------TSHLGDFIEDKNAVSPLDSAIQANLRETTTRV 616 +L +++ +G ED T H D DK P ++ E+ Sbjct: 129 HILN----DVNVSKVLGIEDLGIDDDVITPHGQDLALDK----PFNNVKNERFNESLLSA 180 Query: 617 LASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + SL ++ VL + + MN L+E+G V+ R+ QI +A+ KLK Sbjct: 181 IKSLPEKDAMVLSLYYNDEMN----LKEIGHILDVSESRVSQIHGQAMIKLK 228 >gi|258489074|gb|ACV72543.1| RpoD [Xanthomonas axonopodis pv. glycines] Length = 259 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 2 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 61 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 62 GKKRLAEIV 70 >gi|258488848|gb|ACV72430.1| RpoD [Xanthomonas axonopodis pv. glycines] gi|258489072|gb|ACV72542.1| RpoD [Xanthomonas axonopodis pv. glycines] Length = 260 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|329938754|ref|ZP_08288150.1| SigF-like sigma factor [Streptomyces griseoaurantiacus M045] gi|329302245|gb|EGG46137.1| SigF-like sigma factor [Streptomyces griseoaurantiacus M045] Length = 305 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 58/238 (24%), Positives = 111/238 (46%), Gaps = 11/238 (4%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G +F Sbjct: 74 GSPEHDRVRGALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQF 133 Query: 497 STYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKL 556 T+AM V I R D T+ +P + + +V ++ R PT EIA++L Sbjct: 134 PTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNSATEDLTTAFGRSPTTAEIAERL 193 Query: 557 AMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTT 614 + E V ++ + SLE ++ L ++ P ++ R+ Sbjct: 194 RIGEEEVLSCIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALDGVEH--RDLVR 248 Query: 615 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ +L+ +R Sbjct: 249 HLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFARLRSANR 302 >gi|258488908|gb|ACV72460.1| RpoD [Xanthomonas axonopodis pv. dieffenbachiae] Length = 259 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488842|gb|ACV72427.1| RpoD [Xanthomonas axonopodis pv. vasculorum] gi|258488844|gb|ACV72428.1| RpoD [Xanthomonas axonopodis pv. begoniae] gi|258488850|gb|ACV72431.1| RpoD [Xanthomonas perforans] gi|258488868|gb|ACV72440.1| RpoD [Xanthomonas perforans] gi|258488904|gb|ACV72458.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] gi|258488912|gb|ACV72462.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] gi|258488924|gb|ACV72468.1| RpoD [Xanthomonas axonopodis pv. alfalfae] gi|258488926|gb|ACV72469.1| RpoD [Xanthomonas axonopodis pv. alfalfae] gi|258488928|gb|ACV72470.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] gi|258488930|gb|ACV72471.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] gi|258488932|gb|ACV72472.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] gi|258488948|gb|ACV72480.1| RpoD [Xanthomonas perforans] gi|258488950|gb|ACV72481.1| RpoD [Xanthomonas axonopodis pv. begoniae] gi|258488952|gb|ACV72482.1| RpoD [Xanthomonas axonopodis pv. begoniae] gi|258488954|gb|ACV72483.1| RpoD [Xanthomonas axonopodis pv. begoniae] gi|258488956|gb|ACV72484.1| RpoD [Xanthomonas axonopodis pv. dieffenbachiae] gi|258488958|gb|ACV72485.1| RpoD [Xanthomonas axonopodis pv. dieffenbachiae] gi|258488960|gb|ACV72486.1| RpoD [Xanthomonas axonopodis pv. dieffenbachiae] gi|258488966|gb|ACV72489.1| RpoD [Xanthomonas axonopodis pv. vasculorum] gi|258488968|gb|ACV72490.1| RpoD [Xanthomonas axonopodis pv. vasculorum] gi|258488976|gb|ACV72494.1| RpoD [Xanthomonas axonopodis pv. vasculorum] gi|258488978|gb|ACV72495.1| RpoD [Xanthomonas axonopodis pv. ricini] gi|258488980|gb|ACV72496.1| RpoD [Xanthomonas axonopodis pv. ricini] gi|258488982|gb|ACV72497.1| RpoD [Xanthomonas axonopodis pv. ricini] gi|258488984|gb|ACV72498.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258488996|gb|ACV72504.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258488998|gb|ACV72505.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489000|gb|ACV72506.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489006|gb|ACV72509.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489008|gb|ACV72510.1| RpoD [Xanthomonas axonopodis pv. allii] gi|258489010|gb|ACV72511.1| RpoD [Xanthomonas axonopodis pv. ricini] gi|258489012|gb|ACV72512.1| RpoD [Xanthomonas axonopodis pv. ricini] gi|258489016|gb|ACV72514.1| RpoD [Xanthomonas perforans] gi|258489018|gb|ACV72515.1| RpoD [Xanthomonas perforans] gi|258489076|gb|ACV72544.1| RpoD [Xanthomonas axonopodis pv. alfalfae] gi|258489078|gb|ACV72545.1| RpoD [Xanthomonas axonopodis pv. alfalfae] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|126348048|emb|CAJ89768.1| putative RNA polymerase secondary sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 264 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 60/214 (28%), Positives = 100/214 (46%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+++ L + +A ++ RG DL Q +GL+KA + +D G+ F YA+ V Sbjct: 39 RDELIQVWLPMSERIAVRFRGRGENLEDLYQVAALGLVKAVDHYDPRRGHAFEAYAVPTV 98 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P ++D ++V ++A+ ++ R PT EEIA + V Sbjct: 99 TGEIKRHFRDHMWTLHVPRRIQDLRNRVRKSAKELAQVTPGRAPTVEEIADHAHLTTVEV 158 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 R ++ + +SLE + D LGD A+ D A A + R L +L Sbjct: 159 RTGMEALECFSALSLEAEMPGTDGYALGD------ALGGPDPAFDAVVDRVAVRPCLEAL 212 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE +L +RF GM +++G Q V+R Sbjct: 213 PERERTILYLRFFGGMTQSRIAQQLGISQMHVSR 246 >gi|238758082|ref|ZP_04619262.1| RNA polymerase sigma factor for flagellar operon [Yersinia aldovae ATCC 35236] gi|238703620|gb|EEP96157.1| RNA polymerase sigma factor for flagellar operon [Yersinia aldovae ATCC 35236] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VATAMQKVEQRVGRPATEQEVAQTLDIELSEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIDAIEALPDREKMVLTLYYQEELN----LKEIGAVLD 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|293374267|ref|ZP_06620595.1| RNA polymerase sigma-K factor [Turicibacter sanguinis PC909] gi|292647100|gb|EFF65082.1| RNA polymerase sigma-K factor [Turicibacter sanguinis PC909] Length = 229 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 67/273 (24%), Positives = 118/273 (43%), Gaps = 59/273 (21%) Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 F+ +++ + I + + +S E H ++++ G+ A +++++E NLRLV Sbjct: 6 FIVSLFSNLIPLMGSISNQAFPNPLSAEEEEHYLTLMANGDKNA---REKLIEHNLRLVA 62 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 + KKY N+ DLI G IGL+KA + F G K +TYA + Sbjct: 63 HIVKKYQNQTDDKEDLISIGTIGLIKAIDSFSPDKGTKLATYAARCID------------ 110 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 ++I + R+ ++M N +SL Sbjct: 111 ---------NEILMLFRSTKKMRN-------------------------------DVSLY 130 Query: 578 TPIGDEDTSH---LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 PIG + + L D ++D+N D IQ E + L SLT RE ++ RFG+ Sbjct: 131 DPIGYDKEGNEICLIDVVKDENK-DLNDIIIQQLAFEKIEKNLKSLTQRERDIIVRRFGL 189 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + T +E+ K + ++R + +IE +A+ KL Sbjct: 190 ENHEEETQQEIAKSYGISRSYVSRIEKRALMKL 222 >gi|167770367|ref|ZP_02442420.1| hypothetical protein ANACOL_01710 [Anaerotruncus colihominis DSM 17241] gi|167667689|gb|EDS11819.1| hypothetical protein ANACOL_01710 [Anaerotruncus colihominis DSM 17241] Length = 225 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 53/202 (26%), Positives = 97/202 (48%), Gaps = 10/202 (4%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++ + N+ LV S A ++ RG+++ DL Q G +GL KA + FD G K STYA+ + Sbjct: 12 REQTISENIGLVHSCAHRFKGRGIEYDDLFQAGCMGLCKAVDAFDPQRGVKLSTYAVPVI 71 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + R D +++ +++ ++ R +++ + REP+ E+A+ + +P E V Sbjct: 72 LGEMRRLFRDGG-AVKVSRTLKELSLRIGRAREQLALALGREPSVSELAQAMELPEEQVV 130 Query: 565 KVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPRE 624 + L P+SL DED D D SP D + +V+ L ++ Sbjct: 131 EALCAAAPPLSLTE--SDEDGGGQIDLPAD----SPEDQLADVI---SLNQVVEKLEDKD 181 Query: 625 ERVLRMRFGIGMNTDHTLEEVG 646 ++ +R+ GM T +G Sbjct: 182 RALIELRYYSGMTQVQTAARLG 203 >gi|258488888|gb|ACV72450.1| RpoD [Xanthomonas axonopodis pv. aurantifolii] gi|258488914|gb|ACV72463.1| RpoD [Xanthomonas axonopodis pv. aurantifolii] gi|258488916|gb|ACV72464.1| RpoD [Xanthomonas axonopodis pv. aurantifolii] gi|258488920|gb|ACV72466.1| RpoD [Xanthomonas alfalfae subsp. citrumelonis] Length = 257 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488856|gb|ACV72434.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488858|gb|ACV72435.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488884|gb|ACV72448.1| RpoD [Xanthomonas axonopodis pv. aurantifolii] gi|258488890|gb|ACV72451.1| RpoD [Xanthomonas citri pv. anacardii] gi|258488892|gb|ACV72452.1| RpoD [Xanthomonas citri pv. anacardii] gi|258488906|gb|ACV72459.1| RpoD [Xanthomonas axonopodis pv. dieffenbachiae] gi|258488936|gb|ACV72474.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488988|gb|ACV72500.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488990|gb|ACV72501.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258488992|gb|ACV72502.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489020|gb|ACV72516.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489022|gb|ACV72517.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489024|gb|ACV72518.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489026|gb|ACV72519.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489030|gb|ACV72521.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489032|gb|ACV72522.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489034|gb|ACV72523.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489046|gb|ACV72529.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489048|gb|ACV72530.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489050|gb|ACV72531.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489052|gb|ACV72532.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489054|gb|ACV72533.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489056|gb|ACV72534.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489058|gb|ACV72535.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489060|gb|ACV72536.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489062|gb|ACV72537.1| RpoD [Xanthomonas axonopodis pv. vignicola] gi|258489064|gb|ACV72538.1| RpoD [Xanthomonas axonopodis pv. vignicola] gi|258489066|gb|ACV72539.1| RpoD [Xanthomonas axonopodis pv. vignicola] gi|258489068|gb|ACV72540.1| RpoD [Xanthomonas axonopodis pv. vignicola] gi|258489070|gb|ACV72541.1| RpoD [Xanthomonas axonopodis pv. vignicola] gi|258489090|gb|ACV72551.1| RpoD [Xanthomonas citri pv. anacardii] gi|258489092|gb|ACV72552.1| RpoD [Xanthomonas citri pv. anacardii] gi|258489094|gb|ACV72553.1| RpoD [Xanthomonas citri pv. anacardii] gi|258489096|gb|ACV72554.1| RpoD [Xanthomonas citri pv. anacardii] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258488838|gb|ACV72425.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488846|gb|ACV72429.1| RpoD [Xanthomonas axonopodis pv. glycines] gi|258488854|gb|ACV72433.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488866|gb|ACV72439.1| RpoD [Xanthomonas axonopodis pv. malvacearum] gi|258488872|gb|ACV72442.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488876|gb|ACV72444.1| RpoD [Xanthomonas axonopodis pv. malvacearum] gi|258488886|gb|ACV72449.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488910|gb|ACV72461.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488918|gb|ACV72465.1| RpoD [Xanthomonas axonopodis pv. aurantifolii] gi|258488944|gb|ACV72478.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488946|gb|ACV72479.1| RpoD [Xanthomonas axonopodis pv. citri] gi|258488972|gb|ACV72492.1| RpoD [Xanthomonas axonopodis pv. malvacearum] gi|258488974|gb|ACV72493.1| RpoD [Xanthomonas axonopodis pv. malvacearum] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|296125231|ref|YP_003632483.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Brachyspira murdochii DSM 12563] gi|296017047|gb|ADG70284.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Brachyspira murdochii DSM 12563] Length = 272 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 107/211 (50%), Gaps = 12/211 (5%) Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 +++ ++F DL+ G+ GLM A +K++ KF TYA+ ++ AI + +P Sbjct: 59 SHKHIEFQDLVGFGSFGLMDAIDKYNPNRDIKFKTYAVTRIRGAIYDELRKLDY---LPR 115 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLET--P 579 +R + ++ + + ++ R P+EIA L +P+ + +K I P SL Sbjct: 116 SIRKDVKEIEKAREILEARLSRNIKPQEIADMLGIPISKYNETMKRYIEASPTSLSDVWY 175 Query: 580 IGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 +GD+ D + D ++ + +P A + +++ L L +E++VL + + Sbjct: 176 VGDDSDEISVIDTLKSNDKTNPEYLAEREDVKNKIVAALKKLPEKEKQVLILYY----YD 231 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 D TL+E+GK V+ RI Q+ KAI++L++ Sbjct: 232 DLTLKEIGKVLEVSESRISQLHTKAIQQLRY 262 >gi|258488922|gb|ACV72467.1| RpoD [Xanthomonas axonopodis pv. alfalfae] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|258489038|gb|ACV72525.1| RpoD [Xanthomonas axonopodis pv. phaseoli] gi|258489080|gb|ACV72546.1| RpoD [Xanthomonas perforans] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|21225616|ref|NP_631395.1| RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] gi|2687404|gb|AAC01582.1| putative RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] gi|8246836|emb|CAB92887.1| putative RNA polymerase secondary sigma factor [Streptomyces coelicolor A3(2)] Length = 263 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 59/214 (27%), Positives = 100/214 (46%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + +++ L + +A ++ RG DL Q +GL+KA + +D G+ F YA+ V Sbjct: 38 RDDLIRVWLPMAERIAVRFRGRGENLEDLYQVAALGLVKAVDHYDPERGHAFEAYAVPTV 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P ++D ++V ++A+ ++ R PT EEIA+ + V Sbjct: 98 TGEIKRHFRDHMWTLHVPRRIQDLRNRVRKSAKELAQTTPGRAPTVEEIAEHAQLTTAEV 157 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 R ++ + +SLE + D LGD A+ D A A + R L +L Sbjct: 158 RTGMEALECFSALSLEAEMPGTDGYALGD------ALGGPDPAFDAVVDRVAVRPCLEAL 211 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE +L +RF GM +++G Q V+R Sbjct: 212 PERERTILYLRFFGGMTQSRIAQQLGISQMHVSR 245 >gi|258488874|gb|ACV72443.1| RpoD [Xanthomonas axonopodis pv. glycines] Length = 261 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|123442749|ref|YP_001006726.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332161358|ref|YP_004297935.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122089710|emb|CAL12562.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318605283|emb|CBY26781.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica subsp. palearctica Y11] gi|325665588|gb|ADZ42232.1| flagellar biosynthesis sigma factor [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330859514|emb|CBX69857.1| RNA polymerase sigma factor for flagellar operon [Yersinia enterocolitica W22703] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VASAMQKVEQRLGRPATEQEVAQNLDIDLTEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 MLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|229010401|ref|ZP_04167605.1| RNA polymerase sigma-B factor [Bacillus mycoides DSM 2048] gi|228750821|gb|EEM00643.1| RNA polymerase sigma-B factor [Bacillus mycoides DSM 2048] Length = 224 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 56/234 (23%), Positives = 110/234 (47%), Gaps = 24/234 (10%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV LV S+A +Y+ G D+IQ G +GL+ A ++D+ +G F +A+ + Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + + D++ I +P ++D K+ +++ ++R P EIA L + E V +++ Sbjct: 61 IKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIM 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA--IQANLRETTTR-----VL 617 + S L D +E D ++V+ ++S ++ +T R + Sbjct: 121 DAKN----------NYQVSSLDDVVENSSDGSSVARIESVGEVEQGYEQTERRLVLDDIF 170 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 L E+ V+ FG +N T G++ +++ + +I+ +AI KLK + Sbjct: 171 NVLNDTEKSVIHYIFGENLNQKDT----GERLGISQMHVSRIKRQAISKLKQAA 220 >gi|330959691|gb|EGH59951.1| putative RNA polymerase sigma-32 factor [Pseudomonas syringae pv. maculicola str. ES4326] Length = 291 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 68/252 (26%), Positives = 112/252 (44%), Gaps = 49/252 (19%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A +++V + LR V+ +A++Y+ GL DLIQEGNIGL+KA ++F+ + T+A+ Sbjct: 55 AARQLVTSQLRFVVHIARRYSGYGLPLSDLIQEGNIGLIKAVKRFNPAAQVRLITFAVHG 114 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP------TPEE---IAK 554 +K I I +R+ + R++ ++++P T +E IA Sbjct: 115 IKAEINEYILRNCRMVRM---------ATTKAQRKLLFNLRKQPRSRTWLTADETKHIAD 165 Query: 555 KLAMPVEGVRKVLKITKEPISLETPIGDEDTS------------------HLGDFIEDKN 596 L + V V++ +ET + DTS LGD D Sbjct: 166 ILNVSVRDVKE----------METRMAGNDTSFDPAADADDDSALLTPAHQLGDHRYDPA 215 Query: 597 AVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERI 656 + ++ + + T L SL R +L RF TL ++ ++ V+ ERI Sbjct: 216 HLYETENDADTSSYDLHT-ALNSLDERSRDILAQRFLSERKA--TLHDLATKYKVSAERI 272 Query: 657 RQIEAKAIRKLK 668 RQIE A+ KLK Sbjct: 273 RQIEKLALAKLK 284 >gi|225619299|ref|YP_002720525.1| RNA polymerase sigma factor WhiG [Brachyspira hyodysenteriae WA1] gi|225214118|gb|ACN82852.1| RNA polymerase sigma factor WhiG [Brachyspira hyodysenteriae WA1] Length = 275 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 107/211 (50%), Gaps = 12/211 (5%) Query: 464 TNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 +++ ++F DL+ G+ GLM A +K++ KF TYA+ ++ AI + +P Sbjct: 62 SHKHIEFQDLVGFGSFGLMDAIDKYNPNRDIKFKTYAVTRIRGAIYDELRKLDY---LPR 118 Query: 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLET--P 579 +R + ++ + + ++ R P+EIA L +P+ + +K I P SL Sbjct: 119 SIRKDVKEIEKAREILEARLSRNIKPQEIADMLGIPISKYNETMKRYIEASPTSLSDVWY 178 Query: 580 IGDE-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT 638 +GD+ D + D ++ + +P A + +++ L L +E++VL + + Sbjct: 179 VGDDSDEISVIDTLKSNDKTNPEYLAEREDVKNKIIAALKKLPEKEQQVLILYY----YD 234 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 D TL+E+GK V+ RI Q+ KAI++L++ Sbjct: 235 DLTLKEIGKVLEVSESRISQLHTKAIQQLRY 265 >gi|238756654|ref|ZP_04617944.1| RNA polymerase sigma factor for flagellar operon [Yersinia ruckeri ATCC 29473] gi|238705123|gb|EEP97550.1| RNA polymerase sigma factor for flagellar operon [Yersinia ruckeri ATCC 29473] Length = 240 Score = 71.6 bits (174), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 52/201 (25%), Positives = 99/201 (49%), Gaps = 14/201 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + R++ K+ R + +E+A+ L + + R++L T DE G+ Sbjct: 100 VAQAMRQVEQKVGRPASEQEVAQILDISLVEYRQILLDTNNSQLFSY---DEWREEHGES 156 Query: 592 IE----DKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E + +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 157 VEPVLDGLDDANPLQQLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGA 212 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 213 VLEVGESRVSQLHSQAIKRLR 233 >gi|227500978|ref|ZP_03931027.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus tetradius ATCC 35098] gi|227216751|gb|EEI82149.1| possible DNA-directed RNA polymerase sigma subunit SigB [Anaerococcus tetradius ATCC 35098] Length = 256 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 58/229 (25%), Positives = 117/229 (51%), Gaps = 20/229 (8%) Query: 447 EMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQ 506 E++E ++ +V ++ KY +G++ DL Q ++GL+ A E++D G+ FS++A + Sbjct: 31 ELIEEHMYIVDILSNKYVGKGIEKDDLYQVASLGLIYAIERYDPSKGFAFSSFATPTIMG 90 Query: 507 AITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKREPTPEEIAKKLAMPVEGVRK 565 + R D+ IR+P +++ ++K + TA++ + +++R PT +IA L E + + Sbjct: 91 ELKRYFRDKGWVIRVPRRIQN-LYKKINTAKKILPQELQRTPTVADIADYLGEDEETILE 149 Query: 566 VLKITK--EPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVLA 618 ++ +K P SL+ E+ L D I EDKN DS L++ + + Sbjct: 150 TMEASKVYTPQSLDMKYQVQKGENAVDLSDMIGEEDKN----FDS---IELKDLIDKSME 202 Query: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L E+ +L +R+ G T ++ +++ + +IE K ++K Sbjct: 203 RLNDLEKEILELRYYEG----RTQVDIANSLDISQMTVSRIEKKILQKF 247 >gi|126348115|emb|CAJ89836.1| putative RNA polymerase sigma factor [Streptomyces ambofaciens ATCC 23877] Length = 295 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 61/263 (23%), Positives = 126/263 (47%), Gaps = 43/263 (16%) Query: 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAA 485 +F ++ + +G E A+ ++E N+ LV A ++ RG D++Q G IGL+KA Sbjct: 46 QFFQRLTELEEGTHEYQYARNTLIEMNMSLVRFAAGRFRGRGDDMDDVVQTGMIGLIKAI 105 Query: 486 EKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKR 545 ++F+ +F+++A+ ++ I R D + + +P +++ ++ + +S+++ R Sbjct: 106 DRFELSREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELAKAREELSSRLDR 165 Query: 546 EPTPEEIAKKLAMP----VEGVRKVLKITKEPISLET------PIGDEDTSHLGDFI--- 592 EPT E+A + + VEG ++ SL+ P G E S L DFI Sbjct: 166 EPTVAELATLMNISENEVVEG--QIASNGYNSSSLDAALTGDGPEGGE--SVLADFIGVE 221 Query: 593 -------EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 ED ++++PL +A L+ R+ +++ MRF + T E+ Sbjct: 222 EDGLRLVEDFHSLAPL---------------MAELSERDRQIIHMRF----VEEATQAEI 262 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G++ ++ + ++ + I +L+ Sbjct: 263 GERLGCSQMHVSRLIKRIITRLR 285 >gi|283779412|ref|YP_003370167.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] gi|283437865|gb|ADB16307.1| RNA polymerase, sigma 32 subunit, RpoH [Pirellula staleyi DSM 6068] Length = 374 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 33/85 (38%), Positives = 55/85 (64%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R ++ + + +A + +V ANLRLV+S+AKK+++ F DL+ EG L++A EK Sbjct: 178 RELIVSIERLIAQALADRNRIVRANLRLVVSIAKKFSDARNSFDDLLSEGITSLLRAVEK 237 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSI 512 FD+ G++FSTYA V++ + RS+ Sbjct: 238 FDYDRGFRFSTYATQAVRRTLCRSL 262 Score = 48.9 bits (115), Expect = 0.003, Method: Compositional matrix adjust. Identities = 24/61 (39%), Positives = 38/61 (62%), Gaps = 1/61 (1%) Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTD-HTLEEVGKQFCVTRERIRQIEAKAIRKL 667 LR ++L+ L PRE ++R RFG+ TL+ + +F V +ER+RQ+E +AI KL Sbjct: 300 LRRALAKMLSKLDPRERSIIRCRFGLDRKEQVQTLQSLAGEFGVCKERVRQLEMRAISKL 359 Query: 668 K 668 + Sbjct: 360 R 360 >gi|258488852|gb|ACV72432.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258488894|gb|ACV72453.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258488896|gb|ACV72454.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258488898|gb|ACV72455.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258488900|gb|ACV72456.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258488902|gb|ACV72457.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258489082|gb|ACV72547.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258489084|gb|ACV72548.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258489086|gb|ACV72549.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] gi|258489088|gb|ACV72550.1| RpoD [Xanthomonas campestris pv. mangiferaeindicae] Length = 261 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|255994576|ref|ZP_05427711.1| RNA polymerase sigma-B factor [Eubacterium saphenum ATCC 49989] gi|255993289|gb|EEU03378.1| RNA polymerase sigma-B factor [Eubacterium saphenum ATCC 49989] Length = 249 Score = 71.6 bits (174), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 108/211 (51%), Gaps = 8/211 (3%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +VE L +V + +KY N+G+++ DL Q G + L+ A E+FD G++FS++A + Sbjct: 22 IVEDYLYIVDILVRKYLNKGVEYDDLYQVGAMALIMAVERFDASRGFEFSSFATPTILGE 81 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARR-MSNKIKREPTPEEIAKKLAMPVEGVRKV 566 I + D+ +++P +++ + +++AR + K++R+PT +EIA++ M E V K+ Sbjct: 82 IKKYFRDKEWKLKVPRSVKEA-NAAIQSARESLFAKLQRDPTVKEIAEEKNMKEEEVAKL 140 Query: 567 L--KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA-NLRETTTRVLASLTPR 623 + + +SL+ D + E AV S I++ E +L+ L+ + Sbjct: 141 IDSSMAYNTLSLDVTFDDSGSDSGVSRYEKYMAVEG--SGIESLEYEEMIESILSVLSEK 198 Query: 624 EERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 + + RF G E++G Q ++R Sbjct: 199 NRYIFKKRFLEGKTQSEIAEKLGVSQMTISR 229 >gi|238798562|ref|ZP_04642039.1| RNA polymerase sigma factor for flagellar operon [Yersinia mollaretii ATCC 43969] gi|238717582|gb|EEQ09421.1| RNA polymerase sigma factor for flagellar operon [Yersinia mollaretii ATCC 43969] Length = 240 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 50/198 (25%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+AK L + + R++L T +E + Sbjct: 100 VASAMQQVEQRVGRPATEQEVAKILDIDLVEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|56421070|ref|YP_148388.1| sporulation sigma factor SigK [Geobacillus kaustophilus HTA426] gi|56380912|dbj|BAD76820.1| sporulation mother cell-specific RNA polymerase sigma-27 factor precursor (sigma K) (stage IV sporulation protein CB) [Geobacillus kaustophilus HTA426] Length = 237 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 69/268 (25%), Positives = 115/268 (42%), Gaps = 75/268 (27%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 IK+ + +S E ++++ KG+ +A + ++E NLRLV + KK+ N G + D Sbjct: 22 IKNNAFPQPLSAQEEEKYLALMAKGDEQA---RNRLIEHNLRLVAHIVKKFENTGEEVED 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI G IGL+KA E + G K +TYA R I ++ I +H+R Sbjct: 79 LISIGTIGLIKAIESYSPGKGTKLATYA--------ARCIENE-----ILMHLRS----- 120 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 LK T++ +SL PIG + Sbjct: 121 ----------------------------------LKKTRKDVSLHEPIGQD--------- 137 Query: 593 EDKNAVSPLD----------SAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 ++ N +S LD I N+ E + ++ L RE+ V+ RFG+G + T Sbjct: 138 KEGNEISLLDILKAEGEDIADEIHLNMELEQVKQYISVLDEREKEVIINRFGLGRQREKT 197 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E+ K+ ++R + +IE +A+ K+ H Sbjct: 198 QREIAKELGISRSYVSRIEKRALMKMFH 225 >gi|210621718|ref|ZP_03292767.1| hypothetical protein CLOHIR_00712 [Clostridium hiranonis DSM 13275] gi|210154600|gb|EEA85606.1| hypothetical protein CLOHIR_00712 [Clostridium hiranonis DSM 13275] Length = 252 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 64/247 (25%), Positives = 125/247 (50%), Gaps = 13/247 (5%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S E ++S+ +KG+ ++ K ++++ N+ LV K++ L DL Q G IGL Sbjct: 14 VSYDEILSLISLAQKGDLKS---KNKLIKLNIGLVKKAVSKFSFSSLDNDDLYQLGCIGL 70 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA E+FD LG FS+YA+ ++ I R + D I+I ++ K + + Sbjct: 71 VKAIERFDPNLGNMFSSYAVPLIEGEIKRFLRDDGI-IKISRELKTIGWKAKKYKTQYFK 129 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPL 601 K +E + + ++K+L +P+E ++ L I P+ I + D+ + ++ N + Sbjct: 130 KTGKEASLQALSKELNIPIEKIQSAL-IALSPVEYFN-IYESDSEYTQ--LDLSNNIIME 185 Query: 602 DSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEA 661 DS L E ++ L E++V+++R+ D T + G+ +++ ++ +IE Sbjct: 186 DSIPYTELIE-LNEIIDELPDLEKKVMKLRYF----EDFTQAKTGEILGISQVQVSRIER 240 Query: 662 KAIRKLK 668 KA+ LK Sbjct: 241 KALMLLK 247 >gi|154249080|ref|YP_001409905.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Fervidobacterium nodosum Rt17-B1] gi|154153016|gb|ABS60248.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Fervidobacterium nodosum Rt17-B1] Length = 233 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 59/203 (29%), Positives = 103/203 (50%), Gaps = 10/203 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLIQEG I L++AAEK+D G F T+A VK A+ + +P ++R I K Sbjct: 34 DLIQEGVIALLQAAEKYDPRYGATFKTFAYTRVKGAMIDYLRKLDY---LPKNVRQDIKK 90 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLK--ITKEPISLETPIGDEDTSHLG 589 R + KR PT +E+++ L + VE V ++ + K+ ++L+ + + D + G Sbjct: 91 FDRELLNFYEQNKRLPTYDEMSEILGIDVEEVEEIYRELALKQSLNLDQYLFESDENSYG 150 Query: 590 DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQF 649 I+ K+ + ++A ++ L E + L +E+ +L MRF + +L+E+ + Sbjct: 151 S-IDIKSEENVKENAWKSILHEQLVEAINKLDEKEKIILSMRF----EHELSLKEIAEVL 205 Query: 650 CVTRERIRQIEAKAIRKLKHPSR 672 VT R+ QI + KL+ R Sbjct: 206 GVTESRVSQILGVILSKLRKMLR 228 >gi|297193426|ref|ZP_06910824.1| RNA polymerase sigma-F factor [Streptomyces pristinaespiralis ATCC 25486] gi|197723191|gb|EDY67099.1| RNA polymerase sigma-F factor [Streptomyces pristinaespiralis ATCC 25486] Length = 282 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 57/241 (23%), Positives = 116/241 (48%), Gaps = 11/241 (4%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 ++ G E S + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G Sbjct: 48 LQAGTAEHSRVRAALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRG 107 Query: 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIA 553 +F T+AM V I R D T+ +P + + +V ++ R PT EIA Sbjct: 108 VQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNGATEDLTTAHGRSPTTAEIA 167 Query: 554 KKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRE 611 ++L + + V ++ + SLE ++ + ++ P + ++ R+ Sbjct: 168 ERLKIGEDEVLACIEAGRSYHATSLE---AAQEGDGMPGLLDRLGYEDPALAGVEH--RD 222 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 +L L RE+R+L +R+ ++ T ++ ++ V++ + ++ A++ +L+ + Sbjct: 223 LVRHLLVQLPEREQRILMLRY----YSNLTQSQISQELGVSQMHVSRLLARSFARLRSAN 278 Query: 672 R 672 R Sbjct: 279 R 279 >gi|258489028|gb|ACV72520.1| RpoD [Xanthomonas axonopodis pv. phaseoli] Length = 246 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 36/69 (52%), Positives = 49/69 (71%) Query: 117 TDDPVRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELND 176 T DPVRMY+REMG++ELL+REGEIAIAKRIE G + + A+L PL+ + L+ + + Sbjct: 4 TTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE 63 Query: 177 GTTLLREII 185 G L EI+ Sbjct: 64 GKKRLAEIV 72 >gi|261418447|ref|YP_003252129.1| sporulation sigma factor SigK [Geobacillus sp. Y412MC61] gi|319767593|ref|YP_004133094.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC52] gi|261374904|gb|ACX77647.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC61] gi|317112459|gb|ADU94951.1| RNA polymerase, sigma 28 subunit, SigK [Geobacillus sp. Y412MC52] Length = 245 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 69/268 (25%), Positives = 115/268 (42%), Gaps = 75/268 (27%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 IK+ + +S E ++++ KG+ +A + ++E NLRLV + KK+ N G + D Sbjct: 30 IKNNAFPQPLSAQEEEKYLALMAKGDEQA---RNRLIEHNLRLVAHIVKKFENTGEEVED 86 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI G IGL+KA E + G K +TYA R I ++ I +H+R Sbjct: 87 LISIGTIGLIKAIESYSPGKGTKLATYA--------ARCIENE-----ILMHLRS----- 128 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 LK T++ +SL PIG + Sbjct: 129 ----------------------------------LKKTRKDVSLHEPIGQD--------- 145 Query: 593 EDKNAVSPLD----------SAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 ++ N +S LD I N+ E + ++ L RE+ V+ RFG+G + T Sbjct: 146 KEGNEISLLDILKAEGEDIVDEIHLNMELEQVKQYISVLDEREKEVIINRFGLGRQREKT 205 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E+ K+ ++R + +IE +A+ K+ H Sbjct: 206 QREIAKELGISRSYVSRIEKRALMKMFH 233 >gi|149175161|ref|ZP_01853784.1| sigma-70 factor [Planctomyces maris DSM 8797] gi|148846139|gb|EDL60479.1| sigma-70 factor [Planctomyces maris DSM 8797] Length = 349 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 56/230 (24%), Positives = 103/230 (44%), Gaps = 60/230 (26%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 +++ANLRLV+S+AK T+R F D++ +G++ L++A E FD G +FSTY W V Sbjct: 170 IIQANLRLVVSIAKNLTDRANLFEDIVSDGHLPLIRAVEIFDVDRGNRFSTYGTWAV--- 226 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 R+ + + + R K T A+ LA+ + +R + Sbjct: 227 ------------------RNFLFRTTKKGR------KYRKTFLNGAETLALGLSDIRSTM 262 Query: 568 KITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERV 627 + +T H +D +Q +VL +L RE+ + Sbjct: 263 R-------------SHETYH-----------QNIDDVLQ--------KVLHTLDEREQVI 290 Query: 628 LRMRFGIGM-NTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKL 676 L+ RFG+ +T E+ + V+ ER+RQ+ +++++++ +KL Sbjct: 291 LKRRFGLAQSDTPEKFREIAEDLGVSTERVRQLTIRSLQRMREAIEEQKL 340 >gi|39998144|ref|NP_954095.1| RNA polymerase sigma factor for flagellar operon [Geobacter sulfurreducens PCA] gi|39985090|gb|AAR36445.1| RNA polymerase sigma factor for flagellar operon [Geobacter sulfurreducens PCA] Length = 250 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 57/210 (27%), Positives = 105/210 (50%), Gaps = 13/210 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+ IGL+ AAE+FD G +F T+A ++ I + Q R +RDK K Sbjct: 50 DLMSAAIIGLITAAERFDPTRGVQFKTFAEQRIRGTIIDELRSQDWLTR---SLRDKFKK 106 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLG 589 + + + +++ R PT EE+A L M V+ ++L+ +SL+ D+D S G Sbjct: 107 LEKEFVLLEHQLGRNPTSEEVATALKMSVDEYYQMLEEIHLLSFVSLDESWEDDDGSPFG 166 Query: 590 --DFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 D + D + +P + + ++ T + SL +E V+ + + +N L+E+G Sbjct: 167 LLDILADTSIENPQSQLMARQMLDSLTESIESLPEKERLVITLYYYEELN----LKEIGA 222 Query: 648 QFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 ++ RI Q+ ++AI +L+ ++ K +R Sbjct: 223 VLELSESRISQLHSQAIVRLR--AKMKNMR 250 >gi|325844829|ref|ZP_08168281.1| RNA polymerase sigma-K factor [Turicibacter sp. HGF1] gi|325489016|gb|EGC91404.1| RNA polymerase sigma-K factor [Turicibacter sp. HGF1] Length = 229 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 67/273 (24%), Positives = 118/273 (43%), Gaps = 59/273 (21%) Query: 398 FVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVI 457 F+ +++ + I + + +S E H ++++ G+ A +++++E NLRLV Sbjct: 6 FIVSLFSNLIPLMGSISNQAFPNPLSPEEEEHYLTLMANGDKNA---REKLIEHNLRLVA 62 Query: 458 SVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSC 517 + KKY N+ DLI G IGL+KA + F G K +TYA + Sbjct: 63 HIVKKYQNQTDDKEDLISIGTIGLIKAIDSFSPDKGTKLATYAARCID------------ 110 Query: 518 TIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLE 577 ++I + R+ ++M N +SL Sbjct: 111 ---------NEILMLFRSTKKMRND-------------------------------VSLY 130 Query: 578 TPIGDEDTSH---LGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGI 634 PIG + + L D ++D+N D IQ E + L SLT RE ++ RFG+ Sbjct: 131 DPIGYDKEGNEICLIDVVKDENK-DLNDIIIQQLAFEKIEKNLKSLTQRERDIIVRRFGL 189 Query: 635 GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + T +E+ K + ++R + +IE +A+ KL Sbjct: 190 ENHEEETQQEIAKSYGISRSYVSRIEKRALMKL 222 >gi|228993082|ref|ZP_04153005.1| RNA polymerase sigma-28 factor [Bacillus pseudomycoides DSM 12442] gi|228999132|ref|ZP_04158714.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock3-17] gi|229006680|ref|ZP_04164314.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock1-4] gi|228754541|gb|EEM03952.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock1-4] gi|228760749|gb|EEM09713.1| RNA polymerase sigma-28 factor [Bacillus mycoides Rock3-17] gi|228766730|gb|EEM15370.1| RNA polymerase sigma-28 factor [Bacillus pseudomycoides DSM 12442] Length = 228 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 99/228 (43%), Gaps = 54/228 (23%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 40 ARNLLIEHNLRLVAHIVKKFENTGEDSEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 97 -----ARCIENE-----ILMHLR------------------------------------- 109 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQANLR-ETTTRVLASLT 621 VLK TK+ +SL PIG + + I+ K+ + IQ ++ E + L Sbjct: 110 --VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQLSMELEKIKEYIDILD 167 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ K+ H Sbjct: 168 EREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALMKMFH 215 >gi|238794024|ref|ZP_04637642.1| RNA polymerase sigma factor for flagellar operon [Yersinia intermedia ATCC 29909] gi|238726656|gb|EEQ18192.1| RNA polymerase sigma factor for flagellar operon [Yersinia intermedia ATCC 29909] Length = 240 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VASAMQKVEQRVGRPATEQEVAQILDIDLAEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|310657328|ref|YP_003935049.1| RNA polymerase sigma-37 factor (sigma-b) [Clostridium sticklandii DSM 519] gi|308824106|emb|CBH20144.1| RNA polymerase sigma-37 factor (sigma-B) [Clostridium sticklandii] Length = 273 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 59/241 (24%), Positives = 116/241 (48%), Gaps = 38/241 (15%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+V+ +L + ++KK+ N+G+++ D+ Q ++GL+ A E+FD G++FS++A + Sbjct: 46 RNELVKRHLYIAEILSKKFLNKGIEYEDIYQVASLGLIFAIERFDVSKGFEFSSFATPTI 105 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I + D+ +IR+P +++ KV + ++ R P E+IAK L E V Sbjct: 106 IGEIKKYFRDKGWSIRVPRRIQELSKKVNTAKSYLQQELHRVPKIEDIAKYLDCTEEEVL 165 Query: 565 KVLKITK--EPISLETP---------------IGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 + ++ + +P SL+ +GDED S + IE+K+ + Sbjct: 166 EAIEASHVYKPKSLDLSYDNEGDDKDILLLDLVGDEDKSF--NMIENKDFIE-------- 215 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 L+ L E ++++ RF H ++G V++ + ++E K + KL Sbjct: 216 -------NALSKLNEIETKIIKDRFFKNKTQMHVANDLG----VSQMTVSRMEKKILAKL 264 Query: 668 K 668 K Sbjct: 265 K 265 >gi|254700317|ref|ZP_05162145.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261750811|ref|ZP_05994520.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] gi|261740564|gb|EEY28490.1| RNA polymerase factor sigma-32 [Brucella suis bv. 5 str. 513] Length = 262 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 34/101 (33%), Positives = 59/101 (58%), Gaps = 2/101 (1%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++V ++LRLV +A Y GL ++I EGN+GLM+A ++F+ G++ +TYAMWW Sbjct: 49 AAHKLVTSHLRLVAKIAMGYRGYGLPIGEVISEGNVGLMQAVKRFEPERGFRLATYAMWW 108 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK 544 +K +I I +++ K ++ R+M +KI+ Sbjct: 109 IKASIQEYILRSWSLVKMGTTANQK--RLFFNLRKMKSKIQ 147 >gi|229086911|ref|ZP_04219070.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-44] gi|228696421|gb|EEL49247.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-44] Length = 228 Score = 71.2 bits (173), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 99/228 (43%), Gaps = 54/228 (23%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 40 ARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 96 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 97 -----ARCIENE-----ILMHLR------------------------------------- 109 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQANLR-ETTTRVLASLT 621 VLK TK+ +SL PIG + + I+ K+ + IQ ++ E + L Sbjct: 110 --VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQLSMELEKIKEYIDILD 167 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ K+ H Sbjct: 168 EREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALMKMFH 215 >gi|297529299|ref|YP_003670574.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] gi|297252551|gb|ADI25997.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Geobacillus sp. C56-T3] Length = 245 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 69/268 (25%), Positives = 115/268 (42%), Gaps = 75/268 (27%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 IK+ + +S E ++++ KG+ +A + ++E NLRLV + KK+ N G + D Sbjct: 30 IKNNAFPQPLSAQEEEKYLALMAKGDEQA---RNRLIEHNLRLVAHIVKKFENTGEEVED 86 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI G IGL+KA E + G K +TYA R I ++ I +H+R Sbjct: 87 LISIGTIGLIKAIESYSPGKGTKLATYA--------ARCIENE-----ILMHLRS----- 128 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFI 592 LK T++ +SL PIG + Sbjct: 129 ----------------------------------LKKTRKDVSLHEPIGQD--------- 145 Query: 593 EDKNAVSPLD----------SAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 ++ N +S LD I N+ E + ++ L RE+ V+ RFG+G + T Sbjct: 146 KEGNEISLLDILKAEGQDIVDEIHLNMELEQVKQYISVLDEREKEVIINRFGLGRQREKT 205 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLKH 669 E+ K+ ++R + +IE +A+ K+ H Sbjct: 206 QREIAKELGISRSYVSRIEKRALMKMFH 233 >gi|91200244|emb|CAJ73289.1| strongly similar to RNA polymerase sigma factor for flagellar operon [Candidatus Kuenenia stuttgartiensis] Length = 259 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 61/240 (25%), Positives = 112/240 (46%), Gaps = 19/240 (7%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLD---LIQEGNIGLMKAAEKFDWCLGYKFSTY 499 I ++++V NL LV V K+ F+D LI+ G IGL++A+E+FD C+ KF T+ Sbjct: 24 IDREKLVTENLSLVKYVVNKFIIYLPSFVDKEDLIEYGVIGLLEASERFDPCMDTKFGTF 83 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A+ ++ AI + Q +P +R+K+ + K+ R P PEEIA +L + Sbjct: 84 AVSRIRGAILDHLRAQDW---LPRSVREKVSLAREAYATLEQKLNRHPLPEEIAAELKID 140 Query: 560 VEGVRKVLK-------ITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 K+L ++ E ++ ++ G+++ +G D PL + +E Sbjct: 141 TAEWEKLLVEINFGMFLSLEEMNAKSEDGNKEA--VGMLFADSKIGDPLSNIETEEEKEL 198 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 + L RE+ V+ + + D L E+ + ++ R+ QI + + L+ R Sbjct: 199 LVAAIKELPAREKLVITLYY----YEDLMLREISQMLDISESRVSQIHHQGLFMLRSKVR 254 >gi|306821834|ref|ZP_07455426.1| RNA polymerase sigma-B factor [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304550141|gb|EFM38140.1| RNA polymerase sigma-B factor [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 268 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 56/231 (24%), Positives = 116/231 (50%), Gaps = 18/231 (7%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + E+++ NL + ++KKY N+G+++ D+ Q ++GL+ A E++D G++FS++A + Sbjct: 42 RNELIQRNLYIAEILSKKYINKGIEYEDIYQVASLGLIYAIERYDITKGFEFSSFATPTI 101 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I + D+ +IR+P +++ +V + + + P +IA+KL + E V Sbjct: 102 IGEIKKYFRDKGWSIRVPRRIQELSKRVNTVKNELQQETHKTPRISDIAEKLGITQEEVL 161 Query: 565 KVLKI--TKEPISLETPI---GDEDTSHLGDFI--EDKNAVSPLDSAIQANLRETTTRVL 617 + + PISL+ G++ L + I +DK+ D N V+ Sbjct: 162 ETMDAAGAYAPISLDVKYDNEGEDKDVALHELIGKDDKSFAEIEDGDFLRN-------VM 214 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 SL+ E++++ R+ + T V K+ +++ + ++E K + KLK Sbjct: 215 ESLSEVEKKIIMDRYF----DNKTQMTVAKELDISQMTVSRMEKKILTKLK 261 >gi|1706832|sp|P52621|FLIA_YEREN RecName: Full=RNA polymerase sigma factor for flagellar operon; AltName: Full=Sigma-27; AltName: Full=Sigma-28; AltName: Full=Sigma-F factor gi|790557|gb|AAC43394.1| FliA [Yersinia enterocolitica (type O:9)] Length = 230 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 33 DLLQAGGIGLLNAVERYDRLQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 89 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 90 VASAMQKVEQRLGRPATEQEVAQNLDIDLTEYRQILLDTNNSQLFSYDEWREEHGESVEP 149 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 150 MLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 205 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 206 VGESRVSQLHSQAIKRLR 223 >gi|116334961|ref|YP_802456.1| putative RNA polymerase sigma factor rpoD [Candidatus Carsonella ruddii PV] gi|116235242|dbj|BAF35090.1| putative RNA polymerase sigma factor rpoD [Candidatus Carsonella ruddii PV] Length = 320 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 30/73 (41%), Positives = 49/73 (67%) Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 NL ++ L +E+ ++R+RFGIG +TLEE+G + +T+ERIRQIE + KL Sbjct: 241 NLNNLIRLIILELPKKEQIIIRLRFGIGFPKSYTLEEIGLMYYLTKERIRQIELNVLFKL 300 Query: 668 KHPSRSKKLRSFL 680 +HP+RS+ L+ ++ Sbjct: 301 RHPTRSEVLKPYI 313 >gi|229016304|ref|ZP_04173251.1| RNA polymerase sigma-B factor [Bacillus cereus AH1273] gi|229022543|ref|ZP_04179074.1| RNA polymerase sigma-B factor [Bacillus cereus AH1272] gi|228738763|gb|EEL89228.1| RNA polymerase sigma-B factor [Bacillus cereus AH1272] gi|228744996|gb|EEL95051.1| RNA polymerase sigma-B factor [Bacillus cereus AH1273] Length = 224 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 56/234 (23%), Positives = 112/234 (47%), Gaps = 24/234 (10%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV+ LV S+A +Y+ G D+IQ G +GL+ A ++D+ +G F +A+ + Sbjct: 1 MVDHYKNLVHSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + + D++ I +P ++D K+ ++++++R P EIA L + E V +++ Sbjct: 61 IKKYLRDKTWGIHVPRRIKDLGGKIKLAIEELTDRLQRSPKIIEIADHLGLSEEEVLEIM 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA--IQANLRETTTR-----VL 617 + S L D +E D ++V+ ++S ++ +T R + Sbjct: 121 DAKN----------NYRVSSLDDVVENSSDGSSVARIESVGEVEQGYEQTERRLILDDIF 170 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 L E+ V+ FG +N T G++ +++ + +I+ +AI KLK + Sbjct: 171 NVLNDTEKSVIHYIFGENLNQKDT----GERLGISQMHVSRIKRQAISKLKQAA 220 >gi|325106726|ref|YP_004267794.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] gi|324966994|gb|ADY57772.1| RNA polymerase, sigma 32 subunit, RpoH [Planctomyces brasiliensis DSM 5305] Length = 332 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 63/250 (25%), Positives = 104/250 (41%), Gaps = 75/250 (30%) Query: 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +A+ + ++ ANLRLV+SVA+K+ L F +L +G I LM A EKFD+ GY+FSTY Sbjct: 148 QANSVRDLLIRANLRLVVSVARKFVTPQLTFDELFSDGVIALMNAVEKFDYDRGYRFSTY 207 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A + + +++ R I V +++IH V Sbjct: 208 AYYSISRSLYRF---------IKVQRKNRIHSDV-------------------------- 232 Query: 560 VEGVRKVLKITKEPISLETPIGDEDTSHLG------DFIEDKNAVSPLDSAIQANLRETT 613 LE + +D G DF+ ++ LDS + Sbjct: 233 ----------------LEQVVEADDDGQSGWNQESWDFVNEE-----LDSML-------- 263 Query: 614 TRVLASLTPREERVLRMRFGI-GMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 A L RE ++R R+ T + + ++ V ER+RQ+E +A+ KL++ S Sbjct: 264 ----AQLDQRERWIIRQRYTFDSEGKAPTYKVLAEKLGVCNERVRQLEKRALSKLRNLSD 319 Query: 673 SKKLRSFLDG 682 + L+ Sbjct: 320 DGRFSDILEA 329 >gi|146284301|ref|YP_001174454.1| RNA polymerase factor sigma-32 [Pseudomonas stutzeri A1501] gi|145572506|gb|ABP81612.1| sigma factor RpoH [Pseudomonas stutzeri A1501] gi|327482685|gb|AEA85995.1| RNA polymerase factor sigma-32 [Pseudomonas stutzeri DSM 4166] Length = 284 Score = 71.2 bits (173), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 67/236 (28%), Positives = 122/236 (51%), Gaps = 17/236 (7%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQADLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIPV--HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVE 561 ++ I I +++ R + +R++ E T +A L + Sbjct: 110 IRAEIHEFILRNWRIVKVATTKAQRKLFFNLRSQKKRLAWLNNDEVTA--VADSLGVEPH 167 Query: 562 GVRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDKNAVSPLDSAIQANLRETTTRVL 617 VR++ ++T ++ + +D S ++ED + P A+ +++T L Sbjct: 168 EVREMESRLTGHDMAFDPAADADDDSAYQSPAHYLED-HRYDPARQLEDADWSDSSTSSL 226 Query: 618 -ASLTPREER---VLRMRFGIGMNTDH-TLEEVGKQFCVTRERIRQIEAKAIRKLK 668 A+L +ER +L+ R+ +N D TL ++ ++ V+ ERIRQ+E A+ KLK Sbjct: 227 HAALEGLDERSRDILQQRW---LNEDKATLHDLAAKYNVSAERIRQLEKNAMNKLK 279 >gi|254381148|ref|ZP_04996513.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] gi|194340058|gb|EDX21024.1| RNA polymerase sigma factor [Streptomyces sp. Mg1] Length = 306 Score = 70.9 bits (172), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 61/257 (23%), Positives = 121/257 (47%), Gaps = 45/257 (17%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYT---NRGLQFLDLIQEGNIGLMKAAEKFDWCL 492 +G + A+ ++E N+ LV A+++T N G++ D+IQ G IGL+KA ++FD Sbjct: 65 EGTRDYQYARNTLIEMNISLVRFAARRFTARINAGIELDDVIQVGTIGLIKAIDRFDPDR 124 Query: 493 GYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEI 552 +FST A+ ++ I R D + + +P +++ ++ + ++ + R P+ +EI Sbjct: 125 EVEFSTLALPYITGEIKRYFRDTTWAVHVPRRLQELRVELAKCQETLTEVLGRAPSVKEI 184 Query: 553 AKKLAMPVEGVRKVL---------------KITKEPISLET------PIGDEDTSHLGDF 591 A+ L + E V + L T P +L +GD D + + Sbjct: 185 AEHLELSEEEVIEGLVAANGYSSASLDSTAGTTDRPAALSEGRPLADTVGDIDPAMV--L 242 Query: 592 IEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCV 651 ED + ++PL L+ L R+ ++LRMRF M T E+G + + Sbjct: 243 FEDVHTLAPL---------------LSELDERDLQILRMRFAREM----TQAEIGTELGI 283 Query: 652 TRERIRQIEAKAIRKLK 668 ++ ++ ++ + + +L+ Sbjct: 284 SQMQVSRLLTRILTRLR 300 >gi|319644916|ref|ZP_07999149.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] gi|317392725|gb|EFV73519.1| RNA polymerase sigma factor [Bacillus sp. BT1B_CT2] Length = 241 Score = 70.9 bits (172), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 100/230 (43%), Gaps = 58/230 (25%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 50 ARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 107 -----ARCIENE-----ILMHLR------------------------------------- 119 Query: 564 RKVLKITKEPISLETPIGDEDTSH---LGDFIEDKNAVSPLDSAIQANLR-ETTTRVLAS 619 LK TK+ +SL PIG + + L D ++ +N + IQ N+ E + + Sbjct: 120 --ALKKTKKDVSLHDPIGQDKEGNEISLIDVLKSEN--EDVIDTIQLNMELEKVKKYIDI 175 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE+ V+ RFG+ + + T E+ K+ ++R + +IE +A+ K+ H Sbjct: 176 LDGREKEVIVGRFGLDLKKEKTQREIAKELGISRSYVSRIEKRALMKMFH 225 >gi|326797246|ref|YP_004315066.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas mediterranea MMB-1] gi|326548010|gb|ADZ93230.1| RNA polymerase, sigma 32 subunit, RpoH [Marinomonas mediterranea MMB-1] Length = 288 Score = 70.9 bits (172), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 60/241 (24%), Positives = 119/241 (49%), Gaps = 16/241 (6%) Query: 437 GECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKF 496 G+ EA+ + +V ++LR V+ +AK Y+ GL DL+QEGN+GLMKA ++F+ +G + Sbjct: 46 GDLEAA---RALVMSHLRFVVHIAKSYSGYGLSQGDLVQEGNVGLMKAVKRFNPEVGVRL 102 Query: 497 STYAMWWVKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 ++A+ W+K I I +++ + K+ +R+A++ + + + +A Sbjct: 103 VSFAVHWIKAEIHEFILKNWRIVKVATTKAQRKMFFNLRSAKKTLSWLNNSEV-DAVAND 161 Query: 556 LAMPVEGVRKV--------LKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQA 607 L + + VR++ + + S+L D D A+ D +A Sbjct: 162 LGVSPDVVRQMEGRMSSTDMAFDATTDDDDDSAFQAPASYLEDGRYDP-AMLLEDGNWEA 220 Query: 608 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKL 667 + + ++ L R +L R+ + N TL ++ ++ V+ ERIRQ+E A++K+ Sbjct: 221 DSNRRLQQAMSDLDERSRNILVQRW-LSENKS-TLHDLADEYGVSAERIRQLEKNAMKKI 278 Query: 668 K 668 + Sbjct: 279 R 279 >gi|294501329|ref|YP_003565029.1| RNA polymerase sigma-K factor [Bacillus megaterium QM B1551] gi|295706676|ref|YP_003599751.1| RNA polymerase sigma-K factor [Bacillus megaterium DSM 319] gi|294351266|gb|ADE71595.1| RNA polymerase sigma-K factor [Bacillus megaterium QM B1551] gi|294804335|gb|ADF41401.1| RNA polymerase sigma-K factor [Bacillus megaterium DSM 319] Length = 242 Score = 70.9 bits (172), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 68/259 (26%), Positives = 115/259 (44%), Gaps = 57/259 (22%) Query: 413 IKSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLD 472 +K+ + +S +E + +S++ +G+ EA + ++E NLRLV + KK+ N G D Sbjct: 22 VKNNAFPQPLSAAEEKRYLSLMEQGDQEA---RNLLIEHNLRLVAHIVKKFENTGEDAED 78 Query: 473 LIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKV 532 LI G IGL+KA E + G K +TYA R I ++ I +H+R Sbjct: 79 LISIGTIGLIKAIESYSQGKGTKLATYA--------ARCIENE-----ILMHLR------ 119 Query: 533 VRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIG-DEDTSHLGDF 591 LK TK+ +SL PIG D++ + + Sbjct: 120 ---------------------------------ALKKTKKDVSLHDPIGQDKEGNEISLI 146 Query: 592 IEDKNAVSPLDSAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 K+ + IQ N+ E + L RE+ V+ RFG+ + + T E+ K+ Sbjct: 147 DVLKSESDDVIDMIQLNMELEKIKEYIDILDDREKEVIVGRFGLDLQDEKTQREIAKELN 206 Query: 651 VTRERIRQIEAKAIRKLKH 669 ++R + +IE +A+ K+ H Sbjct: 207 ISRSYVSRIEKRALMKMFH 225 >gi|256271|gb|AAC60416.1| RpoD3 [Synechococcus] Length = 48 Score = 70.9 bits (172), Expect = 7e-10, Method: Composition-based stats. Identities = 30/48 (62%), Positives = 39/48 (81%) Query: 471 LDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCT 518 LDLIQEG IG+ + EKFD GY+FSTYA WW++QAITR+IA+++ T Sbjct: 1 LDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKART 48 >gi|256783362|ref|ZP_05521793.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] gi|289767236|ref|ZP_06526614.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] gi|289697435|gb|EFD64864.1| RNA polymerase secondary sigma factor [Streptomyces lividans TK24] Length = 263 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 59/214 (27%), Positives = 99/214 (46%), Gaps = 11/214 (5%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 + ++ L + +A ++ RG DL Q +GL+KA + +D G+ F YA+ V Sbjct: 38 RDNLIRVWLPMAERIAVRFRGRGENLEDLYQVAALGLVKAVDHYDPERGHAFEAYAVPTV 97 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK-REPTPEEIAKKLAMPVEGV 563 I R D T+ +P ++D ++V ++A+ ++ R PT EEIA+ + V Sbjct: 98 TGEIKRHFRDHMWTLHVPRRIQDLRNRVRKSAKELAQTTPGRAPTVEEIAEHAQLTTAEV 157 Query: 564 RKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTR-VLASL 620 R ++ + +SLE + D LGD A+ D A A + R L +L Sbjct: 158 RTGMEALECFSALSLEAEMPGTDGYALGD------ALGGPDPAFDAVVDRVAVRPCLEAL 211 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVG-KQFCVTR 653 RE +L +RF GM +++G Q V+R Sbjct: 212 PERERTILYLRFFGGMTQSRIAQQLGISQMHVSR 245 >gi|152976769|ref|YP_001376286.1| sporulation sigma factor SigK [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025521|gb|ABS23291.1| RNA polymerase, sigma 28 subunit, FliA/WhiG family [Bacillus cytotoxicus NVH 391-98] Length = 237 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 63/228 (27%), Positives = 99/228 (43%), Gaps = 54/228 (23%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 49 ARNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 105 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 106 -----ARCIENE-----ILMHLR------------------------------------- 118 Query: 564 RKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQANLR-ETTTRVLASLT 621 VLK TK+ +SL PIG + + I+ K+ + IQ ++ E + L Sbjct: 119 --VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQLSMELEKIKEYIDILD 176 Query: 622 PREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ K+ H Sbjct: 177 EREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALMKMFH 224 >gi|282863441|ref|ZP_06272500.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] gi|282561776|gb|EFB67319.1| RNA polymerase, sigma 28 subunit, Sig B/F/G subfamily [Streptomyces sp. ACTE] Length = 285 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 58/239 (24%), Positives = 111/239 (46%), Gaps = 11/239 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 G E + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G + Sbjct: 53 PGTPEHDRVRTALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPERGVQ 112 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM V I R D T+ +P + + +V ++ R PT EIA++ Sbjct: 113 FPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVTGATEDLTTAHGRSPTTAEIAQR 172 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + E V ++ + SLE ++ L ++ P + ++ R+ Sbjct: 173 LKISEEEVLACIEAGRSYHATSLE---AAQEGDGLPGLLDRLGYEDPALAGVEH--RDLV 227 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ + T ++ + V++ + ++ A++ +L+ +R Sbjct: 228 RHLLVQLPEREQRILLLRY----YNNLTQSQISAELGVSQMHVSRLLARSFARLRSANR 282 >gi|218548541|ref|YP_002382332.1| flagellar biosynthesis sigma factor [Escherichia fergusonii ATCC 35469] gi|218356082|emb|CAQ88699.1| RNA polymerase, sigma 28 (sigma F) factor [Escherichia fergusonii ATCC 35469] gi|324113640|gb|EGC07615.1| FliA/WhiG family protein RNA polymerase sigma protein [Escherichia fergusonii B253] gi|325496958|gb|EGC94817.1| flagellar biosynthesis sigma factor [Escherichia fergusonii ECD227] Length = 238 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 97/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A +++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVDRYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V + ++ ++ R + E+AK+L + E R++L T E+ + Sbjct: 100 VAQAIGQLEQELGRNASETEVAKRLGISTEEYRQMLLDTNNSQLFSYDEWREEHGDSAEL 159 Query: 592 I-EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 I E+ +PL ++++LR+ + L RE+ VL + + +N L+E+G Sbjct: 160 ITEEHQQANPLHQLLESDLRQQVMDAIERLPEREKLVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|167630319|ref|YP_001680818.1| RNA polymerase sigma factor, flia/whig family [Heliobacterium modesticaldum Ice1] gi|167593059|gb|ABZ84807.1| RNA polymerase sigma factor, flia/whig family [Heliobacterium modesticaldum Ice1] Length = 266 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 67/218 (30%), Positives = 105/218 (48%), Gaps = 28/218 (12%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G GLM A EKFD G KF TYA+ ++ ++ + +PV +R K + Sbjct: 60 DLISYGVFGLMDAIEKFDLARGLKFETYAIARIRGSMLDGLRAMDW---VPVSVRQKTRE 116 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + +T +S ++ RE T EE+A+ L + + K+L+ + T I D L D Sbjct: 117 LEKTYATLSQRLGREATDEEVAQALGLTLNEFAKLLQDVQ-----ATTIMSLDEYWLTD- 170 Query: 592 IEDK-NAVSPLDSAIQANLRETT-------TRVLAS-----LTPREERVLRMRFGIGMNT 638 DK + V +DS + E T TR+L + L +E V+ + + G+ Sbjct: 171 -SDKGDPVRLIDSLADEQVEEPTAALEFEETRLLLAQAIDKLPEKERTVIALYYYEGL-- 227 Query: 639 DHTLEEVGKQFCVTRERIRQIEAKAIRKLK-HPSRSKK 675 TL+E+G V+ RI Q+ KAI +L+ +R KK Sbjct: 228 --TLKEIGAVIGVSESRISQLHTKAILRLRGQLARQKK 263 >gi|238788344|ref|ZP_04632138.1| RNA polymerase sigma factor for flagellar operon [Yersinia frederiksenii ATCC 33641] gi|238723590|gb|EEQ15236.1| RNA polymerase sigma factor for flagellar operon [Yersinia frederiksenii ATCC 33641] Length = 240 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VASAMQKVEQRLGRPATEQEVAQILDIDLAEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 LLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|304439070|ref|ZP_07398989.1| RNA polymerase sigma-B factor [Peptoniphilus duerdenii ATCC BAA-1640] gi|304372429|gb|EFM26016.1| RNA polymerase sigma-B factor [Peptoniphilus duerdenii ATCC BAA-1640] Length = 260 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 57/247 (23%), Positives = 118/247 (47%), Gaps = 26/247 (10%) Query: 445 KKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +++++E NL + +AKKY RG+ + D+ Q +IGL+ A +++D G++FS++A + Sbjct: 29 REKLIEDNLYIAEILAKKYYGRGIDYDDIYQVASIGLIYAVDRYDPSKGFEFSSFATPTI 88 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 I + D+ TIR+P +++ K+ ++ +++ PT +IA+ L E V Sbjct: 89 IGEIKKYFRDKGWTIRVPRRIQELSKKINNARVYLAQNLQKAPTVSDIAEYLNTTEEEVL 148 Query: 565 KVLKITK--EPISLETPI---GDEDTSHLGDFIE------DKNAVSPLDSAIQANLRETT 613 + ++ ++ +P SL+ D+ +L D I +K ++ L ++ NL E Sbjct: 149 EAIEASRVYQPQSLDISYESQSDDKEVNLADIIGQDEEYFEKIEMNDLMESLFKNLNEVE 208 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRS 673 +L ER + + + +Q +++ + +IE K + +LK Sbjct: 209 KTILV------ERYFNRKTQVA---------IAEQLNISQMTVSRIEKKVLERLKKDVEG 253 Query: 674 KKLRSFL 680 K + L Sbjct: 254 KTMGEVL 260 >gi|322421664|ref|YP_004200887.1| RNA polymerase sigma 28 subunit FliA/WhiG [Geobacter sp. M18] gi|320128051|gb|ADW15611.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter sp. M18] Length = 250 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 60/233 (25%), Positives = 113/233 (48%), Gaps = 14/233 (6%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLD---LIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +++ E+V ++L LV + + + LD L IGL+ AAE+FD G +F T+ Sbjct: 18 MSRDELVVSHLPLVKFIVDRIASSLPPHLDRDDLRSAAVIGLISAAERFDPSRGVQFKTF 77 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A ++ I + Q R +RDK K+ + ++ ++ R P+ +E+A + + Sbjct: 78 AEQRIRGTIMDELRAQDWLTR---SLRDKFKKLEKEFSQLEQRLGRNPSSDEVATAMGLE 134 Query: 560 VEGVRKVLKITK--EPISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRETTTR 615 ++ ++L+ +SL+ DED + G D +EDK SP + I E Sbjct: 135 LKDYFRLLEEIHLLSFVSLDDAWHDEDGAPFGLLDVLEDKGTESPQNQLIARQTVERLAE 194 Query: 616 VLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L +E V+ + + +N L+E+G +T RI Q+ ++AI +L+ Sbjct: 195 AIDTLPEKERIVITLYYYEELN----LKEIGAVLDLTESRISQLHSQAIIRLR 243 >gi|197120125|ref|YP_002140552.1| RNA polymerase sigma-28 factor for flagellar operon [Geobacter bemidjiensis Bem] gi|253702434|ref|YP_003023623.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter sp. M21] gi|197089485|gb|ACH40756.1| RNA polymerase sigma-28 factor for flagellar operon [Geobacter bemidjiensis Bem] gi|251777284|gb|ACT19865.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Geobacter sp. M21] Length = 250 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 65/236 (27%), Positives = 114/236 (48%), Gaps = 20/236 (8%) Query: 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLD---LIQEGNIGLMKAAEKFDWCLGYKFSTY 499 +++ E+V +L LV + + + LD L IGL+ AAE+FD G +F T+ Sbjct: 18 MSRDELVVTHLPLVKFIVDRIASSLPPHLDRDDLRSAAVIGLISAAERFDPARGVQFKTF 77 Query: 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMP 559 A ++ I + Q R +RDK K+ R ++ ++ R P+ +E+A LAM Sbjct: 78 AEQRIRGTIMDELRAQDWLTR---SLRDKFKKLEREFSQLEQRLGRNPSSDEVA--LAMG 132 Query: 560 VEGVRKVLKITKEP-----ISLETPIGDEDTSHLG--DFIEDKNAVSPLDSAIQANLRET 612 +E ++ ++ +E +SL+ DED + G D +EDK SP I E Sbjct: 133 LE-LKDYFRLLEEIHLLSFVSLDDAWHDEDGAPFGLLDVLEDKGTESPQSQLIARQTVER 191 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 + +L +E V+ + + +N L+E+G +T RI Q+ ++AI +L+ Sbjct: 192 LAEAIDALPEKERIVVTLYYYEELN----LKEIGAVLDLTESRISQLHSQAIIRLR 243 >gi|229543758|ref|ZP_04432818.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus coagulans 36D1] gi|229328178|gb|EEN93853.1| RNA polymerase, sigma 28 subunit, SigK [Bacillus coagulans 36D1] Length = 241 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 69/252 (27%), Positives = 112/252 (44%), Gaps = 61/252 (24%) Query: 422 ISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGL 481 +S SE R + + +G+ +A + ++E NLRLV + KK+ N G DLI G IGL Sbjct: 31 LSASEERKYLKRMAEGDADA---RNILIEHNLRLVAHIVKKFENTGEDTEDLISIGTIGL 87 Query: 482 MKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSN 541 +KA E + G K +TYA R I ++ I +H+R Sbjct: 88 IKAIESYSEGKGTKLATYA--------ARCIENE-----ILMHLR--------------- 119 Query: 542 KIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSH---LGDFIEDKNAV 598 LK TK+ +SL PIG + + L D ++ + A Sbjct: 120 ------------------------ALKKTKKDVSLHDPIGQDKEGNEISLIDVLQSE-AE 154 Query: 599 SPLDSAIQANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIR 657 D+ IQ N+ E + L RE++V+ RFG+ + + T E+ K+ ++R + Sbjct: 155 DVFDT-IQLNMELEKVKQFFDILDEREKQVIIGRFGLNLKKEKTQREIAKELGISRSYVS 213 Query: 658 QIEAKAIRKLKH 669 +IE +A+ K+ H Sbjct: 214 RIEKRALMKMFH 225 >gi|229093408|ref|ZP_04224513.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-42] gi|228690002|gb|EEL43805.1| RNA polymerase sigma-28 factor [Bacillus cereus Rock3-42] Length = 258 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 39 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 95 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 96 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 121 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 122 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 163 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 164 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 223 Query: 666 KLKH 669 K+ H Sbjct: 224 KMFH 227 >gi|229165937|ref|ZP_04293702.1| RNA polymerase sigma-B factor [Bacillus cereus AH621] gi|228617490|gb|EEK74550.1| RNA polymerase sigma-B factor [Bacillus cereus AH621] Length = 224 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 55/234 (23%), Positives = 110/234 (47%), Gaps = 24/234 (10%) Query: 448 MVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQA 507 MV LV S+A +Y+ G D+IQ G +GL+ A ++D+ +G F +A+ + Sbjct: 1 MVNHYKNLVYSIAYRYSKGGPMHEDIIQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIVGE 60 Query: 508 ITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL 567 I + + D++ + +P ++D K+ +++ ++R P EIA L + E V +++ Sbjct: 61 IKKYLRDKTWGVHVPRRIKDLGGKIKLAIEELTDHLQRSPKIIEIADHLGLSEEEVLEIM 120 Query: 568 KITKEPISLETPIGDEDTSHLGDFIE---DKNAVSPLDSA--IQANLRETTTR-----VL 617 + S L D +E D ++V+ ++S ++ +T R + Sbjct: 121 DAKN----------NYQVSSLDDVVENSSDGSSVARIESVGEVEQGYEQTERRLVLDDIF 170 Query: 618 ASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 L E+ V+ FG +N T G++ +++ + +I+ +AI KLK + Sbjct: 171 NVLNDTEKSVIHYIFGENLNQKDT----GERLGISQMHVSRIKRQAISKLKQAA 220 >gi|77359758|ref|YP_339333.1| flagellar biosynthesis sigma factor [Pseudoalteromonas haloplanktis TAC125] gi|76874669|emb|CAI85890.1| Polar Flagellar-specific RNA polymerase sigma factor FliA (sigma F) [Pseudoalteromonas haloplanktis TAC125] Length = 236 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 66/228 (28%), Positives = 110/228 (48%), Gaps = 18/228 (7%) Query: 448 MVEANLRLVISVAKKYTNR---GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWV 504 +VE + LV VA R +Q DLIQ G IGL++A++ FD G F T+A + Sbjct: 12 IVEKHASLVKKVACHLIARLPPSVQLDDLIQSGMIGLIEASKNFDATKGASFETFAGIRI 71 Query: 505 KQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVR 564 + A+ + R VH + + +V+ + + + REPT E+A+KL + +E Sbjct: 72 RGAMLDEMRRGDWAPR-SVHRKSR--QVIEAISALESSLNREPTDSEVAQKLEITLEQYH 128 Query: 565 KVLK--ITKEPISLETPIGDEDT-SHLG-DFIEDKNAVSPLDSAIQANLRETTTRVLASL 620 +L + + + +E DED + +G D DK P ++ E+ + SL Sbjct: 129 HILTDVNSSKILGIEDLGIDEDVITPVGHDLALDK----PFNNVKNERFNESLLSAIKSL 184 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ VL + + MN L+E+G+ V+ R+ QI +A+ KLK Sbjct: 185 PERDAMVLSLYYNDEMN----LKEIGQILDVSESRVSQIHGQAMIKLK 228 >gi|117928753|ref|YP_873304.1| RNA polymerase sigma factor WhiG [Acidothermus cellulolyticus 11B] gi|117649216|gb|ABK53318.1| RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG [Acidothermus cellulolyticus 11B] Length = 289 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 60/203 (29%), Positives = 100/203 (49%), Gaps = 13/203 (6%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+ G GL+ A EKFD KF TYA+ +K AI I + IP +R K + Sbjct: 85 DLVSYGIFGLIDAIEKFDLDRAIKFETYAINRIKGAI---IDELRAIDWIPRSVRYKARE 141 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITK--EPISLETPI---GDE-DT 585 V + + +K+ R PT E+A +L + ++ + + I+L+ + GD D Sbjct: 142 VEKAYAALEHKLHRTPTEAEVAAELGISLDELHAIFSQVSFVNVIALDELLNVGGDRGDR 201 Query: 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEV 645 L D +ED A P+++ + +R + +L RE+ V+ + + G+ TL E+ Sbjct: 202 LSLVDTLEDTKAEDPVEAFETEETKYLLSRAINALPEREKIVITLYYYEGL----TLAEI 257 Query: 646 GKQFCVTRERIRQIEAKAIRKLK 668 G+ VT RI Q+ KA+ +L+ Sbjct: 258 GQVLGVTESRICQMHTKAVLQLR 280 >gi|42783467|ref|NP_980714.1| sporulation sigma factor SigK [Bacillus cereus ATCC 10987] gi|42739396|gb|AAS43322.1| RNA polymerase sigma-27 factor [Bacillus cereus ATCC 10987] Length = 265 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 64 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 120 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 121 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 146 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 147 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 188 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 189 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 248 Query: 666 KLKH 669 K+ H Sbjct: 249 KMFH 252 >gi|222097784|ref|YP_002531841.1| sporulation sigma factor sigk [Bacillus cereus Q1] gi|221241842|gb|ACM14552.1| RNA polymerase sigma-27 factor [Bacillus cereus Q1] Length = 263 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 62 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 118 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 119 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 144 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 145 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 186 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 187 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 246 Query: 666 KLKH 669 K+ H Sbjct: 247 KMFH 250 >gi|207109684|ref|ZP_03243846.1| RNA polymerase sigma factor RpoD [Helicobacter pylori HPKX_438_CA4C1] Length = 84 Score = 70.9 bits (172), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 37/81 (45%), Positives = 56/81 (69%), Gaps = 1/81 (1%) Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMN-TDHTLEEVGKQFCVTRERIRQI 659 +D ++ +L+ VL L RE+ V+RMRFG+ + +D TLEE+GK+ VTRER+RQI Sbjct: 2 IDHIMREDLKVQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQI 61 Query: 660 EAKAIRKLKHPSRSKKLRSFL 680 E+ AI+KL+ P + LR++L Sbjct: 62 ESSAIKKLRSPQYGRILRNYL 82 >gi|52081127|ref|YP_079918.1| sporulation sigma factor SigK [Bacillus licheniformis ATCC 14580] gi|52786504|ref|YP_092333.1| sporulation sigma factor SigK [Bacillus licheniformis ATCC 14580] gi|52004338|gb|AAU24280.1| RNA polymerase sporulation-specific sigma factor [Bacillus licheniformis ATCC 14580] gi|52349006|gb|AAU41640.1| SpoIIIC [Bacillus licheniformis ATCC 14580] Length = 241 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 63/230 (27%), Positives = 100/230 (43%), Gaps = 58/230 (25%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ ++E NLRLV + KK+ N G DLI G IGL+KA E + G K +TYA Sbjct: 50 ARNMLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIESYSAGKGTKLATYA--- 106 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 R I ++ I +H+R Sbjct: 107 -----ARCIENE-----ILMHLR------------------------------------- 119 Query: 564 RKVLKITKEPISLETPIGDEDTSH---LGDFIEDKNAVSPLDSAIQANLR-ETTTRVLAS 619 LK TK+ +SL PIG + + L D ++ +N + IQ N+ E + + Sbjct: 120 --ALKKTKKDVSLHDPIGQDKEGNEISLIDVLKSEN--EDVIDTIQLNMELEKVKKYIDI 175 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 L RE+ V+ RFG+ + + T E+ K+ ++R + +IE +A+ K+ H Sbjct: 176 LDGREKEVIVGRFGLDLKKEKTQREIAKELGISRSYVSRIEKRALMKMFH 225 >gi|291438641|ref|ZP_06578031.1| transcription initiation factor sigma F [Streptomyces ghanaensis ATCC 14672] gi|291341536|gb|EFE68492.1| transcription initiation factor sigma F [Streptomyces ghanaensis ATCC 14672] Length = 303 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 59/239 (24%), Positives = 113/239 (47%), Gaps = 11/239 (4%) Query: 436 KGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYK 495 G E + + ++EANL LV A ++ +R D++Q G IGL+ A ++FD G + Sbjct: 71 PGTPEHTRVRAALIEANLPLVRYAAARFRSRNEPMEDVVQVGTIGLINAIDRFDPDRGVQ 130 Query: 496 FSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKK 555 F T+AM V I R D T+ +P + + +V ++ R P+ EIA++ Sbjct: 131 FPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNGATEDLTTAFGRSPSTAEIAER 190 Query: 556 LAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 L + E V ++ + SLE + L D + ++ LD R+ Sbjct: 191 LRITEEDVLSCIEAGRSYHATSLEAAQEGDGMPGLLDRLGYEDPA--LDG---VEHRDLV 245 Query: 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSR 672 +L L RE+R+L +R+ ++ T ++ + V++ + ++ A++ ++L+ +R Sbjct: 246 RHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLARSFQRLRSANR 300 >gi|238764885|ref|ZP_04625825.1| RNA polymerase sigma factor for flagellar operon [Yersinia kristensenii ATCC 33638] gi|238696904|gb|EEP89681.1| RNA polymerase sigma factor for flagellar operon [Yersinia kristensenii ATCC 33638] Length = 240 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 49/198 (24%), Positives = 96/198 (48%), Gaps = 8/198 (4%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL+ A E++D G F+TYA+ ++ A+ + + P +R + Sbjct: 43 DLLQAGGIGLLNAVERYDALQGTAFTTYAVQRIRGAMLDELRSRDWA---PRSVRRNARE 99 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET-PIGDEDTSHLGD 590 V +++ ++ R T +E+A+ L + + R++L T +E + Sbjct: 100 VASAMQKVEQRLGRPATEQEVAQILDIDLAEYRQILLDTNNSQLFSYDEWREEHGESVEP 159 Query: 591 FIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFC 650 +E +PL ++ NLR+ + +L RE+ VL + + +N L+E+G Sbjct: 160 MLEGHEDANPLQHLLEGNLRQRVIEAIEALPEREKMVLTLYYQEELN----LKEIGAVLE 215 Query: 651 VTRERIRQIEAKAIRKLK 668 V R+ Q+ ++AI++L+ Sbjct: 216 VGESRVSQLHSQAIKRLR 233 >gi|226946813|ref|YP_002801886.1| RNA polymerase factor sigma-32 [Azotobacter vinelandii DJ] gi|226721740|gb|ACO80911.1| RNA polymerase sigma-32 factor [Azotobacter vinelandii DJ] Length = 284 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 65/237 (27%), Positives = 120/237 (50%), Gaps = 19/237 (8%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A ++MV A+LR V+ +A+ Y+ GL DLIQEGN+GLMKA ++F+ +G + ++A+ W Sbjct: 50 AARQMVLAHLRFVVHIARSYSGYGLAQSDLIQEGNVGLMKAVKRFNPEMGVRLVSFAVHW 109 Query: 504 VKQAITRSIADQSCTIRIP-VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEG 562 ++ I I ++I + K+ +R+ ++ + E + +A+ L + Sbjct: 110 IRAEIHEFILRNWRIVKIATTKAQRKLFFNLRSQKKRLAWLNNEEV-DAVAESLGVEPHE 168 Query: 563 VRKV-LKITKEPISLETPIGDEDTSHL---GDFIEDK--NAVSPLDSA-----IQANLRE 611 VR++ +++ + ++ + +D S ++ED+ + L+ A ANL E Sbjct: 169 VREMESRLSGQDMAFDPAADADDDSVFQAPAHYLEDQRYDPARQLEEADWSDSAAANLHE 228 Query: 612 TTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L L R +L R+ TL ++ ++ V+ ERIRQ+E A+ KLK Sbjct: 229 A----LEGLDERSRDILYQRW--LAEEKATLHDLAAKYKVSAERIRQLEKSALNKLK 279 >gi|307718622|ref|YP_003874154.1| hypothetical protein STHERM_c09340 [Spirochaeta thermophila DSM 6192] gi|306532347|gb|ADN01881.1| hypothetical protein STHERM_c09340 [Spirochaeta thermophila DSM 6192] Length = 262 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 61/207 (29%), Positives = 100/207 (48%), Gaps = 12/207 (5%) Query: 467 GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMR 526 ++F DLI G GL+ A EKFD KF TYA+ ++ AI + +P +R Sbjct: 52 SVEFDDLIGFGTFGLLDAIEKFDPEKHVKFKTYAVTRIRGAIYDELRAMDW---VPRSVR 108 Query: 527 DKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-KITKEPI-SLET--PIGD 582 K ++ R+ + + R T EE+A+++ M ++K L KI+ I SL+ GD Sbjct: 109 QKSREIEDALHRLESSLGRAATDEELAREMNMSSRELQKTLQKISSTSILSLQELWYTGD 168 Query: 583 E-DTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHT 641 E D + D +E A P + ++ + L +E++VL + + D T Sbjct: 169 ENDRVAIADMLEAPQAYDPAARVEREEIKRVVAEAIKELPEKEKKVLVLYY----YEDLT 224 Query: 642 LEEVGKQFCVTRERIRQIEAKAIRKLK 668 L+E+G VT R+ Q+ KAI +L+ Sbjct: 225 LKEIGAILNVTESRVSQLHTKAISRLR 251 >gi|118479504|ref|YP_896655.1| sporulation sigma factor SigK [Bacillus thuringiensis str. Al Hakam] gi|118418729|gb|ABK87148.1| RNA polymerase, sigma 27/28 subunit, RpsK/SigK [Bacillus thuringiensis str. Al Hakam] Length = 271 Score = 70.9 bits (172), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 70 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 127 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 152 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 153 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 194 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 195 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 254 Query: 666 KLKH 669 K+ H Sbjct: 255 KMFH 258 >gi|311031146|ref|ZP_07709236.1| RNA polymerase sigma factor SigB [Bacillus sp. m3-13] Length = 261 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 63/237 (26%), Positives = 125/237 (52%), Gaps = 18/237 (7%) Query: 439 CEASIAKKEMVEANLRLVISVAKKYTNRGLQFL-DLIQEGNIGLMKAAEKFDWCLGYKFS 497 CE S + ++VE LV S+A+KY+ RG F DL Q G IGL+ A ++FD G F Sbjct: 24 CEVS--QLQLVEHYTALVESIARKYS-RGKAFHEDLSQVGMIGLLGAMKRFDASFGRSFE 80 Query: 498 TYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLA 557 +A+ + I R + D++ ++ +P +++ K+ ++N+++R P EIA L Sbjct: 81 AFAVPTIIGEIKRFLRDKTWSVHVPRRIKEIGPKIKSAVEELTNELQRSPKVFEIADYLE 140 Query: 558 MPVEGVRKVLKITK--EPISLETPI---GDEDTSHLGDFIEDKNAVSPLDSAIQANLRET 612 + E V + +++++ + +S++ I D T + D + +++A D Q L + Sbjct: 141 VTEEEVLEAMEMSQNYQALSVDNAIEADSDGSTVTILDIVGNQDA--GFDQVDQQLLLQ- 197 Query: 613 TTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 ++ L+ RE++++ F M+ T E++G +++ + +++ KA+ KLK Sbjct: 198 --KIFHVLSEREKQIIECTFFKNMSQKETGEKLG----ISQMHVSRLQRKALTKLKQ 248 >gi|294998208|gb|ADF57908.1| sporulation specific sigma factor K [Bacillus thuringiensis serovar aizawai] gi|308154182|gb|ADF57907.2| sporulation specific sigma factor K [Bacillus thuringiensis serovar aizawai] Length = 271 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 70 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 127 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 152 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 153 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 194 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 195 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 254 Query: 666 KLKH 669 K+ H Sbjct: 255 KMFH 258 >gi|239932973|ref|ZP_04689926.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291441326|ref|ZP_06580716.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] gi|291344221|gb|EFE71177.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672] Length = 295 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 59/260 (22%), Positives = 126/260 (48%), Gaps = 40/260 (15%) Query: 427 FRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAE 486 FR + + +G E A+ ++E N+ LV A ++ RG D++Q G IGL+KA + Sbjct: 48 FRRLAEL-EEGTHEYQYARNTLIEMNMSLVRFAAGRFRGRGDDMDDIVQTGMIGLIKAID 106 Query: 487 KFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKRE 546 +F+ +F+++A+ ++ I R D + + +P +++ ++ + +++++ RE Sbjct: 107 RFELSREVEFTSFALPYIVGEIKRFFRDTTWAVHVPRRLQELRVELAKAREELASRLDRE 166 Query: 547 PTPEEIAKKLAMP----VEGVRKVLKITKEPISLETPI---GDEDT-SHLGDFI------ 592 PT E+A + + +EG ++ SL+ + G E+ + L DFI Sbjct: 167 PTVAELATLMNITEDQVIEG--QIAANGYNSSSLDAALTGDGPENGEAVLADFIGVEEEG 224 Query: 593 ----EDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 ED +A++PL +A L+ R+ +++ MRF + T E+G++ Sbjct: 225 LRLVEDFHALAPL---------------MAELSERDRQIIHMRF----VEEATQAEIGER 265 Query: 649 FCVTRERIRQIEAKAIRKLK 668 ++ + ++ + I +L+ Sbjct: 266 LGCSQMHVSRLIKRIIARLR 285 >gi|304316881|ref|YP_003852026.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778383|gb|ADL68942.1| RNA polymerase, sigma 28 subunit, FliA/WhiG [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 246 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 56/206 (27%), Positives = 93/206 (45%), Gaps = 26/206 (12%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI +G IGL+ A K+D G KF TYA +K I + + IP ++ + Sbjct: 51 DLISQGMIGLIDAVNKYDISKGVKFETYASIRIKGEIIDYLRKKDW---IPRSLKKRYKS 107 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 + +T R+ + KREPT EEI + V K L + + S L + Sbjct: 108 IEKTIERLEQEYKREPTIEEIMDATKLSKNDVLKTL----------SYMNAGYISSLDEV 157 Query: 592 IEDKNAVS---------PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 642 IE+ +S P + + +L++ + + L +E ++ + + +N Sbjct: 158 IENNLKISSITESEITNPENEVLMYDLKQNIAKAIDMLQEKERLIISLYYYEDLN----Y 213 Query: 643 EEVGKQFCVTRERIRQIEAKAIRKLK 668 +E+ K +T RI QI +KAI+KLK Sbjct: 214 KEISKIMGLTESRISQIHSKAIKKLK 239 >gi|307328849|ref|ZP_07608019.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] gi|306885514|gb|EFN16530.1| RNA polymerase, sigma 28 subunit, FliA/WhiG subfamily [Streptomyces violaceusniger Tu 4113] Length = 277 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 59/244 (24%), Positives = 116/244 (47%), Gaps = 11/244 (4%) Query: 431 VSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDW 490 +S + G E + + ++EANL LV A ++ +R D+IQ G IGL+ A ++FD Sbjct: 40 LSGLTPGTPEHTRVRAALIEANLPLVRYAAARFRSRNEPMEDVIQVGTIGLINAIDRFDP 99 Query: 491 CLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPE 550 G +F T+AM V I R D T+ +P + + +V ++ R PT Sbjct: 100 DRGVQFPTFAMPTVVGEIKRYFRDNVRTVHVPRRLHELWVQVNGATEDLTVLHGRSPTTA 159 Query: 551 EIAKKLAMPVEGVRKVLKITK--EPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQAN 608 EIA++L + E V ++ + SLE ++ L ++ P + ++ Sbjct: 160 EIAERLKLSEEEVLACIEAGRSYHATSLE---AAQEGDGLPGLVDRLGYEDPALAGVEH- 215 Query: 609 LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R+ +L L RE+R+L +R+ ++ T ++ + V++ + ++ +++ +L+ Sbjct: 216 -RDLVRHLLVQLPEREQRILLLRY----YSNLTQSQISAELGVSQMHVSRLLSRSFARLR 270 Query: 669 HPSR 672 +R Sbjct: 271 SANR 274 >gi|225850934|ref|YP_002731168.1| RNA polymerase sigma-D factor (Sigma-28) [Persephonella marina EX-H1] gi|225645790|gb|ACO03976.1| RNA polymerase sigma-D factor (Sigma-28) [Persephonella marina EX-H1] Length = 241 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 61/200 (30%), Positives = 99/200 (49%), Gaps = 10/200 (5%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DLI G +GL+ A K+D G K STYA ++ I S+ +P ++R K Sbjct: 39 DLINTGVLGLIDAINKYDPSKGVKLSTYAEIRIRGQIIDSLRKLDW---VPRNVRQKARH 95 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVL-KITKEP-ISLETPIG-DEDTSHL 588 + + K+ RE TPEEIA+ L M VE K KI+ IS++T +G DED + Sbjct: 96 IEAAILEVEQKLGREATPEEIAEYLGMDVEEYMKYAEKISNSGLISIDTTVGSDEDANTK 155 Query: 589 GDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQ 648 I N +P + L++ + +++ L RE V+ + + + +++E+G+ Sbjct: 156 LWQIISINDDTPDKYVEEEELKKIISDIISKLNERERLVITLYY----YEELSMKEIGEV 211 Query: 649 FCVTRERIRQIEAKAIRKLK 668 +T RI QI K + K+K Sbjct: 212 LGLTESRISQIHTKTMMKIK 231 >gi|254517024|ref|ZP_05129082.1| flagellar biosynthesis sigma factor FliA [gamma proteobacterium NOR5-3] gi|219674529|gb|EED30897.1| flagellar biosynthesis sigma factor FliA [gamma proteobacterium NOR5-3] Length = 243 Score = 70.5 bits (171), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 52/201 (25%), Positives = 94/201 (46%), Gaps = 21/201 (10%) Query: 472 DLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHK 531 DL+Q G IGL++A E +D G FSTYA +K A+ I +P ++ ++ + Sbjct: 52 DLMQVGLIGLLRARESYDAAQGASFSTYAGIRIKGAMLDEIRSHDW---LPRSVQSQLRQ 108 Query: 532 VVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDF 591 V R ++ R EIA +L MP++ ++ L + +H+ D Sbjct: 109 VSEAIDRADARLGRPANDAEIAGELDMPLDEYQQ----------LSGQLACARMTHIEDS 158 Query: 592 IEDKNAV----SPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGK 647 +E + AV +PLD + RE + L +E ++ + + G+N L+E+G Sbjct: 159 VEAETAVLNTHTPLDEVGEEGFREALAESVTQLPEKERLMMSLYYSEGLN----LKEIGA 214 Query: 648 QFCVTRERIRQIEAKAIRKLK 668 V+ R+ Q+ +A+ +L+ Sbjct: 215 VLGVSESRVSQLHGQALARLR 235 >gi|50262051|gb|AAT72766.1| putative sigma factor 32 [Dichelobacter nodosus] Length = 283 Score = 70.5 bits (171), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 69/288 (23%), Positives = 140/288 (48%), Gaps = 22/288 (7%) Query: 390 FPEGEWKNFVACEVDSILKIRNEIKSISVETGISISEFRHIVSMVRKGECEASIAKKEMV 449 P G+W + ++D + +I + + EFR + + +++ A A + ++ Sbjct: 1 MPHGQWLT-PSSDIDQYIAKVRQIPILDAD-----EEFR-LATELQQNHSLA--AAQTLI 51 Query: 450 EANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAIT 509 +L+ V+ +A+ + GL DLIQEGNIGLMKA ++F+ G + ++A+ W+K I Sbjct: 52 VHHLKFVVHIARGFLGYGLPLGDLIQEGNIGLMKAVKRFEPQRGVRLVSFAVHWIKSEIH 111 Query: 510 RSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIK--REPTPEEIAKKLAMPVEGVRKV- 566 + ++I + K+ R M + + + IA+ L + V+ V ++ Sbjct: 112 EYVIRNWRLVKIATTKAQR--KLFFNLRSMKKNMHWLSDAEAQTIAEDLNVSVKDVLEME 169 Query: 567 LKITKEPISLETPI---GDEDTSHLGDFIEDKN---AVSPLDSAIQANLRETTTRVLASL 620 +I + I+ + P+ DE+ ++ D++ A+S + L+ T+ L L Sbjct: 170 SRIHGQDIAFD-PLDENDDEENVAPAAWLTDESVDPALSTEHHEQKHLLQHQLTQGLNQL 228 Query: 621 TPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 R ++ R+ + + TL+ + ++ ++ ERIRQIE +A+ +LK Sbjct: 229 DARSREIIESRW-LNEHEKVTLQTLASKYHISAERIRQIEQQALLQLK 275 >gi|75761264|ref|ZP_00741246.1| RNA polymerase sigma-K factor [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74491246|gb|EAO54480.1| RNA polymerase sigma-K factor [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 271 Score = 70.5 bits (171), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 57/244 (23%) Query: 428 RHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEK 487 R + ++ +G+ +A + ++E NLRLV + KK+ N G DLI G IGL+KA E Sbjct: 70 RKYLELMEQGDAQA---RNLLIEHNLRLVAHIVKKFENTGEDAEDLISIGTIGLIKAIES 126 Query: 488 FDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREP 547 + G K +TYA R I ++ I +H+R Sbjct: 127 YSAGKGTKLATYA--------ARCIENE-----ILMHLR--------------------- 152 Query: 548 TPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIED-KNAVSPLDSAIQ 606 VLK TK+ +SL PIG + + I+ K+ + IQ Sbjct: 153 ------------------VLKKTKKDVSLHDPIGQDKEGNEISLIDILKSESEDVIDMIQ 194 Query: 607 ANLR-ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 ++ E + L RE+ V+ RFG+G++ + T E+ K ++R + +IE +A+ Sbjct: 195 LSMELEKIKEYIDILDEREKEVIVKRFGLGLDKEKTQREIAKALGISRSYVSRIEKRALM 254 Query: 666 KLKH 669 K+ H Sbjct: 255 KMFH 258 >gi|161898871|gb|ABX80425.1| SigB [Listeria monocytogenes] Length = 229 Score = 70.5 bits (171), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 56/229 (24%), Positives = 114/229 (49%), Gaps = 12/229 (5%) Query: 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWW 503 A+ +V LV S+A+KY+ DL+Q GNIGL+ A ++D G F +A+ Sbjct: 9 AQYNLVVHYKNLVESIARKYSQGKSFHEDLVQVGNIGLLGAIRRYDATFGKSFEAFAVPT 68 Query: 504 VKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGV 563 + I R + D++ ++ +P +++ K+ ++ +++ P +IA + + E V Sbjct: 69 IVGEIKRFLRDKTWSVHVPRRIKELGPKIKNAVEELTRELQSSPQISDIADFIGVTEEEV 128 Query: 564 RKVLKITK--EPISLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQ-ANLRETTTRVLAS 619 + +++ K + +S++ I D D G I + V D + N R +VL Sbjct: 129 LEAMEMGKSYQALSVDHSIEADSD----GSTITLLDVVGGTDDGFERVNQRMLLEKV